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Sample records for automatically extracting molecular

  1. Challenges for automatically extracting molecular interactions from full-text articles

    Directory of Open Access Journals (Sweden)

    Curran James R

    2009-09-01

    Full Text Available Abstract Background The increasing availability of full-text biomedical articles will allow more biomedical knowledge to be extracted automatically with greater reliability. However, most Information Retrieval (IR and Extraction (IE tools currently process only abstracts. The lack of corpora has limited the development of tools that are capable of exploiting the knowledge in full-text articles. As a result, there has been little investigation into the advantages of full-text document structure, and the challenges developers will face in processing full-text articles. Results We manually annotated passages from full-text articles that describe interactions summarised in a Molecular Interaction Map (MIM. Our corpus tracks the process of identifying facts to form the MIM summaries and captures any factual dependencies that must be resolved to extract the fact completely. For example, a fact in the results section may require a synonym defined in the introduction. The passages are also annotated with negated and coreference expressions that must be resolved. We describe the guidelines for identifying relevant passages and possible dependencies. The corpus includes 2162 sentences from 78 full-text articles. Our corpus analysis demonstrates the necessity of full-text processing; identifies the article sections where interactions are most commonly stated; and quantifies the proportion of interaction statements requiring coherent dependencies. Further, it allows us to report on the relative importance of identifying synonyms and resolving negated expressions. We also experiment with an oracle sentence retrieval system using the corpus as a gold-standard evaluation set. Conclusion We introduce the MIM corpus, a unique resource that maps interaction facts in a MIM to annotated passages within full-text articles. It is an invaluable case study providing guidance to developers of biomedical IR and IE systems, and can be used as a gold-standard evaluation

  2. Application of Magnetic Bead-Based Nucleic Acid Automatic Extraction System in Molecular Biology%磁珠法核酸自动提取仪在分子生物学领域的应用

    Institute of Scientific and Technical Information of China (English)

    罗英

    2013-01-01

    The magnetic bead-based nucleic acid automatic extraction system can simply ,rapidly , efficiently ,economically and automatically extract nucleic acid from all kinds of samples . This paper summarizes the principle and classification of automatic nucleic acid extraction systems ,and the principle ,classification and characteristics of magnetic bead -based nucleic acid automatic extraction systems and their application in the field of molecular biology .%磁珠法核酸自动提取仪可以简单、快速、高效和经济地实现各种标本核酸的自动提取。本文概述了核酸自动提取仪的原理及分类,磁珠法核酸自动提取仪原理、分类、特点及其在分子生物学领域的应用。

  3. Automatic River Network Extraction from LIDAR Data

    Science.gov (United States)

    Maderal, E. N.; Valcarcel, N.; Delgado, J.; Sevilla, C.; Ojeda, J. C.

    2016-06-01

    National Geographic Institute of Spain (IGN-ES) has launched a new production system for automatic river network extraction for the Geospatial Reference Information (GRI) within hydrography theme. The goal is to get an accurate and updated river network, automatically extracted as possible. For this, IGN-ES has full LiDAR coverage for the whole Spanish territory with a density of 0.5 points per square meter. To implement this work, it has been validated the technical feasibility, developed a methodology to automate each production phase: hydrological terrain models generation with 2 meter grid size and river network extraction combining hydrographic criteria (topographic network) and hydrological criteria (flow accumulation river network), and finally the production was launched. The key points of this work has been managing a big data environment, more than 160,000 Lidar data files, the infrastructure to store (up to 40 Tb between results and intermediate files), and process; using local virtualization and the Amazon Web Service (AWS), which allowed to obtain this automatic production within 6 months, it also has been important the software stability (TerraScan-TerraSolid, GlobalMapper-Blue Marble , FME-Safe, ArcGIS-Esri) and finally, the human resources managing. The results of this production has been an accurate automatic river network extraction for the whole country with a significant improvement for the altimetric component of the 3D linear vector. This article presents the technical feasibility, the production methodology, the automatic river network extraction production and its advantages over traditional vector extraction systems.

  4. Automatic extraction of legal concepts and definitions

    NARCIS (Netherlands)

    R. Winkels; R. Hoekstra

    2012-01-01

    In this paper we present the results of an experiment in automatic concept and definition extraction from written sources of law using relatively simple natural language and standard semantic web technology. The software was tested on six laws from the tax domain.

  5. Automatically extracting class diagrams from spreadsheets

    NARCIS (Netherlands)

    Hermans, F.; Pinzger, M.; Van Deursen, A.

    2010-01-01

    The use of spreadsheets to capture information is widespread in industry. Spreadsheets can thus be a wealthy source of domain information. We propose to automatically extract this information and transform it into class diagrams. The resulting class diagram can be used by software engineers to under

  6. Automatic Extraction of JPF Options and Documentation

    Science.gov (United States)

    Luks, Wojciech; Tkachuk, Oksana; Buschnell, David

    2011-01-01

    Documenting existing Java PathFinder (JPF) projects or developing new extensions is a challenging task. JPF provides a platform for creating new extensions and relies on key-value properties for their configuration. Keeping track of all possible options and extension mechanisms in JPF can be difficult. This paper presents jpf-autodoc-options, a tool that automatically extracts JPF projects options and other documentation-related information, which can greatly help both JPF users and developers of JPF extensions.

  7. Automatic Contour Extraction from 2D Image

    Directory of Open Access Journals (Sweden)

    Panagiotis GIOANNIS

    2011-03-01

    Full Text Available Aim: To develop a method for automatic contour extraction from a 2D image. Material and Method: The method is divided in two basic parts where the user initially chooses the starting point and the threshold. Finally the method is applied to computed tomography of bone images. Results: An interesting method is developed which can lead to a successful boundary extraction of 2D images. Specifically data extracted from a computed tomography images can be used for 2D bone reconstruction. Conclusions: We believe that such an algorithm or part of it can be applied on several other applications for shape feature extraction in medical image analysis and generally at computer graphics.

  8. Automatic Extraction of Metadata from Scientific Publications for CRIS Systems

    Science.gov (United States)

    Kovacevic, Aleksandar; Ivanovic, Dragan; Milosavljevic, Branko; Konjovic, Zora; Surla, Dusan

    2011-01-01

    Purpose: The aim of this paper is to develop a system for automatic extraction of metadata from scientific papers in PDF format for the information system for monitoring the scientific research activity of the University of Novi Sad (CRIS UNS). Design/methodology/approach: The system is based on machine learning and performs automatic extraction…

  9. Image feature meaning for automatic key-frame extraction

    Science.gov (United States)

    Di Lecce, Vincenzo; Guerriero, Andrea

    2003-12-01

    Video abstraction and summarization, being request in several applications, has address a number of researches to automatic video analysis techniques. The processes for automatic video analysis are based on the recognition of short sequences of contiguous frames that describe the same scene, shots, and key frames representing the salient content of the shot. Since effective shot boundary detection techniques exist in the literature, in this paper we will focus our attention on key frames extraction techniques to identify the low level visual features of the frames that better represent the shot content. To evaluate the features performance, key frame automatically extracted using these features, are compared to human operator video annotations.

  10. Automatic extraction of planetary image features

    Science.gov (United States)

    LeMoigne-Stewart, Jacqueline J. (Inventor); Troglio, Giulia (Inventor); Benediktsson, Jon A. (Inventor); Serpico, Sebastiano B. (Inventor); Moser, Gabriele (Inventor)

    2013-01-01

    A method for the extraction of Lunar data and/or planetary features is provided. The feature extraction method can include one or more image processing techniques, including, but not limited to, a watershed segmentation and/or the generalized Hough Transform. According to some embodiments, the feature extraction method can include extracting features, such as, small rocks. According to some embodiments, small rocks can be extracted by applying a watershed segmentation algorithm to the Canny gradient. According to some embodiments, applying a watershed segmentation algorithm to the Canny gradient can allow regions that appear as close contours in the gradient to be segmented.

  11. Automatic Extraction of Protein Interaction in Literature

    OpenAIRE

    Liu, Peilei; Wang, Ting

    2014-01-01

    Protein-protein interaction extraction is the key precondition of the construction of protein knowledge network, and it is very important for the research in the biomedicine. This paper extracted directional protein-protein interaction from the biological text, using the SVM-based method. Experiments were evaluated on the LLL05 corpus with good results. The results show that dependency features are import for the protein-protein interaction extraction and features related to the interaction w...

  12. Automatic Statistics Extraction for Amateur Soccer Videos

    NARCIS (Netherlands)

    Gemert, J.C. van; Schavemaker, J.G.M.; Bonenkamp, C.W.B.

    2014-01-01

    Amateur soccer statistics have interesting applications such as providing insights to improve team performance, individual coaching, monitoring team progress and personal or team entertainment. Professional soccer statistics are extracted with labor intensive expensive manual effort which is not rea

  13. Fast Hough transform for automatic bridge extraction

    Science.gov (United States)

    Hao, Qiwei; Chen, Xiaomei; Ni, Guoqiang; Zhang, Huaili

    2008-03-01

    In this paper, a new method to recognize bridge in the complicated background is presented. The algorithm takes full advantages of the characteristics of the bridge image. Firstly, the image is preprocessed and the object edges are extracted. Then according to the limitations of traditional Hough transform (HT), the extraction method of the image line segment characteristic of HT is improved, which eliminates spurious peaks on the basis of global and local thresholds, discriminates the position relation between two straight line segments, and merges segments with near endpoints, etc. Experiments show that this algorithm is more precise and efficient than traditional HT, moreover it can provide a complete description of the bridge in a complicated background.

  14. An Automatic Collocation Extraction from Arabic Corpus

    Directory of Open Access Journals (Sweden)

    Abdulgabbar M. Saif

    2011-01-01

    Full Text Available Problem statement: The identification of collocations is very important part in natural language processing applications that require some degree of semantic interpretation such as, machine translation, information retrieval and text summarization. Because of the complexities of Arabic, the collocations undergo some variations such as, morphological, graphical, syntactic variation that constitutes the difficulties of identifying the collocation. Approach: We used the hybrid method for extracting the collocations from Arabic corpus that is based on linguistic information and association measures. Results: This method extracted the bi-gram candidates of Arabic collocation from corpus and evaluated the association measures by using the n-best evaluation method. We reported the precision values for each association measure in each n-best list. Conclusion: The experimental results showed that the log-likelihood ratio is the best association measure that achieved highest precision.

  15. Automatic Waterline Extraction from Smartphone Images

    Science.gov (United States)

    Kröhnert, M.

    2016-06-01

    Considering worldwide increasing and devastating flood events, the issue of flood defence and prediction becomes more and more important. Conventional methods for the observation of water levels, for instance gauging stations, provide reliable information. However, they are rather cost-expensive in purchase, installation and maintenance and hence mostly limited for monitoring large streams only. Thus, small rivers with noticeable increasing flood hazard risks are often neglected. State-of-the-art smartphones with powerful camera systems may act as affordable, mobile measuring instruments. Reliable and effective image processing methods may allow the use of smartphone-taken images for mobile shoreline detection and thus for water level monitoring. The paper focuses on automatic methods for the determination of waterlines by spatio-temporal texture measures. Besides the considerable challenge of dealing with a wide range of smartphone cameras providing different hardware components, resolution, image quality and programming interfaces, there are several limits in mobile device processing power. For test purposes, an urban river in Dresden, Saxony was observed. The results show the potential of deriving the waterline with subpixel accuracy by a column-by-column four-parameter logistic regression and polynomial spline modelling. After a transformation into object space via suitable landmarks (which is not addressed in this paper), this corresponds to an accuracy in the order of a few centimetres when processing mobile device images taken from small rivers at typical distances.

  16. Fingerprint Recognition: Enhancement, Feature Extraction and Automatic Evaluation of Algorithms

    OpenAIRE

    Turroni, Francesco

    2012-01-01

    The identification of people by measuring some traits of individual anatomy or physiology has led to a specific research area called biometric recognition. This thesis is focused on improving fingerprint recognition systems considering three important problems: fingerprint enhancement, fingerprint orientation extraction and automatic evaluation of fingerprint algorithms. An effective extraction of salient fingerprint features depends on the quality of the input fingerprint. If the fingerp...

  17. Automatic Melody Generation System with Extraction Feature

    Science.gov (United States)

    Ida, Kenichi; Kozuki, Shinichi

    In this paper, we propose the melody generation system with the analysis result of an existing melody. In addition, we introduce the device that takes user's favor in the system. The melody generation is done by pitch's being arranged best on the given rhythm. The best standard is decided by using the feature element extracted from existing music by proposed method. Moreover, user's favor is reflected in the best standard by operating some of the feature element in users. And, GA optimizes the pitch array based on the standard, and achieves the system.

  18. Temporally rendered automatic cloud extraction (TRACE) system

    Science.gov (United States)

    Bodrero, Dennis M.; Yale, James G.; Davis, Roger E.; Rollins, John M.

    1999-10-01

    Smoke/obscurant testing requires that 2D cloud extent be extracted from visible and thermal imagery. These data are used alone or in combination with 2D data from other aspects to make 3D calculations of cloud properties, including dimensions, volume, centroid, travel, and uniformity. Determining cloud extent from imagery has historically been a time-consuming manual process. To reduce time and cost associated with smoke/obscurant data processing, automated methods to extract cloud extent from imagery were investigated. The TRACE system described in this paper was developed and implemented at U.S. Army Dugway Proving Ground, UT by the Science and Technology Corporation--Acuity Imaging Incorporated team with Small Business Innovation Research funding. TRACE uses dynamic background subtraction and 3D fast Fourier transform as primary methods to discriminate the smoke/obscurant cloud from the background. TRACE has been designed to run on a PC-based platform using Windows. The PC-Windows environment was chosen for portability, to give TRACE the maximum flexibility in terms of its interaction with peripheral hardware devices such as video capture boards, removable media drives, network cards, and digital video interfaces. Video for Windows provides all of the necessary tools for the development of the video capture utility in TRACE and allows for interchangeability of video capture boards without any software changes. TRACE is designed to take advantage of future upgrades in all aspects of its component hardware. A comparison of cloud extent determined by TRACE with manual method is included in this paper.

  19. Document Exploration and Automatic Knowledge Extraction for Unstructured Biomedical Text

    Science.gov (United States)

    Chu, S.; Totaro, G.; Doshi, N.; Thapar, S.; Mattmann, C. A.; Ramirez, P.

    2015-12-01

    We describe our work on building a web-browser based document reader with built-in exploration tool and automatic concept extraction of medical entities for biomedical text. Vast amounts of biomedical information are offered in unstructured text form through scientific publications and R&D reports. Utilizing text mining can help us to mine information and extract relevant knowledge from a plethora of biomedical text. The ability to employ such technologies to aid researchers in coping with information overload is greatly desirable. In recent years, there has been an increased interest in automatic biomedical concept extraction [1, 2] and intelligent PDF reader tools with the ability to search on content and find related articles [3]. Such reader tools are typically desktop applications and are limited to specific platforms. Our goal is to provide researchers with a simple tool to aid them in finding, reading, and exploring documents. Thus, we propose a web-based document explorer, which we called Shangri-Docs, which combines a document reader with automatic concept extraction and highlighting of relevant terms. Shangri-Docsalso provides the ability to evaluate a wide variety of document formats (e.g. PDF, Words, PPT, text, etc.) and to exploit the linked nature of the Web and personal content by performing searches on content from public sites (e.g. Wikipedia, PubMed) and private cataloged databases simultaneously. Shangri-Docsutilizes Apache cTAKES (clinical Text Analysis and Knowledge Extraction System) [4] and Unified Medical Language System (UMLS) to automatically identify and highlight terms and concepts, such as specific symptoms, diseases, drugs, and anatomical sites, mentioned in the text. cTAKES was originally designed specially to extract information from clinical medical records. Our investigation leads us to extend the automatic knowledge extraction process of cTAKES for biomedical research domain by improving the ontology guided information extraction

  20. Automatic Road Centerline Extraction from Imagery Using Road GPS Data

    Directory of Open Access Journals (Sweden)

    Chuqing Cao

    2014-09-01

    Full Text Available Road centerline extraction from imagery constitutes a key element in numerous geospatial applications, which has been addressed through a variety of approaches. However, most of the existing methods are not capable of dealing with challenges such as different road shapes, complex scenes, and variable resolutions. This paper presents a novel method for road centerline extraction from imagery in a fully automatic approach that addresses the aforementioned challenges by exploiting road GPS data. The proposed method combines road color feature with road GPS data to detect road centerline seed points. After global alignment of road GPS data, a novel road centerline extraction algorithm is developed to extract each individual road centerline in local regions. Through road connection, road centerline network is generated as the final output. Extensive experiments demonstrate that our proposed method can rapidly and accurately extract road centerline from remotely sensed imagery.

  1. Development of Automatic Extraction Weld for Industrial Radiographic Negative Inspection

    Institute of Scientific and Technical Information of China (English)

    张晓光; 林家骏; 李浴; 卢印举

    2003-01-01

    In industrial X-ray inspection, in order to identify weld defects automatically, raise the identification ratio, and avoid processing of complex background, it is an important step for sequent processing to extract weld from the image. According to the characteristics of weld radiograph image, median filter is adopted to reduce the noise with high frequency, then relative gray-scale of image is chosen as fuzzy characteristic, and image gray-scale fuzzy matrix is constructed and suitable membership function is selected to describe edge characteristic. A fuzzy algorithm is adopted for enhancing radiograph image processing. Based on the intensity distribution characteristic in weld, methodology of weld extraction is then designed. This paper describes the methodology of all the weld extraction, including reducing noise, fuzzy enhancement and weld extraction process. To prove its effectiveness, this methodology was tested with 64 weld negative images available for this study. The experimental results show that this methodology is very effective for extracting linear weld.

  2. Design of Automatic Extraction Algorithm of Knowledge Points for MOOCs

    Directory of Open Access Journals (Sweden)

    Haijian Chen

    2015-01-01

    Full Text Available In recent years, Massive Open Online Courses (MOOCs are very popular among college students and have a powerful impact on academic institutions. In the MOOCs environment, knowledge discovery and knowledge sharing are very important, which currently are often achieved by ontology techniques. In building ontology, automatic extraction technology is crucial. Because the general methods of text mining algorithm do not have obvious effect on online course, we designed automatic extracting course knowledge points (AECKP algorithm for online course. It includes document classification, Chinese word segmentation, and POS tagging for each document. Vector Space Model (VSM is used to calculate similarity and design the weight to optimize the TF-IDF algorithm output values, and the higher scores will be selected as knowledge points. Course documents of “C programming language” are selected for the experiment in this study. The results show that the proposed approach can achieve satisfactory accuracy rate and recall rate.

  3. Design of Automatic Extraction Algorithm of Knowledge Points for MOOCs.

    Science.gov (United States)

    Chen, Haijian; Han, Dongmei; Dai, Yonghui; Zhao, Lina

    2015-01-01

    In recent years, Massive Open Online Courses (MOOCs) are very popular among college students and have a powerful impact on academic institutions. In the MOOCs environment, knowledge discovery and knowledge sharing are very important, which currently are often achieved by ontology techniques. In building ontology, automatic extraction technology is crucial. Because the general methods of text mining algorithm do not have obvious effect on online course, we designed automatic extracting course knowledge points (AECKP) algorithm for online course. It includes document classification, Chinese word segmentation, and POS tagging for each document. Vector Space Model (VSM) is used to calculate similarity and design the weight to optimize the TF-IDF algorithm output values, and the higher scores will be selected as knowledge points. Course documents of "C programming language" are selected for the experiment in this study. The results show that the proposed approach can achieve satisfactory accuracy rate and recall rate.

  4. Automatically extracting sheet-metal features from solid model

    Institute of Scientific and Technical Information of China (English)

    刘志坚; 李建军; 王义林; 李材元; 肖祥芷

    2004-01-01

    With the development of modern industry, sheet-metal parts in mass production have been widely applied in mechanical, communication, electronics, and light industries in recent decades; but the advances in sheet-metal part design and manufacturing remain too slow compared with the increasing importance of sheet-metal parts in modern industry. This paper proposes a method for automatically extracting features from an arbitrary solid model of sheet-metal parts; whose characteristics are used for classification and graph-based representation of the sheet-metal features to extract the features embodied in a sheet-metal part. The extracting feature process can be divided for valid checking of the model geometry, feature matching, and feature relationship. Since the extracted features include abundant geometry and engineering information, they will be effective for downstream application such as feature rebuilding and stamping process planning.

  5. Automatically extracting sheet-metal features from solid model

    Institute of Scientific and Technical Information of China (English)

    刘志坚; 李建军; 王义林; 李材元; 肖祥芷

    2004-01-01

    With the development of modern industry,sheet-metal parts in mass production have been widely applied in mechanical,communication,electronics,and light industries in recent decades; but the advances in sheet-metal part design and manufacturing remain too slow compared with the increasing importance of sheet-metal parts in modern industry. This paper proposes a method for automatically extracting features from an arbitrary solid model of sheet-metal parts; whose characteristics are used for classification and graph-based representation of the sheet-metal features to extract the features embodied in a sheet-metal part. The extracting feature process can be divided for valid checking of the model geometry,feature matching,and feature relationship. Since the extracted features include abundant geometry and engineering information,they will be effective for downstream application such as feature rebuilding and stamping process planning.

  6. Automatic extraction of corollaries from semantic structure of text

    Science.gov (United States)

    Nurtazin, Abyz T.; Khisamiev, Zarif G.

    2016-11-01

    The aim of this study is to develop an algorithm for automatic representation of the text of natural language as a formal system for the subsequent automatic extraction as reasonable answers to profound questions in the context of the text, and the deep logical consequences of the text and related areas of knowledge to which the text refers. The most universal method of constructing algorithms of automatic treatment of text for a particular purpose is a representation of knowledge in the form of a graph expressing the semantic values of the text. The paper presents an algorithm of automatic presentation of text and its associated knowledge as a formal logic programming theory for sufficiently strict texts, such as legal texts. This representation is a semantic-syntactic as the causal-investigatory relationships between the various parts are both logical and semantic. This representation of the text allows to resolve the issues of causal-investigatory relationships of present concepts, as methods of the theory and practice of logic programming and methods of model theory as well. In particular, these means of classical branches of mathematics can be used to address such issues as the definition and determination of consequences and questions of consistency of the theory.

  7. Automatic Railway Power Line Extraction Using Mobile Laser Scanning Data

    Science.gov (United States)

    Zhang, Shanxin; Wang, Cheng; Yang, Zhuang; Chen, Yiping; Li, Jonathan

    2016-06-01

    Research on power line extraction technology using mobile laser point clouds has important practical significance on railway power lines patrol work. In this paper, we presents a new method for automatic extracting railway power line from MLS (Mobile Laser Scanning) data. Firstly, according to the spatial structure characteristics of power-line and trajectory, the significant data is segmented piecewise. Then, use the self-adaptive space region growing method to extract power lines parallel with rails. Finally use PCA (Principal Components Analysis) combine with information entropy theory method to judge a section of the power line whether is junction or not and which type of junction it belongs to. The least squares fitting algorithm is introduced to model the power line. An evaluation of the proposed method over a complicated railway point clouds acquired by a RIEGL VMX450 MLS system shows that the proposed method is promising.

  8. AUTOMATIC EXTRACTION OF BUILDING OUTLINE FROM HIGH RESOLUTION AERIAL IMAGERY

    Directory of Open Access Journals (Sweden)

    Y. Wang

    2016-06-01

    Full Text Available In this paper, a new approach for automated extraction of building boundary from high resolution imagery is proposed. The proposed approach uses both geometric and spectral properties of a building to detect and locate buildings accurately. It consists of automatic generation of high quality point cloud from the imagery, building detection from point cloud, classification of building roof and generation of building outline. Point cloud is generated from the imagery automatically using semi-global image matching technology. Buildings are detected from the differential surface generated from the point cloud. Further classification of building roof is performed in order to generate accurate building outline. Finally classified building roof is converted into vector format. Numerous tests have been done on images in different locations and results are presented in the paper.

  9. Automatic Extraction of Building Outline from High Resolution Aerial Imagery

    Science.gov (United States)

    Wang, Yandong

    2016-06-01

    In this paper, a new approach for automated extraction of building boundary from high resolution imagery is proposed. The proposed approach uses both geometric and spectral properties of a building to detect and locate buildings accurately. It consists of automatic generation of high quality point cloud from the imagery, building detection from point cloud, classification of building roof and generation of building outline. Point cloud is generated from the imagery automatically using semi-global image matching technology. Buildings are detected from the differential surface generated from the point cloud. Further classification of building roof is performed in order to generate accurate building outline. Finally classified building roof is converted into vector format. Numerous tests have been done on images in different locations and results are presented in the paper.

  10. Automatic Foreground Extraction Based on Difference of Gaussian

    Directory of Open Access Journals (Sweden)

    Yubo Yuan

    2014-01-01

    Full Text Available A novel algorithm for automatic foreground extraction based on difference of Gaussian (DoG is presented. In our algorithm, DoG is employed to find the candidate keypoints of an input image in different color layers. Then, a keypoints filter algorithm is proposed to get the keypoints by removing the pseudo-keypoints and rebuilding the important keypoints. Finally, Normalized cut (Ncut is used to segment an image into several regions and locate the foreground with the number of keypoints in each region. Experiments on the given image data set demonstrate the effectiveness of our algorithm.

  11. Automatic segmentation of brain images: selection of region extraction methods

    Science.gov (United States)

    Gong, Leiguang; Kulikowski, Casimir A.; Mezrich, Reuben S.

    1991-07-01

    In automatically analyzing brain structures from a MR image, the choice of low level region extraction methods depends on the characteristics of both the target object and the surrounding anatomical structures in the image. The authors have experimented with local thresholding, global thresholding, and other techniques, using various types of MR images for extracting the major brian landmarks and different types of lesions. This paper describes specifically a local- binary thresholding method and a new global-multiple thresholding technique developed for MR image segmentation and analysis. The initial testing results on their segmentation performance are presented, followed by a comparative analysis of the two methods and their ability to extract different types of normal and abnormal brain structures -- the brain matter itself, tumors, regions of edema surrounding lesions, multiple sclerosis lesions, and the ventricles of the brain. The analysis and experimental results show that the global multiple thresholding techniques are more than adequate for extracting regions that correspond to the major brian structures, while local binary thresholding is helpful for more accurate delineation of small lesions such as those produced by MS, and for the precise refinement of lesion boundaries. The detection of other landmarks, such as the interhemispheric fissure, may require other techniques, such as line-fitting. These experiments have led to the formulation of a set of generic computer-based rules for selecting the appropriate segmentation packages for particular types of problems, based on which further development of an innovative knowledge- based, goal directed biomedical image analysis framework is being made. The system will carry out the selection automatically for a given specific analysis task.

  12. Automatic extraction of candidate nomenclature terms using the doublet method

    Directory of Open Access Journals (Sweden)

    Berman Jules J

    2005-10-01

    nomenclature. Results A 31+ Megabyte corpus of pathology journal abstracts was parsed using the doublet extraction method. This corpus consisted of 4,289 records, each containing an abstract title. The total number of words included in the abstract titles was 50,547. New candidate terms for the nomenclature were automatically extracted from the titles of abstracts in the corpus. Total execution time on a desktop computer with CPU speed of 2.79 GHz was 2 seconds. The resulting output consisted of 313 new candidate terms, each consisting of concatenated doublets found in the reference nomenclature. Human review of the 313 candidate terms yielded a list of 285 terms approved by a curator. A final automatic extraction of duplicate terms yielded a final list of 222 new terms (71% of the original 313 extracted candidate terms that could be added to the reference nomenclature. Conclusion The doublet method for automatically extracting candidate nomenclature terms can be used to quickly find new terms from vast amounts of text. The method can be immediately adapted for virtually any text and any nomenclature. An implementation of the algorithm, in the Perl programming language, is provided with this article.

  13. Automatically extracting functionally equivalent proteins from SwissProt

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    Martin Andrew CR

    2008-10-01

    Full Text Available Abstract Background There is a frequent need to obtain sets of functionally equivalent homologous proteins (FEPs from different species. While it is usually the case that orthology implies functional equivalence, this is not always true; therefore datasets of orthologous proteins are not appropriate. The information relevant to extracting FEPs is contained in databanks such as UniProtKB/Swiss-Prot and a manual analysis of these data allow FEPs to be extracted on a one-off basis. However there has been no resource allowing the easy, automatic extraction of groups of FEPs – for example, all instances of protein C. We have developed FOSTA, an automatically generated database of FEPs annotated as having the same function in UniProtKB/Swiss-Prot which can be used for large-scale analysis. The method builds a candidate list of homologues and filters out functionally diverged proteins on the basis of functional annotations using a simple text mining approach. Results Large scale evaluation of our FEP extraction method is difficult as there is no gold-standard dataset against which the method can be benchmarked. However, a manual analysis of five protein families confirmed a high level of performance. A more extensive comparison with two manually verified functional equivalence datasets also demonstrated very good performance. Conclusion In summary, FOSTA provides an automated analysis of annotations in UniProtKB/Swiss-Prot to enable groups of proteins already annotated as functionally equivalent, to be extracted. Our results demonstrate that the vast majority of UniProtKB/Swiss-Prot functional annotations are of high quality, and that FOSTA can interpret annotations successfully. Where FOSTA is not successful, we are able to highlight inconsistencies in UniProtKB/Swiss-Prot annotation. Most of these would have presented equal difficulties for manual interpretation of annotations. We discuss limitations and possible future extensions to FOSTA, and

  14. Automatic moving object extraction toward compact video representation

    Science.gov (United States)

    Fan, Jianping; Fujita, Gen; Furuie, Makoto; Onoye, Takao; Shirakawa, Isao; Wu, Lide

    2000-02-01

    An automatic object-oriented video segmentation and representation algorithm is proposed, where the local variance contrast and the frame differences contrast are jointly exploited for meaningful moving object extinction because these two visual features can indicate the spatial homogeneity of the gray levels and the temporal coherence of the motion fields efficiently. The 2D entropic thresholding technique and the watershed transformation method are further developed to determine the global feature thresholds adaptively according to the variation of the video components. The obtained video components are first represented by a group of 4 X 4 blocks coarsely, and then the meaningful moving objects are generated by an iterative region-merging procedure according to the spatiotemporal similarity measure. The temporal tracking procedure is further proposed to obtain more semantic moving objects among frames. Therefore, the proposed automatic moving object extraction algorithm can detect the appearance of new objects as well as the disappearance of existing objects efficiently because the correspondence of the video objects among frames is also established. Moreover, an object- oriented video representation and indexing approach is suggested, where both the operation of the camera (i.e., change of the viewpoint) and the birth or death of the individual objects are exploited to detect the breakpoints of the video data and to select the key frames adaptively.

  15. Definition extraction for glossary creation : a study on extracting definitions for semi-automatic glossary creation in Dutch

    NARCIS (Netherlands)

    Westerhout, E.N.

    2010-01-01

    The central topic of this thesis is the automatic extraction of definitions from text. Definition extraction can play a role in various applications including the semi-automatic development of glossaries in an eLearning context, which constitutes the main focus of this dissertation. A glossary provi

  16. Automatic building extraction and segmentation directly from lidar point clouds

    Science.gov (United States)

    Jiang, Jingjue; Ming, Ying

    2006-10-01

    This paper presents an automatic approach for building extraction and segmentation directly from Lidar point clouds without previous rasterization or triangulation. The algorithm works in the following sequential steps. First, a filtering algorithm, which is capable of preserving steep terrain features, is performed on raw Lidar point clouds. Points that belong to the bare earth and those that belong to buildings are separated. Second, the building points which may include some vegetation and other objects due to the disturbance of noise and the distribution of points are segmented further by using a Riemannian Graph. Then building segments are recognized by considering size and roughness. Finally, each segment can be treated as a building roof plane. Experiment results show that the algorithm is very promising.

  17. EXIF Custom: Automatic image metadata extraction for Scratchpads and Drupal

    Directory of Open Access Journals (Sweden)

    Ed Baker

    2013-09-01

    Full Text Available Many institutions and individuals use embedded metadata to aid in the management of their image collections. Many deskop image management solutions such as Adobe Bridge and online tools such as Flickr also make use of embedded metadata to describe, categorise and license images. Until now Scratchpads (a data management system and virtual research environment for biodiversity  have not made use of these metadata, and users have had to manually re-enter this information if they have wanted to display it on their Scratchpad site. The Drupal described here allows users to map metadata embedded in their images to the associated field in the Scratchpads image form using one or more customised mappings. The module works seamlessly with the bulk image uploader used on Scratchpads and it is therefore possible to upload hundreds of images easily with automatic metadata (EXIF, XMP and IPTC extraction and mapping.

  18. Automatic Metadata Extraction - The High Energy Physics Use Case

    CERN Document Server

    Boyd, Joseph; Rajman, Martin

    Automatic metadata extraction (AME) of scientific papers has been described as one of the hardest problems in document engineering. Heterogeneous content, varying style, and unpredictable placement of article components render the problem inherently indeterministic. Conditional random fields (CRF), a machine learning technique, can be used to classify document metadata amidst this uncertainty, annotating document contents with semantic labels. High energy physics (HEP) papers, such as those written at CERN, have unique content and structural characteristics, with scientific collaborations of thousands of authors altering article layouts dramatically. The distinctive qualities of these papers necessitate the creation of specialised datasets and model features. In this work we build an unprecedented training set of HEP papers and propose and evaluate a set of innovative features for CRF models. We build upon state-of-the-art AME software, GROBID, a tool coordinating a hierarchy of CRF models in a full document ...

  19. Automatic Extraction of Mangrove Vegetation from Optical Satellite Data

    Science.gov (United States)

    Agrawal, Mayank; Sushma Reddy, Devireddy; Prasad, Ram Chandra

    2016-06-01

    Mangrove, the intertidal halophytic vegetation, are one of the most significant and diverse ecosystem in the world. They protect the coast from sea erosion and other natural disasters like tsunami and cyclone. In view of their increased destruction and degradation in the current scenario, mapping of this vegetation is at priority. Globally researchers mapped mangrove vegetation using visual interpretation method or digital classification approaches or a combination of both (hybrid) approaches using varied spatial and spectral data sets. In the recent past techniques have been developed to extract these coastal vegetation automatically using varied algorithms. In the current study we tried to delineate mangrove vegetation using LISS III and Landsat 8 data sets for selected locations of Andaman and Nicobar islands. Towards this we made an attempt to use segmentation method, that characterize the mangrove vegetation based on their tone and the texture and the pixel based classification method, where the mangroves are identified based on their pixel values. The results obtained from the both approaches are validated using maps available for the region selected and obtained better accuracy with respect to their delineation. The main focus of this paper is simplicity of the methods and the availability of the data on which these methods are applied as these data (Landsat) are readily available for many regions. Our methods are very flexible and can be applied on any region.

  20. MINUTIAE EXTRACTION BASED ON ARTIFICIAL NEURAL NETWORKS FOR AUTOMATIC FINGERPRINT RECOGNITION SYSTEMS

    Directory of Open Access Journals (Sweden)

    Necla ÖZKAYA

    2007-01-01

    Full Text Available Automatic fingerprint recognition systems are utilised for personal identification with the use of comparisons of local ridge characteristics and their relationships. Critical stages in personal identification are to extract features automatically, fast and reliably from the input fingerprint images. In this study, a new approach based on artificial neural networks to extract minutiae from fingerprint images is developed and introduced. The results have shown that artificial neural networks achieve the minutiae extraction from fingerprint images with high accuracy.

  1. Automatic Knowledge Extraction and Knowledge Structuring for a National Term Bank

    DEFF Research Database (Denmark)

    Lassen, Tine; Madsen, Bodil Nistrup; Erdman Thomsen, Hanne

    2011-01-01

    This paper gives an introduction to the plans and ongoing work in a project, the aim of which is to develop methods for automatic knowledge extraction and automatic construction and updating of ontologies. The project also aims at developing methods for automatic merging of terminological data from...... various existing sources, as well as methods for target group oriented knowledge dissemination. In this paper, we mainly focus on the plans for automatic knowledge extraction and knowledge structuring that will result in ontologies for a national term bank....

  2. A method for automatically extracting infectious disease-related primers and probes from the literature

    Directory of Open Access Journals (Sweden)

    Pérez-Rey David

    2010-08-01

    Full Text Available Abstract Background Primer and probe sequences are the main components of nucleic acid-based detection systems. Biologists use primers and probes for different tasks, some related to the diagnosis and prescription of infectious diseases. The biological literature is the main information source for empirically validated primer and probe sequences. Therefore, it is becoming increasingly important for researchers to navigate this important information. In this paper, we present a four-phase method for extracting and annotating primer/probe sequences from the literature. These phases are: (1 convert each document into a tree of paper sections, (2 detect the candidate sequences using a set of finite state machine-based recognizers, (3 refine problem sequences using a rule-based expert system, and (4 annotate the extracted sequences with their related organism/gene information. Results We tested our approach using a test set composed of 297 manuscripts. The extracted sequences and their organism/gene annotations were manually evaluated by a panel of molecular biologists. The results of the evaluation show that our approach is suitable for automatically extracting DNA sequences, achieving precision/recall rates of 97.98% and 95.77%, respectively. In addition, 76.66% of the detected sequences were correctly annotated with their organism name. The system also provided correct gene-related information for 46.18% of the sequences assigned a correct organism name. Conclusions We believe that the proposed method can facilitate routine tasks for biomedical researchers using molecular methods to diagnose and prescribe different infectious diseases. In addition, the proposed method can be expanded to detect and extract other biological sequences from the literature. The extracted information can also be used to readily update available primer/probe databases or to create new databases from scratch.

  3. A Semi-automatic Method Based on Statistic for Mandarin Semantic Structures Extraction in Specific Domains

    Institute of Scientific and Technical Information of China (English)

    熊英; 朱杰; 孙静

    2004-01-01

    This paper proposed a new method of semi-automatic extraction for semantic structures from unlabelled corpora in specific domains. The approach is statistical in nature. The extracted structures can be used for shallow parsing and semantic labeling. By iteratively extracting new words and clustering words, we get an inital semantic lexicon that groups words of the same semantic meaning together as a class. After that, a bootstrapping algorithm is adopted to extract semantic structures. Then the semantic structures are used to extract new key words and augment the semantic lexicon. The resultant semantic structures are interpreted by persons and are amenable to hand-editing for refinement. In this experiment, the semi-automatically extracted structures SSA provide recall rate of 84.5%.

  4. Automatic Key-Frame Extraction from Optical Motion Capture Data

    Institute of Scientific and Technical Information of China (English)

    ZHANG Qiang; YU Shao-pei; ZHOU Dong-sheng; WEI Xiao-peng

    2013-01-01

    Optical motion capture is an increasingly popular animation technique. In the last few years, plenty of methods have been proposed for key-frame extraction of motion capture data, and it is a common method to extract key-frame using quaternion. Here, one main difficulty is due to the fact that previous algorithms often need to manually set various parameters. In addition, it is problematic to predefine the appropriate threshold without knowing the data content. In this paper, we present a novel adaptive threshold-based extraction method. Key-frame can be found according to quaternion distance. We propose a simple and efficient algorithm to extract key-frame from a motion sequence based on adaptive threshold. It is convenient with no need to predefine parameters to meet certain compression ratio. Experimental results of many motion captures with different traits demonstrate good performance of the proposed algorithm. Our experiments show that one can typically cut down the process of extraction from several minutes to a couple of seconds.

  5. Automatic Data Extraction from Websites for Generating Aquatic Product Market Information

    Institute of Scientific and Technical Information of China (English)

    YUAN Hong-chun; CHEN Ying; SUN Yue-fu

    2006-01-01

    The massive web-based information resources have led to an increasing demand for effective automatic retrieval of target information for web applications. This paper introduces a web-based data extraction tool that deploys various algorithms to locate, extract and filter tabular data from HTML pages and to transform them into new web-based representations. The tool has been applied in an aquaculture web application platform for extracting and generating aquatic product market information.Results prove that this tool is very effective in extracting the required data from web pages.

  6. FEATURES AND GROUND AUTOMATIC EXTRACTION FROM AIRBORNE LIDAR DATA

    OpenAIRE

    D. Costantino; M. G. Angelini

    2012-01-01

    The aim of the research has been the developing and implementing an algorithm for automated extraction of features from LIDAR scenes with varying terrain and coverage types. This applies the moment of third order (Skweness) and fourth order (Kurtosis). While the first has been applied in order to produce an initial filtering and data classification, the second, through the introduction of the weights of the measures, provided the desired results, which is a finer classification and l...

  7. Features and Ground Automatic Extraction from Airborne LIDAR Data

    Science.gov (United States)

    Costantino, D.; Angelini, M. G.

    2011-09-01

    The aim of the research has been the developing and implementing an algorithm for automated extraction of features from LIDAR scenes with varying terrain and coverage types. This applies the moment of third order (Skweness) and fourth order (Kurtosis). While the first has been applied in order to produce an initial filtering and data classification, the second, through the introduction of the weights of the measures, provided the desired results, which is a finer classification and less noisy. The process has been carried out in Matlab but to reduce processing time, given the large data density, the analysis has been limited at a mobile window. It was, therefore, arranged to produce subscenes in order to covers the entire area. The performance of the algorithm, confirm its robustness and goodness of results. Employment of effective processing strategies to improve the automation is a key to the implementation of this algorithm. The results of this work will serve the increased demand of automation for 3D information extraction using remotely sensed large datasets. After obtaining the geometric features from LiDAR data, we want to complete the research creating an algorithm to vector features and extraction of the DTM.

  8. Automatic extraction of forward stroke volume using dynamic 11C-acetate PET/CT

    DEFF Research Database (Denmark)

    Harms, Hans; Tolbod, Lars Poulsen; Hansson, Nils Henrik;

    , potentially introducing bias if measured with a separate modality. The aim of this study was to develop and validate methods for automatically extracting FSV directly from the dynamic PET used for measuring oxidative metabolism. Methods: 16 subjects underwent a dynamic 27 min PET scan on a Siemens Biograph...... TruePoint 64 PET/CT scanner after bolus injection of 399±27 MBq of 11C-acetate. The LV-aortic time-activity curve (TAC) was extracted automatically from dynamic PET data using cluster analysis. The first-pass peak was derived by automatic extrapolation of the down-slope of the TAC. FSV...... was then calculated as the injected dose divided by the product of heart rate and the area under the curve of the first-pass peak. Gold standard FSV was measured in the left ventricular outflow tract by cardiovascular magnetic resonance using phase-contrast velocity mapping within two weeks of PET imaging. Results...

  9. Quality assessment of automatically extracted data from GPs' EPR.

    Science.gov (United States)

    de Clercq, Etienne; Moreels, Sarah; Van Casteren, Viviane; Bossuyt, Nathalie; Goderis, Geert; Bartholomeeusen, Stefaan

    2012-01-01

    There are many secondary benefits to collecting routine primary care data, but we first need to understand some of the properties of this data. In this paper we describe the method used to assess the PPV and sensitivity of data extracted from Belgian GPs' EPR (diagnoses, drug prescriptions, referrals, and certain parameters), using data collected through an electronic questionnaire as a gold standard. We describe the results of the ResoPrim phase 2 project, which involved 4 software systems and 43 practices (10,307 patients). This method of assessment could also be applied to other research networks.

  10. Automatic extraction of ontological relations from Arabic text

    Directory of Open Access Journals (Sweden)

    Mohammed G.H. Al Zamil

    2014-12-01

    The proposed methodology has been designed to analyze Arabic text using lexical semantic patterns of the Arabic language according to a set of features. Next, the features have been abstracted and enriched with formal descriptions for the purpose of generalizing the resulted rules. The rules, then, have formulated a classifier that accepts Arabic text, analyzes it, and then displays related concepts labeled with its designated relationship. Moreover, to resolve the ambiguity of homonyms, a set of machine translation, text mining, and part of speech tagging algorithms have been reused. We performed extensive experiments to measure the effectiveness of our proposed tools. The results indicate that our proposed methodology is promising for automating the process of extracting ontological relations.

  11. Overview of Automatic Keyphrase Extraction%自动关键短语抽取综述

    Institute of Scientific and Technical Information of China (English)

    姚尧

    2015-01-01

    自动关键短语抽取是知识抽取和信息检索等信息技术的关键步骤,当前已经被广泛研究多年,但是和许多自然语言处理任务的性能相比,现有抽取算法的性能依然很低下。对自动关键短语抽取方法进行综述,并对其未来研究发展进行展望,为进一步自动抽取高质量的关键短语提供良好借鉴。%Automatic keyphrase extraction is a key step knowledge extraction and information retrieval of information technology, the current has been extensively studied for many years, but many properties as compared to natural language processing tasks, the performance of exist-ing extraction algorithm remains low down. Reviews phrase for automatic extraction methods, and prospects for its future research and de-velopment, to provide a good reference for further automatically extract keyphrases of high quality.

  12. Automatic Open Space Area Extraction and Change Detection from High Resolution Urban Satellite Images

    CERN Document Server

    Kodge, B G

    2011-01-01

    In this paper, we study efficient and reliable automatic extraction algorithm to find out the open space area from the high resolution urban satellite imagery, and to detect changes from the extracted open space area during the period 2003, 2006 and 2008. This automatic extraction and change detection algorithm uses some filters, segmentation and grouping that are applied on satellite images. The resultant images may be used to calculate the total available open space area and the built up area. It may also be used to compare the difference between present and past open space area using historical urban satellite images of that same projection, which is an important geo spatial data management application.

  13. Automatic extraction of discontinuity orientation from rock mass surface 3D point cloud

    Science.gov (United States)

    Chen, Jianqin; Zhu, Hehua; Li, Xiaojun

    2016-10-01

    This paper presents a new method for extracting discontinuity orientation automatically from rock mass surface 3D point cloud. The proposed method consists of four steps: (1) automatic grouping of discontinuity sets using an improved K-means clustering method, (2) discontinuity segmentation and optimization, (3) discontinuity plane fitting using Random Sample Consensus (RANSAC) method, and (4) coordinate transformation of discontinuity plane. The method is first validated by the point cloud of a small piece of a rock slope acquired by photogrammetry. The extracted discontinuity orientations are compared with measured ones in the field. Then it is applied to a publicly available LiDAR data of a road cut rock slope at Rockbench repository. The extracted discontinuity orientations are compared with the method proposed by Riquelme et al. (2014). The results show that the presented method is reliable and of high accuracy, and can meet the engineering needs.

  14. Automatic Pole and Q-Value Extraction for RF Structures

    Energy Technology Data Exchange (ETDEWEB)

    C. Potratz, H.-W. Glock, U. van Rienen, F. Marhauser

    2011-09-01

    The experimental characterization of RF structures like accelerating cavities often demands for measuring resonant frequencies of Eigenmodes and corresponding (loaded) Q-values over a wide spectral range. A common procedure to determine the Q-values is the -3dB method, which works well for isolated poles, but may not be applicable directly in case of multiple poles residing in close proximity (e.g. for adjacent transverse modes differing by polarization). Although alternative methods may be used in such cases, this often comes at the expense of inherent systematic errors. We have developed an automation algorithm, which not only speeds up the measurement time significantly, but is also able to extract Eigenfrequencies and Q-values both for well isolated and overlapping poles. At the same time the measurement accuracy may be improved as a major benefit. To utilize this procedure merely complex scattering parameters have to be recorded for the spectral range of interest. In this paper we present the proposed algorithm applied to experimental data recorded for superconducting higher-order-mode damped multi-cell cavities as an application of high importance.

  15. Automatic parameter extraction technique for gate leakage current modeling in double gate MOSFET

    Science.gov (United States)

    Darbandy, Ghader; Gneiting, Thomas; Alius, Heidrun; Alvarado, Joaquín; Cerdeira, Antonio; Iñiguez, Benjamin

    2013-11-01

    Direct Tunneling (DT) and Trap Assisted Tunneling (TAT) gate leakage current parameters have been extracted and verified considering automatic parameter extraction approach. The industry standard package IC-CAP is used to extract our leakage current model parameters. The model is coded in Verilog-A and the comparison between the model and measured data allows to obtain the model parameter values and parameters correlations/relations. The model and parameter extraction techniques have been used to study the impact of parameters in the gate leakage current based on the extracted parameter values. It is shown that the gate leakage current depends on the interfacial barrier height more strongly than the barrier height of the dielectric layer. There is almost the same scenario with respect to the carrier effective masses into the interfacial layer and the dielectric layer. The comparison between the simulated results and available measured gate leakage current transistor characteristics of Trigate MOSFETs shows good agreement.

  16. Automatic In-Syringe Dispersive Microsolid Phase Extraction Using Magnetic Metal-Organic Frameworks.

    Science.gov (United States)

    Maya, Fernando; Palomino Cabello, Carlos; Estela, Jose Manuel; Cerdà, Víctor; Turnes Palomino, Gemma

    2015-08-04

    A novel automatic strategy for the use of micro- and nanomaterials as sorbents for dispersive microsolid phase extraction (D-μ-SPE) based on the lab-in-syringe concept is reported. Using the developed technique, the implementation of magnetic metal-organic framework (MOF) materials for automatic solid-phase extraction has been achieved for the first time. A hybrid material based on submicrometric MOF crystals containing Fe3O4 nanoparticles was prepared and retained in the surface of a miniature magnetic bar. The magnetic bar was placed inside the syringe of an automatic bidirectional syringe pump, enabling dispersion and subsequent magnetic retrieval of the MOF hybrid material by automatic activation/deactivation of magnetic stirring. Using malachite green (MG) as a model adsorption analyte, a limit of detection of 0.012 mg/L and a linear working range of 0.04-2 mg/L were obtained for a sample volume equal to the syringe volume (5 mL). MG preconcentration was linear up to a volume of 40 mL, obtaining an enrichment factor of 120. The analysis throughput is 18 h(-1), and up to 3000 extractions/g of material can be performed. Recoveries ranging between 95 and 107% were obtained for the analysis of MG in different types of water and trout fish samples. The developed automatic D-μ-SPE technique is a safe alternative for the use of small-sized materials for sample preparation and is readily implementable to other magnetic materials independent of their size and shape and can be easily hyphenated to the majority of detectors and separation techniques.

  17. Automatic extraction of forward stroke volume using dynamic PET/CT

    DEFF Research Database (Denmark)

    Harms, Hans; Tolbod, Lars Poulsen; Hansson, Nils Henrik Stubkjær;

    2015-01-01

    Background The aim of this study was to develop and validate an automated method for extracting forward stroke volume (FSV) using indicator dilution theory directly from dynamic positron emission tomography (PET) studies for two different tracers and scanners. Methods 35 subjects underwent...... a dynamic 11 C-acetate PET scan on a Siemens Biograph TruePoint-64 PET/CT (scanner I). In addition, 10 subjects underwent both dynamic 15 O-water PET and 11 C-acetate PET scans on a GE Discovery-ST PET/CT (scanner II). The left ventricular (LV)-aortic time-activity curve (TAC) was extracted automatically...... from PET data using cluster analysis. The first-pass peak was isolated by automatic extrapolation of the downslope of the TAC. FSV was calculated as the injected dose divided by the product of heart rate and the area under the curve of the first-pass peak. Gold standard FSV was measured using phase...

  18. Motion states extraction with optical flow for rat-robot automatic navigation.

    Science.gov (United States)

    Zhang, Xinlu; Sun, Chao; Zheng, Nenggan; Chen, Weidong; Zheng, Xiaoxiang

    2012-01-01

    The real-time acquisition of precise motion states is significant and difficult for bio-robot automatic navigation. In this paper, we propose a real-time video-tracking algorithm to extract motion states of rat-robots in complex environment using optical flow. The rat-robot's motion states, including location, speed and motion trend, are acquired accurately in real time. Compared with the traditional methods based on single frame image, our algorithm using consecutive frames provides more exact and rich motion information for the automatic navigation of bio-robots. The video of the manual navigation experiments on rat-robots in eight-arm maze is applied to test this algorithm. The average computation time is 25.76 ms which is less than the speed of image acquisition. The results show that our method could extract the motion states with good performance of accuracy and time consumption.

  19. Semi-automatic term extraction for the African languages, with special reference to Northern Sotho

    OpenAIRE

    Elsabé Taljard; Gilles-Maurice de Schryver

    2002-01-01

    Abstract: Worldwide, semi-automatically extracting terms from corpora is becoming the norm for the compilation of terminology lists, term banks or dictionaries for special purposes. If Africanlanguage terminologists are willing to take their rightful place in the new millennium, they must not only take cognisance of this trend but also be ready to implement the new technology. In this article it is advocated that the best way to do the latter two at this stage, is to opt for computat...

  20. A dual growing method for the automatic extraction of individual trees from mobile laser scanning data

    Science.gov (United States)

    Li, Lin; Li, Dalin; Zhu, Haihong; Li, You

    2016-10-01

    Street trees interlaced with other objects in cluttered point clouds of urban scenes inhibit the automatic extraction of individual trees. This paper proposes a method for the automatic extraction of individual trees from mobile laser scanning data, according to the general constitution of trees. Two components of each individual tree - a trunk and a crown can be extracted by the dual growing method. This method consists of coarse classification, through which most of artifacts are removed; the automatic selection of appropriate seeds for individual trees, by which the common manual initial setting is avoided; a dual growing process that separates one tree from others by circumscribing a trunk in an adaptive growing radius and segmenting a crown in constrained growing regions; and a refining process that draws a singular trunk from the interlaced other objects. The method is verified by two datasets with over 98% completeness and over 96% correctness. The low mean absolute percentage errors in capturing the morphological parameters of individual trees indicate that this method can output individual trees with high precision.

  1. Semi-Automatically Extracting FAQs to Improve Accessibility of Software Development Knowledge

    CERN Document Server

    Henß, Stefan; Mezini, Mira

    2012-01-01

    Frequently asked questions (FAQs) are a popular way to document software development knowledge. As creating such documents is expensive, this paper presents an approach for automatically extracting FAQs from sources of software development discussion, such as mailing lists and Internet forums, by combining techniques of text mining and natural language processing. We apply the approach to popular mailing lists and carry out a survey among software developers to show that it is able to extract high-quality FAQs that may be further improved by experts.

  2. Investigation on the automatic parameters extraction of pulse signals based on wavelet transform

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    This paper analyses a key problem in the quantification of pulse diagnosis. Due to the subjectivity and fuzziness of pulse diagnosis, quantitative methods are needed. To extract the parameters of pulse signals, the prerequisite is to detect the corners of pulse signals correctly. Up to now, the pulse parameters are mostly acquired by marking the pulse corners manually, which is an obstacle to modernize pulse diagnosis. Therefore, a new automatic parameters extraction approach for pulse signals using wavelet transform is presented. The results testified that the method we proposed is feasible and effective and can detect corners of pulse signals accurately, which can be expected to facilitate the modernization of pulse diagnosis.

  3. Automatic Authorship Detection Using Textual Patterns Extracted from Integrated Syntactic Graphs

    Science.gov (United States)

    Gómez-Adorno, Helena; Sidorov, Grigori; Pinto, David; Vilariño, Darnes; Gelbukh, Alexander

    2016-01-01

    We apply the integrated syntactic graph feature extraction methodology to the task of automatic authorship detection. This graph-based representation allows integrating different levels of language description into a single structure. We extract textual patterns based on features obtained from shortest path walks over integrated syntactic graphs and apply them to determine the authors of documents. On average, our method outperforms the state of the art approaches and gives consistently high results across different corpora, unlike existing methods. Our results show that our textual patterns are useful for the task of authorship attribution. PMID:27589740

  4. Automatic Identification and Data Extraction from 2-Dimensional Plots in Digital Documents

    CERN Document Server

    Brouwer, William; Das, Sujatha; Mitra, Prasenjit; Giles, C L

    2008-01-01

    Most search engines index the textual content of documents in digital libraries. However, scholarly articles frequently report important findings in figures for visual impact and the contents of these figures are not indexed. These contents are often invaluable to the researcher in various fields, for the purposes of direct comparison with their own work. Therefore, searching for figures and extracting figure data are important problems. To the best of our knowledge, there exists no tool to automatically extract data from figures in digital documents. If we can extract data from these images automatically and store them in a database, an end-user can query and combine data from multiple digital documents simultaneously and efficiently. We propose a framework based on image analysis and machine learning to extract information from 2-D plot images and store them in a database. The proposed algorithm identifies a 2-D plot and extracts the axis labels, legend and the data points from the 2-D plot. We also segrega...

  5. A novel spectral index to automatically extract road networks from WorldView-2 satellite imagery

    Directory of Open Access Journals (Sweden)

    Kaveh Shahi

    2015-06-01

    Full Text Available This research develops a spectral index to automatically extract asphalt road networks named road extraction index (REI. This index uses WorldView-2 (WV-2 imagery, which has high spatial resolution and is multispectral. To determine the best bands for WV-2, field spectral data using a field spectroradiometer were collected. These data were then analyzed statistically. The bands were selected through the methodology of stepwise discriminant analysis. The appropriate WV-2 bands were distinguished from one another as per significant wavelengths. The proposed index is based on this classification. By applying REI to WV-2 imagery, we can extract asphalt roads accurately. Results demonstrate that REI is automated, transferable, and efficient in asphalt road extraction from high-resolution satellite imagery.

  6. Automatic parameter extraction techniques in IC-CAP for a compact double gate MOSFET model

    Science.gov (United States)

    Darbandy, Ghader; Gneiting, Thomas; Alius, Heidrun; Alvarado, Joaquín; Cerdeira, Antonio; Iñiguez, Benjamin

    2013-05-01

    In this paper, automatic parameter extraction techniques of Agilent's IC-CAP modeling package are presented to extract our explicit compact model parameters. This model is developed based on a surface potential model and coded in Verilog-A. The model has been adapted to Trigate MOSFETs, includes short channel effects (SCEs) and allows accurate simulations of the device characteristics. The parameter extraction routines provide an effective way to extract the model parameters. The techniques minimize the discrepancy and error between the simulation results and the available experimental data for more accurate parameter values and reliable circuit simulation. Behavior of the second derivative of the drain current is also verified and proves to be accurate and continuous through the different operating regimes. The results show good agreement with measured transistor characteristics under different conditions and through all operating regimes.

  7. Sequential Clustering based Facial Feature Extraction Method for Automatic Creation of Facial Models from Orthogonal Views

    CERN Document Server

    Ghahari, Alireza

    2009-01-01

    Multiview 3D face modeling has attracted increasing attention recently and has become one of the potential avenues in future video systems. We aim to make more reliable and robust automatic feature extraction and natural 3D feature construction from 2D features detected on a pair of frontal and profile view face images. We propose several heuristic algorithms to minimize possible errors introduced by prevalent nonperfect orthogonal condition and noncoherent luminance. In our approach, we first extract the 2D features that are visible to both cameras in both views. Then, we estimate the coordinates of the features in the hidden profile view based on the visible features extracted in the two orthogonal views. Finally, based on the coordinates of the extracted features, we deform a 3D generic model to perform the desired 3D clone modeling. Present study proves the scope of resulted facial models for practical applications like face recognition and facial animation.

  8. Role of Artificial Intelligence Techniques (Automatic Classifiers) in Molecular Imaging Modalities in Neurodegenerative Diseases.

    Science.gov (United States)

    Cascianelli, Silvia; Scialpi, Michele; Amici, Serena; Forini, Nevio; Minestrini, Matteo; Fravolini, Mario Luca; Sinzinger, Helmut; Schillaci, Orazio; Palumbo, Barbara

    2017-01-01

    Artificial Intelligence (AI) is a very active Computer Science research field aiming to develop systems that mimic human intelligence and is helpful in many human activities, including Medicine. In this review we presented some examples of the exploiting of AI techniques, in particular automatic classifiers such as Artificial Neural Network (ANN), Support Vector Machine (SVM), Classification Tree (ClT) and ensemble methods like Random Forest (RF), able to analyze findings obtained by positron emission tomography (PET) or single-photon emission tomography (SPECT) scans of patients with Neurodegenerative Diseases, in particular Alzheimer's Disease. We also focused our attention on techniques applied in order to preprocess data and reduce their dimensionality via feature selection or projection in a more representative domain (Principal Component Analysis - PCA - or Partial Least Squares - PLS - are examples of such methods); this is a crucial step while dealing with medical data, since it is necessary to compress patient information and retain only the most useful in order to discriminate subjects into normal and pathological classes. Main literature papers on the application of these techniques to classify patients with neurodegenerative disease extracting data from molecular imaging modalities are reported, showing that the increasing development of computer aided diagnosis systems is very promising to contribute to the diagnostic process.

  9. Automatic Extraction and Size Distribution of Landslides in Kurdistan Region, NE Iraq

    Directory of Open Access Journals (Sweden)

    Arsalan A. Othman

    2013-05-01

    Full Text Available This study aims to assess the localization and size distribution of landslides using automatic remote sensing techniques in (semi- arid, non-vegetated, mountainous environments. The study area is located in the Kurdistan region (NE Iraq, within the Zagros orogenic belt, which is characterized by the High Folded Zone (HFZ, the Imbricated Zone and the Zagros Suture Zone (ZSZ. The available reference inventory includes 3,190 landslides mapped from sixty QuickBird scenes using manual delineation. The landslide types involve rock falls, translational slides and slumps, which occurred in different lithological units. Two hundred and ninety of these landslides lie within the ZSZ, representing a cumulated surface of 32 km2. The HFZ implicates 2,900 landslides with an overall coverage of about 26 km2. We first analyzed cumulative landslide number-size distributions using the inventory map. We then proposed a very simple and robust algorithm for automatic landslide extraction using specific band ratios selected upon the spectral signatures of bare surfaces as well as posteriori slope and the normalized difference vegetation index (NDVI thresholds. The index is based on the contrast between landslides and their background, whereas the landslides have high reflections in the green and red bands. We applied the slope threshold map to remove low slope areas, which have high reflectance in red and green bands. The algorithm was able to detect ~96% of the recent landslides known from the reference inventory on a test site. The cumulative landslide number-size distribution of automatically extracted landslide is very similar to the one based on visual mapping. The automatic extraction is therefore adapted for the quantitative analysis of landslides and thus can contribute to the assessment of hazards in similar regions.

  10. Lung Lesion Extraction Using a Toboggan Based Growing Automatic Segmentation Approach.

    Science.gov (United States)

    Song, Jiangdian; Yang, Caiyun; Fan, Li; Wang, Kun; Yang, Feng; Liu, Shiyuan; Tian, Jie

    2016-01-01

    The accurate segmentation of lung lesions from computed tomography (CT) scans is important for lung cancer research and can offer valuable information for clinical diagnosis and treatment. However, it is challenging to achieve a fully automatic lesion detection and segmentation with acceptable accuracy due to the heterogeneity of lung lesions. Here, we propose a novel toboggan based growing automatic segmentation approach (TBGA) with a three-step framework, which are automatic initial seed point selection, multi-constraints 3D lesion extraction and the final lesion refinement. The new approach does not require any human interaction or training dataset for lesion detection, yet it can provide a high lesion detection sensitivity (96.35%) and a comparable segmentation accuracy with manual segmentation (P > 0.05), which was proved by a series assessments using the LIDC-IDRI dataset (850 lesions) and in-house clinical dataset (121 lesions). We also compared TBGA with commonly used level set and skeleton graph cut methods, respectively. The results indicated a significant improvement of segmentation accuracy . Furthermore, the average time consumption for one lesion segmentation was under 8 s using our new method. In conclusion, we believe that the novel TBGA can achieve robust, efficient and accurate lung lesion segmentation in CT images automatically.

  11. Automatic Rotation Recovery Algorithm for Accurate Digital Image and Video Watermarks Extraction

    Directory of Open Access Journals (Sweden)

    Nasr addin Ahmed Salem Al-maweri

    2016-11-01

    Full Text Available Research in digital watermarking has evolved rapidly in the current decade. This evolution brought various different methods and algorithms for watermarking digital images and videos. Introduced methods in the field varies from weak to robust according to how tolerant the method is implemented to keep the existence of the watermark in the presence of attacks. Rotation attacks applied to the watermarked media is one of the serious attacks which many, if not most, algorithms cannot survive. In this paper, a new automatic rotation recovery algorithm is proposed. This algorithm can be plugged to any image or video watermarking algorithm extraction component. The main job for this method is to detect the geometrical distortion happens to the watermarked image/images sequence; recover the distorted scene to its original state in a blind and automatic way and then send it to be used by the extraction procedure. The work is limited to have a recovery process to zero padded rotations for now, cropped images after rotation is left as future work. The proposed algorithm is tested on top of extraction component. Both recovery accuracy and the extracted watermarks accuracy showed high performance level.

  12. Automatic extraction of forward stroke volume using dynamic PET/CT

    DEFF Research Database (Denmark)

    Harms, Hans; Tolbod, Lars Poulsen; Hansson, Nils Henrik;

    Background: Dynamic PET can be used to extract forward stroke volume (FSV) by the indicator dilution principle. The technique employed can be automated and is in theory independent on the tracer used and may therefore be added to any dynamic cardiac PET protocol. The aim of this study was to vali......Background: Dynamic PET can be used to extract forward stroke volume (FSV) by the indicator dilution principle. The technique employed can be automated and is in theory independent on the tracer used and may therefore be added to any dynamic cardiac PET protocol. The aim of this study...... was to validate automated methods for extracting FSV directly from dynamic PET studies for two different tracers and to examine potential scanner hardware bias. Methods: 21 subjects underwent a dynamic 27 min 11C-acetate PET scan on a Siemens Biograph TruePoint 64 PET/CT scanner (scanner I). In addition, 8...... subjects underwent a dynamic 6 min 15O-water PET scan followed by a 27 min 11C-acetate PET scan on a GE Discovery ST PET/CT scanner (scanner II). The LV-aortic time-activity curve (TAC) was extracted automatically from dynamic PET data using cluster analysis. The first-pass peak was isolated by automatic...

  13. Automatic Road Extraction Based on Integration of High Resolution LIDAR and Aerial Imagery

    Science.gov (United States)

    Rahimi, S.; Arefi, H.; Bahmanyar, R.

    2015-12-01

    In recent years, the rapid increase in the demand for road information together with the availability of large volumes of high resolution Earth Observation (EO) images, have drawn remarkable interest to the use of EO images for road extraction. Among the proposed methods, the unsupervised fully-automatic ones are more efficient since they do not require human effort. Considering the proposed methods, the focus is usually to improve the road network detection, while the roads' precise delineation has been less attended to. In this paper, we propose a new unsupervised fully-automatic road extraction method, based on the integration of the high resolution LiDAR and aerial images of a scene using Principal Component Analysis (PCA). This method discriminates the existing roads in a scene; and then precisely delineates them. Hough transform is then applied to the integrated information to extract straight lines; which are further used to segment the scene and discriminate the existing roads. The roads' edges are then precisely localized using a projection-based technique, and the round corners are further refined. Experimental results demonstrate that our proposed method extracts and delineates the roads with a high accuracy.

  14. AUTOMATIC EXTRACTION OF BUILDING ROOF PLANES FROM AIRBORNE LIDAR DATA APPLYING AN EXTENDED 3D RANDOMIZED HOUGH TRANSFORM

    OpenAIRE

    Maltezos, Evangelos; Ioannidis, Charalabos

    2016-01-01

    This study aims to extract automatically building roof planes from airborne LIDAR data applying an extended 3D Randomized Hough Transform (RHT). The proposed methodology consists of three main steps, namely detection of building points, plane detection and refinement. For the detection of the building points, the vegetative areas are first segmented from the scene content and the bare earth is extracted afterwards. The automatic plane detection of each building is performed applying extension...

  15. Feature Extraction and Automatic Material Classification of Underground Objects from Ground Penetrating Radar Data

    Directory of Open Access Journals (Sweden)

    Qingqing Lu

    2014-01-01

    Full Text Available Ground penetrating radar (GPR is a powerful tool for detecting objects buried underground. However, the interpretation of the acquired signals remains a challenging task since an experienced user is required to manage the entire operation. Particularly difficult is the classification of the material type of underground objects in noisy environment. This paper proposes a new feature extraction method. First, discrete wavelet transform (DWT transforms A-Scan data and approximation coefficients are extracted. Then, fractional Fourier transform (FRFT is used to transform approximation coefficients into fractional domain and we extract features. The features are supplied to the support vector machine (SVM classifiers to automatically identify underground objects material. Experiment results show that the proposed feature-based SVM system has good performances in classification accuracy compared to statistical and frequency domain feature-based SVM system in noisy environment and the classification accuracy of features proposed in this paper has little relationship with the SVM models.

  16. Template Guided Live Wire and Its Application on Automatic Extraction of Tongue in Digital Image

    Institute of Scientific and Technical Information of China (English)

    ZHENG Yuan-jie; YANG Jie; ZHOU Yue

    2005-01-01

    In this paper, we propose a novel automatic object extraction algorithm, named the Template Guided Live Wire, based on the popularly used livewire techniques. We discuss in details the novel method's applications on tongue extraction in digital images. With the guides of a given template curve which approximates the tongue's shape, our method can finish the extraction of tongue without any human intervention. In the paper, we also discussed in details how the template guides the live wire, and why our method functions more effectively than other boundary based segmentation methods especially the snake algorithm. Experimental results on some tongue images areas well provided to show our method's better accuracy and robustness than the snake algorithm.

  17. Developing an Intelligent Automatic Appendix Extraction Method from Ultrasonography Based on Fuzzy ART and Image Processing

    Directory of Open Access Journals (Sweden)

    Kwang Baek Kim

    2015-01-01

    Full Text Available Ultrasound examination (US does a key role in the diagnosis and management of the patients with clinically suspected appendicitis which is the most common abdominal surgical emergency. Among the various sonographic findings of appendicitis, outer diameter of the appendix is most important. Therefore, clear delineation of the appendix on US images is essential. In this paper, we propose a new intelligent method to extract appendix automatically from abdominal sonographic images as a basic building block of developing such an intelligent tool for medical practitioners. Knowing that the appendix is located at the lower organ area below the bottom fascia line, we conduct a series of image processing techniques to find the fascia line correctly. And then we apply fuzzy ART learning algorithm to the organ area in order to extract appendix accurately. The experiment verifies that the proposed method is highly accurate (successful in 38 out of 40 cases in extracting appendix.

  18. Automatic Extraction of Destinations, Origins and Route Parts from Human Generated Route Directions

    Science.gov (United States)

    Zhang, Xiao; Mitra, Prasenjit; Klippel, Alexander; Maceachren, Alan

    Researchers from the cognitive and spatial sciences are studying text descriptions of movement patterns in order to examine how humans communicate and understand spatial information. In particular, route directions offer a rich source of information on how cognitive systems conceptualize movement patterns by segmenting them into meaningful parts. Route directions are composed using a plethora of cognitive spatial organization principles: changing levels of granularity, hierarchical organization, incorporation of cognitively and perceptually salient elements, and so forth. Identifying such information in text documents automatically is crucial for enabling machine-understanding of human spatial language. The benefits are: a) creating opportunities for large-scale studies of human linguistic behavior; b) extracting and georeferencing salient entities (landmarks) that are used by human route direction providers; c) developing methods to translate route directions to sketches and maps; and d) enabling queries on large corpora of crawled/analyzed movement data. In this paper, we introduce our approach and implementations that bring us closer to the goal of automatically processing linguistic route directions. We report on research directed at one part of the larger problem, that is, extracting the three most critical parts of route directions and movement patterns in general: origin, destination, and route parts. We use machine-learning based algorithms to extract these parts of routes, including, for example, destination names and types. We prove the effectiveness of our approach in several experiments using hand-tagged corpora.

  19. AsteriX: a Web server to automatically extract ligand coordinates from figures in PDF articles.

    Science.gov (United States)

    Lounnas, V; Vriend, G

    2012-02-27

    Coordinates describing the chemical structures of small molecules that are potential ligands for pharmaceutical targets are used at many stages of the drug design process. The coordinates of the vast majority of ligands can be obtained from either publicly accessible or commercial databases. However, interesting ligands sometimes are only available from the scientific literature, in which case their coordinates need to be reconstructed manually--a process that consists of a series of time-consuming steps. We present a Web server that helps reconstruct the three-dimensional (3D) coordinates of ligands for which a two-dimensional (2D) picture is available in a PDF file. The software, called AsteriX, analyses every picture contained in the PDF file and attempts to determine automatically whether or not it contains ligands. Areas in pictures that may contain molecular structures are processed to extract connectivity and atom type information that allow coordinates to be subsequently reconstructed. The AsteriX Web server was tested on a series of articles containing a large diversity in graphical representations. In total, 88% of 3249 ligand structures present in the test set were identified as chemical diagrams. Of these, about half were interpreted correctly as 3D structures, and a further one-third required only minor manual corrections. It is principally impossible to always correctly reconstruct 3D coordinates from pictures because there are many different protocols for drawing a 2D image of a ligand, but more importantly a wide variety of semantic annotations are possible. The AsteriX Web server therefore includes facilities that allow the users to augment partial or partially correct 3D reconstructions. All 3D reconstructions are submitted, checked, and corrected by the users domain at the server and are freely available for everybody. The coordinates of the reconstructed ligands are made available in a series of formats commonly used in drug design research. The

  20. Historical Patterns Based on Automatically Extracted Data: the Case of Classical Composers

    DEFF Research Database (Denmark)

    Borowiecki, Karol; O'Hagan, John

    2012-01-01

    application that automatically extracts and processes information was developed to generate data on the birth location, occupations and importance (using word count methods) of over 12,000 composers over six centuries. Quantitative measures of the relative importance of different types of music...... and of the different music instruments over the centuries were also generated. Finally quantitative indicators of the importance of different cities over the different centuries in the lives of these composers are constructed. A range of interesting findings emerge in relation to all of these aspects of the lives...

  1. Extracting Noun Phrases from Large-Scale Texts A Hybrid Approach and Its Automatic Evaluation

    CERN Document Server

    Chen, K; Chen, Kuang-hua; Chen, Hsin-Hsi

    1994-01-01

    To acquire noun phrases from running texts is useful for many applications, such as word grouping,terminology indexing, etc. The reported literatures adopt pure probabilistic approach, or pure rule-based noun phrases grammar to tackle this problem. In this paper, we apply a probabilistic chunker to deciding the implicit boundaries of constituents and utilize the linguistic knowledge to extract the noun phrases by a finite state mechanism. The test texts are SUSANNE Corpus and the results are evaluated by comparing the parse field of SUSANNE Corpus automatically. The results of this preliminary experiment are encouraging.

  2. An Efficient Method for Automatic Road Extraction Based on Multiple Features from LiDAR Data

    Science.gov (United States)

    Li, Y.; Hu, X.; Guan, H.; Liu, P.

    2016-06-01

    The road extraction in urban areas is difficult task due to the complicated patterns and many contextual objects. LiDAR data directly provides three dimensional (3D) points with less occlusions and smaller shadows. The elevation information and surface roughness are distinguishing features to separate roads. However, LiDAR data has some disadvantages are not beneficial to object extraction, such as the irregular distribution of point clouds and lack of clear edges of roads. For these problems, this paper proposes an automatic road centerlines extraction method which has three major steps: (1) road center point detection based on multiple feature spatial clustering for separating road points from ground points, (2) local principal component analysis with least squares fitting for extracting the primitives of road centerlines, and (3) hierarchical grouping for connecting primitives into complete roads network. Compared with MTH (consist of Mean shift algorithm, Tensor voting, and Hough transform) proposed in our previous article, this method greatly reduced the computational cost. To evaluate the proposed method, the Vaihingen data set, a benchmark testing data provided by ISPRS for "Urban Classification and 3D Building Reconstruction" project, was selected. The experimental results show that our method achieve the same performance by less time in road extraction using LiDAR data.

  3. Automatic facial feature extraction and expression recognition based on neural network

    CERN Document Server

    Khandait, S P; Khandait, P D

    2012-01-01

    In this paper, an approach to the problem of automatic facial feature extraction from a still frontal posed image and classification and recognition of facial expression and hence emotion and mood of a person is presented. Feed forward back propagation neural network is used as a classifier for classifying the expressions of supplied face into seven basic categories like surprise, neutral, sad, disgust, fear, happy and angry. For face portion segmentation and localization, morphological image processing operations are used. Permanent facial features like eyebrows, eyes, mouth and nose are extracted using SUSAN edge detection operator, facial geometry, edge projection analysis. Experiments are carried out on JAFFE facial expression database and gives better performance in terms of 100% accuracy for training set and 95.26% accuracy for test set.

  4. Template-based automatic extraction of the joint space of foot bones from CT scan

    Science.gov (United States)

    Park, Eunbi; Kim, Taeho; Park, Jinah

    2016-03-01

    Clean bone segmentation is critical in studying the joint anatomy for measuring the spacing between the bones. However, separation of the coupled bones in CT images is sometimes difficult due to ambiguous gray values coming from the noise and the heterogeneity of bone materials as well as narrowing of the joint space. For fine reconstruction of the individual local boundaries, manual operation is a common practice where the segmentation remains to be a bottleneck. In this paper, we present an automatic method for extracting the joint space by applying graph cut on Markov random field model to the region of interest (ROI) which is identified by a template of 3D bone structures. The template includes encoded articular surface which identifies the tight region of the high-intensity bone boundaries together with the fuzzy joint area of interest. The localized shape information from the template model within the ROI effectively separates the bones nearby. By narrowing the ROI down to the region including two types of tissue, the object extraction problem was reduced to binary segmentation and solved via graph cut. Based on the shape of a joint space marked by the template, the hard constraint was set by the initial seeds which were automatically generated from thresholding and morphological operations. The performance and the robustness of the proposed method are evaluated on 12 volumes of ankle CT data, where each volume includes a set of 4 tarsal bones (calcaneus, talus, navicular and cuboid).

  5. The Fractal Patterns of Words in a Text: A Method for Automatic Keyword Extraction.

    Science.gov (United States)

    Najafi, Elham; Darooneh, Amir H

    2015-01-01

    A text can be considered as a one dimensional array of words. The locations of each word type in this array form a fractal pattern with certain fractal dimension. We observe that important words responsible for conveying the meaning of a text have dimensions considerably different from one, while the fractal dimensions of unimportant words are close to one. We introduce an index quantifying the importance of the words in a given text using their fractal dimensions and then ranking them according to their importance. This index measures the difference between the fractal pattern of a word in the original text relative to a shuffled version. Because the shuffled text is meaningless (i.e., words have no importance), the difference between the original and shuffled text can be used to ascertain degree of fractality. The degree of fractality may be used for automatic keyword detection. Words with the degree of fractality higher than a threshold value are assumed to be the retrieved keywords of the text. We measure the efficiency of our method for keywords extraction, making a comparison between our proposed method and two other well-known methods of automatic keyword extraction.

  6. Automatic Extraction and Regularization of Building Outlines from Airborne LIDAR Point Clouds

    Science.gov (United States)

    Albers, Bastian; Kada, Martin; Wichmann, Andreas

    2016-06-01

    Building outlines are needed for various applications like urban planning, 3D city modelling and updating cadaster. Their automatic reconstruction, e.g. from airborne laser scanning data, as regularized shapes is therefore of high relevance. Today's airborne laser scanning technology can produce dense 3D point clouds with high accuracy, which makes it an eligible data source to reconstruct 2D building outlines or even 3D building models. In this paper, we propose an automatic building outline extraction and regularization method that implements a trade-off between enforcing strict shape restriction and allowing flexible angles using an energy minimization approach. The proposed procedure can be summarized for each building as follows: (1) an initial building outline is created from a given set of building points with the alpha shape algorithm; (2) a Hough transform is used to determine the main directions of the building and to extract line segments which are oriented accordingly; (3) the alpha shape boundary points are then repositioned to both follow these segments, but also to respect their original location, favoring long line segments and certain angles. The energy function that guides this trade-off is evaluated with the Viterbi algorithm.

  7. Automatic heating and cooling system in a gas purge microsyringe extraction.

    Science.gov (United States)

    Piao, Xiangfan; Bi, Jinhu; Yang, Cui; Wang, Xiaoping; Wang, Juan; Li, Donghao

    2011-10-30

    The gas purge microsyringe extraction (GP-MSE) technique offers quantitative and simultaneous extraction, and rapid gas chromatographic-mass spectrometric determination of volatile and semivolatile chemicals is possible. To simplify the application, a new automatic temperature control system was developed here. Stable heating and cooling over a wide range of temperatures were achieved using a micro-heater and thermoelectric cooler under varying gas flow conditions. Temperatures could be accurately controlled in the range 20-350°C (heating) and 20 to -4°C (cooling). Temperature effects on the extraction performance of the GP-MSE were experimentally investigated by comparing the recoveries of polycyclic aromatic hydrocarbons (PAHs) under various experimental conditions. A sample treatment was completed within 3 min, which is much less than the time required for chromatographic analysis. The recovery of chemicals determined ranged from 81 to 96%. High reproducibility data (RSD ≤ 5%) were obtained for direct extraction of various analytes in spiked complex plant and biological samples. The data show that the heating and cooling system has potential applications in GP-MSE system for the direct determination of various kinds of volatile and semivolatile chemicals from complex matrices without any, or only minor, sample pretreatment.

  8. Multilevel spatial semantic model for urban house information extraction automatically from QuickBird imagery

    Science.gov (United States)

    Guan, Li; Wang, Ping; Liu, Xiangnan

    2006-10-01

    Based on the introduction to the characters and constructing flow of space semantic model, the feature space and context of house information in high resolution remote sensing image are analyzed, and the house semantic network model of Quick Bird image is also constructed. Furthermore, the accuracy and practicability of space semantic model are checked up through extracting house information automatically from Quick Bird image after extracting candidate semantic nodes to the image by taking advantage of grey division method, window threshold value method and Hough transformation. Sample result indicates that its type coherence, shape coherence and area coherence are 96.75%, 89.5 % and 88 % respectively. Thereinto the effect of the extraction of the houses with rectangular roof is the best and that with herringbone and the polygonal roofs is just ideal. However, the effect of the extraction of the houses with round roof is not satisfied and thus they need the further perfection to the semantic model to make them own higher applied value.

  9. Automatic extraction of property norm-like data from large text corpora.

    Science.gov (United States)

    Kelly, Colin; Devereux, Barry; Korhonen, Anna

    2014-01-01

    Traditional methods for deriving property-based representations of concepts from text have focused on either extracting only a subset of possible relation types, such as hyponymy/hypernymy (e.g., car is-a vehicle) or meronymy/metonymy (e.g., car has wheels), or unspecified relations (e.g., car--petrol). We propose a system for the challenging task of automatic, large-scale acquisition of unconstrained, human-like property norms from large text corpora, and discuss the theoretical implications of such a system. We employ syntactic, semantic, and encyclopedic information to guide our extraction, yielding concept-relation-feature triples (e.g., car be fast, car require petrol, car cause pollution), which approximate property-based conceptual representations. Our novel method extracts candidate triples from parsed corpora (Wikipedia and the British National Corpus) using syntactically and grammatically motivated rules, then reweights triples with a linear combination of their frequency and four statistical metrics. We assess our system output in three ways: lexical comparison with norms derived from human-generated property norm data, direct evaluation by four human judges, and a semantic distance comparison with both WordNet similarity data and human-judged concept similarity ratings. Our system offers a viable and performant method of plausible triple extraction: Our lexical comparison shows comparable performance to the current state-of-the-art, while subsequent evaluations exhibit the human-like character of our generated properties.

  10. Automatic extraction of gene ontology annotation and its correlation with clusters in protein networks

    Directory of Open Access Journals (Sweden)

    Mazo Ilya

    2007-07-01

    Full Text Available Abstract Background Uncovering cellular roles of a protein is a task of tremendous importance and complexity that requires dedicated experimental work as well as often sophisticated data mining and processing tools. Protein functions, often referred to as its annotations, are believed to manifest themselves through topology of the networks of inter-proteins interactions. In particular, there is a growing body of evidence that proteins performing the same function are more likely to interact with each other than with proteins with other functions. However, since functional annotation and protein network topology are often studied separately, the direct relationship between them has not been comprehensively demonstrated. In addition to having the general biological significance, such demonstration would further validate the data extraction and processing methods used to compose protein annotation and protein-protein interactions datasets. Results We developed a method for automatic extraction of protein functional annotation from scientific text based on the Natural Language Processing (NLP technology. For the protein annotation extracted from the entire PubMed, we evaluated the precision and recall rates, and compared the performance of the automatic extraction technology to that of manual curation used in public Gene Ontology (GO annotation. In the second part of our presentation, we reported a large-scale investigation into the correspondence between communities in the literature-based protein networks and GO annotation groups of functionally related proteins. We found a comprehensive two-way match: proteins within biological annotation groups form significantly denser linked network clusters than expected by chance and, conversely, densely linked network communities exhibit a pronounced non-random overlap with GO groups. We also expanded the publicly available GO biological process annotation using the relations extracted by our NLP technology

  11. Automatic cell object extraction of red tide algae in microscopic images

    Science.gov (United States)

    Yu, Kun; Ji, Guangrong; Zheng, Haiyong

    2017-03-01

    Extracting the cell objects of red tide algae is the most important step in the construction of an automatic microscopic image recognition system for harmful algal blooms. This paper describes a set of composite methods for the automatic segmentation of cells of red tide algae from microscopic images. Depending on the existence of setae, we classify the common marine red tide algae into non-setae algae species and Chaetoceros, and design segmentation strategies for these two categories according to their morphological characteristics. In view of the varied forms and fuzzy edges of non-setae algae, we propose a new multi-scale detection algorithm for algal cell regions based on border- correlation, and further combine this with morphological operations and an improved GrabCut algorithm to segment single-cell and multicell objects. In this process, similarity detection is introduced to eliminate the pseudo cellular regions. For Chaetoceros, owing to the weak grayscale information of their setae and the low contrast between the setae and background, we propose a cell extraction method based on a gray surface orientation angle model. This method constructs a gray surface vector model, and executes the gray mapping of the orientation angles. The obtained gray values are then reconstructed and linearly stretched. Finally, appropriate morphological processing is conducted to preserve the orientation information and tiny features of the setae. Experimental results demonstrate that the proposed methods can effectively remove noise and accurately extract both categories of algae cell objects possessing a complete shape, regular contour, and clear edge. Compared with other advanced segmentation techniques, our methods are more robust when considering images with different appearances and achieve more satisfactory segmentation effects.

  12. Framework for automatic information extraction from research papers on nanocrystal devices

    Directory of Open Access Journals (Sweden)

    Thaer M. Dieb

    2015-09-01

    Full Text Available To support nanocrystal device development, we have been working on a computational framework to utilize information in research papers on nanocrystal devices. We developed an annotated corpus called “ NaDev” (Nanocrystal Device Development for this purpose. We also proposed an automatic information extraction system called “NaDevEx” (Nanocrystal Device Automatic Information Extraction Framework. NaDevEx aims at extracting information from research papers on nanocrystal devices using the NaDev corpus and machine-learning techniques. However, the characteristics of NaDevEx were not examined in detail. In this paper, we conduct system evaluation experiments for NaDevEx using the NaDev corpus. We discuss three main issues: system performance, compared with human annotators; the effect of paper type (synthesis or characterization on system performance; and the effects of domain knowledge features (e.g., a chemical named entity recognition system and list of names of physical quantities on system performance. We found that overall system performance was 89% in precision and 69% in recall. If we consider identification of terms that intersect with correct terms for the same information category as the correct identification, i.e., loose agreement (in many cases, we can find that appropriate head nouns such as temperature or pressure loosely match between two terms, the overall performance is 95% in precision and 74% in recall. The system performance is almost comparable with results of human annotators for information categories with rich domain knowledge information (source material. However, for other information categories, given the relatively large number of terms that exist only in one paper, recall of individual information categories is not high (39–73%; however, precision is better (75–97%. The average performance for synthesis papers is better than that for characterization papers because of the lack of training examples for

  13. Automatic 3D Extraction of Buildings, Vegetation and Roads from LIDAR Data

    Science.gov (United States)

    Bellakaout, A.; Cherkaoui, M.; Ettarid, M.; Touzani, A.

    2016-06-01

    Aerial topographic surveys using Light Detection and Ranging (LiDAR) technology collect dense and accurate information from the surface or terrain; it is becoming one of the important tools in the geosciences for studying objects and earth surface. Classification of Lidar data for extracting ground, vegetation, and buildings is a very important step needed in numerous applications such as 3D city modelling, extraction of different derived data for geographical information systems (GIS), mapping, navigation, etc... Regardless of what the scan data will be used for, an automatic process is greatly required to handle the large amount of data collected because the manual process is time consuming and very expensive. This paper is presenting an approach for automatic classification of aerial Lidar data into five groups of items: buildings, trees, roads, linear object and soil using single return Lidar and processing the point cloud without generating DEM. Topological relationship and height variation analysis is adopted to segment, preliminary, the entire point cloud preliminarily into upper and lower contours, uniform and non-uniform surface, non-uniform surfaces, linear objects, and others. This primary classification is used on the one hand to know the upper and lower part of each building in an urban scene, needed to model buildings façades; and on the other hand to extract point cloud of uniform surfaces which contain roofs, roads and ground used in the second phase of classification. A second algorithm is developed to segment the uniform surface into buildings roofs, roads and ground, the second phase of classification based on the topological relationship and height variation analysis, The proposed approach has been tested using two areas : the first is a housing complex and the second is a primary school. The proposed approach led to successful classification results of buildings, vegetation and road classes.

  14. Framework for automatic information extraction from research papers on nanocrystal devices.

    Science.gov (United States)

    Dieb, Thaer M; Yoshioka, Masaharu; Hara, Shinjiro; Newton, Marcus C

    2015-01-01

    To support nanocrystal device development, we have been working on a computational framework to utilize information in research papers on nanocrystal devices. We developed an annotated corpus called " NaDev" (Nanocrystal Device Development) for this purpose. We also proposed an automatic information extraction system called "NaDevEx" (Nanocrystal Device Automatic Information Extraction Framework). NaDevEx aims at extracting information from research papers on nanocrystal devices using the NaDev corpus and machine-learning techniques. However, the characteristics of NaDevEx were not examined in detail. In this paper, we conduct system evaluation experiments for NaDevEx using the NaDev corpus. We discuss three main issues: system performance, compared with human annotators; the effect of paper type (synthesis or characterization) on system performance; and the effects of domain knowledge features (e.g., a chemical named entity recognition system and list of names of physical quantities) on system performance. We found that overall system performance was 89% in precision and 69% in recall. If we consider identification of terms that intersect with correct terms for the same information category as the correct identification, i.e., loose agreement (in many cases, we can find that appropriate head nouns such as temperature or pressure loosely match between two terms), the overall performance is 95% in precision and 74% in recall. The system performance is almost comparable with results of human annotators for information categories with rich domain knowledge information (source material). However, for other information categories, given the relatively large number of terms that exist only in one paper, recall of individual information categories is not high (39-73%); however, precision is better (75-97%). The average performance for synthesis papers is better than that for characterization papers because of the lack of training examples for characterization papers

  15. Automatic GCP extraction with high resolution COSMO-SkyMed products

    Science.gov (United States)

    Nitti, Davide Oscar; Morea, Alberto; Nutricato, Raffaele; Chiaradia, Maria Teresa; La Mantia, Claudio; Agrimano, Luigi; Samarelli, Sergio

    2016-10-01

    High-resolution Synthetic Aperture Radar (SAR) data represent an essential resource for the extraction of Ground Control Points (GCP) with sub-metric accuracy without in situ measurement campaigns. Conceptually, SAR-based GCP extraction consists of the following two steps: (i) identification of the same local feature on more SAR images and determination of their range/azimuth coordinates; (ii) spatial 3D positioning retrieval from the 2D radar coordinates, through spatial triangulation (stereo analysis) and inversion methods. In order to boost the geolocation accuracy, SAR images must be acquired from different line of sights, with intersection angles typically wider than 10 degrees, or even in opposite looking directions. In the present study, we present an algorithm specifically designed for ensuring robustness and accuracy in the fully automatic detection of bright isolated targets (steel light poles or towers) even when dealing with opposite looking data takes. In particular, the popular Harris algorithm has been selected as detector because it is the most stable and robust-to-noise algorithm for corners detection on SAR images. We outline the designed algorithmic solution and discusses the results derived over the urban area of Pisa (Italy), where more than ten COSMO-SkyMed Enhanced Spotlight (ES) stereo images are available, thus resulting an optimal test site for an assessment of the performances of the processing chain. The experimental analysis proofs that, assumed timing has been properly recalibrated, we are capable to automatically extract GCP from CSK ES data takes consisting in a very limited number of images.

  16. Automatic extraction of semantic relations between medical entities: a rule based approach

    Directory of Open Access Journals (Sweden)

    Ben Abacha Asma

    2011-10-01

    Full Text Available Abstract Background Information extraction is a complex task which is necessary to develop high-precision information retrieval tools. In this paper, we present the platform MeTAE (Medical Texts Annotation and Exploration. MeTAE allows (i to extract and annotate medical entities and relationships from medical texts and (ii to explore semantically the produced RDF annotations. Results Our annotation approach relies on linguistic patterns and domain knowledge and consists in two steps: (i recognition of medical entities and (ii identification of the correct semantic relation between each pair of entities. The first step is achieved by an enhanced use of MetaMap which improves the precision obtained by MetaMap by 19.59% in our evaluation. The second step relies on linguistic patterns which are built semi-automatically from a corpus selected according to semantic criteria. We evaluate our system’s ability to identify medical entities of 16 types. We also evaluate the extraction of treatment relations between a treatment (e.g. medication and a problem (e.g. disease: we obtain 75.72% precision and 60.46% recall. Conclusions According to our experiments, using an external sentence segmenter and noun phrase chunker may improve the precision of MetaMap-based medical entity recognition. Our pattern-based relation extraction method obtains good precision and recall w.r.t related works. A more precise comparison with related approaches remains difficult however given the differences in corpora and in the exact nature of the extracted relations. The selection of MEDLINE articles through queries related to known drug-disease pairs enabled us to obtain a more focused corpus of relevant examples of treatment relations than a more general MEDLINE query.

  17. Performance Analysis of the SIFT Operator for Automatic Feature Extraction and Matching in Photogrammetric Applications.

    Science.gov (United States)

    Lingua, Andrea; Marenchino, Davide; Nex, Francesco

    2009-01-01

    In the photogrammetry field, interest in region detectors, which are widely used in Computer Vision, is quickly increasing due to the availability of new techniques. Images acquired by Mobile Mapping Technology, Oblique Photogrammetric Cameras or Unmanned Aerial Vehicles do not observe normal acquisition conditions. Feature extraction and matching techniques, which are traditionally used in photogrammetry, are usually inefficient for these applications as they are unable to provide reliable results under extreme geometrical conditions (convergent taking geometry, strong affine transformations, etc.) and for bad-textured images. A performance analysis of the SIFT technique in aerial and close-range photogrammetric applications is presented in this paper. The goal is to establish the suitability of the SIFT technique for automatic tie point extraction and approximate DSM (Digital Surface Model) generation. First, the performances of the SIFT operator have been compared with those provided by feature extraction and matching techniques used in photogrammetry. All these techniques have been implemented by the authors and validated on aerial and terrestrial images. Moreover, an auto-adaptive version of the SIFT operator has been developed, in order to improve the performances of the SIFT detector in relation to the texture of the images. The Auto-Adaptive SIFT operator (A(2) SIFT) has been validated on several aerial images, with particular attention to large scale aerial images acquired using mini-UAV systems.

  18. A semi-automatic method for extracting thin line structures in images as rooted tree network

    Energy Technology Data Exchange (ETDEWEB)

    Brazzini, Jacopo [Los Alamos National Laboratory; Dillard, Scott [Los Alamos National Laboratory; Soille, Pierre [EC - JRC

    2010-01-01

    This paper addresses the problem of semi-automatic extraction of line networks in digital images - e.g., road or hydrographic networks in satellite images, blood vessels in medical images, robust. For that purpose, we improve a generic method derived from morphological and hydrological concepts and consisting in minimum cost path estimation and flow simulation. While this approach fully exploits the local contrast and shape of the network, as well as its arborescent nature, we further incorporate local directional information about the structures in the image. Namely, an appropriate anisotropic metric is designed by using both the characteristic features of the target network and the eigen-decomposition of the gradient structure tensor of the image. Following, the geodesic propagation from a given seed with this metric is combined with hydrological operators for overland flow simulation to extract the line network. The algorithm is demonstrated for the extraction of blood vessels in a retina image and of a river network in a satellite image.

  19. Performance Analysis of the SIFT Operator for Automatic Feature Extraction and Matching in Photogrammetric Applications

    Directory of Open Access Journals (Sweden)

    Francesco Nex

    2009-05-01

    Full Text Available In the photogrammetry field, interest in region detectors, which are widely used in Computer Vision, is quickly increasing due to the availability of new techniques. Images acquired by Mobile Mapping Technology, Oblique Photogrammetric Cameras or Unmanned Aerial Vehicles do not observe normal acquisition conditions. Feature extraction and matching techniques, which are traditionally used in photogrammetry, are usually inefficient for these applications as they are unable to provide reliable results under extreme geometrical conditions (convergent taking geometry, strong affine transformations, etc. and for bad-textured images. A performance analysis of the SIFT technique in aerial and close-range photogrammetric applications is presented in this paper. The goal is to establish the suitability of the SIFT technique for automatic tie point extraction and approximate DSM (Digital Surface Model generation. First, the performances of the SIFT operator have been compared with those provided by feature extraction and matching techniques used in photogrammetry. All these techniques have been implemented by the authors and validated on aerial and terrestrial images. Moreover, an auto-adaptive version of the SIFT operator has been developed, in order to improve the performances of the SIFT detector in relation to the texture of the images. The Auto-Adaptive SIFT operator (A2 SIFT has been validated on several aerial images, with particular attention to large scale aerial images acquired using mini-UAV systems.

  20. An automatic recognition and parameter extraction method for structural planes in borehole image

    Science.gov (United States)

    Wang, Chuanying; Zou, Xianjian; Han, Zengqiang; Wang, Yiteng; Wang, Jinchao

    2016-12-01

    As a breakthrough in borehole imaging technology, digital panoramic borehole camera technology has been widely employed. The high-resolution panoramic borehole images can accurately reproduce the geometric features of structural planes. However, the detection of these features is usually done manually, which is both time-consuming and introduces human errors. To solve this problem, this paper presents a method for the automatic recognition and parameter extraction of borehole geometric features of camera images. In this method, the image's gray and gradient level, and also their projection on the depth axis are used to identify the locations of structural planes. Afterwards, iterative matching is employed by using a template of sinusoidal function to search for structural planes in the identified image blocks. Finally, optimal sine curves are selected as the feature curves of structural planes, and their related parameters are converted into structural plane parameters required for engineering, such as their positions, dip directions, dip angles and fracture widths. The method can automatically identify all of structural planes throughout the whole borehole camera image in a continuous and rapid manner, and obtain the corresponding structural parameters. It has proven highly reliable, accurate and efficient.

  1. Feature-point-extracting-based automatically mosaic for composite microscopic images

    Institute of Scientific and Technical Information of China (English)

    YIN YanSheng; ZHAO XiuYang; TIAN XiaoFeng; LI Jia

    2007-01-01

    Image mosaic is a crucial step in the three-dimensional reconstruction of composite materials to align the serial images. A novel method is adopted to mosaic two SiC/Al microscopic images with an amplification coefficient of 1000. The two images are denoised by Gaussian model, and feature points are then extracted by using Harris corner detector. The feature points are filtered through Canny edge detector. A 40x40 feature template is chosen by sowing a seed in an overlapped area of the reference image, and the homologous region in floating image is acquired automatically by the way of correlation analysis. The feature points in matched templates are used as feature point-sets. Using the transformational parameters acquired by SVD-ICP method, the two images are transformed into the universal coordinates and merged to the final mosaic image.

  2. Automatic layout feature extraction for lithography hotspot detection based on deep neural network

    Science.gov (United States)

    Matsunawa, Tetsuaki; Nojima, Shigeki; Kotani, Toshiya

    2016-03-01

    Lithography hotspot detection in the physical verification phase is one of the most important techniques in today's optical lithography based manufacturing process. Although lithography simulation based hotspot detection is widely used, it is also known to be time-consuming. To detect hotspots in a short runtime, several machine learning based methods have been proposed. However, it is difficult to realize highly accurate detection without an increase in false alarms because an appropriate layout feature is undefined. This paper proposes a new method to automatically extract a proper layout feature from a given layout for improvement in detection performance of machine learning based methods. Experimental results show that using a deep neural network can achieve better performance than other frameworks using manually selected layout features and detection algorithms, such as conventional logistic regression or artificial neural network.

  3. Visual content highlighting via automatic extraction of embedded captions on MPEG compressed video

    Science.gov (United States)

    Yeo, Boon-Lock; Liu, Bede

    1996-03-01

    Embedded captions in TV programs such as news broadcasts, documentaries and coverage of sports events provide important information on the underlying events. In digital video libraries, such captions represent a highly condensed form of key information on the contents of the video. In this paper we propose a scheme to automatically detect the presence of captions embedded in video frames. The proposed method operates on reduced image sequences which are efficiently reconstructed from compressed MPEG video and thus does not require full frame decompression. The detection, extraction and analysis of embedded captions help to capture the highlights of visual contents in video documents for better organization of video, to present succinctly the important messages embedded in the images, and to facilitate browsing, searching and retrieval of relevant clips.

  4. Statistical Analysis of Automatic Seed Word Acquisition to Improve Harmful Expression Extraction in Cyberbullying Detection

    Directory of Open Access Journals (Sweden)

    Suzuha Hatakeyama

    2016-04-01

    Full Text Available We study the social problem of cyberbullying, defined as a new form of bullying that takes place in the Internet space. This paper proposes a method for automatic acquisition of seed words to improve performance of the original method for the cyberbullying detection by Nitta et al. [1]. We conduct an experiment exactly in the same settings to find out that the method based on a Web mining technique, lost over 30% points of its performance since being proposed in 2013. Thus, we hypothesize on the reasons for the decrease in the performance and propose a number of improvements, from which we experimentally choose the best one. Furthermore, we collect several seed word sets using different approaches, evaluate and their precision. We found out that the influential factor in extraction of harmful expressions is not the number of seed words, but the way the seed words were collected and filtered.

  5. Feasibility of Automatic Extraction of Electronic Health Data to Evaluate a Status Epilepticus Clinical Protocol.

    Science.gov (United States)

    Hafeez, Baria; Paolicchi, Juliann; Pon, Steven; Howell, Joy D; Grinspan, Zachary M

    2016-05-01

    Status epilepticus is a common neurologic emergency in children. Pediatric medical centers often develop protocols to standardize care. Widespread adoption of electronic health records by hospitals affords the opportunity for clinicians to rapidly, and electronically evaluate protocol adherence. We reviewed the clinical data of a small sample of 7 children with status epilepticus, in order to (1) qualitatively determine the feasibility of automated data extraction and (2) demonstrate a timeline-style visualization of each patient's first 24 hours of care. Qualitatively, our observations indicate that most clinical data are well labeled in structured fields within the electronic health record, though some important information, particularly electroencephalography (EEG) data, may require manual abstraction. We conclude that a visualization that clarifies a patient's clinical course can be automatically created using the patient's electronic clinical data, supplemented with some manually abstracted data. Future work could use this timeline to evaluate adherence to status epilepticus clinical protocols.

  6. Automatic extraction of insulators from 3D LiDAR data of an electrical substation

    Science.gov (United States)

    Arastounia, M.; Lichti, D. D.

    2013-10-01

    A considerable percentage of power outages are caused by animals that come into contact with conductive elements of electrical substations. These can be prevented by insulating conductive electrical objects, for which a 3D as-built plan of the substation is crucial. This research aims to create such a 3D as-built plan using terrestrial LiDAR data while in this paper the aim is to extract insulators, which are key objects in electrical substations. This paper proposes a segmentation method based on a new approach of finding the principle direction of points' distribution. This is done by forming and analysing the distribution matrix whose elements are the range of points in 9 different directions in 3D space. Comparison of the computational performance of our method with PCA (principal component analysis) shows that our approach is 25% faster since it utilizes zero-order moments while PCA computes the first- and second-order moments, which is more time-consuming. A knowledge-based approach has been developed to automatically recognize points on insulators. The method utilizes known insulator properties such as diameter and the number and the spacing of their rings. The results achieved indicate that 24 out of 27 insulators could be recognized while the 3 un-recognized ones were highly occluded. Check point analysis was performed by manually cropping all points on insulators. The results of check point analysis show that the accuracy, precision and recall of insulator recognition are 98%, 86% and 81%, respectively. It is concluded that automatic object extraction from electrical substations using only LiDAR data is not only possible but also promising. Moreover, our developed approach to determine the directional distribution of points is computationally more efficient for segmentation of objects in electrical substations compared to PCA. Finally our knowledge-based method is promising to recognize points on electrical objects as it was successfully applied for

  7. Automatic cloud detection for high resolution satellite stereo images and its application in terrain extraction

    Science.gov (United States)

    Wu, Teng; Hu, Xiangyun; Zhang, Yong; Zhang, Lulin; Tao, Pengjie; Lu, Luping

    2016-11-01

    The automatic extraction of terrain from high-resolution satellite optical images is very difficult under cloudy conditions. Therefore, accurate cloud detection is necessary to fully use the cloud-free parts of images for terrain extraction. This paper addresses automated cloud detection by introducing an image matching based method under a stereo vision framework, and the optimization usage of non-cloudy areas in stereo matching and the generation of digital surface models (DSMs). Given that clouds are often separated from the terrain surface, cloudy areas are extracted by integrating dense matching DSM, worldwide digital elevation model (DEM) (i.e., shuttle radar topography mission (SRTM)) and gray information from the images. This process consists of the following steps: an image based DSM is firstly generated through a multiple primitive multi-image matcher. Once it is aligned with the reference DEM based on common features, places with significant height differences between the DSM and the DEM will suggest the potential cloud covers. Detecting cloud at these places in the images then enables precise cloud delineation. In the final step, elevations of the reference DEM within the cloud covers are assigned to the corresponding region of the DSM to generate a cloud-free DEM. The proposed approach is evaluated with the panchromatic images of the Tianhui satellite and has been successfully used in its daily operation. The cloud detection accuracy for images without snow is as high as 95%. Experimental results demonstrate that the proposed method can significantly improve the usage of the cloudy panchromatic satellite images for terrain extraction.

  8. Automatic Extraction of Tunnel Lining Cross-Sections from Terrestrial Laser Scanning Point Clouds.

    Science.gov (United States)

    Cheng, Yun-Jian; Qiu, Wenge; Lei, Jin

    2016-10-06

    Tunnel lining (bare-lining) cross-sections play an important role in analyzing deformations of tunnel linings. The goal of this paper is to develop an automatic method for extracting bare-lining cross-sections from terrestrial laser scanning (TLS) point clouds. First, the combination of a 2D projection strategy and angle criterion is used for tunnel boundary point detection, from which we estimate the two boundary lines in the X-Y plane. The initial direction of the cross-sectional plane is defined to be orthogonal to one of the two boundary lines. In order to compute the final cross-sectional plane, the direction is adjusted twice with the total least squares method and Rodrigues' rotation formula, respectively. The projection of nearby points is made onto the adjusted plane to generate tunnel cross-sections. Finally, we present a filtering algorithm (similar to the idea of the morphological erosion) to remove the non-lining points in the cross-section. The proposed method was implemented on railway tunnel data collected in Sichuan, China. Compared with an existing method of cross-sectional extraction, the proposed method can offer high accuracy and more reliable cross-sectional modeling. We also evaluated Type I and Type II errors of the proposed filter, at the same time, which gave suggestions on the parameter selection of the filter.

  9. AUTOMATIC ROAD EXTRACTION FROM SATELLITE IMAGES USING EXTENDED KALMAN FILTERING AND EFFICIENT PARTICLE FILTERING

    Directory of Open Access Journals (Sweden)

    Jenita Subash

    2011-12-01

    Full Text Available Users of geospatial data in government, military, industry, research, and other sectors have need foraccurate display of roads and other terrain information in areas where there are ongoing operations orlocations of interest. Hence, road extraction that is significantly more automated than the employment ofcostly and scarce human resources has become a challenging technical issue for the geospatialcommunity. An automatic road extraction based on Extended Kalman Filtering (EKF and variablestructured multiple model particle filter (VS-MMPF from satellite images is addressed. EKF traces themedian axis of a single road segment while VS-MMPF traces all road branches initializing at theintersection. In case of Local Linearization Particle filter (LLPF, a large number of particles are usedand therefore high computational expense is usually required in order to attain certain accuracy androbustness. The basic idea is to reduce the whole sampling space of the multiple model system to the modesubspace by marginalization over the target subspace and choose better importance function for modestate sampling. The core of the system is based on profile matching. During the estimation, new referenceprofiles were generated and stored in the road template memory for future correlation analysis, thuscovering the space of road profiles. .

  10. Multiple Adaptive Neuro-Fuzzy Inference System with Automatic Features Extraction Algorithm for Cervical Cancer Recognition

    Directory of Open Access Journals (Sweden)

    Mohammad Subhi Al-batah

    2014-01-01

    Full Text Available To date, cancer of uterine cervix is still a leading cause of cancer-related deaths in women worldwide. The current methods (i.e., Pap smear and liquid-based cytology (LBC to screen for cervical cancer are time-consuming and dependent on the skill of the cytopathologist and thus are rather subjective. Therefore, this paper presents an intelligent computer vision system to assist pathologists in overcoming these problems and, consequently, produce more accurate results. The developed system consists of two stages. In the first stage, the automatic features extraction (AFE algorithm is performed. In the second stage, a neuro-fuzzy model called multiple adaptive neuro-fuzzy inference system (MANFIS is proposed for recognition process. The MANFIS contains a set of ANFIS models which are arranged in parallel combination to produce a model with multi-input-multioutput structure. The system is capable of classifying cervical cell image into three groups, namely, normal, low-grade squamous intraepithelial lesion (LSIL and high-grade squamous intraepithelial lesion (HSIL. The experimental results prove the capability of the AFE algorithm to be as effective as the manual extraction by human experts, while the proposed MANFIS produces a good classification performance with 94.2% accuracy.

  11. Automatic Extraction of Tunnel Lining Cross-Sections from Terrestrial Laser Scanning Point Clouds

    Directory of Open Access Journals (Sweden)

    Yun-Jian Cheng

    2016-10-01

    Full Text Available Tunnel lining (bare-lining cross-sections play an important role in analyzing deformations of tunnel linings. The goal of this paper is to develop an automatic method for extracting bare-lining cross-sections from terrestrial laser scanning (TLS point clouds. First, the combination of a 2D projection strategy and angle criterion is used for tunnel boundary point detection, from which we estimate the two boundary lines in the X-Y plane. The initial direction of the cross-sectional plane is defined to be orthogonal to one of the two boundary lines. In order to compute the final cross-sectional plane, the direction is adjusted twice with the total least squares method and Rodrigues' rotation formula, respectively. The projection of nearby points is made onto the adjusted plane to generate tunnel cross-sections. Finally, we present a filtering algorithm (similar to the idea of the morphological erosion to remove the non-lining points in the cross-section. The proposed method was implemented on railway tunnel data collected in Sichuan, China. Compared with an existing method of cross-sectional extraction, the proposed method can offer high accuracy and more reliable cross-sectional modeling. We also evaluated Type I and Type II errors of the proposed filter, at the same time, which gave suggestions on the parameter selection of the filter.

  12. AUTOMATIC EXTRACTION OF ROAD SURFACE AND CURBSTONE EDGES FROM MOBILE LASER SCANNING DATA

    Directory of Open Access Journals (Sweden)

    A. Miraliakbari

    2015-05-01

    Full Text Available We present a procedure for automatic extraction of the road surface from geo-referenced mobile laser scanning data. The basic assumption of the procedure is that the road surface is smooth and limited by curbstones. Two variants of jump detection are investigated for detecting curbstone edges, one based on height differences the other one based on histograms of the height data. Region growing algorithms are proposed which use the irregular laser point cloud. Two- and four-neighbourhood growing strategies utilize the two height criteria for examining the neighborhood. Both height criteria rely on an assumption about the minimum height of a low curbstone. Road boundaries with lower or no jumps will not stop the region growing process. In contrast to this objects on the road can terminate the process. Therefore further processing such as bridging gaps between detected road boundary points and the removal of wrongly detected curbstone edges is necessary. Road boundaries are finally approximated by splines. Experiments are carried out with a ca. 2 km network of smalls streets located in the neighbourhood of University of Applied Sciences in Stuttgart. For accuracy assessment of the extracted road surfaces, ground truth measurements are digitized manually from the laser scanner data. For completeness and correctness of the region growing result values between 92% and 95% are achieved.

  13. Automatic Extraction of DTM from Low Resolution Dsm by Twosteps Semi-Global Filtering

    Science.gov (United States)

    Zhang, Yanfeng; Zhang, Yongjun; Zhang, Yi; Li, Xin

    2016-06-01

    Automatically extracting DTM from DSM or LiDAR data by distinguishing non-ground points from ground points is an important issue. Many algorithms for this issue are developed, however, most of them are targeted at processing dense LiDAR data, and lack the ability of getting DTM from low resolution DSM. This is caused by the decrease of distinction on elevation variation between steep terrains and surface objects. In this paper, a method called two-steps semi-global filtering (TSGF) is proposed to extract DTM from low resolution DSM. Firstly, the DSM slope map is calculated and smoothed by SGF (semi-global filtering), which is then binarized and used as the mask of flat terrains. Secondly, the DSM is segmented with the restriction of the flat terrains mask. Lastly, each segment is filtered with semi-global algorithm in order to remove non-ground points, which will produce the final DTM. The first SGF is based on global distribution characteristic of large slope, which distinguishes steep terrains and flat terrains. The second SGF is used to filter non-ground points on DSM within flat terrain segments. Therefore, by two steps SGF non-ground points are removed robustly, while shape of steep terrains is kept. Experiments on DSM generated by ZY3 imagery with resolution of 10-30m demonstrate the effectiveness of the proposed method.

  14. Machine learning based sample extraction for automatic speech recognition using dialectal Assamese speech.

    Science.gov (United States)

    Agarwalla, Swapna; Sarma, Kandarpa Kumar

    2016-06-01

    Automatic Speaker Recognition (ASR) and related issues are continuously evolving as inseparable elements of Human Computer Interaction (HCI). With assimilation of emerging concepts like big data and Internet of Things (IoT) as extended elements of HCI, ASR techniques are found to be passing through a paradigm shift. Oflate, learning based techniques have started to receive greater attention from research communities related to ASR owing to the fact that former possess natural ability to mimic biological behavior and that way aids ASR modeling and processing. The current learning based ASR techniques are found to be evolving further with incorporation of big data, IoT like concepts. Here, in this paper, we report certain approaches based on machine learning (ML) used for extraction of relevant samples from big data space and apply them for ASR using certain soft computing techniques for Assamese speech with dialectal variations. A class of ML techniques comprising of the basic Artificial Neural Network (ANN) in feedforward (FF) and Deep Neural Network (DNN) forms using raw speech, extracted features and frequency domain forms are considered. The Multi Layer Perceptron (MLP) is configured with inputs in several forms to learn class information obtained using clustering and manual labeling. DNNs are also used to extract specific sentence types. Initially, from a large storage, relevant samples are selected and assimilated. Next, a few conventional methods are used for feature extraction of a few selected types. The features comprise of both spectral and prosodic types. These are applied to Recurrent Neural Network (RNN) and Fully Focused Time Delay Neural Network (FFTDNN) structures to evaluate their performance in recognizing mood, dialect, speaker and gender variations in dialectal Assamese speech. The system is tested under several background noise conditions by considering the recognition rates (obtained using confusion matrices and manually) and computation time

  15. [DNA extraction methods of compost for molecular ecology analysis].

    Science.gov (United States)

    Yang, Zhao-Hui; Xiao, Yong; Zeng, Guang-Ming; Liu, Yun-Guo; Deng, Jiu-Hua

    2006-08-01

    Molecular ecology provides new techniques for studying compost microbes, and the DNA extraction is the basis of molecular techniques. Because of the contamination of humic acids, it turns to be more difficult for compost microbial DNA extraction. Three different approaches, named as lysozyme lysis, ultrasonic lysis and proteinase K lysis with CTAB, were used to extract the total DNA from compost. The detection performed on a nucleic acids and protein analyzer showed that all the three approaches produced high DNA yields. The agarose gel electrophoresis showed that the DNA fragments extracted from compost had a length of about 23 kb. A eubacterial 16S rRNA gene targeted primer pair (27F and 1 495R) was used for PCR amplification, and all the samples got almost the full length 16S rDNA sequence (about 1.5 kb). After digested by restriction endonucleases (Hae Ill and Alu I), the restriction map showed relatively identical microbial diversity in the DNA, which was extracted by the three different approaches. All the compost microbial DNA extracted by the three different approaches could be used for molecular ecological study, and researchers should choose the right approach for extracting microbial DNA from compost based on the facts.

  16. Parallel AFMPB solver with automatic surface meshing for calculation of molecular solvation free energy

    Science.gov (United States)

    Zhang, Bo; Peng, Bo; Huang, Jingfang; Pitsianis, Nikos P.; Sun, Xiaobai; Lu, Benzhuo

    2015-05-01

    We present PAFMPB, an updated and parallel version of the AFMPB software package for fast calculation of molecular solvation-free energy. The new version has the following new features: (1) The adaptive fast multipole method and the boundary element methods are parallelized; (2) A tool is embedded for automatic molecular VDW/SAS surface mesh generation, leaving the requirement for a mesh file at input optional; (3) The package provides fast calculation of the total solvation-free energy, including the PB electrostatic and nonpolar interaction contributions. PAFMPB is implemented in C and Fortran programming languages, with the Cilk Plus extension to harness the computing power of both multicore and vector processing. Computational experiments demonstrate the successful application of PAFMPB to the calculation of the PB potential on a dengue virus system with more than one million atoms and a mesh with approximately 20 million triangles.

  17. Molecular imprinted polymer for solid-phase extraction of flavonol aglycones from Moringa oleifera extracts.

    Science.gov (United States)

    Pakade, Vusumzi; Cukrowska, Ewa; Lindahl, Sofia; Turner, Charlotta; Chimuka, Luke

    2013-02-01

    Molecular imprinted polymer produced using quercetin as the imprinting compound was applied for the extraction of flavonol aglycones (quercetin and kaempferol) from Moringa oleifera methanolic extracts obtained using heated reflux extraction method. Identification and quantification of these flavonols in the Moringa extracts was achieved using high performance liquid chromatography with ultra violet detection. Breakthrough volume and retention capacity of molecular imprinted polymer SPE was investigated using a mixture of myricetin, quercetin and kaempferol. The calculated theoretical number of plates was found to be 14, 50 and 8 for myricetin, quercetin and kaempferol, respectively. Calculated adsorption capacities were 2.0, 3.4 and 3.7 μmol/g for myricetin, quercetin and kaempferol, respectively. No myricetin was observed in Moringa methanol extracts. Recoveries of quercetin and kaempferol from Moringa methanol extracts of leaves and flowers ranged from 77 to 85% and 75 to 86%, respectively, demonstrating the feasibility of using the developed molecularly imprinted SPE method for quantitative clean-up of both of these flavonoids. Using heated reflux extraction combined with molecularly imprinted SPE, quercetin concentrations of 975 ± 58 and 845 ± 32 mg/kg were determined in Moringa leaves and flowers, respectively. However, the concentrations of kaempferol found in leaves and flowers were 2100 ± 176 and 2802 ± 157 mg/kg, respectively.

  18. Molecularly imprinted polymers: New molecular recognition materials for selective solid-phase extraction of organic compounds

    OpenAIRE

    Martín Esteban, A.

    2001-01-01

    During the last few years molecularly imprinted polymers have appeared as new selective sorbents for solid-phase extraction of organic compounds in different samples. Molecular imprinting technology involves the preparation of a polymer with specific recognition sites for certain molecules. Once the polymer has been obtained, it can be used in solid-phase extraction protocols, where a careful selection of the most appropriate solvents to be used in the different steps (sample loading, washing...

  19. UNCERTAIN TRAINING DATA EDITION FOR AUTOMATIC OBJECT-BASED CHANGE MAP EXTRACTION

    Directory of Open Access Journals (Sweden)

    S. Hajahmadi

    2013-09-01

    Full Text Available Due to the rapid transformation of the societies, and the consequent growth of the cities, it is necessary to study these changes in order to achieve better control and management of urban areas and assist the decision-makers. Change detection involves the ability to quantify temporal effects using multi-temporal data sets. The available maps of the under study area is one of the most important sources for this reason. Although old data bases and maps are a great resource, it is more than likely that the training data extracted from them might contain errors, which affects the procedure of the classification; and as a result the process of the training sample editing is an essential matter. Due to the urban nature of the area studied and the problems caused in the pixel base methods, object-based classification is applied. To reach this, the image is segmented into 4 scale levels using a multi-resolution segmentation procedure. After obtaining the segments in required levels, training samples are extracted automatically using the existing old map. Due to the old nature of the map, these samples are uncertain containing wrong data. To handle this issue, an editing process is proposed according to K-nearest neighbour and k-means algorithms. Next, the image is classified in a multi-resolution object-based manner and the effects of training sample refinement are evaluated. As a final step this classified image is compared with the existing map and the changed areas are detected.

  20. Automatic dynamic mask extraction for PIV images containing an unsteady interface, bubbles, and a moving structure

    Science.gov (United States)

    Dussol, David; Druault, Philippe; Mallat, Bachar; Delacroix, Sylvain; Germain, Grégory

    2016-07-01

    When performing Particle Image Velocimetry (PIV) measurements in complex fluid flows with moving interfaces and a two-phase flow, it is necessary to develop a mask to remove non-physical measurements. This is the case when studying, for example, the complex bubble sweep-down phenomenon observed in oceanographic research vessels. Indeed, in such a configuration, the presence of an unsteady free surface, of a solid-liquid interface and of bubbles in the PIV frame, leads to generate numerous laser reflections and therefore spurious velocity vectors. In this note, an image masking process is developed to successively identify the boundaries of the ship and the free surface interface. As the presence of the solid hull surface induces laser reflections, the hull edge contours are simply detected in the first PIV frame and dynamically estimated for consecutive ones. As for the unsteady surface determination, a specific process is implemented like the following: i) the edge detection of the gradient magnitude in the PIV frame, ii) the extraction of the particles by filtering high-intensity large areas related to the bubbles and/or hull reflections, iii) the extraction of the rough region containing these particles and their reflections, iv) the removal of these reflections. The unsteady surface is finally obtained with a fifth-order polynomial interpolation. The resulted free surface is successfully validated from the Fourier analysis and by visualizing selected PIV images containing numerous spurious high intensity areas. This paper demonstrates how this data analysis process leads to PIV images database without reflections and an automatic detection of both the free surface and the rigid body. An application of this new mask is finally detailed, allowing a preliminary analysis of the hydrodynamic flow.

  1. An Automatic Building Extraction and Regularisation Technique Using LiDAR Point Cloud Data and Orthoimage

    Directory of Open Access Journals (Sweden)

    Syed Ali Naqi Gilani

    2016-03-01

    Full Text Available The development of robust and accurate methods for automatic building detection and regularisation using multisource data continues to be a challenge due to point cloud sparsity, high spectral variability, urban objects differences, surrounding complexity, and data misalignment. To address these challenges, constraints on object’s size, height, area, and orientation are generally benefited which adversely affect the detection performance. Often the buildings either small in size, under shadows or partly occluded are ousted during elimination of superfluous objects. To overcome the limitations, a methodology is developed to extract and regularise the buildings using features from point cloud and orthoimagery. The building delineation process is carried out by identifying the candidate building regions and segmenting them into grids. Vegetation elimination, building detection and extraction of their partially occluded parts are achieved by synthesising the point cloud and image data. Finally, the detected buildings are regularised by exploiting the image lines in the building regularisation process. Detection and regularisation processes have been evaluated using the ISPRS benchmark and four Australian data sets which differ in point density (1 to 29 points/m2, building sizes, shadows, terrain, and vegetation. Results indicate that there is 83% to 93% per-area completeness with the correctness of above 95%, demonstrating the robustness of the approach. The absence of over- and many-to-many segmentation errors in the ISPRS data set indicate that the technique has higher per-object accuracy. While compared with six existing similar methods, the proposed detection and regularisation approach performs significantly better on more complex data sets (Australian in contrast to the ISPRS benchmark, where it does better or equal to the counterparts.

  2. Automatic extraction of faults and fractal analysis from remote sensing data

    Directory of Open Access Journals (Sweden)

    R. Gloaguen

    2007-01-01

    Full Text Available Object-based classification is a promising technique for image classification. Unlike pixel-based methods, which only use the measured radiometric values, the object-based techniques can also use shape and context information of scene textures. These extra degrees of freedom provided by the objects allow the automatic identification of geological structures. In this article, we present an evaluation of object-based classification in the context of extraction of geological faults. Digital elevation models and radar data of an area near Lake Magadi (Kenya have been processed. We then determine the statistics of the fault populations. The fractal dimensions of fault dimensions are similar to fractal dimensions directly measured on remote sensing images of the study area using power spectra (PSD and variograms. These methods allow unbiased statistics of faults and help us to understand the evolution of the fault systems in extensional domains. Furthermore, the direct analysis of image texture is a good indicator of the fault statistics and allows us to classify the intensity and type of deformation. We propose that extensional fault networks can be modeled by iterative function system (IFS.

  3. Automatic indicator dilution curve extraction in dynamic-contrast enhanced imaging using spectral clustering

    Science.gov (United States)

    Saporito, Salvatore; Herold, Ingeborg HF; Houthuizen, Patrick; van den Bosch, Harrie CM; Korsten, Hendrikus HM; van Assen, Hans C.; Mischi, Massimo

    2015-07-01

    Indicator dilution theory provides a framework for the measurement of several cardiovascular parameters. Recently, dynamic imaging and contrast agents have been proposed to apply the method in a minimally invasive way. However, the use of contrast-enhanced sequences requires the definition of regions of interest (ROIs) in the dynamic image series; a time-consuming and operator dependent task, commonly performed manually. In this work, we propose a method for the automatic extraction of indicator dilution curves, exploiting the time domain correlation between pixels belonging to the same region. Individual time intensity curves were projected into a low dimensional subspace using principal component analysis; subsequently, clustering was performed to identify the different ROIs. The method was assessed on clinically available DCE-MRI and DCE-US recordings, comparing the derived IDCs with those obtained manually. The robustness to noise of the proposed approach was shown on simulated data. The tracer kinetic parameters derived on real images were in agreement with those obtained from manual annotation. The presented method is a clinically useful preprocessing step prior to further ROI-based cardiac quantifications.

  4. Exploring the Potential for Automatic Extraction of Vegetation Phenological Metrics from Traffic Webcams

    Directory of Open Access Journals (Sweden)

    Karon L. Smith

    2013-05-01

    Full Text Available Phenological metrics are of potential value as direct indicators of climate change. Usually they are obtained via either satellite imaging or ground based manual measurements; both are bespoke and therefore costly and have problems associated with scale and quality. An increase in the use of camera networks for monitoring infrastructure offers a means of obtaining images for use in phenological studies, where the only necessary outlay would be for data transfer, storage, processing and display. Here a pilot study is described that uses image data from a traffic monitoring network to demonstrate that it is possible to obtain usable information from the data captured. There are several challenges in using this network of cameras for automatic extraction of phenological metrics, not least, the low quality of the images and frequent camera motion. Although questions remain to be answered concerning the optimal employment of these cameras, this work illustrates that, in principle, image data from camera networks such as these could be used as a means of tracking environmental change in a low cost, highly automated and scalable manner that would require little human involvement.

  5. Automatic Extraction of Figures from Scientific Publications in High-Energy Physics

    Directory of Open Access Journals (Sweden)

    Piotr Adam Praczyk

    2013-12-01

    Full Text Available Plots and figures play an important role in the process of understanding a scientificpublication, providing overviews of large amounts of data or ideas that are difficult to in-tuitively present using only the text. State of art in digital libraries, serving as gatewaysto knowledge encoded in scholarly writings, does not take full advantage of the graphicalcontent of documents. Enabling machines to automatically unlock the meaning of scien-tific illustrations would allow immense improvements in the way scientists work and theknowledge is being processed.    In this paper we present a novel solution for the initial problem of processing graphicalcontent, obtaining figures from scholarly publications stored in PDF format. Our methodrelies on vector properties of documents and as such, does not introduce additional errors,characteristic for methods based on raster image processing. Emphasis has been placed oncorrectly processing documents in High Energy Physics. The described approach makesdistinction between different classes of objects appearing in PDF documents and usesspatial clustering techniques to group objects into larger logical entities. A number ofheuristics allow the rejection of incorrect figure candidates and the extraction of differenttypes of metadata.

  6. Assessing the Utility of Automatic Cancer Registry Notifications Data Extraction from Free-Text Pathology Reports.

    Science.gov (United States)

    Nguyen, Anthony N; Moore, Julie; O'Dwyer, John; Philpot, Shoni

    2015-01-01

    Cancer Registries record cancer data by reading and interpreting pathology cancer specimen reports. For some Registries this can be a manual process, which is labour and time intensive and subject to errors. A system for automatic extraction of cancer data from HL7 electronic free-text pathology reports has been proposed to improve the workflow efficiency of the Cancer Registry. The system is currently processing an incoming trickle feed of HL7 electronic pathology reports from across the state of Queensland in Australia to produce an electronic cancer notification. Natural language processing and symbolic reasoning using SNOMED CT were adopted in the system; Queensland Cancer Registry business rules were also incorporated. A set of 220 unseen pathology reports selected from patients with a range of cancers was used to evaluate the performance of the system. The system achieved overall recall of 0.78, precision of 0.83 and F-measure of 0.80 over seven categories, namely, basis of diagnosis (3 classes), primary site (66 classes), laterality (5 classes), histological type (94 classes), histological grade (7 classes), metastasis site (19 classes) and metastatic status (2 classes). These results are encouraging given the large cross-section of cancers. The system allows for the provision of clinical coding support as well as indicative statistics on the current state of cancer, which is not otherwise available.

  7. Automatic Vertebral Column Extraction by Whole-Body Bone SPECT Scan

    Directory of Open Access Journals (Sweden)

    Sheng-Fang Huang

    2013-01-01

    Full Text Available Bone extraction and division can enhance the accuracy of diagnoses based on whole-body bone SPECT data. This study developed a method for using conventional SPECT for automatic recognition of the vertebral column. A novel feature of the proposed approach is a novel “bone graph" image description method that represents the connectivity between these image regions to facilitate manipulation of morphological relationships in the skeleton before surgery. By tracking the paths shown on the bone graph, skeletal structures can be identified by performing morphological operations. The performance of the method was evaluated quantitatively and qualitatively by two experienced nuclear medicine physicians. Datasets for whole-body bone SPECT scans in 46 lung cancer patients with bone metastasis were obtained with Tc-99m MDP. The algorithm successfully segmented vertebrae in the thoracolumbar spine. The quantitative assessment shows that the segmentation method achieved an average TP, FP, and FN rates of 95.1%, 9.1%, and 4.9%. The qualitative evaluation shows an average acceptance rate of 83%, where the data for the acceptable and unacceptable groups had a Cronbach’s alpha value of 0.718, which indicated reasonable internal consistency and reliability.

  8. Forest point processes for the automatic extraction of networks in raster data

    Science.gov (United States)

    Schmidt, Alena; Lafarge, Florent; Brenner, Claus; Rottensteiner, Franz; Heipke, Christian

    2017-04-01

    In this paper, we propose a new stochastic approach for the automatic detection of network structures in raster data. We represent a network as a set of trees with acyclic planar graphs. We embed this model in the probabilistic framework of spatial point processes and determine the most probable configuration of trees by stochastic sampling. That is, different configurations are constructed randomly by modifying the graph parameters and by adding or removing nodes and edges to/ from the current trees. Each configuration is evaluated based on the probabilities for these changes and an energy function describing the conformity with a predefined model. By using the Reversible jump Markov chain Monte Carlo sampler, an approximation of the global optimum of the energy function is iteratively reached. Although our main target application is the extraction of rivers and tidal channels in digital terrain models, experiments with other types of networks in images show the transferability to further applications. Qualitative and quantitative evaluations demonstrate the competitiveness of our approach with respect to existing algorithms.

  9. Automatic detection and extraction of ultra-fine bright structure observed with new vacuum solar telescope

    Science.gov (United States)

    Deng, Linhua

    2017-02-01

    Solar magnetic structures exhibit a wealth of different spatial and temporal scales. Presently, solar magnetic element is believed to be the ultra-fine magnetic structure in the lower solar atmospheric layer, and the diffraction limit of the largest-aperture solar telescope (New Vacuum Solar Telescope; NVST) of China is close to the spatial scale of magnetic element. This implies that modern solar observations have entered the era of high resolution better than 0.2 arc-second. Since the year of 2011, the NVST have successfully established and obtained huge observational data. Moreover, the ultra-fine magnetic structure rooted in the dark inter-graunlar lanes can be easily resolved. Studies on the observational characteristics and physical mechanism of magnetic bright points is one of the most important aspects in the field of solar physics, so it is very important to determine the statistical and physical parameters of magnetic bright points with the feature extraction techniques and numerical analysis approaches. For identifying such ultra-fine magnetic structure, an automatically and effectively detection algorithm, employed the Laplacian transform and the morphological dilation technique, is proposed and examined. Then, the statistical parameters such as the typical diameter, the area distribution, the eccentricity, and the intensity contrast are obtained. And finally, the scientific meaning for investigating the physical parameters of magnetic bright points are discussed, especially for understanding the physical processes of solar magnetic energy transferred from the photosphere to the corona.

  10. Multiple damage identification and imaging in an aluminum plate using effective Lamb wave response automatic extraction technology

    Science.gov (United States)

    Ouyang, Qinghua; Zhou, Li; Liu, Xiaotong

    2016-04-01

    In order to identify multiple damage in the structure, a method of multiple damage identification and imaging based on the effective Lamb wave response automatic extraction algorithm is proposed. In this method, the detected key area in the structure is divided into a number of subregions, and then, the effective response signals including the structural damage information are automatically extracted from the entire Lamb wave responses which are received by the piezoelectric sensors. Further, the damage index values of every subregion based on the correlation coefficient are calculated using the effective response signals. Finally, the damage identification and imaging are performed using the reconstruction algorithm for probabilistic inspection of damage (RAPID) technique. The experimental research was conducted using an aluminum plate. The experimental results show that the method proposed in this research can quickly and effectively identify the single damage or multiple damage and image the damages clearly in detected area.

  11. Automatic segmentation of the bone and extraction of the bone cartilage interface from magnetic resonance images of the knee

    Science.gov (United States)

    Fripp, Jurgen; Crozier, Stuart; Warfield, Simon K.; Ourselin, Sébastien

    2007-03-01

    The accurate segmentation of the articular cartilages from magnetic resonance (MR) images of the knee is important for clinical studies and drug trials into conditions like osteoarthritis. Currently, segmentations are obtained using time-consuming manual or semi-automatic algorithms which have high inter- and intra-observer variabilities. This paper presents an important step towards obtaining automatic and accurate segmentations of the cartilages, namely an approach to automatically segment the bones and extract the bone-cartilage interfaces (BCI) in the knee. The segmentation is performed using three-dimensional active shape models, which are initialized using an affine registration to an atlas. The BCI are then extracted using image information and prior knowledge about the likelihood of each point belonging to the interface. The accuracy and robustness of the approach was experimentally validated using an MR database of fat suppressed spoiled gradient recall images. The (femur, tibia, patella) bone segmentation had a median Dice similarity coefficient of (0.96, 0.96, 0.89) and an average point-to-surface error of 0.16 mm on the BCI. The extracted BCI had a median surface overlap of 0.94 with the real interface, demonstrating its usefulness for subsequent cartilage segmentation or quantitative analysis.

  12. Automatic extraction of lunar impact craters from Chang'E images based on Hough transform and RANSAC

    Science.gov (United States)

    Luo, Zhongfei; Kang, Zhizhong

    2016-03-01

    This article proposed an algorithm combining Hough transform and RANSAC algorithm for automatic extraction of lunar craters. (1) In order to suppress noise, the images were filtered; (2) The edge of image were extracted, subsequently, eliminate false edge points by qualifying the gradient direction and the area of connected domain; (3) The edge images were segmented through Hough transform, gathering the same crater edge points together; (4) The edge images after segmentation were fitted using RANSAC algorithm, getting the high precision parameter. High precision of the algorithm was verified by the experiments of images acquired by the Chang'E-1 satellites.

  13. Molecularly Imprinted Polymers for Ochratoxin A Extraction and Analysis

    Directory of Open Access Journals (Sweden)

    Jorn C. C. Yu

    2010-06-01

    Full Text Available Molecularly imprinted polymers (MIPs are considered as polymeric materials that mimic the functionality of antibodies. MIPs have been utilized for a wide variety of applications in chromatography, solid phase extraction, immunoassays, and sensor recognition. In this article, recent advances of MIPs for the extraction and analysis of ochratoxins are discussed. Selection of functional monomers to bind ochratoxin A (OTA with high affinities, optimization of extraction procedures, and limitations of MIPs are compared from different reports. The most relevant examples in the literature are described to clearly show how useful these materials are. Strategies on MIP preparation and schemes of analytical methods are also reviewed in order to suggest the next step that would make better use of MIPs in the field of ochratoxin research. The review ends by outlining the remaining issues and impediments.

  14. Tunable Single-Cell Extraction for Molecular Analyses.

    Science.gov (United States)

    Guillaume-Gentil, Orane; Grindberg, Rashel V; Kooger, Romain; Dorwling-Carter, Livie; Martinez, Vincent; Ossola, Dario; Pilhofer, Martin; Zambelli, Tomaso; Vorholt, Julia A

    2016-07-14

    Because of cellular heterogeneity, the analysis of endogenous molecules from single cells is of significant interest and has major implications. While micromanipulation or cell sorting followed by cell lysis is already used for subsequent molecular examinations, approaches to directly extract the content of living cells remain a challenging but promising alternative to achieving non-destructive sampling and cell-context preservation. Here, we demonstrate the quantitative extraction from single cells with spatiotemporal control using fluidic force microscopy. We further present a comprehensive analysis of the soluble molecules withdrawn from the cytoplasm or the nucleus, including the detection of enzyme activities and transcript abundances. This approach has uncovered the ability of cells to withstand extraction of up to several picoliters and opens opportunities to study cellular dynamics and cell-cell communication under physiological conditions at the single-cell level.

  15. A microfluidic approach for high efficiency extraction of low molecular weight RNA.

    Science.gov (United States)

    Vulto, Paul; Dame, Gregory; Maier, Urban; Makohliso, Solomzi; Podszun, Susann; Zahn, Peter; Urban, Gerald A

    2010-03-01

    The lack of sample pre-treatment concepts that are easily automatable, miniaturized and highly efficient for both small volumes and low target concentrations, is one of the key issues that block the road towards effective miniaturized diagnostic instruments. This paper presents a novel, highly efficient and simple method for low-molecular weight RNA extraction using electricity only. Cells are lysed by thermo-electric lysis and RNA is purified using a gel-electrophoretic purification step. The combination of the two steps in one integrated cartridge reduces the time frame between the two steps, thus protecting RNA from enzymatic degradation. A disposable chip solution is proposed using a novel dry film resist laminate technology that allows cheap, large-scale fabrication. The chip contains crucial microfluidic innovations that allow for a simple user interface, reproducible functioning and precise quantification. Phaseguides are invented that allow controlled spatial injection of gel, injection of sample and recovery of extracted RNA. A precise sample volume can be defined by integrating electrophoretic actuation electrodes in the microfluidic chamber. Electrolytic gas bubbles that are the result of constant-current actuation are driven out from the chip by the novel introduction of capillary bubble-expulsion techniques. The extraction approach and the functionality of the chip are demonstrated for Escherichia coli and Streptococcus thermophilus bacteria. Linear extraction behavior is obtained for transfer-messenger RNA down to one colony-forming unit per microlitre, or five colony-forming units per chip. The latter is an increase in extraction efficiency of a factor of 1000 with respect to the commercial extraction kit Ambion Ribopure. The chip shows particularly good performance for extraction of low-molecular weight RNA, thereby eliminating the need for large ribosomal RNA and DNA removal. RNA can be extracted in less than 11 min, being a speed-up of more than a

  16. A multi-scale method for automatically extracting the dominant features of cervical vertebrae in CT images

    Directory of Open Access Journals (Sweden)

    Tung-Ying Wu

    2013-07-01

    Full Text Available Localization of the dominant points of cervical spines in medical images is important for improving the medical automation in clinical head and neck applications. In order to automatically identify the dominant points of cervical vertebrae in neck CT images with precision, we propose a method based on multi-scale contour analysis to analyzing the deformable shape of spines. To extract the spine contour, we introduce a method to automatically generate the initial contour of the spine shape, and the distance field for level set active contour iterations can also be deduced. In the shape analysis stage, we at first coarsely segment the extracted contour with zero-crossing points of the curvature based on the analysis with curvature scale space, and the spine shape is modeled with the analysis of curvature scale space. Then, each segmented curve is analyzed geometrically based on the turning angle property at different scales, and the local extreme points are extracted and verified as the dominant feature points. The vertices of the shape contour are approximately derived with the analysis at coarse scale, and then adjusted precisely at fine scale. Consequently, the results of experiment show that we approach a success rate of 93.4% and accuracy of 0.37mm by comparing with the manual results.

  17. Automatic identification of mobile and rigid substructures in molecular dynamics simulations and fractional structural fluctuation analysis.

    Directory of Open Access Journals (Sweden)

    Leandro Martínez

    Full Text Available The analysis of structural mobility in molecular dynamics plays a key role in data interpretation, particularly in the simulation of biomolecules. The most common mobility measures computed from simulations are the Root Mean Square Deviation (RMSD and Root Mean Square Fluctuations (RMSF of the structures. These are computed after the alignment of atomic coordinates in each trajectory step to a reference structure. This rigid-body alignment is not robust, in the sense that if a small portion of the structure is highly mobile, the RMSD and RMSF increase for all atoms, resulting possibly in poor quantification of the structural fluctuations and, often, to overlooking important fluctuations associated to biological function. The motivation of this work is to provide a robust measure of structural mobility that is practical, and easy to interpret. We propose a Low-Order-Value-Optimization (LOVO strategy for the robust alignment of the least mobile substructures in a simulation. These substructures are automatically identified by the method. The algorithm consists of the iterative superposition of the fraction of structure displaying the smallest displacements. Therefore, the least mobile substructures are identified, providing a clearer picture of the overall structural fluctuations. Examples are given to illustrate the interpretative advantages of this strategy. The software for performing the alignments was named MDLovoFit and it is available as free-software at: http://leandro.iqm.unicamp.br/mdlovofit.

  18. Molecularly imprinted polymer for specific extraction of hypericin from Hypericum perforatum L. herbal extract.

    Science.gov (United States)

    Li, Zhaozhou; Qin, Cuili; Li, Daomin; Hou, Yuze; Li, Songbiao; Sun, Junjie

    2014-09-01

    The molecularly imprinted polymers (MIPs) were prepared by an oxidation-reduction polymerization system using a non-covalent molecularly imprinting strategy with hypericin as the template, acrylamide as the functional monomer and pentaerythritol triacrylate as the cross-linker in the porogen of acetone. The UV spectrum revealed that a cooperative hydrogen-bonding complex between hypericin and acrylamide might be formed at the ratio of 1:6 in the prepolymerized system. Two classes of the binding sites were produced in the resulting hypericin-imprinted polymer with the dissociation constants of 16.61μgL(-1) and 69.35μgL(-1), and the affinity binding sites of 456.53μgg(-1) and 603.06μgg(-1), respectively. The synthesized MIPs were characterized by scanning electron microscope, thermogravimetric and differential thermal analysis. High-performance liquid chromatography was used to investigate the adsorption and recognition properties of the MIPs. Selective binding of the template molecule was demonstrated in comparison to the analog pseudohypericin. After the Hypericum perforatum L. plant being air dried and finely ground, an extract was prepared by shaking the powder in a methanol-water solution (80:20, v/v), vacuum filtration though a Büchner funnel, liquid-liquid extraction with ethyl ether and ethyl acetate, and evaporating on a rotary evaporator until dry. With the sorbents of the optimized MIPs, a molecularly imprinted solid-phase extraction (MISPE) procedure was developed for enrichment and separation of hypericin from the Hypericum extract in the presence of interfering substances. The selective extraction of hypericin from herbal medicine was achieved with the recovery of 82.30%. The results showed that MISPE can be a useful tool for specific isolation and effective clean-up of target compounds from natural products.

  19. Automatic parameter extraction for the 16,000 galaxies in the ESO/Uppsala catalogue

    NARCIS (Netherlands)

    Lauberts, A.; Valentijn, E. A.

    1983-01-01

    Under a restriction for minimum angular diameter of not less than 1 arcmin, corresponding to the 15th magnitude and allowing morphological classification of structure, 16,000 galaxies have been brought together in the single volume of the ESO/Uppsala catalog (1982). Attention is given to the automat

  20. Magnetic molecularly imprinted polymer for the selective extraction of quercetagetin from Calendula officinalis extract.

    Science.gov (United States)

    Ma, Run-Tian; Shi, Yan-Ping

    2015-03-01

    A new magnetic molecularly imprinted polymers (MMIPs) for quercetagetin was prepared by surface molecular imprinting method using super paramagnetic core-shell nanoparticle as the supporter. Acrylamide as the functional monomer, ethyleneglycol dimethacrylate as the crosslinker and acetonitrile as the porogen were applied in the preparation process. Fourier transform infrared spectrometer (FT-IR), X-ray diffraction (XRD) and Vibrating sample magnetometer (VSM) were applied to characterize the MMIPs, and High performance liquid chromatography (HPLC) was utilized to analyze the target analytes. The selectivity of quercetagetin MMIPs was evaluated according to their recognition to template and its analogues. Excellent binding for quercetagetin was observed in MMIPs adsorption experiment, and the adsorption isotherm models analysis showed that the homogeneous binding sites were distributed on the surface of the MMIPs. The MMIPs were employed as adsorbents in solid phase extraction for the determination of quercetagetin in Calendula officinalis extracts. Furthermore, this method is fast, simple and could fulfill the determination and extraction of quercetagetin from herbal extract.

  1. Molecularly imprinted polymers for on-line extraction techniques.

    Science.gov (United States)

    Moein, Mohammad M; Abdel-Rehim, Mohamed

    2015-01-01

    Recent years have seen an increasing interest in the use of molecularly imprinted polymers (MIPs) as a sorbent for different extraction methods and this is due to its high selectivity. The MIP is designed to show specificity for the analyte of interest. Moreover, MIPs show physical robustness, resistance to high temperatures and pressures, and stability in the presence of acids, bases and a wide range of organic solvents. In the present article, various novel sample preparation techniques which MIPs applied as sorbent and on-line connected with analytical instruments were highlighted and discussed. The future aspects of MIPs as well were described.

  2. Predicting the performance of molecularly imprinted polymers: Selective extraction of caffeine by molecularly imprinted solid phase extraction

    Energy Technology Data Exchange (ETDEWEB)

    Farrington, Keith [School of Chemical Sciences, Dublin City University, Glasnevin, Dublin 9 (Ireland); Magner, Edmond [Materials and Surface Science Institute, Chemical and Environmental Sciences Department, University of Limerick, Limerick (Ireland); Regan, Fiona [School of Chemical Sciences, Dublin City University, Glasnevin, Dublin 9 (Ireland)]. E-mail: fiona.regan@dcu.ie

    2006-04-27

    A rational design approach was taken to the planning and synthesis of a molecularly imprinted polymer capable of extracting caffeine (the template molecule) from a standard solution of caffeine and further from a food sample containing caffeine. Data from NMR titration experiments in conjunction with a molecular modelling approach was used in predicting the relative ratios of template to functional monomer and furthermore determined both the choice of solvent (porogen) and the amount used for the study. In addition the molecular modelling program yielded information regarding the thermodynamic stability of the pre-polymerisation complex. Post-polymerisation analysis of the polymer itself by analysis of the pore size distribution by BET yielded significant information regarding the nature of the size and distribution of the pores within the polymer matrix. Here is proposed a stepwise procedure for the development and testing of a molecularly imprinted polymer using a well-studied compound-caffeine as a model system. It is shown that both the physical characteristics of a molecularly imprinted polymer (MIP) and the analysis of the pre-polymerisation complex can yield vital information, which can predict how well a given MIP will perform.

  3. BioSimplify: an open source sentence simplification engine to improve recall in automatic biomedical information extraction

    CERN Document Server

    Jonnalagadda, Siddhartha

    2011-01-01

    BioSimplify is an open source tool written in Java that introduces and facilitates the use of a novel model for sentence simplification tuned for automatic discourse analysis and information extraction (as opposed to sentence simplification for improving human readability). The model is based on a "shot-gun" approach that produces many different (simpler) versions of the original sentence by combining variants of its constituent elements. This tool is optimized for processing biomedical scientific literature such as the abstracts indexed in PubMed. We tested our tool on its impact to the task of PPI extraction and it improved the f-score of the PPI tool by around 7%, with an improvement in recall of around 20%. The BioSimplify tool and test corpus can be downloaded from https://biosimplify.sourceforge.net.

  4. AUTOMATIC EXTRACTION OF BUILDING ROOF PLANES FROM AIRBORNE LIDAR DATA APPLYING AN EXTENDED 3D RANDOMIZED HOUGH TRANSFORM

    Directory of Open Access Journals (Sweden)

    E. Maltezos

    2016-06-01

    Full Text Available This study aims to extract automatically building roof planes from airborne LIDAR data applying an extended 3D Randomized Hough Transform (RHT. The proposed methodology consists of three main steps, namely detection of building points, plane detection and refinement. For the detection of the building points, the vegetative areas are first segmented from the scene content and the bare earth is extracted afterwards. The automatic plane detection of each building is performed applying extensions of the RHT associated with additional constraint criteria during the random selection of the 3 points aiming at the optimum adaptation to the building rooftops as well as using a simple design of the accumulator that efficiently detects the prominent planes. The refinement of the plane detection is conducted based on the relationship between neighbouring planes, the locality of the point and the use of additional information. An indicative experimental comparison to verify the advantages of the extended RHT compared to the 3D Standard Hough Transform (SHT is implemented as well as the sensitivity of the proposed extensions and accumulator design is examined in the view of quality and computational time compared to the default RHT. Further, a comparison between the extended RHT and the RANSAC is carried out. The plane detection results illustrate the potential of the proposed extended RHT in terms of robustness and efficiency for several applications.

  5. Automatic Extraction of Building Roof Planes from Airborne LIDAR Data Applying AN Extended 3d Randomized Hough Transform

    Science.gov (United States)

    Maltezos, Evangelos; Ioannidis, Charalabos

    2016-06-01

    This study aims to extract automatically building roof planes from airborne LIDAR data applying an extended 3D Randomized Hough Transform (RHT). The proposed methodology consists of three main steps, namely detection of building points, plane detection and refinement. For the detection of the building points, the vegetative areas are first segmented from the scene content and the bare earth is extracted afterwards. The automatic plane detection of each building is performed applying extensions of the RHT associated with additional constraint criteria during the random selection of the 3 points aiming at the optimum adaptation to the building rooftops as well as using a simple design of the accumulator that efficiently detects the prominent planes. The refinement of the plane detection is conducted based on the relationship between neighbouring planes, the locality of the point and the use of additional information. An indicative experimental comparison to verify the advantages of the extended RHT compared to the 3D Standard Hough Transform (SHT) is implemented as well as the sensitivity of the proposed extensions and accumulator design is examined in the view of quality and computational time compared to the default RHT. Further, a comparison between the extended RHT and the RANSAC is carried out. The plane detection results illustrate the potential of the proposed extended RHT in terms of robustness and efficiency for several applications.

  6. Combining contour detection algorithms for the automatic extraction of the preparation line from a dental 3D measurement

    Science.gov (United States)

    Ahlers, Volker; Weigl, Paul; Schachtzabel, Hartmut

    2005-04-01

    Due to the increasing demand for high-quality ceramic crowns and bridges, the CAD/CAM-based production of dental restorations has been a subject of intensive research during the last fifteen years. A prerequisite for the efficient processing of the 3D measurement of prepared teeth with a minimal amount of user interaction is the automatic determination of the preparation line, which defines the sealing margin between the restoration and the prepared tooth. Current dental CAD/CAM systems mostly require the interactive definition of the preparation line by the user, at least by means of giving a number of start points. Previous approaches to the automatic extraction of the preparation line rely on single contour detection algorithms. In contrast, we use a combination of different contour detection algorithms to find several independent potential preparation lines from a height profile of the measured data. The different algorithms (gradient-based, contour-based, and region-based) show their strengths and weaknesses in different clinical situations. A classifier consisting of three stages (range check, decision tree, support vector machine), which is trained by human experts with real-world data, finally decides which is the correct preparation line. In a test with 101 clinical preparations, a success rate of 92.0% has been achieved. Thus the combination of different contour detection algorithms yields a reliable method for the automatic extraction of the preparation line, which enables the setup of a turn-key dental CAD/CAM process chain with a minimal amount of interactive screen work.

  7. [An automatic extraction algorithm for individual tree crown projection area and volume based on 3D point cloud data].

    Science.gov (United States)

    Xu, Wei-Heng; Feng, Zhong-Ke; Su, Zhi-Fang; Xu, Hui; Jiao, You-Quan; Deng, Ou

    2014-02-01

    Tree crown projection area and crown volume are the important parameters for the estimation of biomass, tridimensional green biomass and other forestry science applications. Using conventional measurements of tree crown projection area and crown volume will produce a large area of errors in the view of practical situations referring to complicated tree crown structures or different morphological characteristics. However, it is difficult to measure and validate their accuracy through conventional measurement methods. In view of practical problems which include complicated tree crown structure, different morphological characteristics, so as to implement the objective that tree crown projection and crown volume can be extracted by computer program automatically. This paper proposes an automatic untouched measurement based on terrestrial three-dimensional laser scanner named FARO Photon120 using plane scattered data point convex hull algorithm and slice segmentation and accumulation algorithm to calculate the tree crown projection area. It is exploited on VC+6.0 and Matlab7.0. The experiments are exploited on 22 common tree species of Beijing, China. The results show that the correlation coefficient of the crown projection between Av calculated by new method and conventional method A4 reaches 0.964 (p3D LIDAR point cloud data of individual tree, tree crown structure was reconstructed at a high rate of speed with high accuracy, and crown projection and volume of individual tree were extracted by this automatical untouched method, which can provide a reference for tree crown structure studies and be worth to popularize in the field of precision forestry.

  8. Using Probe Vehicle Data for Automatic Extraction of Road Traffic Parameters

    Directory of Open Access Journals (Sweden)

    Roman Popescu Maria Alexandra

    2016-12-01

    Full Text Available Through this paper the author aims to study and find solutions for automatic detection of traffic light position and for automatic calculation of the waiting time at traffic light. The first objective serves mainly the road transportation field, mainly because it removes the need for collaboration with local authorities to establish a national network of traffic lights. The second objective is important not only for companies which are providing navigation solutions, but especially for authorities, institutions, companies operating in road traffic management systems. Real-time dynamic determination of traffic queue length and of waiting time at traffic lights allow the creation of dynamic systems, intelligent and flexible, adapted to actual traffic conditions, and not to generic, theoretical models. Thus, cities can approach the Smart City concept by boosting, efficienting and greening the road transport, promoted in Europe through the Horizon 2020, Smart Cities, Urban Mobility initiative.

  9. Molecularly imprinted solid phase extraction of fluconazole from pharmaceutical formulations.

    Science.gov (United States)

    Manzoor, S; Buffon, R; Rossi, A V

    2015-03-01

    This work encompasses a direct and coherent strategy to synthesise a molecularly imprinted polymer (MIP) capable of extracting fluconazole from its sample. The MIP was successfully prepared from methacrylic acid (functional monomer), ethyleneglycoldimethacrylate (crosslinker) and acetonitrile (porogenic solvent) in the presence of fluconazole as the template molecule through a non-covalent approach. The non-imprinted polymer (NIP) was prepared following the same synthetic scheme, but in the absence of the template. The data obtained from scanning electronic microscopy, infrared spectroscopy, thermogravimetric and nitrogen Brunauer-Emmett-Teller plot helped to elucidate the structural as well as the morphological characteristics of the MIP and NIP. The application of MIP as a sorbent was demonstrated by packing it in solid phase extraction cartridges to extract fluconazole from commercial capsule samples through an offline analytical procedure. The quantification of fluconazole was accomplished through UPLC-MS, which resulted in LOD≤1.63×10(-10) mM. Furthermore, a high percentage recovery of 91±10% (n=9) was obtained. The ability of the MIP for selective recognition of fluconazole was evaluated by comparison with the structural analogues, miconazole, tioconazole and secnidazole, resulting in percentage recoveries of 51, 35 and 32%, respectively.

  10. The Automatic Generation of Chinese Outline Font Based on Stroke Extraction

    Institute of Scientific and Technical Information of China (English)

    1995-01-01

    A new method to obtain spline outline description of Chinese font based on stroke extraction is presented.It has two primary advantages:(1)the quality of Chinese output is greatly improved;(2)the memory requirement is reduced.The method for stroke extraction is discussed in detail and experimental results are presented.

  11. Automatic segmentation of coronary artery tree based on multiscale Gabor filtering and transition region extraction

    Science.gov (United States)

    Wang, Fang; Wang, Guozhu; Kang, Lie; Wang, Juan

    2011-11-01

    This paper presents a novel segmentation method for extracting coronary artery tree from angiogram, which is based on multiscale Gabor filtering and transition region extraction. Firstly the enhanced image is obtained after multiscale Gabor filtering, then the transition region of the enhanced image is extracted using the local complexity algorithm, and the final segmentation threshold is calculated, finally the image segmentation is achieved. To evaluate the performance of the proposed approach, we carried out experiments on various sets of angiographic images, and compared its effects with those of the improved top-hat segmentation method. The experiments indicate that the proposed method outperforms the latter method about better extraction of small vessels, more background elimination, better visualized coronary artery tree and continuity of the vessels.

  12. Automatic Extraction of Tongue Coatings from Digital Images: A Traditional Chinese Medicine Diagnostic Tool

    Institute of Scientific and Technical Information of China (English)

    Linda Yunlu BAI; SHI Yundi; WU Jia; ZHANG Yonghong; WONG Weiliang; WU Yu; BAI Jing

    2009-01-01

    In traditional Chinese medicine, the coating on the tongue is considered to be a reflection of various pathologic factors. However, the conventional method to examine the tongue lacks an acceptable standard and does not provide the means for sharing information. This paper describes a segmentation method to extract tongue coatings. First, the tongue body was extracted from the original image using the watershed transform. Then, a threshold method was applied to the image to eliminate the light from the camera flash.Finally, a threshold method using the Otsu model in combination with a splitting-merging method was used in the red, green, and blue (RGB) space to extract the thin coating. The combination of the above two methods is applied in the hue, saturation, and value (HSV) space to extract the thick coating. The feasibility of this method is tested by experiments, and the accuracy of segmentation is 95.9%.

  13. Free Model of Sentence Classifier for Automatic Extraction of Topic Sentences

    OpenAIRE

    M.L. Khodra; D.H. Widyantoro; E.A. Aziz; B.R. Trilaksono

    2011-01-01

    This research employs free model that uses only sentential features without paragraph context to extract topic sentences of a paragraph. For finding optimal combination of features, corpus-based classification is used for constructing a sentence classifier as the model. The sentence classifier is trained by using Support Vector Machine (SVM). The experiment shows that position and meta-discourse features are more important than syntactic features to extract topic sentence, and the best perfor...

  14. Semi-automatic extraction of sectional view from point clouds - The case of Ottmarsheim's abbey-church

    Science.gov (United States)

    Landes, T.; Bidino, S.; Guild, R.

    2014-06-01

    Today, elevations or sectional views of buildings are often produced from terrestrial laser scanning. However, due to the amount of data to process and because usually 2D maps are required by customers, the 3D point cloud is often degraded into 2D slices. In a sectional view, not only the portions of the objet which are intersected by the cutting plane but also edges and contours of other parts of the object which are visible behind the cutting plane are represented. To avoid the tedious manual drawing, the aim of this work is to propose a semi-automatic approach for creating sectional views by point cloud processing. The extraction of sectional views requires in a first step the segmentation of the point cloud into planar and non-planar entities. Since in cultural heritage buildings, arches, vaults, columns can be found, the position and the direction of the sectional view must be taken into account before contours extraction. Indeed, the edges of surfaces of revolution depend on the chosen view. The developed extraction approach is detailed based on point clouds acquired inside and outside churches. The resulting sectional view has been evaluated in a qualitative and quantitative way by comparing it with a reference sectional view made by hand. A mean deviation of 3 cm between both sections proves that the proposed approach is promising. Regarding the processing time, despite a few manual corrections, it has saved 40% of the time required for manual drawing.

  15. A region-growing approach for automatic outcrop fracture extraction from a three-dimensional point cloud

    Science.gov (United States)

    Wang, Xin; Zou, Lejun; Shen, Xiaohua; Ren, Yupeng; Qin, Yi

    2017-02-01

    Conventional manual surveys of rock mass fractures usually require large amounts of time and labor; yet, they provide a relatively small set of data that cannot be considered representative of the study region. Terrestrial laser scanners are increasingly used for fracture surveys because they can efficiently acquire large area, high-resolution, three-dimensional (3D) point clouds from outcrops. However, extracting fractures and other planar surfaces from 3D outcrop point clouds is still a challenging task. No method has been reported that can be used to automatically extract the full extent of every individual fracture from a 3D outcrop point cloud. In this study, we propose a method using a region-growing approach to address this problem; the method also estimates the orientation of each fracture. In this method, criteria based on the local surface normal and curvature of the point cloud are used to initiate and control the growth of the fracture region. In tests using outcrop point cloud data, the proposed method identified and extracted the full extent of individual fractures with high accuracy. Compared with manually acquired field survey data, our method obtained better-quality fracture data, thereby demonstrating the high potential utility of the proposed method.

  16. Automatic extraction of myocardial mass and volumes using parametric images from dynamic non-gated PET

    DEFF Research Database (Denmark)

    Harms, Hans; Hansson, Nils Henrik Stubkjær; Tolbod, Lars Poulsen;

    2016-01-01

    -gated dynamic cardiac PET. METHODS: Thirty-five patients with aortic-valve stenosis and 10 healthy controls (HC) underwent a 27-min 11C-acetate PET/CT scan and cardiac magnetic resonance imaging (CMR). HC were scanned twice to assess repeatability. Parametric images of uptake rate K1 and the blood pool were......LV and WT only and an overestimation for LVEF at lower values. Intra- and inter-observer correlations were >0.95 for all PET measurements. PET repeatability accuracy in HC was comparable to CMR. CONCLUSION: LV mass and volumes are accurately and automatically generated from dynamic 11C-acetate PET without...... ECG-gating. This method can be incorporated in a standard routine without any additional workload and can, in theory, be extended to other PET tracers....

  17. Automatic extraction of mandibular bone geometry for anatomy-based synthetization of radiographs.

    Science.gov (United States)

    Antila, Kari; Lilja, Mikko; Kalke, Martti; Lötjönen, Jyrki

    2008-01-01

    We present an automatic method for segmenting Cone-Beam Computerized Tomography (CBCT) volumes and synthetizing orthopantomographic, anatomically aligned views of the mandibular bone. The model-based segmentation method was developed having the characteristics of dental CBCT, severe metal artefacts, relatively high noise and high variability of the mandibular bone shape, in mind. First, we applied the segmentation method to delineate the bone. Second, we aligned a model resembling the geometry of orthopantomographic imaging according to the segmented surface. Third, we estimated the tooth orientations based on the local shape of the segmented surface. These results were used in determining the geometry of the synthetized radiograph. Segmentation was done with excellent results: with 14 samples we reached 0.57+/-0.16 mm mean distance from hand drawn reference. The estimation of tooth orientations was accurate with error of 0.65+/-8.0 degrees. An example of these results used in synthetizing panoramic radiographs is presented.

  18. A semi-automatic multiple view texture mapping for the surface model extracted by laser scanning

    Science.gov (United States)

    Zhang, Zhichao; Huang, Xianfeng; Zhang, Fan; Chang, Yongmin; Li, Deren

    2008-12-01

    Laser scanning is an effective way to acquire geometry data of the cultural heritage with complex architecture. After generating the 3D model of the object, it's difficult to do the exactly texture mapping for the real object. we take effort to create seamless texture maps for a virtual heritage of arbitrary topology. Texture detail is acquired directly from the real object in a light condition as uniform as we can make. After preprocessing, images are then registered on the 3D mesh by a semi-automatic way. Then we divide the mesh into mesh patches overlapped with each other according to the valid texture area of each image. An optimal correspondence between mesh patches and sections of the acquired images is built. Then, a smoothing approach is proposed to erase the seam between different images that map on adjacent mesh patches, based on texture blending. The obtained result with a Buddha of Dunhuang Mogao Grottoes is presented and discussed.

  19. Automatic Extraction of Three Dimensional Prismatic Machining Features from CAD Model

    Directory of Open Access Journals (Sweden)

    B.V. Sudheer Kumar

    2011-12-01

    Full Text Available Machining features recognition provides the necessary platform for the computer aided process planning (CAPP and plays a key role in the integration of computer aided design (CAD and computer aided manufacturing (CAM. This paper presents a new methodology for extracting features from the geometrical data of the CAD Model present in the form of Virtual Reality Modeling Language (VRML files. First, the point cloud is separated into the available number of horizontal cross sections. Each cross section consists of a 2D point cloud. Then, a collection of points represented by a set of feature points is derived for each slice, describing the cross section accurately, and providing the basis for a feature-extraction. These extracted manufacturing features, gives the necessary information regarding the manufacturing activities tomanufacture the part. Software in Microsoft Visual C++ environment is developed to recognize the features, where geometric information of the part isextracted from the CAD model. By using this data, anoutput file i.e., text file is generated, which gives all the machinable features present in the part. This process has been tested on various parts and successfully extracted all the features

  20. Automatic extraction of complex surface models from range images using a trimmed-rational Bezier surface

    Science.gov (United States)

    Boulanger, Pierre; Sekita, Iwao

    1993-08-01

    This paper presents a new method for the extraction of a rational Bezier surface from a set of data points. The algorithm is divided into four parts. First, a least median square fitting algorithm is used to extract a Bezier surface from the data set. Second, from this initial surface model an analysis of the data set is performed to eliminate outliers. Third, the algorithm then improves the fit over the residual points by modifying the weights of a rational Bezier surface using a non-linear optimization method. A further improvement of the fit is achieved using a new intrinsic parameterization technique. Fourth, an approximation of the region boundary is performed using a NURB with knots. Experimental results show that the current algorithm is robust and can precisely approximate complex surfaces.

  1. Image mining and Automatic Feature extraction from Remotely Sensed Image (RSI using Cubical Distance Methods

    Directory of Open Access Journals (Sweden)

    S.Sasikala

    2013-04-01

    Full Text Available Information processing and decision support system using image mining techniques is in advance drive with huge availability of remote sensing image (RSI. RSI describes inherent properties of objects by recording their natural reflectance in the electro-magnetic spectral (ems region. Information on such objects could be gathered by their color properties or their spectral values in various ems range in the form of pixels. Present paper explains a method of such information extraction using cubical distance method and subsequent results. Thismethod is one among the simpler in its approach and considers grouping of pixels on the basis of equal distance from a specified point in the image or selected pixel having definite attribute values (DN in different spectral layers of the RSI. The color distance and the occurrence pixel distance play a vital role in determining similarobjects as clusters aid in extracting features in the RSI domain.

  2. AUTOMATIC TEXT EXTRACTION FROM COMPLEX COLORED IMAGES USING GAMMA CORRECTION METHOD

    Directory of Open Access Journals (Sweden)

    C. P. Sumathi

    2014-01-01

    Full Text Available The aim of this study is to propose a new methodology for text region extraction and non text region removal from complex background colored images. This study presents a new approach based on Gamma correction by determining a gamma value for enhancing the foreground details in an image. The approach also uses gray level co-occurrence matrices, texture measures, threshold concepts. The proposed method is a useful preprocessing technique to remove non text region and to show the text region in the image. Experiments were on various images from the datasets collected and tagged by the ICDAR robust reading dataset collection team. Experimental results show that the proposed method has a good performance on extracting text regions in an image.

  3. Automatic Shape-Based Target Extraction for Close-Range Photogrammetry

    Science.gov (United States)

    Guo, X.; Chen, Y.; Wang, C.; Cheng, M.; Wen, C.; Yu, J.

    2016-06-01

    In order to perform precise identification and location of artificial coded targets in natural scenes, a novel design of circle-based coded target and the corresponding coarse-fine extraction algorithm are presented. The designed target separates the target box and coding box totally and owns an advantage of rotation invariance. Based on the original target, templates are prepared by three geometric transformations and are used as the input of shape-based template matching. Finally, region growing and parity check methods are used to extract the coded targets as final results. No human involvement is required except for the preparation of templates and adjustment of thresholds in the beginning, which is conducive to the automation of close-range photogrammetry. The experimental results show that the proposed recognition method for the designed coded target is robust and accurate.

  4. Recent developments in automatic solid-phase extraction with renewable surfaces exploiting flow-based approaches

    DEFF Research Database (Denmark)

    Miró, Manuel; Hartwell, Supaporn Kradtap; Jakmunee, Jaroon;

    2008-01-01

    Solid-phase extraction (SPE) is the most versatile sample-processing method for removal of interfering species and/or analyte enrichment. Although significant advances have been made over the past two decades in automating the entire analytical protocol involving SPE via flow-injection approaches...... chemical-derivatization reactions, and it pinpoints the most common instrumental detection techniques utilized. We present and discuss in detail relevant environmental and bioanalytical applications reported in the past few years....

  5. Automatic knowledge extraction in sequencing analysis with multiagent system and grid computing.

    Science.gov (United States)

    González, Roberto; Zato, Carolina; Benito, Rocío; Bajo, Javier; Hernández, Jesús M; De Paz, Juan F; Vera, Vicente; Corchado, Juan M

    2012-07-24

    Advances in bioinformatics have contributed towards a significant increase in available information. Information analysis requires the use of distributed computing systems to best engage the process of data analysis. This study proposes a multiagent system that incorporates grid technology to facilitate distributed data analysis by dynamically incorporating the roles associated to each specific case study. The system was applied to genetic sequencing data to extract relevant information about insertions, deletions or polymorphisms.

  6. Feature Extraction and Automatic Material Classification of Underground Objects from Ground Penetrating Radar Data

    OpenAIRE

    Qingqing Lu; Jiexin Pu; Zhonghua Liu

    2014-01-01

    Ground penetrating radar (GPR) is a powerful tool for detecting objects buried underground. However, the interpretation of the acquired signals remains a challenging task since an experienced user is required to manage the entire operation. Particularly difficult is the classification of the material type of underground objects in noisy environment. This paper proposes a new feature extraction method. First, discrete wavelet transform (DWT) transforms A-Scan data and approximation coefficient...

  7. Automatic segmentation and 3D feature extraction of protein aggregates in Caenorhabditis elegans

    Science.gov (United States)

    Rodrigues, Pedro L.; Moreira, António H. J.; Teixeira-Castro, Andreia; Oliveira, João; Dias, Nuno; Rodrigues, Nuno F.; Vilaça, João L.

    2012-03-01

    In the last years, it has become increasingly clear that neurodegenerative diseases involve protein aggregation, a process often used as disease progression readout and to develop therapeutic strategies. This work presents an image processing tool to automatic segment, classify and quantify these aggregates and the whole 3D body of the nematode Caenorhabditis Elegans. A total of 150 data set images, containing different slices, were captured with a confocal microscope from animals of distinct genetic conditions. Because of the animals' transparency, most of the slices pixels appeared dark, hampering their body volume direct reconstruction. Therefore, for each data set, all slices were stacked in one single 2D image in order to determine a volume approximation. The gradient of this image was input to an anisotropic diffusion algorithm that uses the Tukey's biweight as edge-stopping function. The image histogram median of this outcome was used to dynamically determine a thresholding level, which allows the determination of a smoothed exterior contour of the worm and the medial axis of the worm body from thinning its skeleton. Based on this exterior contour diameter and the medial animal axis, random 3D points were then calculated to produce a volume mesh approximation. The protein aggregations were subsequently segmented based on an iso-value and blended with the resulting volume mesh. The results obtained were consistent with qualitative observations in literature, allowing non-biased, reliable and high throughput protein aggregates quantification. This may lead to a significant improvement on neurodegenerative diseases treatment planning and interventions prevention.

  8. Extracting molecular Hamiltonian structure from time-dependent fluorescence intensity data

    OpenAIRE

    Brif, Constantin; Rabitz, Herschel

    2000-01-01

    We propose a formalism for extracting molecular Hamiltonian structure from inversion of time-dependent fluorescence intensity data. The proposed method requires a minimum of \\emph{a priori} knowledge about the system and allows for extracting a complete set of information about the Hamiltonian for a pair of molecular electronic surfaces.

  9. An automatic procedure to extract galaxy clusters from CRoNaRio catalogues

    CERN Document Server

    Puddu, E; Longo, G; Paolillo, M; Scaramella, R; Testa, V; Gal, R R; De Carvalho, R R; Djorgovski, S G

    1999-01-01

    We present preliminary results of a simple peak finding algorithm applied to catalogues of galaxies, extracted from the Second Palomar Sky Survey in the framework of the CRoNaRio project. All previously known Abell and Zwicky clusters in a test region of 5x5 sq. deg. are recovered and new candidate clusters are also detected. This algorithm represents an alternative way of searching for galaxy clusters with respect to that implemented and tested at Caltech on the same type of data (Gal et al. 1998).

  10. Terrain-driven unstructured mesh development through semi-automatic vertical feature extraction

    Science.gov (United States)

    Bilskie, Matthew V.; Coggin, David; Hagen, Scott C.; Medeiros, Stephen C.

    2015-12-01

    A semi-automated vertical feature terrain extraction algorithm is described and applied to a two-dimensional, depth-integrated, shallow water equation inundation model. The extracted features describe what are commonly sub-mesh scale elevation details (ridge and valleys), which may be ignored in standard practice because adequate mesh resolution cannot be afforded. The extraction algorithm is semi-automated, requires minimal human intervention, and is reproducible. A lidar-derived digital elevation model (DEM) of coastal Mississippi and Alabama serves as the source data for the vertical feature extraction. Unstructured mesh nodes and element edges are aligned to the vertical features and an interpolation algorithm aimed at minimizing topographic elevation error assigns elevations to mesh nodes via the DEM. The end result is a mesh that accurately represents the bare earth surface as derived from lidar with element resolution in the floodplain ranging from 15 m to 200 m. To examine the influence of the inclusion of vertical features on overland flooding, two additional meshes were developed, one without crest elevations of the features and another with vertical features withheld. All three meshes were incorporated into a SWAN+ADCIRC model simulation of Hurricane Katrina. Each of the three models resulted in similar validation statistics when compared to observed time-series water levels at gages and post-storm collected high water marks. Simulated water level peaks yielded an R2 of 0.97 and upper and lower 95% confidence interval of ∼ ± 0.60 m. From the validation at the gages and HWM locations, it was not clear which of the three model experiments performed best in terms of accuracy. Examination of inundation extent among the three model results were compared to debris lines derived from NOAA post-event aerial imagery, and the mesh including vertical features showed higher accuracy. The comparison of model results to debris lines demonstrates that additional

  11. Automatic Building Extraction and Roof Reconstruction in 3k Imagery Based on Line Segments

    Science.gov (United States)

    Köhn, A.; Tian, J.; Kurz, F.

    2016-06-01

    We propose an image processing workflow to extract rectangular building footprints using georeferenced stereo-imagery and a derivative digital surface model (DSM) product. The approach applies a line segment detection procedure to the imagery and subsequently verifies identified line segments individually to create a footprint on the basis of the DSM. The footprint is further optimized by morphological filtering. Towards the realization of 3D models, we decompose the produced footprint and generate a 3D point cloud from DSM height information. By utilizing the robust RANSAC plane fitting algorithm, the roof structure can be correctly reconstructed. In an experimental part, the proposed approach has been performed on 3K aerial imagery.

  12. Automatic Target Recognition in Synthetic Aperture Sonar Images Based on Geometrical Feature Extraction

    Directory of Open Access Journals (Sweden)

    J. Del Rio Vera

    2009-01-01

    Full Text Available This paper presents a new supervised classification approach for automated target recognition (ATR in SAS images. The recognition procedure starts with a novel segmentation stage based on the Hilbert transform. A number of geometrical features are then extracted and used to classify observed objects against a previously compiled database of target and non-target features. The proposed approach has been tested on a set of 1528 simulated images created by the NURC SIGMAS sonar model, achieving up to 95% classification accuracy.

  13. Study of Automatic Extraction, Classification, and Ranking of Product Aspects Based on Sentiment Analysis of Reviews

    Directory of Open Access Journals (Sweden)

    Muhammad Rafi

    2015-10-01

    Full Text Available It is very common for a customer to read reviews about the product before making a final decision to buy it. Customers are always eager to get the best and the most objective information about the product theywish to purchase and reviews are the major source to obtain this information. Although reviews are easily accessible from the web, but since most of them carry ambiguous opinion and different structure, it is often very difficult for a customer to filter the information he actually needs. This paper suggests a framework, which provides a single user interface solution to this problem based on sentiment analysis of reviews. First, it extracts all the reviews from different websites carrying varying structure, and gathers information about relevant aspects of that product. Next, it does sentiment analysis around those aspects and gives them sentiment scores. Finally, it ranks all extracted aspects and clusters them into positive and negative class. The final output is a graphical visualization of all positive and negative aspects, which provide the customer easy, comparable, and visual information about the important aspects of the product. The experimental results on five different products carrying 5000 reviewsshow 78% accuracy. Moreover, the paper also explained the effect of Negation, Valence Shifter, and Diminisher with sentiment lexiconon sentiment analysis, andconcluded that they all are independent of the case problem , and have no effect on the accuracy of sentiment analysis.

  14. Design of automatic control system for the precipitation of bromelain from the extract of pineapple wastes

    Directory of Open Access Journals (Sweden)

    Flavio Vasconcelos da Silva

    2010-12-01

    Full Text Available In this work, bromelain was recovered from ground pineapple stem and rind by means of precipitation with alcohol at low temperature. Bromelain is the name of a group of powerful protein-digesting, or proteolytic, enzymes that are particularly useful for reducing muscle and tissue inflammation and as a digestive aid. Temperature control is crucial to avoid irreversible protein denaturation and consequently to improve the quality of the enzyme recovered. The process was carried out alternatively in two fed-batch pilot tanks: a glass tank and a stainless steel tank. Aliquots containing 100 mL of pineapple aqueous extract were fed into the tank. Inside the jacketed tank, the protein was exposed to unsteady operating conditions during the addition of the precipitating agent (ethanol 99.5% because the dilution ratio "aqueous extract to ethanol" and heat transfer area changed. The coolant flow rate was manipulated through a variable speed pump. Fine tuned conventional and adaptive PID controllers were on-line implemented using a fieldbus digital control system. The processing performance efficiency was enhanced and so was the quality (enzyme activity of the product.

  15. Histogram of Intensity Feature Extraction for Automatic Plastic Bottle Recycling System Using Machine Vision

    Directory of Open Access Journals (Sweden)

    Suzaimah Ramli

    2008-01-01

    Full Text Available Currently, many recycling activities adopt manual sorting for plastic recycling that relies on plant personnel who visually identify and pick plastic bottles as they travel along the conveyor belt. These bottles are then sorted into the respective containers. Manual sorting may not be a suitable option for recycling facilities of high throughput. It has also been noted that the high turnover among sorting line workers had caused difficulties in achieving consistency in the plastic separation process. As a result, an intelligent system for automated sorting is greatly needed to replace manual sorting system. The core components of machine vision for this intelligent sorting system is the image recognition and classification. In this research, the overall plastic bottle sorting system is described. Additionally, the feature extraction algorithm used is discussed in detail since it is the core component of the overall system that determines the success rate. The performance of the proposed feature extractions were evaluated in terms of classification accuracy and result obtained showed an accuracy of more than 80%.

  16. Automatic extraction of reference gene from literature in plants based on texting mining.

    Science.gov (United States)

    He, Lin; Shen, Gengyu; Li, Fei; Huang, Shuiqing

    2015-01-01

    Real-Time Quantitative Polymerase Chain Reaction (qRT-PCR) is widely used in biological research. It is a key to the availability of qRT-PCR experiment to select a stable reference gene. However, selecting an appropriate reference gene usually requires strict biological experiment for verification with high cost in the process of selection. Scientific literatures have accumulated a lot of achievements on the selection of reference gene. Therefore, mining reference genes under specific experiment environments from literatures can provide quite reliable reference genes for similar qRT-PCR experiments with the advantages of reliability, economic and efficiency. An auxiliary reference gene discovery method from literature is proposed in this paper which integrated machine learning, natural language processing and text mining approaches. The validity tests showed that this new method has a better precision and recall on the extraction of reference genes and their environments.

  17. EnvMine: A text-mining system for the automatic extraction of contextual information

    Directory of Open Access Journals (Sweden)

    de Lorenzo Victor

    2010-06-01

    Full Text Available Abstract Background For ecological studies, it is crucial to count on adequate descriptions of the environments and samples being studied. Such a description must be done in terms of their physicochemical characteristics, allowing a direct comparison between different environments that would be difficult to do otherwise. Also the characterization must include the precise geographical location, to make possible the study of geographical distributions and biogeographical patterns. Currently, there is no schema for annotating these environmental features, and these data have to be extracted from textual sources (published articles. So far, this had to be performed by manual inspection of the corresponding documents. To facilitate this task, we have developed EnvMine, a set of text-mining tools devoted to retrieve contextual information (physicochemical variables and geographical locations from textual sources of any kind. Results EnvMine is capable of retrieving the physicochemical variables cited in the text, by means of the accurate identification of their associated units of measurement. In this task, the system achieves a recall (percentage of items retrieved of 92% with less than 1% error. Also a Bayesian classifier was tested for distinguishing parts of the text describing environmental characteristics from others dealing with, for instance, experimental settings. Regarding the identification of geographical locations, the system takes advantage of existing databases such as GeoNames to achieve 86% recall with 92% precision. The identification of a location includes also the determination of its exact coordinates (latitude and longitude, thus allowing the calculation of distance between the individual locations. Conclusion EnvMine is a very efficient method for extracting contextual information from different text sources, like published articles or web pages. This tool can help in determining the precise location and physicochemical

  18. MOLECULAR IMPRINTED SOLID PHASE EXTRACTION FOR DETERMINATION OF ATRAZINE IN ENVIRONMENTAL SAMPLES

    Directory of Open Access Journals (Sweden)

    A. R. Koohpaei ، S. J. Shahtaheri ، M. R. Ganjali ، A. Rahimi Forushani

    2008-10-01

    Full Text Available Solid phase extraction is one of the major applications of molecularly imprinted polymers fields for clean-up of environmental and biological samples namely molecularly imprinted solid-phase extraction. In this study, solid phase extraction using the imprinted polymer has been optimized with the experimental design approach for a triazine herbicide, named atrazine with regard to the critical factors which influence the molecular imprinted solid phase extraction efficiency such as sample pH, concentration, flow-rate, volume, elution solvent, washing solvent and sorbent mass. Optimization methods that involve changing one factor at a time can be laborious. A novel approach for the optimization of imprinted solid-phase extraction using chemometrics is described. The factors were evaluated statistically and also validated with spiked water samples and showed a good reproducibility over six consecutive days as well as six within-day experiments. Also, in order to the evaluate efficiency of the optimized molecularly imprinted solid-phase extraction protocols, enrichment capacity, reusability and cross-reactivity of cartridges have been also evaluated. Finally, selective molecularly imprinted solid-phase extraction of atrazine was successfully demonstrated with a recovery above 90% for spiked drinking water samples. It was concluded that the chemometrics is frequently employed for analytical method optimization and based on the obtained results, it is believed that the central composite design could prove beneficial for aiding the molecularly imprinted polymer and molecularly imprinted solid-phase extraction development.

  19. A simple multi-scale Gaussian smoothing-based strategy for automatic chromatographic peak extraction.

    Science.gov (United States)

    Fu, Hai-Yan; Guo, Jun-Wei; Yu, Yong-Jie; Li, He-Dong; Cui, Hua-Peng; Liu, Ping-Ping; Wang, Bing; Wang, Sheng; Lu, Peng

    2016-06-24

    Peak detection is a critical step in chromatographic data analysis. In the present work, we developed a multi-scale Gaussian smoothing-based strategy for accurate peak extraction. The strategy consisted of three stages: background drift correction, peak detection, and peak filtration. Background drift correction was implemented using a moving window strategy. The new peak detection method is a variant of the system used by the well-known MassSpecWavelet, i.e., chromatographic peaks are found at local maximum values under various smoothing window scales. Therefore, peaks can be detected through the ridge lines of maximum values under these window scales, and signals that are monotonously increased/decreased around the peak position could be treated as part of the peak. Instrumental noise was estimated after peak elimination, and a peak filtration strategy was performed to remove peaks with signal-to-noise ratios smaller than 3. The performance of our method was evaluated using two complex datasets. These datasets include essential oil samples for quality control obtained from gas chromatography and tobacco plant samples for metabolic profiling analysis obtained from gas chromatography coupled with mass spectrometry. Results confirmed the reasonability of the developed method.

  20. Decrease in dynamic viscosity and average molecular weight of alginate from Laminaria digitata during alkaline extraction

    OpenAIRE

    Vauchel, Peggy; Arhaliass, Abdellah; Legrand, Jack; Kaas, Raymond; Baron, Regis

    2008-01-01

    Alginates are natural polysaccharides that are extracted from brown seaweeds and widely used for their rheological properties. The central step in the extraction protocol used in the alginate industry is the alkaline extraction, which requires several hours. In this study, a significant decrease in alginate dynamic viscosity was observed after 2 h of alkaline treatment. Intrinsic viscosity and average molecular weight of alginates from alkaline extractions 1-4 h in duration were determined, i...

  1. Comparison of sample preparation methods for reliable plutonium and neptunium urinalysis using automatic extraction chromatography.

    Science.gov (United States)

    Qiao, Jixin; Xu, Yihong; Hou, Xiaolin; Miró, Manuel

    2014-10-01

    This paper describes improvement and comparison of analytical methods for simultaneous determination of trace-level plutonium and neptunium in urine samples by inductively coupled plasma mass spectrometry (ICP-MS). Four sample pre-concentration techniques, including calcium phosphate, iron hydroxide and manganese dioxide co-precipitation and evaporation were compared and the applicability of different techniques was discussed in order to evaluate and establish the optimal method for in vivo radioassay program. The analytical results indicate that the various sample pre-concentration approaches afford dissimilar method performances and care should be taken for specific experimental parameters for improving chemical yields. The best analytical performances in terms of turnaround time (6h) and chemical yields for plutonium (88.7 ± 11.6%) and neptunium (94.2 ± 2.0%) were achieved by manganese dioxide co-precipitation. The need of drying ashing (≥ 7h) for calcium phosphate co-precipitation and long-term aging (5d) for iron hydroxide co-precipitation, respectively, rendered time-consuming analytical protocols. Despite the fact that evaporation is also somewhat time-consuming (1.5d), it endows urinalysis methods with better reliability and repeatability compared with co-precipitation techniques. In view of the applicability of different pre-concentration techniques proposed previously in the literature, the main challenge behind relevant method development is pointed to be the release of plutonium and neptunium associated with organic compounds in real urine assays. In this work, different protocols for decomposing organic matter in urine were investigated, of which potassium persulfate (K2S2O8) treatment provided the highest chemical yield of neptunium in the iron hydroxide co-precipitation step, yet, the occurrence of sulfur compounds in the processed sample deteriorated the analytical performance of the ensuing extraction chromatographic separation with chemical

  2. Linking attentional processes and conceptual problem solving: Visual cues facilitate the automaticity of extracting relevant information from diagrams

    Directory of Open Access Journals (Sweden)

    Amy eRouinfar

    2014-09-01

    Full Text Available This study investigated links between lower-level visual attention processes and higher-level problem solving. This was done by overlaying visual cues on conceptual physics problem diagrams to direct participants’ attention to relevant areas to facilitate problem solving. Participants (N = 80 individually worked through four problem sets, each containing a diagram, while their eye movements were recorded. Each diagram contained regions that were relevant to solving the problem correctly and separate regions related to common incorrect responses. Problem sets contained an initial problem, six isomorphic training problems, and a transfer problem. The cued condition saw visual cues overlaid on the training problems. Participants’ verbal responses were used to determine their accuracy. The study produced two major findings. First, short duration visual cues can improve problem solving performance on a variety of insight physics problems, including transfer problems not sharing the surface features of the training problems, but instead sharing the underlying solution path. Thus, visual cues can facilitate re-representing a problem and overcoming impasse, enabling a correct solution. Importantly, these cueing effects on problem solving did not involve the solvers’ attention necessarily embodying the solution to the problem. Instead, the cueing effects were caused by solvers attending to and integrating relevant information in the problems into a solution path. Second, these short duration visual cues when administered repeatedly over multiple training problems resulted in participants becoming more efficient at extracting the relevant information on the transfer problem, showing that such cues can improve the automaticity with which solvers extract relevant information from a problem. Both of these results converge on the conclusion that lower-order visual processes driven by attentional cues can influence higher-order cognitive processes

  3. Automatic detection of wheezes by evaluation of multiple acoustic feature extraction methods and C-weighted SVM

    Science.gov (United States)

    Sosa, Germán. D.; Cruz-Roa, Angel; González, Fabio A.

    2015-01-01

    This work addresses the problem of lung sound classification, in particular, the problem of distinguishing between wheeze and normal sounds. Wheezing sound detection is an important step to associate lung sounds with an abnormal state of the respiratory system, usually associated with tuberculosis or another chronic obstructive pulmonary diseases (COPD). The paper presents an approach for automatic lung sound classification, which uses different state-of-the-art sound features in combination with a C-weighted support vector machine (SVM) classifier that works better for unbalanced data. Feature extraction methods used here are commonly applied in speech recognition and related problems thanks to the fact that they capture the most informative spectral content from the original signals. The evaluated methods were: Fourier transform (FT), wavelet decomposition using Wavelet Packet Transform bank of filters (WPT) and Mel Frequency Cepstral Coefficients (MFCC). For comparison, we evaluated and contrasted the proposed approach against previous works using different combination of features and/or classifiers. The different methods were evaluated on a set of lung sounds including normal and wheezing sounds. A leave-two-out per-case cross-validation approach was used, which, in each fold, chooses as validation set a couple of cases, one including normal sounds and the other including wheezing sounds. Experimental results were reported in terms of traditional classification performance measures: sensitivity, specificity and balanced accuracy. Our best results using the suggested approach, C-weighted SVM and MFCC, achieve a 82.1% of balanced accuracy obtaining the best result for this problem until now. These results suggest that supervised classifiers based on kernel methods are able to learn better models for this challenging classification problem even using the same feature extraction methods.

  4. How does the preparation of rye porridge affect molecular weight distribution of extractable dietary fibers?

    Science.gov (United States)

    Rakha, Allah; Aman, Per; Andersson, Roger

    2011-01-01

    Extractable dietary fiber (DF) plays an important role in nutrition. This study on porridge making with whole grain rye investigated the effect of rest time of flour slurries at room temperature before cooking and amount of flour and salt in the recipe on the content of DF components and molecular weight distribution of extractable fructan, mixed linkage (1→3)(1→4)-β-d-glucan (β-glucan) and arabinoxylan (AX) in the porridge. The content of total DF was increased (from about 20% to 23% of dry matter) during porridge making due to formation of insoluble resistant starch. A small but significant increase in the extractability of β-glucan (P = 0.016) and AX (P = 0.002) due to rest time was also noted. The molecular weight of extractable fructan and AX remained stable during porridge making. However, incubation of the rye flour slurries at increased temperature resulted in a significant decrease in extractable AX molecular weight. The molecular weight of extractable β-glucan decreased greatly during a rest time before cooking, most likely by the action of endogenous enzymes. The amount of salt and flour used in the recipe had small but significant effects on the molecular weight of β-glucan. These results show that whole grain rye porridge made without a rest time before cooking contains extractable DF components maintaining high molecular weights. High molecular weight is most likely of nutritional importance.

  5. How Does the Preparation of Rye Porridge Affect Molecular Weight Distribution of Extractable Dietary Fibers?

    Directory of Open Access Journals (Sweden)

    Roger Andersson

    2011-05-01

    Full Text Available Extractable dietary fiber (DF plays an important role in nutrition. This study on porridge making with whole grain rye investigated the effect of rest time of flour slurries at room temperature before cooking and amount of flour and salt in the recipe on the content of DF components and molecular weight distribution of extractable fructan, mixed linkage (1→3(1→4-β-D-glucan (β-glucan and arabinoxylan (AX in the porridge. The content of total DF was increased (from about 20% to 23% of dry matter during porridge making due to formation of insoluble resistant starch. A small but significant increase in the extractability of β-glucan (P = 0.016 and AX (P = 0.002 due to rest time was also noted. The molecular weight of extractable fructan and AX remained stable during porridge making. However, incubation of the rye flour slurries at increased temperature resulted in a significant decrease in extractable AX molecular weight. The molecular weight of extractable β-glucan decreased greatly during a rest time before cooking, most likely by the action of endogenous enzymes. The amount of salt and flour used in the recipe had small but significant effects on the molecular weight of β-glucan. These results show that whole grain rye porridge made without a rest time before cooking contains extractable DF components maintaining high molecular weights. High molecular weight is most likely of nutritional importance.

  6. Identifying Structures in Social Conversations in NSCLC Patients through the Semi-Automatic extraction of Topical Taxonomies

    Directory of Open Access Journals (Sweden)

    Giancarlo Crocetti

    2016-01-01

    Full Text Available The exploration of social conversations for addressing patient’s needs is an important analytical task in which many scholarly publications are contributing to fill the knowledge gap in this area. The main difficulty remains the inability to turn such contributions into pragmatic processes the pharmaceutical industry can leverage in order to generate insight from social media data, which can be considered as one of the most challenging source of information available today due to its sheer volume and noise. This study is based on the work by Scott Spangler and Jeffrey Kreulen and applies it to identify structure in social media through the extraction of a topical taxonomy able to capture the latent knowledge in social conversations in health-related sites. The mechanism for automatically identifying and generating a taxonomy from social conversations is developed and pressured tested using public data from media sites focused on the needs of cancer patients and their families. Moreover, a novel method for generating the category’s label and the determination of an optimal number of categories is presented which extends Scott and Jeffrey’s research in a meaningful way. We assume the reader is familiar with taxonomies, what they are and how they are used.

  7. Semi-automatic extraction of lineaments from remote sensing data and the derivation of groundwater flow-paths

    Directory of Open Access Journals (Sweden)

    U. Mallast

    2011-01-01

    Full Text Available We describe a semi-automatic method to objectively and reproducibly extract lineaments based on the global one arc-second ASTER GDEM. The combined method of linear filtering and object-based classification ensures a high degree of accuracy resulting in a lineament map. Subsequently lineaments are differentiated into geological and morphological lineaments to assign a probable origin and hence a hydro-geological significance. In the western catchment area of the Dead Sea (Israel the orientation and location of the differentiated lineaments are compared to characteristics of known structural features. The authors demonstrate that a strong correlation between lineaments and structural features exist, being either influenced by the Syrian Arc paleostress field or the Dead Sea stress field or by both. Subsequently, we analyse the distances between lineaments and wells thereby creating an assessment criterion concerning the hydraulic significance of detected lineaments. Derived from this analysis the authors suggest that the statistic analysis of lineaments allows a delineation of flow-paths and thus significant information for groundwater analysis. We validate the flow-path delineation by comparison with existing groundwater model results based on well data.

  8. Comparison of manual and semi-automatic DNA extraction protocols for the barcoding characterization of hematophagous louse flies (Diptera: Hippoboscidae).

    Science.gov (United States)

    Gutiérrez-López, Rafael; Martínez-de la Puente, Josué; Gangoso, Laura; Soriguer, Ramón C; Figuerola, Jordi

    2015-06-01

    The barcoding of life initiative provides a universal molecular tool to distinguish animal species based on the amplification and sequencing of a fragment of the subunit 1 of the cytochrome oxidase (COI) gene. Obtaining good quality DNA for barcoding purposes is a limiting factor, especially in studies conducted on small-sized samples or those requiring the maintenance of the organism as a voucher. In this study, we compared the number of positive amplifications and the quality of the sequences obtained using DNA extraction methods that also differ in their economic costs and time requirements and we applied them for the genetic characterization of louse flies. Four DNA extraction methods were studied: chloroform/isoamyl alcohol, HotShot procedure, Qiagen DNeasy(®) Tissue and Blood Kit and DNA Kit Maxwell(®) 16LEV. All the louse flies were morphologically identified as Ornithophila gestroi and a single COI-based haplotype was identified. The number of positive amplifications did not differ significantly among DNA extraction procedures. However, the quality of the sequences was significantly lower for the case of the chloroform/isoamyl alcohol procedure with respect to the rest of methods tested here. These results may be useful for the genetic characterization of louse flies, leaving most of the remaining insect as a voucher.

  9. Semi-automatic template matching based extraction of hyperbolic signatures in ground-penetrating radar images

    Science.gov (United States)

    Sagnard, Florence; Tarel, Jean-Philippe

    2015-04-01

    In civil engineering applications, ground-penetrating radar (GPR) is one of the main non destructive technique based on the refraction and reflection of electromagnetic waves to probe the underground and particularly detect damages (cracks, delaminations, texture changes…) and buried objects (utilities, rebars…). An UWB ground-coupled radar operating in the frequency band [0.46;4] GHz and made of bowtie slot antennas has been used because, comparing to a air-launched radar, it increases energy transfer of electromagnetic radiation in the sub-surface and penetration depth. This paper proposes an original adaptation of the generic template matching algorithm to GPR images to recognize, localize and characterize with parameters a specific pattern associated with a hyperbola signature in the two main polarizations. The processing of a radargram (Bscan) is based on four main steps. The first step consists in pre-processing and scaling. The second step uses template matching to isolate and localize individual hyperbola signatures in an environment containing unwanted reflections, noise and overlapping signatures. The algorithm supposes to generate and collect a set of reference hyperbola templates made of a small reflection pattern in the vicinity of the apex in order to further analyze multiple time signals of embedded targets in an image. The standard Euclidian distance between the template shifted and a local zone in the radargram allows to obtain a map of distances. A user-defined threshold allows to select a reduced number of zones having a high similarity measure. In a third step, each zone is analyzed to detect minimum or maximum discrete amplitudes belonging to the first arrival times of a hyperbola signature. In the fourth step, the extracted discrete data (i,j) are fitted by a parametric hyperbola modeling based on the straight ray path hypothesis and using a constraint least square criterion associated with parameter ranges, that are the position, the

  10. EXTRACT

    DEFF Research Database (Denmark)

    Pafilis, Evangelos; Buttigieg, Pier Luigi; Ferrell, Barbra

    2016-01-01

    The microbial and molecular ecology research communities have made substantial progress on developing standards for annotating samples with environment metadata. However, sample manual annotation is a highly labor intensive process and requires familiarity with the terminologies used. We have the...... and text-mining-assisted curation revealed that EXTRACT speeds up annotation by 15-25% and helps curators to detect terms that would otherwise have been missed.Database URL: https://extract.hcmr.gr/....

  11. Automatic Short Essay Scoring Using Natural Language Processing to Extract Semantic Information in the Form of Propositions. CRESST Report 831

    Science.gov (United States)

    Kerr, Deirdre; Mousavi, Hamid; Iseli, Markus R.

    2013-01-01

    The Common Core assessments emphasize short essay constructed-response items over multiple-choice items because they are more precise measures of understanding. However, such items are too costly and time consuming to be used in national assessments unless a way to score them automatically can be found. Current automatic essay-scoring techniques…

  12. Determination of molecular weight and other characteristics of co- and terpolymers using automatic continuous online monitoring of polymerization reactions (ACOMP)

    Science.gov (United States)

    Enohnyaket, Pascal E. A.

    The Automatic Continuous Online Monitoring of Polymerization reactions (ACOMP), is a technique developed by the Reed Research Group at Tulane University. By simultaneously monitoring and combining signals from a continuously dilute reactor stream, detectors such as a multi-angle light scattering detector, near infra-red spectrometer, viscometer, differential refractive index, and a full wavelength UV/Visible detector were used in a model-independent fashion to follow the weight-average molecular weight, intrinsic viscosity, the concentrations of each comonomer, and hence the evolution of the average instantaneous and cumulative compositions along the chains as comonomers are consumed. The goal of this dissertation is to make the ACOMP system more useful in very complex polymerization situations by improving it with additional detectors and formalisms (such as a new expression for computing the molecular weight a copolymer of nth degree) and to exploit its robustness in situations where traditional routes fail or are of limited value. By providing a continuum of data, ACOMP allows polymer scientists to better understand and control new reaction schemes. At the pilot plant, it can be used to optimize reaction conditions. Because the ACOMP system is relatively cheap, user friendly, can be environmentally friendly, less bulky and very efficient, it is my desire to use ACOMP to solve some of the problems in the petroleum, plastic and drug manufacturing industries in Cameroon (and Africa).

  13. Automatic features recognition and extraction of digital shoe last model%鞋楦数字模型的特征识别与自动提取

    Institute of Scientific and Technical Information of China (English)

    胡小春; 翟亚磊; 周福静

    2011-01-01

    文章针对鞋楦特征参数化建模的需要,研究鞋楦数据模型的有关几何特征的自动提取;对于不同几何特征建立相应的自动提取的处理方法和算法,采用逐步小角度坐标旋转变换,实现鞋楦前跷高、后跟高、中轴线的自动提取;采用截平面法,实现三围线的自动提取;综合应用Matlab、C语言和Pro/E,实现鞋楦数字模型的特征识别与提取的自动化;最后实现自动提取如下鞋楦特征:前跷高、后跟高、中轴线、楦底轮廓及三围线.%To build a feature-based parametric model of shoe last, it is necessary to recognize and extract the geometrical features of shoe last automatically. Corresponding methods and algorithms are established to extract different geometrical features automatically. Successive small angle coordinate transformation is used to recognize and extract the toe-tip height, the heel height and the central curve of shoe last. Cutting plane method is used to extract the three contours of shoe last model. The whole process is executed with the Matlab, C language and Pro/E. Finally realized is the automatic recognition and extraction of features- toe-tip height, heel height, central curve, bottom outline and three contours of shoe last.

  14. Automatic Object-Oriented, Spectral-Spatial Feature Extraction Driven by Tobler’s First Law of Geography for Very High Resolution Aerial Imagery Classification

    Directory of Open Access Journals (Sweden)

    Zhiyong Lv

    2017-03-01

    Full Text Available Aerial image classification has become popular and has attracted extensive research efforts in recent decades. The main challenge lies in its very high spatial resolution but relatively insufficient spectral information. To this end, spatial-spectral feature extraction is a popular strategy for classification. However, parameter determination for that feature extraction is usually time-consuming and depends excessively on experience. In this paper, an automatic spatial feature extraction approach based on image raster and segmental vector data cross-analysis is proposed for the classification of very high spatial resolution (VHSR aerial imagery. First, multi-resolution segmentation is used to generate strongly homogeneous image objects and extract corresponding vectors. Then, to automatically explore the region of a ground target, two rules, which are derived from Tobler’s First Law of Geography (TFL and a topological relationship of vector data, are integrated to constrain the extension of a region around a central object. Third, the shape and size of the extended region are described. A final classification map is achieved through a supervised classifier using shape, size, and spectral features. Experiments on three real aerial images of VHSR (0.1 to 0.32 m are done to evaluate effectiveness and robustness of the proposed approach. Comparisons to state-of-the-art methods demonstrate the superiority of the proposed method in VHSR image classification.

  15. Optimisation of the synthesis of vancomycin-selective molecularly imprinted polymer nanoparticles using automatic photoreactor

    Science.gov (United States)

    Muzyka, Kateryna; Karim, Khalku; Guerreiro, Antonio; Poma, Alessandro; Piletsky, Sergey

    2014-03-01

    A novel optimized protocol for solid-state synthesis of molecularly imprinted polymer nanoparticles (nanoMIPs) with specificity for antibiotic vancomycin is described. The experimental objective was optimization of the synthesis parameters (factors) affecting the yield of obtained nanoparticles which have been synthesized using the first prototype of an automated solid-phase synthesizer. Applications of experimental design (or design of experiments) in optimization of nanoMIP yield were carried out using MODDE 9.0 software. The factors chosen in the model were the amount of functional monomers in the polymerization mixture, irradiation time, temperature during polymerization, and elution temperature. In general, it could be concluded that the irradiation time is the most important and the temperature was the least important factor which influences the yield of nanoparticles. Overall, the response surface methodology proved to be an effective tool in reducing time required for optimization of complex experimental conditions.

  16. DNA extraction from sea anemone (Cnidaria: Actiniaria tissues for molecular analyses

    Directory of Open Access Journals (Sweden)

    Pinto S.M.

    2000-01-01

    Full Text Available A specific DNA extraction method for sea anemones is described in which extraction of total DNA from eight species of sea anemones and one species of corallimorpharian was achieved by changing the standard extraction protocols. DNA extraction from sea anemone tissue is made more difficult both by the tissue consistency and the presence of symbiotic zooxanthellae. The technique described here is an efficient way to avoid problems of DNA contamination and obtain large amounts of purified and integral DNA which can be used in different kinds of molecular analyses.

  17. Molecular Techniques for Dicistrovirus Detection without RNA Extraction or Purification

    Directory of Open Access Journals (Sweden)

    Jailson F. B. Querido

    2013-01-01

    Full Text Available Dicistroviridae is a new family of small, nonenveloped, and +ssRNA viruses pathogenic to both beneficial arthropods and insect pests as well. Triatoma virus (TrV, a dicistrovirus, is a pathogen of Triatoma infestans (Hemiptera: Reduviidae, one of the main vectors of Chagas disease. In this work, we report a single-step method to identify TrV, a dicistrovirus, isolated from fecal samples of triatomines. The identification method proved to be quite sensitive, even without the extraction and purification of RNA virus.

  18. Integrated microfluidic system with automatic sampling for permanent molecular and antigen-based detection of CBRNE-related pathogens

    Science.gov (United States)

    Becker, Holger; Schattschneider, Sebastian; Klemm, Richard; Hlawatsch, Nadine; Gärtner, Claudia

    2015-03-01

    The continuous monitoring of the environment for lethal pathogens is a central task in the field of biothreat detection. Typical scenarios involve air-sampling in locations such as public transport systems or large public events and a subsequent analysis of the samples by a portable instrument. Lab-on-a-chip technologies are one of the promising technological candidates for such a system. We have developed an integrated microfluidic system with automatic sampling for the detection of CBRNE-related pathogens. The chip contains a two-pronged analysis strategy, on the one hand an immunological track using antibodies immobilized on a frit and a subsequent photometric detection, on the other hand a molecular biology approach using continuous-flow PCR with a fluorescence end-point detection. The cartridge contains two-component molded rotary valve to allow active fluid control and switching between channels. The accompanying instrument contains all elements for fluidic and valve actuation, thermal control, as well as the two detection modalities. Reagents are stored in dedicated reagent packs which are connected directly to the cartridge. With this system, we have been able to demonstrate the detection of a variety of pathogen species.

  19. Computer Domain Term Automatic Extraction and Hierarchical Structure Building%计算机领域术语的自动获取与层次构建

    Institute of Scientific and Technical Information of China (English)

    林源; 陈志泊; 孙俏

    2011-01-01

    This paper presents a computer domain term automatic extraction method based on roles and statistics.It uses computer book titles from Amazon.com website as corpus, data are preprocessed by words splitting, stop words and special characters filtering.Terms are extracted by a set of rules and frequency statistics and inserted into a word tree from ODP to build the hierarchical structure.Experimental results show high precision and recall of the automatically extracted results compared with manual tagged terms.%设计一种能够自动获取计算机领域术语的方案,提出基于规则与统计相结合的抽取方法,使用亚马逊网站的计算机类图书作为语料库,通过分词、去停止词预处理以及词频统计的方法提取出计算机类领域术语,并插入到由ODP构建的树中,形成计算机领域术语的层次结构.实验结果表明,与人工标注结果相比,使用该方法自动获取的术语有很高的准确率与召回率.

  20. Enzymatic treatment of specimens before DNA extraction directly influences molecular detection of infectious agents.

    Directory of Open Access Journals (Sweden)

    Pablo Goldschmidt

    Full Text Available INTRODUCTION: Biological samples, pharmaceuticals or food contain proteins, lipids, polymers, ammoniums and macromolecules that alter the detection of infectious agents by DNA amplification techniques (PCR. Moreover the targeted DNA has to be released from the complex cell walls and the compact nucleoprotein matrixes and cleared from potential inhibitors. The goal of the present work was to assess the efficiency of enzymatic pretreatments on infectious agents to make DNA available for further extraction and amplification. METHODS: Staphylococcus epidermidis, Streptococcus mitis, Propionibacterium acnes, Escherichia coli, Pseudomonas aeruginosa, Candida albicans, Aspergillus niger and Fusarium solani were mixed with an internal control virus and treated with: 1 proteinase K; 2 lyticase and 3 lyticase followed by proteinase K. DNAs was manually extracted using the QIAmp DNA Mini kit or the MagNA Pure Compact automate. DNA extraction yields and the inhibitors were assessed with a phocid Herpesvirus. Bacterial detection was performed using TaqMan real-time PCR and yeasts and filamentous Fungi with HRM (real-time PCR followed by high-resolution melting analysis. RESULTS: Viral DNA was released, extracted and detected using manual and automatic methods without pre enzymatic treatments. Either the manual or the automatic DNA extraction systems did not meet the sensitivity expectations if enzymatic treatments were not performed before: lyticase for Fungi and Proteinase K for Bacteria. The addition of lyticase and proteinase K did not improve results. For Fungi the detection after lyticase was higher than for Proteinase K, for which melting analysis did not allow fungal specification. DISCUSSION: Columns and magnetic beads allowed collecting DNA and separate PCR inhibitors. Detection rates cannot be related to DNA-avidity of beads or to elution but to the lack of proteolysis.

  1. Determination of melamine in aquaculture feed samples based on molecularly imprinted solid-phase extraction.

    Science.gov (United States)

    Lian, Ziru; Liang, Zhenlin; Wang, Jiangtao

    2015-10-01

    This research highlights the application of highly efficient molecularly imprinted solid-phase extraction for the preconcentration and analysis of melamine in aquaculture feed samples. Melamine-imprinted polymers were synthesized employing methacrylic acid and ethylene glycol dimethacrylate as functional monomer and cross-linker, respectively. The characteristics of obtained polymers were evaluated by scanning electron microscopy, Fourier transform infrared spectroscopy and binding experiments. The imprinted polymers showed an excellent adsorption ability for melamine and were applied as special solid-phase extraction sorbents for the selective cleanup of melamine. An off-line molecularly imprinted solid-phase extraction procedure was developed for the separation and enrichment of melamine from aquaculture feed samples prior to high-performance liquid chromatography analysis. Optimum molecularly imprinted solid-phase extraction conditions led to recoveries of the target in spiked feed samples in the range 84.6-96.6% and the relative standard deviation less than 3.38% (n = 3). The aquaculture feed sample was determined, and there was no melamine found. The results showed that the molecularly imprinted solid-phase extraction protocols permitted the sensitive, uncomplicated and inexpensive separation and pre-treatment of melamine in aquaculture feed samples.

  2. Selective Solid-phase Extraction of Aloe Emodin from Aloe by Molecularly Imprinted Polymers

    Institute of Scientific and Technical Information of China (English)

    TIAN Ming-lei; LEE Yu-ri; PARK Dong-wha; ROW Kyung-ho

    2013-01-01

    The extraction and separation of aloe emodin were optimized via selective molecularly imprinted solid-phase extraction.Molecularly imprinted polymer was prepared from the functional monomer,methacrylic acid and a mixture of ethanol/dodecanol(90/10,volume ratio) as porogen.It overcomes the common problems of imprinting biological polar compounds and shows high selectivity compared favorably with those of non-imprinted polymer and commercially available C18 and silica cartridges in similar aloe emodin tests.Good linearity was obtained between 0.002 and 2.5 mg/mL(r2=0.998) with relative standard deviations below 3.3%.

  3. Sequential injection system incorporating a micro extraction column for automatic fractionation of metal ions in solid samples

    DEFF Research Database (Denmark)

    Chomchoei, Roongrat; Miró, Manuel; Hansen, Elo Harald

    2005-01-01

    as to the kinetics of the leaching processes and chemical associations in different soil geological phases. Special attention is also paid to the potentials of the microcolumn flowing technique for automatic processing of solid materials with variable homogeneity, as demonstrated with the sewage amended CRM483 soil...

  4. A sensitive and selective molecularly imprinted sensor combined with magnetic molecularly imprinted solid phase extraction for determination of dibutyl phthalate.

    Science.gov (United States)

    Zhang, Zhaohui; Luo, Lijuan; Cai, Rong; Chen, Hongjun

    2013-11-15

    A highly sensitive and selective molecularly imprinted (MIP) sensor combined with magnetic molecularly imprinted solid phase extraction (MMISPE) was developed for the determination of dibutyl phthalate (DBP) in complex matrixes. The magnetic molecularly imprinted polymer (MMIP) was synthesized as solid phase extraction (SPE) sorbet to extract DBP from complex matrixes and as sensing element to improve the selectivity of the imprinted sensor. The morphologies of MMIP and MIP-sensor were characterized by using scanning electron microscope (SEM) and transmission electron microscopy (TEM). The electrochemical performances of MIP-sensor were investigated by cyclic voltammetry (CV) and differential pulse voltammetry (DPV). The conditions of preconcentration, elution and electrochemical determination were studied in detail. Under the optimized experimental conditions, the response currents of the MIP-sensor exhibited a linear relationship towards DBP concentrations ranging from 1.0 × 10(-8)g/L to 1.0 × 10(-3)g/L. The limit of detection of the MMIP-sensor coupled with the MMISPE was calculated as 0.052 ng/L. The MMIP-sensor coupled with the MMISPE was applied to detect DBP in complex samples successfully.

  5. Molecularly imprinted polymer microspheres for solid-phase extraction of protocatechuic acid in Rhizoma homalomenae.

    Science.gov (United States)

    Chen, Fang-Fang; Wang, Guo-Ying; Shi, Yan-Ping

    2011-10-01

    Molecularly imprinted polymers (MIPs) had been prepared by precipitation polymerization method using acrylamide as the functional monomer, ethylene glycol dimethacrylate as the cross-linker, acetonitrile as the porogen solvent and protocatechuic acid (PA), one of phenolic acids, as the template molecule. The MIPs were characterized by scanning electron microscopy and Fourier transform infrared, and their performance relative to non-imprinted polymers was assessed by equilibrium binding experiments. Six structurally similar phenolic acids, including p-hydroxybenzoic acid, gallic acid, salicylic acid, syringic acid, vanillic acid, ferulic acid were selected to assess the selectivity and recognition capability of the MIPs. The MIPs were applied to extract PA from the traditional Chinese medicines as a solid-phase extraction sorbent. The resultant cartridge showed that the MIPs have a good extraction performance and were able to selectively extract almost 82% of PA from the extract of Rhizoma homalomenae. Thus, the proposed molecularly imprinted-solid phase extraction-high performance liquid chromatography method can be successfully used to extract and analyse PA in traditional Chinese medicines.

  6. Unsupervised Threshold for Automatic Extraction of Dolphin Dorsal Fin Outlines from Digital Photographs in DARWIN (Digital Analysis and Recognition of Whale Images on a Network)

    CERN Document Server

    Hale, Scott A

    2012-01-01

    At least two software packages---DARWIN, Eckerd College, and FinScan, Texas A&M---exist to facilitate the identification of cetaceans---whales, dolphins, porpoises---based upon the naturally occurring features along the edges of their dorsal fins. Such identification is useful for biological studies of population, social interaction, migration, etc. The process whereby fin outlines are extracted in current fin-recognition software packages is manually intensive and represents a major user input bottleneck: it is both time consuming and visually fatiguing. This research aims to develop automated methods (employing unsupervised thresholding and morphological processing techniques) to extract cetacean dorsal fin outlines from digital photographs thereby reducing manual user input. Ideally, automatic outline generation will improve the overall user experience and improve the ability of the software to correctly identify cetaceans. Various transformations from color to gray space were examined to determine whi...

  7. Auto-OBSD: Automatic parameter selection for reliable Oscillatory Behavior-based Signal Decomposition with an application to bearing fault signature extraction

    Science.gov (United States)

    Huang, Huan; Baddour, Natalie; Liang, Ming

    2017-03-01

    Bearing signals are often contaminated by in-band interferences and random noise. Oscillatory Behavior-based Signal Decomposition (OBSD) is a new technique which decomposes a signal according to its oscillatory behavior, rather than frequency or scale. Due to the low oscillatory transients of bearing fault-induced signals, the OBSD can be used to effectively extract bearing fault signatures from a blurred signal. However, the quality of the result highly relies on the selection of method-related parameters. Such parameters are often subjectively selected and a systematic approach has not been reported in the literature. As such, this paper proposes a systematic approach to automatic selection of OBSD parameters for reliable extraction of bearing fault signatures. The OBSD utilizes the idea of Morphological Component Analysis (MCA) that optimally projects the original signal to low oscillatory wavelets and high oscillatory wavelets established via the Tunable Q-factor Wavelet Transform (TQWT). In this paper, the effects of the selection of each parameter on the performance of the OBSD for bearing fault signature extraction are investigated. It is found that some method-related parameters can be fixed at certain values due to the nature of bearing fault-induced impulses. To adaptively tune the remaining parameters, index-guided parameter selection algorithms are proposed. A Convergence Index (CI) is proposed and a CI-guided self-tuning algorithm is developed to tune the convergence-related parameters, namely, penalty factor and number of iterations. Furthermore, a Smoothness Index (SI) is employed to measure the effectiveness of the extracted low oscillatory component (i.e. bearing fault signature). It is shown that a minimum SI implies an optimal result with respect to the adjustment of relevant parameters. Thus, two SI-guided automatic parameter selection algorithms are also developed to specify two other parameters, i.e., Q-factor of high-oscillatory wavelets and

  8. DNA extraction methods and multiple sampling to improve molecular diagnosis of Sarcocystis spp. in cattle hearts.

    Science.gov (United States)

    Bräunig, Patrícia; Portella, Luiza Pires; Cezar, Alfredo Skrebsky; Libardoni, Felipe; Sangioni, Luis Antonio; Vogel, Fernanda Silveira Flores; Gonçalves, Paulo Bayard Dias

    2016-10-01

    Molecular detection of Sarcocystis spp. in tissue samples can be useful for experimental and diagnostic purposes. However, the parasite spreads unevenly through tissues, forming tissue cysts, and the cystic wall is an obstacle in DNA extraction protocols. Therefore, adequate sampling and effective disruption of the cysts are essential to improve the accuracy of DNA detection by PCR. The aims of this study were to evaluate the suitability of four protocols for DNA extraction from cysts of Sarcocystis spp. present in bovine myocardium samples or after their harvest in phosphate-buffered saline (PBS) solution as well as determine the effects of single or multiple sampling on the accuracy of molecular diagnosis of sarcocystosis in cattle hearts. Cysts and myocardium samples from nine bovine hearts were randomly distributed to four DNA extraction protocols: kit, kit with modification, DNAzol, and cetyl-trimethyl ammonium bromide (CTAB). Samples were submitted to DNA extraction and PCR as replicates of each heart (simplicate, duplicate, and triplicate), and the probability of a true positive diagnostic was calculated. Among the protocols tested, the kit with modification was determined to be the most suitable for DNA extraction from cysts in PBS solution (92.6 % of DNA detection by PCR); DNAzol resulted in higher DNA detection frequency from bovine myocardium samples (48.1 %). Multiple sampling improved the molecular diagnosis of Sarcocystis spp. infection in cattle hearts, increasing at 22.2 % the rate of true positive diagnostic.

  9. Automated extraction improves multiplex molecular detection of infection in septic patients.

    Directory of Open Access Journals (Sweden)

    Benito J Regueiro

    Full Text Available Sepsis is one of the leading causes of morbidity and mortality in hospitalized patients worldwide. Molecular technologies for rapid detection of microorganisms in patients with sepsis have only recently become available. LightCycler SeptiFast test M(grade (Roche Diagnostics GmbH is a multiplex PCR analysis able to detect DNA of the 25 most frequent pathogens in bloodstream infections. The time and labor saved while avoiding excessive laboratory manipulation is the rationale for selecting the automated MagNA Pure compact nucleic acid isolation kit-I (Roche Applied Science, GmbH as an alternative to conventional SeptiFast extraction. For the purposes of this study, we evaluate extraction in order to demonstrate the feasibility of automation. Finally, a prospective observational study was done using 106 clinical samples obtained from 76 patients in our ICU. Both extraction methods were used in parallel to test the samples. When molecular detection test results using both manual and automated extraction were compared with the data from blood cultures obtained at the same time, the results show that SeptiFast with the alternative MagNA Pure compact extraction not only shortens the complete workflow to 3.57 hrs., but also increases sensitivity of the molecular assay for detecting infection as defined by positive blood culture confirmation.

  10. Molecular and rheological characterization of carrageenan solutions extracted from Kappaphycus alvarezii.

    Science.gov (United States)

    Webber, Vanessa; de Carvalho, Sabrina Matos; Barreto, Pedro Luiz Manique

    2012-11-06

    This study evaluates and relates the molecular and rheological characteristics of native carrageenan obtained from Kappaphycus alvarezii seaweed. Native carrageenan was extracted by a differentiated methodology by atomization drying process, which reduces the time for obtaining carrageenan dry powder and minimizes costs and environmental damages. Rheological properties of native carrageenan were compared with a commercial carrageenan grade. Molecular properties were performed by SAXS and GPC analysis and the rheological properties by DMTA and stress relaxation tests. Molecular analysis proved a folded and compact molecular structure and indicated the presence of chains with different molecular weights for native carrageenan. The results obtained showed that the helix-coil transition occurs at temperature about 50 °C. The native and commercial grade carrageenan presented the characteristic of viscoelastic materials and their gel properties show a higher contribution from solid elastic component, and the initial force (F(0)) was higher in commercial carrageenan than native one.

  11. Molecular dynamics simulations of the interactions of medicinal plant extracts and drugs with lipid bilayer membranes

    DEFF Research Database (Denmark)

    Kopec, Wojciech; Telenius, Jelena; Khandelia, Himanshu

    2013-01-01

    Several small drugs and medicinal plant extracts, such as the Indian spice extract curcumin, have a wide range of useful pharmacological properties that cannot be ascribed to binding to a single protein target alone. The lipid bilayer membrane is thought to mediate the effects of many...... studies of the interactions of drugs and plant extracts are therefore of interest. Molecular dynamics simulations, which can access time and length scales that are not simultaneously accessible by other experimental methods, are often used to obtain quantitative molecular and thermodynamic descriptions...... such molecules directly via perturbation of the plasma membrane structure and dynamics, or indirectly by modulating transmembrane protein conformational equilibria. Furthermore, for bioavailability, drugs must interact with and eventually permeate the lipid bilayer barrier on the surface of cells. Biophysical...

  12. Automatic Knowledge Extraction from Chinese Natural Language Documents%面向中文自然语言文档的自动知识抽取方法

    Institute of Scientific and Technical Information of China (English)

    车海燕; 冯铁; 张家晨; 陈伟; 李大利

    2013-01-01

    自动知识抽取方法可以自动识别并抽取Web文档中与本体匹配的事实知识.利用这些事实知识既可以构建基于知识的服务,也能够为语义Web的实现提供必要的语义数据.但面向自然语言特别是中文自然语言的自动知识抽取非常困难.提出了基于语义Web理论和中文自然语言处理(naturallanguage processing,NLP)技术的自动知识抽取新方法AKE,用聚集体知识概念刻画N元关系知识,能够在不使用大规模语言知识库和同义词表的情况下自动识别中文自然语言文档内容中显式和隐含的简单事实知识和N元关系复杂事实知识.实验结果表明该方法优于目前已知的其他方法.%Automatic knowledge extraction method can recognize and extract the factual knowledge on matching the ontology from the Web documents automatically. These factual knowledge can not only be used to implement knowledge-based services but also provide necessary semantic content to enable the realization of the vision of Semantic Web. However, it is very difficult to deal with the natural language documents, especially the Chinese natural language documents. This paper proposes a new knowledge extraction method (AKE) based on Semantic Web theory and Chinese natural language processing (NLP) technologies. This method uses aggregated knowledge concept to depict N-ary relation knowledge in ontology and can automatically extract not only the explicit but also the implicit simple and N-ary complex factual knowledge from Chinese natural language documents without using the large scale linguistics databases and synonym table. Experimental results show that this method is better than other similar methods.

  13. Molecular events underlying maggot extract promoted rat in vivo and human in vitro skin wound healing.

    Science.gov (United States)

    Li, Pei-Nan; Li, Hong; Zhong, Li-Xia; Sun, Yuan; Yu, Li-Jun; Wu, Mo-Li; Zhang, Lin-Lin; Kong, Qing-You; Wang, Shou-Yu; Lv, De-Cheng

    2015-01-01

    Maggot extracts promote wound healing, but their bioactive part(s) and molecular effects on the regenerating tissues/cells remain largely unclear. These issues are addressed here by treating rat skin wounds, human keratinocyte line/HaCat and fibroblasts with maggot secretion/excretion, and the extracts of maggots without and with secretion/excretion. The wound closure rates, cell proliferation activities, and statuses of wound healing-related signaling pathways (STAT3, Notch1, Wnt2, NF-κB, and TGF-beta/Smad3) and their downstream gene expression (c-Myc, cyclin D1, and VEGF) are evaluated by multiple approaches. The results reveal that the maggot extracts, especially the one from the maggots without secretion/excretion, show the best wound healing-promoting effects in terms of quicker wound closure rates and more rapid growth of keratinocytes and fibroblasts. Of the five signaling pathways checked, the ones mediated by TGF-beta/Smad3, and STAT3 are activated in the untreated wounds and become further enhanced by the maggot extracts, accompanied with c-Myc, VEGF, and cyclin D1 up-regulation. Our results thus show (1) that both body extract and secretion/excretion of maggots contain favorable wound healing elements and (2) that the enhancement of TGF-beta/Smad3 and STAT3 signaling activities may be the main molecular effects of maggot extracts on the wound tissues.

  14. A method for automatic extraction of key fames%一种关键帧的自动提取方法

    Institute of Scientific and Technical Information of China (English)

    刘善磊; 赵银娣; 王光辉; 李英成; 薛艳丽; 李建军

    2012-01-01

    In the paper, first, two main lens distortions and camera calibration were introduced* Then the formula of key frames forward overlap was developed within intrinsic parameters of the camera and video frame rate. Then key frames were automatically extracted from the file or real time source. Automatic extraction of timing from real time source was processed and key frame positioning method was used for extracting key frames from file source. Finally key frames were corrected with the calibration parameters. Real data was used to test the developed method, and results showed that the technique was efficient and exact*%本文首先介绍了2种主要透镜畸变及摄像机标定方法;然后结合摄像机内部参数和视频帧率推导出关键帧航向重叠度计算公式;在此基础上实现了指定航向重叠度关键帧从文件源或实时源中的自动提取,文件源中采用定位关键帧自动提取算法,实时源中采用定时自动提取算法;最后利用得到的标定参数完成关键帧影像矫正.实验结果表明本文采用的算法能够高效、准确地得到矫正好的指定航向重叠度关键帧.

  15. Ion-exchange molecularly imprinted polymer for the extraction of negatively charged acesulfame from wastewater samples.

    Science.gov (United States)

    Zarejousheghani, Mashaalah; Schrader, Steffi; Möder, Monika; Lorenz, Pierre; Borsdorf, Helko

    2015-09-11

    Acesulfame is a known indicator that is used to identify the introduction of domestic wastewater into water systems. It is negatively charged and highly water-soluble at environmental pH values. In this study, a molecularly imprinted polymer (MIP) was synthesized for negatively charged acesulfame and successfully applied for the selective solid phase extraction (SPE) of acesulfame from influent and effluent wastewater samples. (Vinylbenzyl)trimethylammonium chloride (VBTA) was used as a novel phase transfer reagent, which enhanced the solubility of negatively charged acesulfame in the organic solvent (porogen) and served as a functional monomer in MIP synthesis. Different molecularly imprinted polymers were synthesized to optimize the extraction capability of acesulfame. The different materials were evaluated using equilibrium rebinding experiments, selectivity experiments and scanning electron microscopy (SEM). The most efficient MIP was used in a molecularly imprinted-solid phase extraction (MISPE) protocol to extract acesulfame from wastewater samples. Using high-performance liquid chromatography-tandem mass spectrometry (HPLC-MS-MS) analysis, detection and quantification limits were achieved at 0.12μgL(-1) and 0.35μgL(-1), respectively. Certain cross selectivity for the chemical compounds containing negatively charged sulfonamide functional group was observed during selectivity experiments.

  16. Novel biphasic separations utilising highly selective molecularly imprinted polymers as biorecognition solvent extraction agents.

    Science.gov (United States)

    Castell, Oliver K; Allender, Christopher J; Barrow, David A

    2006-10-15

    Molecularly imprinted polymers (MIPs) represent a class of artificial receptors that promise an environmentally robust alternative to naturally occurring biorecognition elements of biosensing devices and systems. However, in general, the performance of conventional MIPs in aqueous environments is poor. In the study reported here, this limitation has been addressed by the novel application of MIPs as a solvent extraction solid phase in a biphasic solvent system. This paper describes a previously unreported use of MIPs as solvent extraction reagents, their successful application to aqueous sample media and the opportunities for utilisation of this unique system in novel biosensing and separation procedures. This study demonstrates the development of a novel biphasic solvent system utilising MIP in the extracting phase to enhance both efficiency and selectivity of a simple two phase liquid extraction. Monodisperse propranolol imprinted polymer microspheres [p(divinylbenzene-co-methacrylic acid)] were prepared by precipitation polymerisation. Initially, the affinity of the polymers for (R,S)-propranolol was assessed by established techniques whereby the MIP demonstrated greater affinity for the template than did the non-imprinted control polymer (NIP). Importantly, MIP performance was also assessed using the novel dual solvent system. The depletion of (R,S)-propranolol from the aqueous phase into the polymer containing organic phase was determined. When compared to control extractions containing no polymer the presence of MIP in the extracting solvent phase resulted in an increased extraction of (R,S)-propranolol from the aqueous phase. Importantly, this extraction was significantly greater in the presence of MIP when compared to NIP. This unique principle generates opportunities for MIP based extractions and chemical enrichments in industrial applications, offering commercial, ecological and practical advantages to traditional solvent extraction techniques. The

  17. The molecular mechanisms of Curcuma Wenyujin extract-mediated inhibitory effects on human esophageal carcinoma cells in Vitro

    Institute of Scientific and Technical Information of China (English)

    景钊

    2012-01-01

    Objective To study the molecular mechanisms of Curcuma Wenyujin extract-mediated inhibitory effects on human esophageal carcinoma cells. Methods The Curcuma Wenyujin extract was obtained by supercritical carbon dioxide extraction. TE-1 cells were divided into 4 groups after adherence.

  18. Biochemical and molecular evidences for the antitumor potential of Ginkgo biloba leaves extract in rodents.

    Science.gov (United States)

    Ahmed, Hanaa H; Shousha, Wafaa Gh; El-Mezayen, Hatem A; El-Toumy, Sayed A; Sayed, Alaa H; Ramadan, Aesha R

    2016-10-14

    Hepatocellular carcinoma (HCC) is one of the deadliest primary cancers, with a 5-year survival rate of 10% or less. This study was undertaken to elucidate the underlying biochemical and molecular mechanisms in favor of N-nitrosodiethylamine-induced hepatocellular carcinoma. Furthermore, the aim of this work was extended to explore the efficacy of Ginkgo biloba leaves extract in deterioration of HCC in rats. In the current study, HCC group experienced significant downregulation of ING-3 gene expression and upregulation of Foxp-1 gene expression in liver. Treatment of HCC groups with Ginkgo biloba leaves extract resulted in upregulation of ING-3 and downregulation of Foxp-1 gene expression in liver. In addition, there was significant increase in serum alpha-fetoprotein (AFP), carcinoembryonic antigen (CEA) and glypican-3 (GPC-3) levels in HCC group versus the negative control group. In contrast, the groups with HCC subjected to either high or low dose of Ginkgo biloba leaves extract elicited significant reduction (P Ginkgo biloba leaves extract elicited marked improvement in the histological feature of liver tissue in HCC groups. In conclusion, this research indicated that the carcinogenic potency of N-nitrosodiethylamine targeted multiple systems on the cellular and molecular levels. In addition, the results of the current study shed light on the promising anticancer activity of Ginkgo biloba leaves extract in treatment of hepatocellular carcinoma induced chemically in the experimental model through its apoptotic and antiproliferative properties.

  19. Fluidized-bed column method for automatic dynamic extraction and determination of trace element bioaccessibility in highly heterogeneous solid wastes.

    Science.gov (United States)

    Rosende, María; Miró, Manuel; Cerdà, Víctor

    2010-01-18

    Dynamic flow-through extraction/fractionation methods have recently drawn much attention as appealing alternatives to the batchwise steady-state counterparts for the evaluation of environmentally available pools of potentially hazardous trace elements in solid matrices. The most critical weakness of flow-based column approaches lies in the small amount of solid that can be handled, whereby their applicability has been merely limited to date to the extraction of trace elements in highly homogeneous solid substrates; otherwise the representativeness of the test portion might not be assured. To tackle this limitation, we have devised an automated flow-through system incorporating a specially designed extraction column with a large volume capacity, wherein up to 2 g of solid sample could be handled without undue backpressure. The assembled flow setup was exploited for fast screening of potentially hazardous trace elements (namely, Cd, Cr, Cu, Pb, and Zn) in highly inhomogeneous municipal solid waste incineration (MSWI) bottom ashes. The pools of readily mobilizable metal forms were ascertained using the Toxicity Characteristic Leaching Procedure (TCLP) based on the usage of 0.1 mol L(-1) CH(3)COOH as leachant and analysis of extracts by inductively coupled optical emission spectrometry. The application of a two-level full factorial (screening) design revealed that the effect of sample fluidization primarily but other experimental factors such as the solid to liquid ratio and extractant flow rate significantly influenced the leachability of given elements in raw bottom ashes at the 0.05 significance level. The analytical performance of the novel flow-based method capitalized on fluidized-bed extraction was evaluated in terms of accuracy, through the use of mass balance validation, reproducibility and operational time as compared to batchwise extraction and earlier flow injection/sequential injection microcolum-based leaching tests.

  20. Quantify Water Extraction by TBP/Dodecane via Molecular Dynamics Simulations

    Energy Technology Data Exchange (ETDEWEB)

    Khomami, Bamin [Univ. of Tennessee, Knoxville, TN (United States); Cui, Shengting [Univ. of Tennessee, Knoxville, TN (United States); de Almeida, Valmor F. [Oak Ridge National Lab., Oak Ridge, TN (United States); Felker, Kevin [Oak Ridge National Lab., Oak Ridge, TN (United States)

    2013-05-16

    The purpose of this project is to quantify the interfacial transport of water into the most prevalent nuclear reprocessing solvent extractant mixture, namely tri-butyl- phosphate (TBP) and dodecane, via massively parallel molecular dynamics simulations on the most powerful machines available for open research. Specifically, we will accomplish this objective by evolving the water/TBP/dodecane system up to 1 ms elapsed time, and validate the simulation results by direct comparison with experimentally measured water solubility in the organic phase. The significance of this effort is to demonstrate for the first time that the combination of emerging simulation tools and state-of-the-art supercomputers can provide quantitative information on par to experimental measurements for solvent extraction systems of relevance to the nuclear fuel cycle. Results: Initially, the isolated single component, and single phase systems were studied followed by the two-phase, multicomponent counterpart. Specifically, the systems we studied were: pure TBP; pure n-dodecane; TBP/n-dodecane mixture; and the complete extraction system: water-TBP/n-dodecane two phase system to gain deep insight into the water extraction process. We have completely achieved our goal of simulating the molecular extraction of water molecules into the TBP/n-dodecane mixture up to the saturation point, and obtained favorable comparison with experimental data. Many insights into fundamental molecular level processes and physics were obtained from the process. Most importantly, we found that the dipole moment of the extracting agent is crucially important in affecting the interface roughness and the extraction rate of water molecules into the organic phase. In addition, we have identified shortcomings in the existing OPLS-AA force field potential for long-chain alkanes. The significance of this force field is that it is supposed to be optimized for molecular liquid simulations. We found that it failed for dodecane and

  1. Preparation of a novel molecularly imprinted polymer for the highly selective extraction of baicalin.

    Science.gov (United States)

    Liu, Xiao; Zhang, Wenpeng; Chen, Zilin

    2015-12-01

    The selective extraction of baicalin is important to its quality control especially when the matrices are complicated. In this work, a novel molecularly imprinted polymer was prepared for the selective extraction of baicalin in herbs. The molecularly imprinted polymer was synthesized by the copolymerization of 4-vinyl pyridine and ethylene glycol dimethacrylate in the presence of baicalin by a precipitation polymerization method. After the optimization of parameters for molecularly imprinted polymer preparation, including the functional monomer, porogen, sampling solvent, and washing solvent, good selectivity was obtained, with an imprinting factor of about 4, which is much better than that achieved by the bulk-polymerization method. The performances of the prepared molecularly imprinted polymers were systematically investigated, including adsorption kinetics, isotherm experiment, and Scatchard analysis. On the basis of the good adsorptive capability of the prepared molecularly imprinted polymer, it was also applied for the pretreatment of baicalin in Scutellaria baicalensis Georgi. The result showed that most of the matrices were removed and baicalin was selectively enriched.

  2. Automatic extraction of nanoparticle properties using natural language processing: NanoSifter an application to acquire PAMAM dendrimer properties.

    Science.gov (United States)

    Jones, David E; Igo, Sean; Hurdle, John; Facelli, Julio C

    2014-01-01

    In this study, we demonstrate the use of natural language processing methods to extract, from nanomedicine literature, numeric values of biomedical property terms of poly(amidoamine) dendrimers. We have developed a method for extracting these values for properties taken from the NanoParticle Ontology, using the General Architecture for Text Engineering and a Nearly-New Information Extraction System. We also created a method for associating the identified numeric values with their corresponding dendrimer properties, called NanoSifter. We demonstrate that our system can correctly extract numeric values of dendrimer properties reported in the cancer treatment literature with high recall, precision, and f-measure. The micro-averaged recall was 0.99, precision was 0.84, and f-measure was 0.91. Similarly, the macro-averaged recall was 0.99, precision was 0.87, and f-measure was 0.92. To our knowledge, these results are the first application of text mining to extract and associate dendrimer property terms and their corresponding numeric values.

  3. NLP techniques associated with the OpenGALEN ontology for semi-automatic textual extraction of medical knowledge: abstracting and mapping equivalent linguistic and logical constructs.

    Science.gov (United States)

    do Amaral, M B; Roberts, A; Rector, A L

    2000-01-01

    This research project presents methodological and theoretical issues related to the inter-relationship between linguistic and conceptual semantics, analysing the results obtained by the application of a NLP parser to a set of radiology reports. Our objective is to define a technique for associating linguistic methods with domain specific ontologies for semi-automatic extraction of intermediate representation (IR) information formats and medical ontological knowledge from clinical texts. We have applied the Edinburgh LTG natural language parser to 2810 clinical narratives describing radiology procedures. In a second step, we have used medical expertise and ontology formalism for identification of semantic structures and abstraction of IR schemas related to the processed texts. These IR schemas are an association of linguistic and conceptual knowledge, based on their semantic contents. This methodology aims to contribute to the elaboration of models relating linguistic and logical constructs based on empirical data analysis. Advance in this field might lead to the development of computational techniques for automatic enrichment of medical ontologies from real clinical environments, using descriptive knowledge implicit in large text corpora sources.

  4. Automated Protein Biomarker Analysis: on-line extraction of clinical samples by Molecularly Imprinted Polymers

    Science.gov (United States)

    Rossetti, Cecilia; Świtnicka-Plak, Magdalena A.; Grønhaug Halvorsen, Trine; Cormack, Peter A.G.; Sellergren, Börje; Reubsaet, Léon

    2017-01-01

    Robust biomarker quantification is essential for the accurate diagnosis of diseases and is of great value in cancer management. In this paper, an innovative diagnostic platform is presented which provides automated molecularly imprinted solid-phase extraction (MISPE) followed by liquid chromatography-mass spectrometry (LC-MS) for biomarker determination using ProGastrin Releasing Peptide (ProGRP), a highly sensitive biomarker for Small Cell Lung Cancer, as a model. Molecularly imprinted polymer microspheres were synthesized by precipitation polymerization and analytical optimization of the most promising material led to the development of an automated quantification method for ProGRP. The method enabled analysis of patient serum samples with elevated ProGRP levels. Particularly low sample volumes were permitted using the automated extraction within a method which was time-efficient, thereby demonstrating the potential of such a strategy in a clinical setting. PMID:28303910

  5. Automated Protein Biomarker Analysis: on-line extraction of clinical samples by Molecularly Imprinted Polymers

    Science.gov (United States)

    Rossetti, Cecilia; Świtnicka-Plak, Magdalena A.; Grønhaug Halvorsen, Trine; Cormack, Peter A. G.; Sellergren, Börje; Reubsaet, Léon

    2017-03-01

    Robust biomarker quantification is essential for the accurate diagnosis of diseases and is of great value in cancer management. In this paper, an innovative diagnostic platform is presented which provides automated molecularly imprinted solid-phase extraction (MISPE) followed by liquid chromatography-mass spectrometry (LC-MS) for biomarker determination using ProGastrin Releasing Peptide (ProGRP), a highly sensitive biomarker for Small Cell Lung Cancer, as a model. Molecularly imprinted polymer microspheres were synthesized by precipitation polymerization and analytical optimization of the most promising material led to the development of an automated quantification method for ProGRP. The method enabled analysis of patient serum samples with elevated ProGRP levels. Particularly low sample volumes were permitted using the automated extraction within a method which was time-efficient, thereby demonstrating the potential of such a strategy in a clinical setting.

  6. Molecular Characteristics of Kraft-AQ Pulping Lignin Fractionated by Sequential Organic Solvent Extraction

    Directory of Open Access Journals (Sweden)

    Kun Wang

    2010-08-01

    Full Text Available Kraft-AQ pulping lignin was sequentially fractionated by organic solvent extractions and the molecular properties of each fraction were characterized by chemical degradation, GPC, UV, FT-IR, 13C-NMR and thermal analysis. The average molecular weight and polydispersity of each lignin fraction increased with its hydrogen-bonding capacity (Hildebrand solubility parameter. In addition, the ratio of the non-condensed guaiacyl/syringyl units and the content of β-O-4 linkages increased with the increment of the lignin fractions extracted successively with hexane, diethylether, methylene chloride, methanol, and dioxane. Furthermore, the presence of the condensation reaction products was contributed to the higher thermal stability of the larger molecules.

  7. A New Molecularly Imprinted Polymer for Solid-phase Extraction of Cotinine from Human Urine

    Institute of Scientific and Technical Information of China (English)

    Jun YANG; Xiao Lan ZHU; Ji Bao CAI; Qing De SU; Yun GAO; Liang ZHANG

    2005-01-01

    A molecularly imprinted polymer (MIP), prepared around a cotinine template, has been synthesized. The feasibility of using the polymer for solid-phase extraction (SPE) of cotinine from biological samples has been investigated. The results show that cotinine can be quantitatively retained and eluted from the polymer. Experiments with human urine samples indicate that clean target analyte is obtained for HPLC with UV detection using the protocol.

  8. Preconcentration of indapamide from human urine using molecularly imprinted solid-phase extraction.

    Science.gov (United States)

    Yılmaz, Hüma; Basan, Hasan

    2015-09-01

    A simple, sensitive, and selective molecularly imprinted solid-phase extraction and spectrophotometric method has been developed for the clean-up and preconcentration of indapamide from human urine. Molecularly imprinted polymers were prepared by a non-covalent imprinting approach using indapamide as a template molecule, 2-(trifluoromethyl) acrylic acid as a functional monomer, ethylene glycol dimethacrylate as a crosslinker, N,N-azobisisobutyronitrile as a thermal initiator and acetonitrile as a porogenic solvent. A non-imprinted polymer was also prepared in the same way, but in the absence of template. Molecularly imprinted polymer and non-imprinted polymer sorbents were dry-packed into solid-phase extraction cartridges. Eluates from cartridges were analyzed using a spectrophotometer for the determination of indapamide by referring to the calibration curve in the range 0.14-1.50 μg/mL. Preconcentration factor, limit of detection, and limit of quantification were 16.30, 0.025 μg/mL, and 0.075 μg/mL, respectively. A relatively high imprinting factor (9.3) was also achieved and recovery values for the indapamide spiked into human urine were in the range of 80.1-81.2%. In addition, relatively low within-day (0.17-0.42%) and between-day (1.1-1.4%) precision values were obtained as well. The proposed molecularly imprinted solid-phase extraction and spectrophotometric method was successfully applied to selective extraction, preconcentration, and determination of indapamide from human urine samples.

  9. Molecular Docking Studies and Anti−Snake Venom Metalloproteinase Activity of Thai Mango Seed Kernel Extract

    OpenAIRE

    Pimolpan Pithayanukul; Jiraporn Leanpolchareanchai; Patchreenart Saparpakorn

    2009-01-01

    Snakebite envenomations cause severe local tissue necrosis and the venom metalloproteinases are thought to be the key toxins involved. In this study, the ethanolic extract from seed kernels of Thai mango (Mangifera indica L. cv. ‘Fahlun’) (Anacardiaceae) and its major phenolic principle (pentagalloylglucopyranose) exhibited potent and dose−dependent inhibitory effects on the caseinolytic and fibrinogenolytic activities of Malayan pit viper and Thai cobra venoms in in vitro tests. molecular do...

  10. Molecular Docking Studies and Anti-Tyrosinase Activity of Thai Mango Seed Kernel Extract

    OpenAIRE

    Patchreenart Saparpakorn; Rapepol Bavovada; Pimolpan Pithayanukul; Saruth Nithitanakool

    2009-01-01

    The alcoholic extract from seed kernels of Thai mango (Mangifera indica L. cv. ‘Fahlun’) (Anacardiaceae) and its major phenolic principle (pentagalloylglucopyranose) exhibited potent, dose-dependent inhibitory effects on tyrosinase with respect to L-DOPA. Molecular docking studies revealed that the binding orientations of the phenolic principles were in the tyrosinase binding pocket and their orientations were located in the hydrophobic binding pocket surrounding the binuclear coppe...

  11. Molecularly imprinted solid-phase extraction monolithic capillary column for selective extraction and sensitive determination of safranine T in wolfberry.

    Science.gov (United States)

    Su, Zihao; Zhai, Haiyun; Chen, Zuanguang; Zhou, Qing; Li, Jiangmei; Liu, Zhenping

    2014-02-01

    A method was developed to sensitively determine safranine T in wolfberry by molecularly imprinted solid-phase extraction (MISPE) coupled with high-performance liquid chromatography and laser-induced fluorescence detection (HPLC-LIF). The MISPE capillary monolithic column was prepared by water-bath in situ polymerization, using safranine T, methacrylic acid (MAA), and ethylene dimethacrylate (EDMA) as template, functional monomer, and cross-linker, respectively. The properties of the homemade MISPE capillary monolithic column, including capacity and specificity, were investigated under optimized conditions and the morphologies of inner polymers were characterized by scanning electron microscopy (SEM). The mean recoveries of safranine T in wolfberry ranged from 91.2 % to 92.9 % and the intraday and interday relative standard deviation (RSD) values all ranged from 3.4 % to 4.2 %. Good linearity was obtained over 0.001-1.0 μg mL(-1) (r = 0.9999) with a detection limit (S/N = 3) of 0.4 ng g(-1). Under the selected conditions, enrichment factors of over 90-fold were obtained and the extraction on the monolithic column effectively cleaned up the wolfberry matrix. The results demonstrated that the proposed MISPE-HPLC-LIF method could be applied to sensitively determine safranine T in wolfberry.

  12. 挖掘专利知识实现关键词自动抽取%Mining Patent Knowledge for Automatic Keyword Extraction

    Institute of Scientific and Technical Information of China (English)

    陈忆群; 周如旗; 朱蔚恒; 李梦婷; 印鉴

    2016-01-01

    关键词是人们快速判断是否要详细阅读文件内容的重要线索,关键词自动抽取在信息检索、自然语言处理等研究领域均有重要应用。设计了一种新的关键词自动抽取方法,使计算机能够像人类专家一样,利用知识库对目标文本进行学习和理解,最终自动抽取出关键词。专利数据因其数据量庞大、内容丰富、表达准确、专业权威而被选中作为知识库来源。详细讨论了专利数据的特性,挖掘不同专利间的知识关联,针对某一知识领域构造背景知识库,在此基础上进行目标文本的关键词自动抽取。与目标文本相关的专利文集中每个专利的专利发明人、权利人、专利引用和分类信息都被用于在不同的专利文档之间发现关联性,利用关联信息扩充背景知识库,获得目标文档在各个相关知识领域的背景知识库。基于背景知识库设计了词知识特征值,以反映词在目标文本背景知识中的重要程度。最后,把关键词抽取问题转化为分类问题,利用支持向量机(support vector machine ,SVM )抽取出目标文本的关键词。在专利数据集和开放数据集的实验结果证明明显优于现有算法。%Keywords are important clues that can help a user quickly decide whether to skip ,to scan , or to read the article .Keyword extraction plays an increasingly crucial role in information retrieval , natural language processing and other several text related researches . This paper addresses the problem of automatic keyword extraction and designs a novel automatic keyword extraction approach making use of patent knowledge . This approach can help computer to learn and understand the document as human being according to its background knowledge , finally pick out keywords automatically .The patent data set is chosen as external knowledge repository because of its huge amount of data ,rich content ,accurate

  13. Automatic segmentation of 4D cardiac MR images for extraction of ventricular chambers using a spatio-temporal approach

    Science.gov (United States)

    Atehortúa, Angélica; Zuluaga, Maria A.; Ourselin, Sébastien; Giraldo, Diana; Romero, Eduardo

    2016-03-01

    An accurate ventricular function quantification is important to support evaluation, diagnosis and prognosis of several cardiac pathologies. However, expert heart delineation, specifically for the right ventricle, is a time consuming task with high inter-and-intra observer variability. A fully automatic 3D+time heart segmentation framework is herein proposed for short-axis-cardiac MRI sequences. This approach estimates the heart using exclusively information from the sequence itself without tuning any parameters. The proposed framework uses a coarse-to-fine approach, which starts by localizing the heart via spatio-temporal analysis, followed by a segmentation of the basal heart that is then propagated to the apex by using a non-rigid-registration strategy. The obtained volume is then refined by estimating the ventricular muscle by locally searching a prior endocardium- pericardium intensity pattern. The proposed framework was applied to 48 patients datasets supplied by the organizers of the MICCAI 2012 Right Ventricle segmentation challenge. Results show the robustness, efficiency and competitiveness of the proposed method both in terms of accuracy and computational load.

  14. Selective extraction of triazine herbicides from food samples based on a combination of a liquid membrane and molecularly imprinted polymers.

    Science.gov (United States)

    Mhaka, Byron; Cukrowska, Ewa; Bui, Bernadette Tse Sum; Ramström, Olof; Haupt, Karsten; Tutu, Hlanganani; Chimuka, Luke

    2009-10-02

    A selective extraction technique based on the combination of liquid membrane (microporous membrane liquid-liquid extraction) and molecularly imprinted polymers (MIP) was applied to triazines herbicides in food samples. Simazine, atrazine and propazine were extracted from aqueous food samples through the hydrophobic porous membrane that was impregnated with toluene, which also formed part of the acceptor phase. In the acceptor phase, the compounds were re-extracted onto MIP particles. The extraction technique was optimised for the amount of molecularly imprinted polymers particles in the organic acceptor phase, extraction time, and type of organic acceptor solvent and desorption solvent. An extraction time of 90 min and 50mg of MIP were found to be optimum parameters. Toluene as the acceptor phase was found to give higher triazines binding onto MIP particles compared to hexane and combinations of diethyl ether and hexane. 90% methanol in water was found to be the best desorption solvent compared to acetonitrile, methanol and water. The selectivity of the technique was demonstrated by extracting spiked lettuce and apple extracts where clean chromatograms were obtained compared to liquid membrane extraction alone or to the microporous membrane liquid-liquid extraction - non-imprinted polymer combination. The MIP showed a certain degree of group specificity and the extraction efficiency in lettuce extract was 79% (0.72) for simazine, 98% (1.55) for atrazine and 86% (3.08) for propazine.

  15. Selective extraction of nitroaromatic explosives by using molecularly imprinted silica sorbents.

    Science.gov (United States)

    Lordel, Sonia; Chapuis-Hugon, Florence; Eudes, Véronique; Pichon, Valérie

    2011-01-01

    Two molecularly imprinted silicas (MISs) were synthesized and used as selective sorbents for the extraction of nitroaromatic explosives in post-blast samples. The synthesis of the MISs was carried out with phenyltrimethoxysilane as monomer, 2,4-dinitrotoluene (2,4-DNT) as template and triethoxysilane as cross-linker by a sol-gel approach in two molar ratios: 1/4/20 and 1/4/30 (template/monomer/cross-linker). Non-imprinted silica sorbents were also prepared following the same procedures without introducing the template. An optimized procedure dedicated to the selective treatment of aqueous samples was developed for both MISs for the simultaneous extraction of the template and other nitroaromatic compounds commonly used as explosives. The capacity of the MISs was measured by the extraction of increasing amounts of 2,4-DNT in pure water and is higher than 3.2 mg/g of sorbent for each MIS. For the first time, four nitroaromatic compounds were selectively extracted and determined simultaneously with extraction recoveries higher than 79%. The potential of these sorbents was then highlighted by their use for the clean-up of post-blast samples (motor oil, post-mortem blood, calcined fragments, etc.). The results were compared to those obtained using a conventional sorbent, thus demonstrating the interest of the use of these MISs as selective sorbents.

  16. A new generic method for the semi-automatic extraction of river and road networks in low and mid-resolution satellite images

    Energy Technology Data Exchange (ETDEWEB)

    Grazzini, Jacopo [Los Alamos National Laboratory; Dillard, Scott [PNNL; Soille, Pierre [EC JRC

    2010-10-21

    This paper addresses the problem of semi-automatic extraction of road or hydrographic networks in satellite images. For that purpose, we propose an approach combining concepts arising from mathematical morphology and hydrology. The method exploits both geometrical and topological characteristics of rivers/roads and their tributaries in order to reconstruct the complete networks. It assumes that the images satisfy the following two general assumptions, which are the minimum conditions for a road/river network to be identifiable and are usually verified in low- to mid-resolution satellite images: (i) visual constraint: most pixels composing the network have similar spectral signature that is distinguishable from most of the surrounding areas; (ii) geometric constraint: a line is a region that is relatively long and narrow, compared with other objects in the image. While this approach fully exploits local (roads/rivers are modeled as elongated regions with a smooth spectral signature in the image and a maximum width) and global (they are structured like a tree) characteristics of the networks, further directional information about the image structures is incorporated. Namely, an appropriate anisotropic metric is designed by using both the characteristic features of the target network and the eigen-decomposition of the gradient structure tensor of the image. Following, the geodesic propagation from a given network seed with this metric is combined with hydrological operators for overland flow simulation to extract the paths which contain most line evidence and identify them with the target network.

  17. Automatic Extraction of Dunes from Google Earth Images New Approach to Study the Dunes Migration in the LAÂYOUNE City of Morocco

    Science.gov (United States)

    Dakir, D.; Rhinane, H.; Saddiqi, O.; El Arabi, E.; Baidder, L.

    2016-10-01

    In desert environments, the sandy dune movements are considered as the main threat to the livelihoods and productivity of people living in Laâyoune city, South of Morocco. Studying dunes at a large scale requires intensive fieldwork and a huge dataset. But this task is not always easy because of the high cost and the limited availability of data. In this paper we present a new approach to study and evaluate the dune dynamic using Google earth archive image acquired from 2005, 2011, 2012, and 2013. To achieve this goal, an area with 3577 meter square including 40 barchan dunes, were selected, and the barchan dunes were automatically extracted from these images using Geographic Information System (GIS) and spatial analysis techniques provided by image processing software. The result shows not only the dune shape but also direction of dunes movements, and distance separating dunes. The obtained direction is ranging from North east to South west. The average rate of movement of the extracted dunes between 2005 and 2013 was calculated and is estimated at 32m per year. Validation of these dunes movement of the Laâyoune city was confirmed by the field data and previous studies.

  18. Automatic Web News Content Extraction Based on CRFs%基于CRFs的新闻网页主题内容自动抽取方法

    Institute of Scientific and Technical Information of China (English)

    张春元

    2011-01-01

    Most previous workson Web information extraction seldom use associations among Web page blocks. In order to solve this problem ,this paper proposes an automatic Web news content extraction approach based on conditional random fields (CRFs). Firstly,it parses a target news page to a DOM tree.After eliminating invalid nodes,pruning subtrees and deleting single nodes in the tree,it uses heuristic rules to segment the DOM tree to blocks and converts these blocks into a data sequence. Then,it defines feature functions to extract each block's own state features and neighbor blocks' category transition features. Finally,by labeling the data sequence based on CRFs,it identifies each block's category to extract the page's content. Experimental results indicate that this approach is precise and adaptable for Web news content extraction ,and importing associations among page blocks can improve Web news content extraction.%针对当前新闻网页主题内容抽取方法较少利用网页块之间关联特性这一问题,提出了一种基于条件随机场(CRFs)的新闻网页主题内容自动抽取方法.该方法首先将待抽取网页解析成DOM树,经过滤、剪枝以及压缩处理后,然后按照一定的启发式规则将DOM树切割成块并转换成为一个数据序列,再定义CRFs特征函数来提取各网页块自身状态特征和相邻块间类别转移特征,通过CRFs模型对数据序列进行类别标注来实现网页主题内容的抽取.实验表明,该方法对新闻网页主题内容的抽取具有较高检准率和较强适应能力,引入块间关联特性可改善新闻网页主题内容的抽取.

  19. Progress of Automatic Extraction of Uyghur Phrases%维吾尔语短语自动抽取研究进展

    Institute of Scientific and Technical Information of China (English)

    张海军

    2015-01-01

    Phrase extraction, which is the research basis of machine translation and information retrieval, plays a very important role in natural language processing. This paper puts the emphasis on the research progress of of Uyghur phrase extraction. To make convenience for discussion, this paper studies the linguistic features of Uyghur phrases and analyzes the impacts of these features on the phrase extraction. This paper mainly summarizes the philological theories of phrase identification in Uyghur and discusses the technologies of automatic extraction of Uyghur phrases. There has made great progress on the extraction of Uyghur phrases in both theory and technology. However, there are still lots of work to be carried out, such as to formulate tagging standard, study tagged corpus and expend research domains etc. It is hoped that this paper can give some references to the research on phrase extraction in Uyghur.%短语识别是机器翻译与信息检索的技术基础,具有重要的研究价值.围绕维吾尔语短语识别的研究进展,阐述了维吾尔语的语言特点,分析了这些特点对维吾尔语短语识别的影响,总结了近年来维吾尔语短语识别的有关语言学研究成果,重点梳理了维吾尔语短语自动抽取的相关研究方法.通过总结和梳理,发现目前维吾尔语短语自动抽取研究在理论和实现技术方面取得了较大进展,但在短语标注标准、研究语料及研究领域等方面还有大量工作尚未有效开展,需要予以关注.希望该文能为维吾尔语短语抽取相关研究提供借鉴和参考.

  20. Automatic labeling of molecular biomarkers on a cell-by-cell basis in immunohistochemistry images using convolutional neural networks

    Science.gov (United States)

    Sheikhzadeh, Fahime; Carraro, Anita; Korbelik, Jagoda; MacAulay, Calum; Guillaud, Martial; Ward, Rabab K.

    2016-03-01

    This paper addresses the problem of classifying cells expressing different biomarkers. A deep learning based method that can automatically localize and count the cells expressing each of the different biomarkers is proposed. To classify the cells, a Convolutional Neural Network (CNN) was employed. Images of Immunohistochemistry (IHC) stained slides that contain these cells were digitally scanned. The images were taken from digital scans of IHC stained cervical tissues, acquired for a clinical trial. More than 4,500 RGB images of cells were used to train the CNN. To evaluate our method, the cells were first manually labeled based on the expressing biomarkers. Then we performed the classification on 156 randomly selected images of cells that were not used in training the CNN. The accuracy of the classification was 92% in this preliminary data set. The results have shown that this method has a good potential in developing an automatic method for immunohistochemical analysis.

  1. Automatic Mapping Extraction from Multiecho T2-Star Weighted Magnetic Resonance Images for Improving Morphological Evaluations in Human Brain

    Directory of Open Access Journals (Sweden)

    Shaode Yu

    2013-01-01

    Full Text Available Mapping extraction is useful in medical image analysis. Similarity coefficient mapping (SCM replaced signal response to time course in tissue similarity mapping with signal response to TE changes in multiecho T2-star weighted magnetic resonance imaging without contrast agent. Since different tissues are with different sensitivities to reference signals, a new algorithm is proposed by adding a sensitivity index to SCM. It generates two mappings. One measures relative signal strength (SSM and the other depicts fluctuation magnitude (FMM. Meanwhile, the new method is adaptive to generate a proper reference signal by maximizing the sum of contrast index (CI from SSM and FMM without manual delineation. Based on four groups of images from multiecho T2-star weighted magnetic resonance imaging, the capacity of SSM and FMM in enhancing image contrast and morphological evaluation is validated. Average contrast improvement index (CII of SSM is 1.57, 1.38, 1.34, and 1.41. Average CII of FMM is 2.42, 2.30, 2.24, and 2.35. Visual analysis of regions of interest demonstrates that SSM and FMM show better morphological structures than original images, T2-star mapping and SCM. These extracted mappings can be further applied in information fusion, signal investigation, and tissue segmentation.

  2. 鱼油萃取过程自动监控系统设计%Design of Automatic Monitoring System in Fish Oil Extraction Process

    Institute of Scientific and Technical Information of China (English)

    郑业双; 刘飞; 王志国

    2013-01-01

    萃取法具有操作可连续化,生产周期短,对热敏物质破坏少,保证鱼油良好品质的优点,但目前萃取法提取鱼油的控制系统相对落后。文章在分析鱼油萃取工艺过程的基础上,根据工艺要求设计自动监控系统,整个监控系统包含上位机和下位机两个部分,上位机实现对过程的远程监控、报警显示以及数据记录等功能,下位机以PLC为核心,实现现场控制、数据采集与转换以及回路调节等功能。系统自动化程度高、操作方便、可以为企业节省大量人力成本。%Extraction method for operation can be continuous, short production cycle, less damage to heat-sensitive substances, guarantee good quality of ifsh oil beneifts, but currently used to extract ifsh oil control system is relatively backward. The article based on the analysis on ifsh oil extraction process, and automatic monitoring system is designed according to process requirements, the whole monitoring system includes epigynous machine and hypogyny machine two parts, the epigynous machine for the process of remote monitoring, alarm display and data records, and other functions, the hypogyny machine with PLC as the core, to achieve local control, data acquisition and conversion, and loop adjustment and other functions. High degree of automation systems, easy to operate, you can save a lot of labor costs for businesses.

  3. Automatic collocation extraction based on quintuple%基于五元组的词语搭配自动抽取

    Institute of Scientific and Technical Information of China (English)

    孙婷婷

    2015-01-01

    Collocation plays an important role in the field of linguistics. In recent years, it has become one of the major research directions in natural language processing. In order to realize the automatic extraction of collocations, the definitions of semantic collocation and syntactic collocation are given in this paper. For these two types of collocation, a quintuple-based collocation extraction method is also presented. Through the experiment based on statistics, it indicates that this method is advantageous to the collocation extraction. And among these statistics, mutual information is the best, the accuracy rate can go up to 80%.%词语搭配在语言学领域占有重要的地位,近年来,它已成为自然语言处理研究的重点方向之一。为了实现词语搭配的自动抽取,本文给出了语义搭配和句式搭配的定义,并针对这两类搭配,给出了一种基于五元组的词语搭配抽取方法。通过基于统计量的搭配提取实验,得出此方法有利于词语搭配的自动抽取。其中,基于互信息的搭配抽取效果最好,其准确率可达80%。

  4. Extracting Conformational Ensembles of Small Molecules from Molecular Dynamics Simulations: Ampicillin as a Test Case

    Directory of Open Access Journals (Sweden)

    Giuliano Malloci

    2016-01-01

    Full Text Available The accurate and exhaustive description of the conformational ensemble sampled by small molecules in solution, possibly at different physiological conditions, is of primary interest in many fields of medicinal chemistry and computational biology. Recently, we have built an on-line database of compounds with antimicrobial properties, where we provide all-atom force-field parameters and a set of molecular properties, including representative structures extracted from cluster analysis over μs-long molecular dynamics (MD trajectories. In the present work, we used a medium-sized antibiotic from our sample, namely ampicillin, to assess the quality of the conformational ensemble. To this aim, we compared the conformational landscape extracted from previous unbiased MD simulations to those obtained by means of Replica Exchange MD (REMD and those originating from three freely-available conformer generation tools widely adopted in computer-aided drug-design. In addition, for different charge/protonation states of ampicillin, we made available force-field parameters and static/dynamic properties derived from both Density Functional Theory and MD calculations. For the specific system investigated here, we found that: (i the conformational statistics extracted from plain MD simulations is consistent with that obtained from REMD simulations; (ii overall, our MD-based approach performs slightly better than any of the conformer generator tools if one takes into account both the diversity of the generated conformational set and the ability to reproduce experimentally-determined structures.

  5. Computer-Aided Molecular Design of Bis-phosphine Oxide Lanthanide Extractants.

    Science.gov (United States)

    McCann, Billy W; Silva, Nuwan De; Windus, Theresa L; Gordon, Mark S; Moyer, Bruce A; Bryantsev, Vyacheslav S; Hay, Benjamin P

    2016-06-20

    Computer-aided molecular design and high-throughput screening of viable host architectures can significantly reduce the efforts in the design of novel ligands for efficient extraction of rare earth elements. This paper presents a computational approach to the deliberate design of bis-phosphine oxide host architectures that are structurally organized for complexation of trivalent lanthanides. Molecule building software, HostDesigner, was interfaced with molecular mechanics software, PCModel, providing a tool for generating and screening millions of potential R2(O)P-link-P(O)R2 ligand geometries. The molecular mechanics ranking of ligand structures is consistent with both the solution-phase free energies of complexation obtained with density functional theory and the performance of known bis-phosphine oxide extractants. For the case where the link is -CH2-, evaluation of the ligand geometry provides the first characterization of a steric origin for the "anomalous aryl strengthening" effect. The design approach has identified a number of novel bis-phosphine oxide ligands that are better organized for lanthanide complexation than previously studied examples.

  6. Semi-automatic methods for landslide features and channel network extraction in a complex mountainous terrain: new opportunities but also challenges from high resolution topography

    Science.gov (United States)

    Tarolli, Paolo; Sofia, Giulia; Pirotti, Francesco; Dalla Fontana, Giancarlo

    2010-05-01

    In recent years, remotely sensed technologies such as airborne and terrestrial laser scanner have improved the detail of analysis providing high-resolution and high-quality topographic data over large areas better than other technologies. A new generation of high resolution (~ 1m) Digital Terrain Models (DTMs) are now available for different landscapes. These data call for the development of the new generation of methodologies for objective extraction of geomorphic features, such as channel heads, channel networks, bank geometry, landslide scars, service roads, etc. The most important benefit of a high resolution DTM is the detailed recognition of surface features. It is possible to recognize in detail divergent-convex landforms, associated with the dominance of hillslope processes, and convergent-concave landforms, associated with fluvial-dominated erosion. In this work, we test the performance of new methodologies for objective extraction of geomorphic features related to landsliding and channelized processes in order to provide a semi-automatic method for channel network and landslide features recognition in a complex mountainous terrain. The methodologies are based on the detection of thresholds derived by statistical analysis of variability of surface curvature. We considered a study area located in the eastern Italian Alps where a high-quality set of LiDAR data is available and where channel heads, related channel network, and landslides have been mapped in the field by DGPS. In the analysis we derived 1 m DTMs from bare ground LiDAR points, and we used different smoothing factors for the curvature calculation in order to set the more suitable curvature maps for the recognition of selected features. Our analyses suggest that: i) the scale for curvature calculations has to be a function of the scale of the features to be detected, (ii) rougher curvature maps are not optimal as they do not explore a sufficient range at which features occur, while smoother

  7. Solid-phase extraction of esculetin from the ash bark of Chinese traditional medicine by using molecularly imprinted polymers.

    Science.gov (United States)

    Hu, Shu-Guo; Li, Li; He, Xi-Wen

    2005-01-07

    A molecularly imprinted polymer solid-phase extraction method is used to extract esculetin from the ash bark of Chinese traditional medicine. Ratio of ethanol and water as washing solution were investigated. Data of accumulative adsorption on molecularly imprinted polymers from the continuous loading experiment suggests that there are two different kinds of recognition sites in molecularly imprinted polymers. By selecting the washing and eluting solution a scheme was designed to separate esculetin and its analogues including esculin, coumarin, 7-methoxylcoumarin and daphnetin. Finally, by applying the revised scheme esculetin was extracted from the ash bark of Chinese traditional medicine that was purchased from two big drugstores, respectively, with both molecularly imprinted polymers and non-molecularly imprinted polymers.

  8. A NEW APPROACH BASED ON THE DETECTION OF OPINION BY SENTIWORDNET FOR AUTOMATIC TEXT SUMMARIES BY EXTRACTION

    Directory of Open Access Journals (Sweden)

    Reda Mohamed HAMOU

    2015-11-01

    Full Text Available In this paper, we propose a new approach based on the detection of opinion by the SentiWordNet for the production of text summarization by using the scoring extraction technique adapted to detecting of opinion. The texts are decomposed into sentences then represented by a vector of scores of opinion of this sentences. The summary will be done by elimination of sentences whose opinion is different from the original text. This difference is expressed by a threshold opinion. The following hypothesis: "textual units that do not share the same opinion of the text are ideas used for the development or comparison and their absences have no vocation to reach the semantics of the abstract" Has been verified by the statistical measure of Chi_2 which we used it to calculate a dependence between the unit textual and the text. Finally we found an opinion threshold interval which generate the optimal assessments.

  9. 高分辨率影像城市植被自动提取算法%Automatic Urban Vegetation Extraction Method Using High Resolution Imagery

    Institute of Scientific and Technical Information of China (English)

    姚方方; 骆剑承; 沈占锋; 董迪; 杨珂含

    2016-01-01

    With the progress of sustained urbanization in the past ten years, information of accurate urban vegetation cover is turning to be essential for the study of both regional climate and urban energy balance. High spatial-resolution remote sensing imagery provides an important tool for automatic mapping and monitoring of urban vegetation cover due to its broad coverage and high-spatial resolution. We propose an automatic urban vegetation extraction methodology, named as hyperplanes for plant extraction methodology (HPEM), based on the vegetation spectral feature analysis with the ZY-3 multi-spectral imagery over different cities in Yangtze River Delta. The results showed that: first, the vegetation pixels and non-vegetation pixels with low NDVI value can be well separated in the false color composite reflectance space, while the vegetation pixels and non-vegetation pixels with high NDVI value can be well separated in the true color composite reflectance space;second, HPEM could effectively suppress the errors of commission that come from built-up pixels which was often misclassified in NDVI method. HPEM’s performance was better than NDVI at the optimal threshold, with kappa coefficients increased from 0.85 to 0.90 and the total errors of omission and commission reduced from 21.15%to 14.18%. Compared to NDVI method, HPEM also avoided the tedious trial-and-error procedures for searching the optimal threshold. Therefore, HPEM can effectively improve the accuracy of automatic urban vegetation mapping. Moreover, the urban vegetation products are more reliable for further urban environment research.%近十几年来,随着城市化进程加剧,准确获取城市植被的分布信息,是城市气候和地表能量平衡研究的重要内容。高空间分辨率遥感影像数据,为精确获取和动态监测城市植被提供了重要资料。本研究利用资源三号数据对长江三角洲地区城市植被进行光谱特征分析与提取,提出一种城市

  10. A semi-automatic method to extract canal pathways in 3D micro-CT images of Octocorals.

    Directory of Open Access Journals (Sweden)

    Alfredo Morales Pinzón

    Full Text Available The long-term goal of our study is to understand the internal organization of the octocoral stem canals, as well as their physiological and functional role in the growth of the colonies, and finally to assess the influence of climatic changes on this species. Here we focus on imaging tools, namely acquisition and processing of three-dimensional high-resolution images, with emphasis on automated extraction of canal pathways. Our aim was to evaluate the feasibility of the whole process, to point out and solve - if possible - technical problems related to the specimen conditioning, to determine the best acquisition parameters and to develop necessary image-processing algorithms. The pathways extracted are expected to facilitate the structural analysis of the colonies, namely to help observing the distribution, formation and number of canals along the colony. Five volumetric images of Muricea muricata specimens were successfully acquired by X-ray computed tomography with spatial resolution ranging from 4.5 to 25 micrometers. The success mainly depended on specimen immobilization. More than [Formula: see text] of the canals were successfully detected and tracked by the image-processing method developed. Thus obtained three-dimensional representation of the canal network was generated for the first time without the need of histological or other destructive methods. Several canal patterns were observed. Although most of them were simple, i.e. only followed the main branch or "turned" into a secondary branch, many others bifurcated or fused. A majority of bifurcations were observed at branching points. However, some canals appeared and/or ended anywhere along a branch. At the tip of a branch, all canals fused into a unique chamber. Three-dimensional high-resolution tomographic imaging gives a non-destructive insight to the coral ultrastructure and helps understanding the organization of the canal network. Advanced image-processing techniques greatly

  11. A Novel Characteristic Frequency Bands Extraction Method for Automatic Bearing Fault Diagnosis Based on Hilbert Huang Transform

    Directory of Open Access Journals (Sweden)

    Xiao Yu

    2015-11-01

    Full Text Available Because roller element bearings (REBs failures cause unexpected machinery breakdowns, their fault diagnosis has attracted considerable research attention. Established fault feature extraction methods focus on statistical characteristics of the vibration signal, which is an approach that loses sight of the continuous waveform features. Considering this weakness, this article proposes a novel feature extraction method for frequency bands, named Window Marginal Spectrum Clustering (WMSC to select salient features from the marginal spectrum of vibration signals by Hilbert–Huang Transform (HHT. In WMSC, a sliding window is used to divide an entire HHT marginal spectrum (HMS into window spectrums, following which Rand Index (RI criterion of clustering method is used to evaluate each window. The windows returning higher RI values are selected to construct characteristic frequency bands (CFBs. Next, a hybrid REBs fault diagnosis is constructed, termed by its elements, HHT-WMSC-SVM (support vector machines. The effectiveness of HHT-WMSC-SVM is validated by running series of experiments on REBs defect datasets from the Bearing Data Center of Case Western Reserve University (CWRU. The said test results evidence three major advantages of the novel method. First, the fault classification accuracy of the HHT-WMSC-SVM model is higher than that of HHT-SVM and ST-SVM, which is a method that combines statistical characteristics with SVM. Second, with Gauss white noise added to the original REBs defect dataset, the HHT-WMSC-SVM model maintains high classification accuracy, while the classification accuracy of ST-SVM and HHT-SVM models are significantly reduced. Third, fault classification accuracy by HHT-WMSC-SVM can exceed 95% under a Pmin range of 500–800 and a m range of 50–300 for REBs defect dataset, adding Gauss white noise at Signal Noise Ratio (SNR = 5. Experimental results indicate that the proposed WMSC method yields a high REBs fault

  12. Extraction of High Quality RNA from Cannabis sativa Bast Fibres: A Vademecum for Molecular Biologists

    Directory of Open Access Journals (Sweden)

    Gea Guerriero

    2016-07-01

    Full Text Available In plants there is no universal protocol for RNA extraction, since optimizations are required depending on the species, tissues and developmental stages. Some plants/tissues are rich in secondary metabolites or synthesize thick cell walls, which hinder an efficient RNA extraction. One such example is bast fibres, long extraxylary cells characterized by a thick cellulosic cell wall. Given the economic importance of bast fibres, which are used in the textile sector, as well as in biocomposites as green substitutes of glass fibres, it is desirable to better understand their development from a molecular point of view. This knowledge favours the development of biotechnological strategies aimed at improving specific properties of bast fibres. To be able to perform high-throughput analyses, such as, for instance, transcriptomics of bast fibres, RNA extraction is a crucial and limiting step. We here detail a protocol enabling the rapid extraction of high quality RNA from the bast fibres of textile hemp, Cannabis sativa L., a multi-purpose fibre crop standing in the spotlight of research.

  13. Miniaturized molecularly imprinted polymer extraction method for the gas chromatographic analysis of flavonoids.

    Science.gov (United States)

    Nolvachai, Yada; Kulsing, Chadin; Boysen, Reinhard I; Hearn, Milton T W; Marriott, Philip J

    2014-04-01

    In this study, the use of monolithic molecularly imprinted polymers in a micropipette tip format allowing the simple and fast extraction of flavonoids from standard solutions and a black tea sample is demonstrated. The imprinted polymer employed quercetin, methacrylic acid or 4-vinylpyridine, and ethylene glycol dimethacrylate as template, functional monomer, and cross-linker, respectively. Surface morphologies of the quercetin-imprinted polymers and the corresponding nonimprinted polymers were characterized by SEM. Extraction of flavonoid standards was performed to evaluate the selectivity and recovery with these imprinted and nonimprinted polymers. Flavonoid compositions in aliquots eluted from the tips were identified using fast GC with flame ionization detection. Maximum specific capacities of 0.2, 5.7, and 16.0 mg/g for catechin, morin, and quercetin, respectively, were obtained with the imprinted polymer prepared with methacrylic acid, with the corresponding recoveries of 99.8, 98.8, and 95.4%, respectively. Efficient extraction by the quercetin-imprinted polymer of epicatechin, catechin, and quercetin from an apple-flavored black tea sample was achieved, with GC-MS employed for compound identification for both the tea and extracted samples.

  14. Automatic sequences

    CERN Document Server

    Haeseler, Friedrich

    2003-01-01

    Automatic sequences are sequences which are produced by a finite automaton. Although they are not random they may look as being random. They are complicated, in the sense of not being not ultimately periodic, they may look rather complicated, in the sense that it may not be easy to name the rule by which the sequence is generated, however there exists a rule which generates the sequence. The concept automatic sequences has special applications in algebra, number theory, finite automata and formal languages, combinatorics on words. The text deals with different aspects of automatic sequences, in particular:· a general introduction to automatic sequences· the basic (combinatorial) properties of automatic sequences· the algebraic approach to automatic sequences· geometric objects related to automatic sequences.

  15. Quantitation of drugs via molecularly imprinted polymer solid phase extraction and electrospray ionization mass spectrometry: benzodiazepines in human plasma

    OpenAIRE

    2011-01-01

    The association of solid phase extraction with molecularly imprinted polymers (MIP) and electrospray ionization mass spectrometry (ESI-MS) is applied to the direct extraction and quantitation of benzodiazepines in human plasma. The target analytes are sequestered by MIP and directly analyzed by ESI-MS. Due to the MIP highly selective extraction, ionic suppression during ESI is minimized; hence no separation is necessary prior to ESI-MS, which greatly increases analytical speed. Benzodiazepine...

  16. Molecular docking studies and anti-tyrosinase activity of Thai mango seed kernel extract.

    Science.gov (United States)

    Nithitanakool, Saruth; Pithayanukul, Pimolpan; Bavovada, Rapepol; Saparpakorn, Patchreenart

    2009-01-07

    The alcoholic extract from seed kernels of Thai mango (Mangifera indica L. cv. 'Fahlun') (Anacardiaceae) and its major phenolic principle (pentagalloylglucopyranose) exhibited potent, dose-dependent inhibitory effects on tyrosinase with respect to L-DOPA. Molecular docking studies revealed that the binding orientations of the phenolic principles were in the tyrosinase binding pocket and their orientations were located in the hydrophobic binding pocket surrounding the binuclear copper active site. The results indicated a possible mechanism for their anti-tyrosinase activity which may involve an ability to chelate the copper atoms which are required for the catalytic activity of tyrosinase.

  17. Automatic Extraction System of Webpage Information%全自动网页信息采集系统

    Institute of Scientific and Technical Information of China (English)

    徐春凤; 王艳春; 翟宏宇

    2015-01-01

    With the rapid development of the internet age, users have put forward more requirements for search en-gines,content of webpage and large data processing etc. Selecting the required information from the internet information with mass data has become a new hotspot. In this paper, extensible webcrawler project- Heritrix, which is an open source and developed by Java, is extended to capture user webpage. The information collection technology is further studied. Extendibility of Heritrix is used to realize a user’s capture. Through the analysis of the working process of Heritrix, module allocation and source code design, based on webpage extraction facing product information with Heri-trix extendibility and webpage content analysis with HtmlParser, key product information is extracted effectively, which is stored in the database for retrieval.%随着网络时代的快速发展,用户对搜索引擎、网页的内容和大数据处理等有了更多的要求。从海量的互联网信息中选取最符合要求的信息成为了新的热点。基于一个开源的、Java开发的、可扩展的Web爬虫项目—Heritrix,进行扩展抓取用户需要的网页,深入研究了信息采集技术。利用Heritrix的可扩展性,来实现用户的抓取。通过分析Heritrix的工作流程,模块划分以及源码设计,基于Heritrix扩展抽取面向商品信息的网页,配合HtmlParser对网页内容进行解析,有效的提取商品关键信息后存入数据库以供检索。

  18. Automatic computation of CHA2DS2-VASc score: information extraction from clinical texts for thromboembolism risk assessment.

    Science.gov (United States)

    Grouin, Cyril; Deléger, Louise; Rosier, Arnaud; Temal, Lynda; Dameron, Olivier; Van Hille, Pascal; Burgun, Anita; Zweigenbaum, Pierre

    2011-01-01

    The CHA2DS2-VASc score is a 10-point scale which allows cardiologists to easily identify potential stroke risk for patients with non-valvular fibrillation. In this article, we present a system based on natural language processing (lexicon and linguistic modules), including negation and speculation handling, which extracts medical concepts from French clinical records and uses them as criteria to compute the CHA2DS2-VASc score. We evaluate this system by comparing its computed criteria with those obtained by human reading of the same clinical texts, and by assessing the impact of the observed differences on the resulting CHA2DS2-VASc scores. Given 21 patient records, 168 instances of criteria were computed, with an accuracy of 97.6%, and the accuracy of the 21 CHA2DS2-VASc scores was 85.7%. All differences in scores trigger the same alert, which means that system performance on this test set yields similar results to human reading of the texts.

  19. Road Extraction from High-Resolution SAR Images via Automatic Local Detecting and Human-Guided Global Tracking

    Directory of Open Access Journals (Sweden)

    Jianghua Cheng

    2012-01-01

    Full Text Available Because of existence of various kinds of disturbances, layover effects, and shadowing, it is difficult to extract road from high-resolution SAR images. A new road center-point searching method is proposed by two alternant steps: local detection and global tracking. In local detection step, double window model is set, which consists of the outer fixed square window and the inner rotary rectangular one. The outer window is used to obtain the local road direction by using orientation histogram, based on the fact that the surrounding objects always range along with roads. The inner window rotates its orientation in accordance with the result of local road direction calculation and searches the center points of a road segment. In global tracking step, particle filter of variable-step is used to deal with the problem of tracking frequently broken by shelters along the roadside and obstacles on the road. Finally, the center-points are linked by quadratic curve fitting. In 1 m high-resolution airborne SAR image experiment, the results show that this method is effective.

  20. (226)Ra dynamic lixiviation from phosphogypsum samples by an automatic flow-through system with integrated renewable solid-phase extraction.

    Science.gov (United States)

    Ceballos, Melisa Rodas; Borràs, Antoni; García-Tenorio, Rafael; Rodríguez, Rogelio; Estela, José Manuel; Cerdà, Víctor; Ferrer, Laura

    2017-05-15

    The release of (226)Ra from phosphogypsum (PG) was evaluated by developing a novel tool for fully automated (226)Ra lixiviation from PG integrating extraction/pre-concentration using a renewable sorbent format. Eight leached fractions (30mL each one) and a residual fraction were analyzed allowing the evaluation of dynamic lixiviation of (226)Ra. An automatic system allows this approach coupling a homemade cell with a (226)Ra extraction/pre-concentration method, which is carried out combining two procedures: Ra adsorption on MnO2 and its posterior co-precipitation with BaSO4. Detection was carried out with a low-background proportional counter, obtaining a minimum detectable activity of 7Bqkg(-1). Method was validated by analysis of a PG reference material (MatControl CSN-CIEMAT 2008), comparing the content found in fractions (sum of leached fractions + residual fraction) to the reference value. PG samples from Huelva (Spain) were studied. (226)Ra average activity concentration of the sum of leached fractions with artificial rainwater at pH 5.4±0.2 was 105±3Bqkg(-1)d.w. representing a (226)Ra lixiviation of 37%; while at pH 2.0±0.2, it was 168±3Bqkg(-1) d.w., which represents a 50%. Also, static lixiviation, maintaining the same experimental conditions, was carried out indicating that, for both considered pH, the (226)Ra release from PG is up to 50% higher in a dynamic leaching that in a static one, may have both environmental and reutilization implications.

  1. Liquid chromatography-mass spectrometry platform for both small neurotransmitters and neuropeptides in blood, with automatic and robust solid phase extraction

    Science.gov (United States)

    Johnsen, Elin; Leknes, Siri; Wilson, Steven Ray; Lundanes, Elsa

    2015-03-01

    Neurons communicate via chemical signals called neurotransmitters (NTs). The numerous identified NTs can have very different physiochemical properties (solubility, charge, size etc.), so quantification of the various NT classes traditionally requires several analytical platforms/methodologies. We here report that a diverse range of NTs, e.g. peptides oxytocin and vasopressin, monoamines adrenaline and serotonin, and amino acid GABA, can be simultaneously identified/measured in small samples, using an analytical platform based on liquid chromatography and high-resolution mass spectrometry (LC-MS). The automated platform is cost-efficient as manual sample preparation steps and one-time-use equipment are kept to a minimum. Zwitter-ionic HILIC stationary phases were used for both on-line solid phase extraction (SPE) and liquid chromatography (capillary format, cLC). This approach enabled compounds from all NT classes to elute in small volumes producing sharp and symmetric signals, and allowing precise quantifications of small samples, demonstrated with whole blood (100 microliters per sample). An additional robustness-enhancing feature is automatic filtration/filter back-flushing (AFFL), allowing hundreds of samples to be analyzed without any parts needing replacement. The platform can be installed by simple modification of a conventional LC-MS system.

  2. An automatic face contour extracting method%一种自动的人脸轮廓定位方法

    Institute of Scientific and Technical Information of China (English)

    李昕昕; 龚勋; 夏冉

    2013-01-01

    人脸分割对人脸识别、人脸三维建模等人脸图像处理问题具有重要意义,而人脸图像往往轮廓边缘模糊、梯度不明显,常规无边缘几何活动轮廓模型通常无法获得理想的分割效果且计算量较大.为实现快速、准确的人脸轮廓定位及分割,将无边缘几何活动轮廓模型和稀疏场数值算法相结合提出了一个改进的算法,并结合人脸检测和数学形态学算子提出一个基于曲线演化的人脸分割方案.实验结果表明,该算法不仅提高了计算效率,还可以有效地检测出局部模糊或分断边界,进化曲线不会断裂,能够获得较好的人脸分割效果.%Images containing faces are essential to intelligent vision-based human computer interaction,and research efforts in face processing include face recognition, face tracking, and expression recognition. Many applications assume that the faces in an image or an image sequence have been identified and localized. To build fully automated systems that analyze the information contained in face images, robust and efficient face detection algorithms are required. However,such a problem is challenging because faces are non-rigid and have a high degree of variability in size,shape,color,and texture. The purpose of this paper is to provide a relative robust method for face segmentation in images based on curve evolution methodology. Since the face image always has a blur boundary and little gradient changes,the region segmentations obtained by the original Chan-Vese model are generally unsatisfactory and need large amount of calculations. To achieve more accurate facial contour extraction and face segmentation, a new face segmentation scheme based on curve evolution model is proposed which is a combination of Chan-Vese model, sparse-field algorithm, face detection and mathematical morphology operators. Experimental results show that the improved algorithm can effectively detect the local blur and breaking

  3. Application of molecular sieves in the fractionation of lemongrass oil from high-pressure carbon dioxide extraction

    Directory of Open Access Journals (Sweden)

    L. Paviani

    2006-06-01

    Full Text Available The aim of this work was to study the feasibility of simultaneous process of high-pressure extraction and fractionation of lemongrass essential oil using molecular sieves. For this purpose, a high-pressure laboratory-scale extraction unit coupled with a column with four different stationary phases for fractionation: ZSM5 zeolite, MCM-41 mesoporous material, alumina and silica was employed. Additionally, the effect of carbon dioxide extraction variables on the global yield and chemical composition of the essential oil was also studied in a temperature range of 293 to 313 K and a pressure range of 100 to 200 bar. The volatile organic compounds of the extracts were identified by a gas chromatograph coupled with a mass spectrometer detector (GC/MS. The results indicated that the extraction process variables and the stationary phase exerted an effect on both the extraction yield and the chemical composition of the extracts.

  4. Determination of malachite green in fish based on magnetic molecularly imprinted polymer extraction followed by electrochemiluminescence.

    Science.gov (United States)

    Huang, Baomei; Zhou, Xibin; Chen, Jing; Wu, Guofan; Lu, Xiaoquan

    2015-09-01

    A novel procedure for selective extraction of malachite green (MG) from fish samples was set up by using magnetic molecularly imprinted polymers (MMIP) as the solid phase extraction material followed by electrochemiluminescence (ECL) determination. MMIP was prepared by using Fe3O4 magnetite as magnetic component, MG as template molecule, methacrylic acid (MAA) as functional monomer and ethylene glycol dimethacrylate (EGDMA) as crosslinking agent. MMIP was characterized by SEM, TEM, FT-IR, VSM and XRD. Leucomalachite green (LMG) was oxidized in situ to MG by 2,3-dichloro-5,6-dicyano-1,4-benzoquinone (DDQ). And then MMIP was successfully used to selectively enrich MG from fish samples. Adsorbed MG was desorbed and determined by ECL. Under the optimal conditions, calibration curve was good linear in the range of 0.29-290 μg/kg and the limit of detection (LOD) was 7.3 ng/kg (S/N=3). The recoveries of MMIP extraction were 77.1-101.2%. In addition, MMIP could be regenerated. To the best of our knowledge, MMIP coupling with ECL quenching of Ru(bpy)3(2+)/TPA for the determination of MG has not yet been developed.

  5. Use of neuropathological tissue for molecular genetic studies: parameters affecting DNA extraction and polymerase chain reaction.

    Science.gov (United States)

    Kösel, S; Graeber, M B

    1994-01-01

    Nuclear and mitochondrial DNA were extracted from gray matter of human cerebral cortex which had either been formalin-fixed and embedded into paraffin or stored in formalin for up to 26 years. Extraction conditions were optimized for proteinase K digestion, i.e., enzyme concentration, digestion temperature and incubation time. Using the polymerase chain reaction (PCR), DNA was successfully amplified from archival material and sequenced employing a direct nonradioactive cycle sequencing protocol. In general, tissue embedded into paraffin following brief fixation in formalin gave good quantitative results, i.e., up to 1 microgram DNA/mg tissue were extracted. This yield was at least one order of magnitude higher than that obtained with tissue stored in formalin. However, paraffin-embedded neuropathological material was found to contain an as-yet-unidentified PCR inhibitor, and a deleterious effect of long-term fixation in unbuffered low-grade formalin was clearly detectable. Importantly, both paraffin-embedded tissue blocks and human brain that had been stored in formalin for many years yielded DNA sufficient for qualitative analysis. The implications of these findings for the use of neuropathological material in molecular genetic studies are discussed.

  6. Extraction, Characterization, and Molecular Weight Determination of Senna tora (L. Seed Polysaccharide

    Directory of Open Access Journals (Sweden)

    Harshal A. Pawar

    2015-01-01

    Full Text Available The objective of the present work was extraction of polysaccharide from Senna tora L. seed and its characterization as a pharmaceutical excipient. Polysaccharide extraction was based on mechanical separation of the endosperm of seeds of Senna tora, water dissolution, centrifugation, and precipitation with acetone. Standard procedures were used to study the viscosity, micromeritic properties, and microbial bioburden. Accelerated stability study was carried out on isolated polysaccharide for six months at 40°C/75 RH as per ICH guidelines. The gum obtained from S. tora seeds was an amorphous free flowing odourless powder with dull brown colour (yield = 35% w/w. The bulk density, tapped density, and angle of repose data reveal that S. tora gum possesses good flow property. The intrinsic viscosity obtained was 1.568 dL/g. The average molecular weight of purified S. tora gum was found to be 198 kDa by intrinsic viscosity method. The results indicated that viscosity of gum solution increases with increase in temperature. FTIR study revealed the absence of degradation or decomposition of polysaccharide at accelerated stability conditions for six months. It has been concluded that extracted polysaccharide can be used as pharmaceutical excipient in terms of flow behavior, microbial properties, and stability.

  7. Molecularly imprinted polymers-curcuminoids and its application for solid phase extraction

    Science.gov (United States)

    Wulandari, Meyliana; Amran, M. B.; Lopez, A. B. Descalzo; Urraca, J. L.; Moreno-Bondi, M. C.

    2014-03-01

    Molecularly Imprinted Polymers (MIPs) for the selective recognition properties of curcumin (CUR), a cancer chemopreventive agent were obtained by a non-covalent imprinting approach with bisdemetoxycurcumin (BDMC) as the template molecule. The double bond of BDMC has been reduced in order not to be involved in polymerization and make the template molecules easy to be eluted. Several functional monomers have been evaluated to maximize the interactions with the template molecule during polymerization. MIPs prepared by bulk of N-(2-aminoethyl) metacrylamid hydrochlorideas functional monomer, ethylene glycol dimethacrylate as crosslinker, 2,2'-azobis (2'4-dimethyl valeronitril) as initiator and acetonitrile as porogen. Non-imprinted polymer (NIP) have been also synthesized for reference purposes. UV-vis spectroscopy has been used to predict the template to functional monomer ratio which indicates the formation of 2:1 complexes between monomer and curcumin and the association constants (K11 = 2529 μM and K12 = 1960.75 μM in acetonitrile). The capacity and imprinting factor have been evaluated as stationary phases in high-pressure liquid chromatography to CUR and BDMC. The binding properties and the homogeneity of the binding sites of the different polymers have been studied by Freundlich isotherm modeling and weight average affinity and number of binding sites. One of the foremost applications of molecular imprinting has been in molecularly imprinted solid phase extraction and it has the ability to separate and preconcentrate between closely related compounds in curcuminoids.

  8. Development and application of novel clonazepam molecularly imprinted coatings for stir bar sorptive extraction.

    Science.gov (United States)

    Li, Xiaoxu; Mei, Xiaoliang; Xu, Lei; Shen, Xin; Zhu, Wanying; Hong, Junli; Zhou, Xuemin

    2016-04-15

    The molecularly imprinted magnetic stir bar coatings were created based on graft-functional Fe3O4 nanoparticles with magnetic field-induced self-assembly. The magnetic complex including clonazepam as template, the graft-functional Fe3O4 nanoparticles and methacrylic acid as monomers was pre-assembled through π-π interaction and hydrogen bonding, then was directionally adsorbed on the surface of magnetic stir bar under the magnetic induction. The molecularly imprinted coating with well-ordered structure was generated by one-step copolymerization based on the cross linking of ethylene glycol dimethacrylate. The molecularly imprinted coating with multiple recognition sites could be manufactured and applied in polar solvents, and showed superior selectivity and fast binding kinetics for benzodiazepines. The analytes in herbal health foods, treated by stir bar sorptive extraction, were determined by HPLC-UV. Good linearity was observed in the range of 0.01-2 μg mL(-1). The content of clonazepam in the herbal health foods was found to be 44 ng g(-1), and the average recoveries were 89.8-103.3% with a relative standard deviation (RSD) <6.5%, demonstrating the successful application in real sample analysis.

  9. Poder Antioxidante de Extractos de Romero Concentrados por Destilación Molecular Antioxidant Potential of Rosemary Extracts Concentrated by Molecular Distillation

    Directory of Open Access Journals (Sweden)

    M.A. Martinello

    2005-01-01

    Full Text Available Se ha estudiado el poder antioxidativo de extractos de romero concentrados por destilación molecular. Las hojas de romero fueron molidas y secadas previamente a la extracción, la cual fue llevada a cabo en un equipo de lixiviación de lecho fijo utilizando alcohol isopropílico como solvente. El solvente fue separado del extracto mediante destilación bajo vacío. El rendimiento promedio de extracción fue del 15,5%. El extracto resultante, verde y altamente viscoso, fue sometido a concentración por destilación molecular. La corriente de destilado consistió en un líquido levemente coloreado de verde, mientras que el residuo mantuvo un aspecto más parecido a la alimentación. El poder antioxidativo de ambos extractos fue medido sobre aceite de uva crudo, aceite de uva blanqueado y aceite de uva desodorizado, agregando el destilado y el residuo y determinando la estabilidad oxidativa por medio del Test de Schaal. En los tres tipos de aceites, el extracto obtenido como residuo de la destilación molecular mostró mayor poder antioxidante que el extracto obtenido como destilado. Por otra parte, ambos extractos probaron su potencial antioxidante al ser contrastados con muestras de control, sin agregado de extractos.A study was made of the antioxidant potential of rosemary extracts concentrated by molecular distillation. The rosemary leaves were milled and dried prior to extraction, and the extraction was carried out in fixed bed leaching equipment using isopropyl alcohol as solvent. The solvent was separated from the extract by vacuum distillation. The average yield of the extraction was 15.5%. The resulting extract, green and highly viscous, was concentrated by molecular distillation. The distillate stream consisted of a lightly colored green liquid, while the residue maintained an aspect similar to the feed stream, producing a thicker green fluid, darker than the feed stream. The antioxidant potential of both extracts was measured on crude

  10. A novel reliable method of DNA extraction from olive oil suitable for molecular traceability.

    Science.gov (United States)

    Raieta, Katia; Muccillo, Livio; Colantuoni, Vittorio

    2015-04-01

    Extra virgin olive oil production has a worldwide economic impact. The use of this brand, however, is of great concern to Institutions and private industries because of the increasing number of fraud and adulteration attempts to the market products. Here, we present a novel, reliable and not expensive method for extracting the DNA from commercial virgin and extra virgin olive oils. The DNA is stable overtime and amenable for molecular analyses; in fact, by carrying out simple sequence repeats (SSRs) markers analysis, we characterise the genetic profile of monovarietal olive oils. By comparing the oil-derived pattern with that of the corresponding tree, we can unambiguously identify four cultivars from Samnium, a region of Southern Italy, and distinguish them from reference and more widely used varieties. Through a parentage statistical analysis, we also identify the putative pollinators, establishing an unprecedented and powerful tool for olive oil traceability.

  11. Molecular Docking Studies and Anti−Snake Venom Metalloproteinase Activity of Thai Mango Seed Kernel Extract

    Directory of Open Access Journals (Sweden)

    Pimolpan Pithayanukul

    2009-08-01

    Full Text Available Snakebite envenomations cause severe local tissue necrosis and the venom metalloproteinases are thought to be the key toxins involved. In this study, the ethanolic extract from seed kernels of Thai mango (Mangifera indica L. cv. ‘Fahlun’ (Anacardiaceae and its major phenolic principle (pentagalloylglucopyranose exhibited potent and dose−dependent inhibitory effects on the caseinolytic and fibrinogenolytic activities of Malayan pit viper and Thai cobra venoms in in vitro tests. molecular docking studies revealed that the binding orientations of the phenolic principles were in the binding pockets of snake venom metalloproteinases (SVMPs. The phenolic principles could form hydrogen bonds with the three histidine residues in the conserved zinc−binding motif and could chelate the Zn2+ atom of the SVMPs, which could potentially result in inhibition of the venom enzymatic activities and thereby inhibit tissue necrosis.

  12. Synthesis and Characterization of Molecular Imprinting Polymer Microspheres of Piperine: Extraction of Piperine from Spiked Urine

    Science.gov (United States)

    Roland, Rachel Marcella

    2016-01-01

    Molecularly imprinted polymer (MIP) microspheres for Piperine were synthesized by precipitation polymerization with a noncovalent approach. In this research Piperine was used as a template, acrylic acid as a functional monomer, ethylene glycol dimethacrylate as a cross-linker, and 2,2′-azobisisobutyronitrile (AIBN) as an initiator and acetonitrile as a solvent. The imprinted and nonimprinted polymer particles were characterized by using Fourier transform infrared spectroscopy (FT-IR) and Scanning Electron Microscopy (SEM). The synthesized polymer particles were further evaluated for their rebinding efficiency by batch binding assay. The highly selected imprinted polymer for Piperine was MIP 3 with a composition (molar ratio) of 0.5 : 3 : 8, template : monomer : cross-linker, respectively. The MIP 3 exhibits highest binding capacity (84.94%) as compared to other imprinted and nonimprinted polymers. The extraction efficiency of highly selected imprinted polymer of Piperine from spiked urine was above 80%. PMID:28018704

  13. Molecular docking studies and anti-snake venom metalloproteinase activity of Thai mango seed kernel extract.

    Science.gov (United States)

    Pithayanukul, Pimolpan; Leanpolchareanchai, Jiraporn; Saparpakorn, Patchreenart

    2009-08-27

    Snakebite envenomations cause severe local tissue necrosis and the venom metalloproteinases are thought to be the key toxins involved. In this study, the ethanolic extract from seed kernels of Thai mango (Mangifera indica L. cv. 'Fahlun') (Anacardiaceae) and its major phenolic principle (pentagalloylglucopyranose) exhibited potent and dose-dependent inhibitory effects on the caseinolytic and fibrinogenolytic activities of Malayan pit viper and Thai cobra venoms in in vitro tests. molecular docking studies revealed that the binding orientations of the phenolic principles were in the binding pockets of snake venom metalloproteinases (SVMPs). The phenolic principles could form hydrogen bonds with the three histidine residues in the conserved zinc-binding motif and could chelate the Zn(2+) atom of the SVMPs, which could potentially result in inhibition of the venom enzymatic activities and thereby inhibit tissue necrosis.

  14. Molecular Docking Studies and Anti-Tyrosinase Activity of Thai Mango Seed Kernel Extract

    Directory of Open Access Journals (Sweden)

    Patchreenart Saparpakorn

    2009-01-01

    Full Text Available The alcoholic extract from seed kernels of Thai mango (Mangifera indica L. cv. ‘Fahlun’ (Anacardiaceae and its major phenolic principle (pentagalloylglucopyranose exhibited potent, dose-dependent inhibitory effects on tyrosinase with respect to L-DOPA. Molecular docking studies revealed that the binding orientations of the phenolic principles were in the tyrosinase binding pocket and their orientations were located in the hydrophobic binding pocket surrounding the binuclear copper active site. The results indicated a possible mechanism for their anti-tyrosinase activity which may involve an ability to chelate the copper atoms which are required for the catalytic activity of tyrosinase.

  15. Novel restricted access materials combined to molecularly imprinted polymers for selective solid-phase extraction of organophosphorus pesticides from honey.

    Science.gov (United States)

    He, Juan; Song, Lixin; Chen, Si; Li, Yuanyuan; Wei, Hongliang; Zhao, Dongxin; Gu, Keren; Zhang, Shusheng

    2015-11-15

    A novel restricted access materials (RAM) combined to molecularly imprinted polymers (MIPs), using malathion as template molecule and glycidilmethacrylate (GMA) as pro-hydrophilic co-monomer, were prepared for the first time. RAM-MIPs with hydrophilic external layer were characterized by scanning electron microscopy and recognition and selectivity properties were compared with the restricted access materials-non-molecularly imprinted polymers (RAM-NIPs) and unmodified MIPs. RAM-MIPs were used as the adsorbent enclosed in solid phase extraction column and several important extraction parameters were comprehensively optimized to evaluate the extraction performance. Under the optimum extraction conditions, RAM-MIPs exhibited comparable or even higher selectivity with greater extraction capacity toward six kinds of organophosphorus pesticides (including malathion, ethoprophos, phorate, terbufos, dimethoate, and fenamiphos) compared with the MIPs and commercial solid phase extraction columns. The RAM-MIPs solid phase extraction coupled with gas chromatography was successfully applied to simultaneously determine six kinds of organophosphorus pesticides from honey sample. The new established method showed good linearity in the range of 0.01-1.0 μg mL(-1), low limits of detection (0.0005-0.0019 μg mL(-1)), acceptable reproducibility (RSD, 2.26-4.81%, n = 6), and satisfactory relative recoveries (90.9-97.6%). It was demonstrated that RAM-MIPs solid phase extraction with excellent selectivity and restricted access function was a simple, rapid, selective, and effective sample pretreatment method.

  16. Computational and experimental investigation of molecular imprinted polymers for selective extraction of dimethoate and its metabolite omethoate from olive oil.

    Science.gov (United States)

    Bakas, Idriss; Oujji, Najwa Ben; Moczko, Ewa; Istamboulie, Georges; Piletsky, Sergey; Piletska, Elena; Ait-Addi, Elhabib; Ait-Ichou, Ihya; Noguer, Thierry; Rouillon, Régis

    2013-01-25

    This work presents the development of molecularly imprinted polymers (MIPs) for the selective extraction of dimethoate from olive oil. Computational simulations allowed selecting itaconic acid as the monomer showing the highest affinity towards dimethoate. Experimental validation confirmed modelling predictions and showed that the polymer based on IA as functional monomer and omethoate as template molecule displays the highest selectivity for the structurally similar pesticides dimethoate, omethoate and monocrotophos. Molecularly imprinted solid phase extraction (MISPE) method was developed and applied to the clean-up of olive oil extracts. It was found that the most suitable solvents for loading, washing and elution step were respectively hexane, hexane-dichloromethane (85:15%) and methanol. The developed MIPSE was successfully applied to extraction of dimethoate from olive oil, with recovery rates up to 94%. The limits of detection and quantification of the described method were respectively 0.012 and 0.05 μg g(-1).

  17. Application of the NucliSENS easyMAG system for nucleic acid extraction: optimization of DNA extraction for molecular diagnosis of parasitic and fungal diseases.

    Science.gov (United States)

    Jeddi, Fakhri; Piarroux, Renaud; Mary, Charles

    2013-01-01

    During the last 20 years, molecular biology techniques have propelled the diagnosis of parasitic diseases into a new era, as regards assay speed, sensitivity, and parasite characterization. However, DNA extraction remains a critical step and should be adapted for diagnostic and epidemiological studies. The aim of this report was to document the constraints associated with DNA extraction for the diagnosis of parasitic diseases and illustrate the adaptation of an automated extraction system, NucliSENS easyMAG, to these constraints, with a critical analysis of system performance. Proteinase K digestion of samples is unnecessary with the exception of solid tissue preparation. Mechanically grinding samples prior to cell lysis enhances the DNA extraction rate of fungal cells. The effect of host-derived nucleic acids on the extraction efficiency of parasite DNA varies with sample host cell density. The optimal cell number for precise parasite quantification ranges from 10 to 100,000 cells. Using the NucliSENS easyMAG technique, the co-extraction of inhibitors is reduced, with an exception for whole blood, which requires supplementary extraction steps to eliminate inhibitors.

  18. Molecularly imprinted solid-phase extraction for the screening of antihyperglycemic biguanides.

    Science.gov (United States)

    Feng, Sherry Y; Lai, Edward P C; Dabek-Zlotorzynska, Ewa; Sadeghi, Susan

    2004-02-20

    A new molecularly imprinted polymer (MIP) was specifically synthesized as a smart material for the recognition of metformin hydrochloride in solid-phase extraction. Particles of this MIP were packed into a stainless-steel tubing (50 mm x 0.8 mm i.d.) equipped with an exit frit. This micro-column was employed in the development of a molecularly imprinted solid-phase extraction (MISPE) method for metformin determination. The MISPE instrumentation consisted of a micrometer pump, an injector valve equipped with a 20-microl sample loop, a UV detector, and an integrator. With CH3CN as the mobile phase flowing at 0.5 ml/min, 95 +/- 2% binding could be achieved for 1200 ng of metformin from one injection of a phosphate-buffered sample solution (pH 2.5). Methanol + 3% trifluoroacetic acid was good for quantitative pulsed elution (PE) of the bound metformin. The MISPE-PE method, with UV detection at 240 nm, afforded a detection limit of 16 ng (or 0.8 microg/ml) for metformin. However, the micro-column interacted indiscriminately with phenformin with a 49 +/- 2% binding. A systematic investigation of binding selectivity was conducted with respect to sample composition (including the solvent, matrix, pH, buffer and surfactant effects). An intermediate step of differential pulsed elution used acetonitrile with 5% picric acid to remove phenformin and other structural analogues. A final pulsed elution of metformin for direct UV detection was achieved using 3% trifluoroacetic acid in methanol.

  19. Microbes on building materials - Evaluation of DNA extraction protocols as common basis for molecular analysis

    Energy Technology Data Exchange (ETDEWEB)

    Ettenauer, Joerg D., E-mail: joerg.ettenauer@boku.ac.at [VIBT-BOKU, University of Natural Resources and Life Sciences, Department of Biotechnology, Muthgasse 11, A-1190 Vienna (Austria); Pinar, Guadalupe, E-mail: Guadalupe.Pinar@boku.ac.at [VIBT-BOKU, University of Natural Resources and Life Sciences, Department of Biotechnology, Muthgasse 11, A-1190 Vienna (Austria); Lopandic, Ksenija, E-mail: Ksenija.Lopandic@boku.ac.at [VIBT-BOKU, University of Natural Resources and Life Sciences, Department of Biotechnology, Muthgasse 11, A-1190 Vienna (Austria); Spangl, Bernhard, E-mail: Bernhard.Spangl@boku.ac.at [University of Natural Resources and Life Sciences, Department of Landscape, Spatial and Infrastructure Science, Institute of Applied Statistics and Computing (IASC), Gregor Mendel-Str. 33, A-1180 Vienna (Austria); Ellersdorfer, Guenther, E-mail: Guenther.Ellersdorfer@boku.ac.at [VIBT-BOKU, University of Natural Resources and Life Sciences, Department of Biotechnology, Muthgasse 11, A-1190 Vienna (Austria); Voitl, Christian, E-mail: Christian.Voitl@boku.ac.at [VIBT-BOKU, University of Natural Resources and Life Sciences, Department of Biotechnology, Muthgasse 11, A-1190 Vienna (Austria); Sterflinger, Katja, E-mail: Katja.Sterflinger@boku.ac.at [VIBT-BOKU, University of Natural Resources and Life Sciences, Department of Biotechnology, Muthgasse 11, A-1190 Vienna (Austria)

    2012-11-15

    The study of microbial life in building materials is an emerging topic concerning biodeterioration of materials as well as health risks in houses and at working places. Biodegradation and potential health implications associated with microbial growth in our residues claim for more precise methods for quantification and identification. To date, cultivation experiments are commonly used to gain insight into the microbial diversity. Nowadays, molecular techniques for the identification of microorganisms provide efficient methods that can be applied in this field. The efficiency of DNA extraction is decisive in order to perform a reliable and reproducible quantification of the microorganisms by qPCR or to characterize the structure of the microbial community. In this study we tested thirteen DNA extraction methods and evaluated their efficiency for identifying (1) the quantity of DNA, (2) the quality and purity of DNA and (3) the ability of the DNA to be amplified in a PCR reaction using three universal primer sets for the ITS region of fungi as well as one primer pair targeting the 16S rRNA of bacteria with three typical building materials - common plaster, red brick and gypsum cardboard. DNA concentration measurements showed strong variations among the tested methods and materials. Measurement of the DNA yield showed up to three orders of magnitude variation from the same samples, whereas A260/A280 ratios often prognosticated biases in the PCR amplifications. Visualization of the crude DNA extracts and the comparison of DGGE fingerprints showed additional drawbacks of some methods. The FastDNA Spin kit for soil showed to be the best DNA extraction method and could provide positive results for all tests with the three building materials. Therefore, we suggest this method as a gold standard for quantification of indoor fungi and bacteria in building materials. -- Highlights: Black-Right-Pointing-Pointer Up to thirteen extraction methods were evaluated with three

  20. Molecularly Imprinted Polymer for Solid-Phase Extraction of Ecteinascidin 743 from Sea Squirt%Molecularly Imprinted Polymer for Solid-Phase Extraction of Ecteinascidin 743 from Sea Squirt

    Institute of Scientific and Technical Information of China (English)

    田明磊; 李圣男; 卢敬吴

    2012-01-01

    Ecteinascidin 743 from sea squirt is one of the most original anti-tumoral activity compounds, as proven by the Natural Cancer Institute. Ecteinascidin 743 could be obtained with traditional liquid extraction, but it should be purified and separated from the extract. A molecularly imprinted solid-phase extraction procedure was developed for the selective separation. Ecteinascidin 743 was used as the template and the polymer was synthesized in a methanol environment. Water and n-hexane as the washing solvents can eliminate most of the interference. Good linearity and low relative standard deviations (less than 4.39%)justify its continuing development.

  1. Determination of Three Tanshinones from Radix Salvia Miltiorrhiza by Molecularly Imprinted Solid-phase Extraction

    Institute of Scientific and Technical Information of China (English)

    YAN, Hongyuan; TIAN, Minglei; ROW, Kyung Ho

    2009-01-01

    A selective molecularly imprinted solid-phase extraction procedure was developed for the selective separation of tanshinone Ⅰ, tanshinone ⅡA, and cryptotanshinone from Radix Salvia Miltiorrhiza samples. Tanshinone ⅡA imprinted polymers (MIP) synthesized in ethanol-dodecanol system show high affinity to tanshinone ⅡA and its structure analogs in aqueous environment and the affinity can be controlled by adjusting the intensity of the eluents. By using 60% water-40% methanol (volume ratio) and 99.5% methanol-0.5% trifluoroacetic acid (volume ratio) as washing and eluting solvents, most interferences originating from the salvia matrix were eliminated. The extracts were sufficiently clean enough to be directly injected into HPLC for further chromatographic analysis. Good linearity was obtained from 0.4 to 500.0 mg·L~(-1) (r~2=0.999) with the relative standard deviations less than 4.2%. The mean recoveries of tanshinone ⅡA in Radix Salvia Miltiorrhiza were more than 85.6% at three different concentrations and the limits of detection were 0.06-0.09 mg·L~(-1). This method is a viable alternative tool to the existing HPLC methods for analyzing the content of the three tanshinones in Radix Salvia Miltiorrhiza samples.

  2. From the Cover: Cooperative extraction of membrane nanotubes by molecular motors

    Science.gov (United States)

    Leduc, Cécile; Campàs, Otger; Zeldovich, Konstantin B.; Roux, Aurélien; Jolimaitre, Pascale; Bourel-Bonnet, Line; Goud, Bruno; Joanny, Jean-François; Bassereau, Patricia; Prost, Jacques

    2004-12-01

    In eukaryotic cells, nanotubes represent a substantial fraction of transport intermediates between organelles. They are extracted from membranes by molecular motors walking along microtubules. We previously showed that kinesins fixed on giant unilamellar vesicles in contact with microtubules are sufficient to form nanotubes in vitro. Motors were attached to the membrane through beads, thus facilitating cooperative effects. Koster et al. [Koster, G., VanDuijn, M., Hofs, B. & Dogterom, M. (2003) Proc. Natl. Acad. Sci. USA 100, 15583-15588] proposed that motors could dynamically cluster at the tip of tubes when they are individually attached to the membrane. We demonstrate, in a recently designed experimental system, the existence of an accumulation of motors allowing tube extraction. We determine the motor density along a tube by using fluorescence intensity measurements. We also perform a theoretical analysis describing the dynamics of motors and tube growth. The only adjustable parameter is the motor binding rate onto microtubules, which we measure to be 4.7 ± 2.4 s-1. In addition, we quantitatively determine, for a given membrane tension, the existence of a threshold in motor density on the vesicle above which nanotubes can be formed. We find that the number of motors pulling a tube can range from four at threshold to a few tens away from it. The threshold in motor density (or in membrane tension at constant motor density) could be important for the understanding of membrane traffic regulation in cells. giant unilamellar vesicle | intracellular transport | kinesin | membrane tubule | traffic jam

  3. Molecularly imprinted polymers based on SBA-15 for selective solid-phase extraction of baicalein from plasma samples.

    Science.gov (United States)

    He, Hongliang; Gu, Xiaoli; Shi, Liying; Hong, Junli; Zhang, Hongjuan; Gao, Yankun; Du, Shuhu; Chen, Lina

    2015-01-01

    Highly selective molecularly imprinted mesoporous silica polymer (SBA-15@MIP) for baicalein (BAI) extraction was synthesized using a surface molecular imprinting technique on the SBA-15 supporter. Computational simulation was used to predict the optimal functional monomer for the rational design of SBA-15@MIP. Meanwhile, high adsorption capacity was obtained when a suitable yield of molecularly imprinted polymers (MIPs) layer was grafted onto the surface of SBA-15. Characterization and performance tests of the obtained polymer revealed that SBA-15@MIP possessed a highly ordered mesoporous structure, reached saturated adsorption within 60 min, and exhibited higher sorption capacity to the target molecule BAI compared with non-imprinted mesoporous silica polymer (SBA-15@NIP) and SBA-15. Finally, SBA-15@MIP was successfully applied to solid-phase extraction (SPE) coupled with high-performance liquid chromatography and ultraviolet detection (HPLC-UV) for the determination of trace BAI in plasma samples. Mean recoveries of BAI through the molecularly imprinted solid-phase extraction (MISPE) sorbent, non-imprinted solid-phase extraction (NISPE) sorbent, and SBA-15 solid-phase extraction (SBA-15-SPE) sorbent were 94.4, 22.7, and 10.7 %, respectively, and the relative standard deviations were 2.9, 2.6, and 3.6 %, respectively. These results reveal that SBA-15@MIP as a SPE sorbent has good applicability to selectively separate and enrich trace BAI from complex samples.

  4. Molecularly imprinted polymer grafted to porous polyethylene frits: a new selective solid-phase extraction format.

    Science.gov (United States)

    Barahona, Francisco; Turiel, Esther; Martín-Esteban, Antonio

    2011-10-07

    In this paper, a novel format for selective solid-phase extraction based on a molecularly imprinted polymer (MIP) is described. A small amount of MIP has been synthesized within the pores of commercial polyethylene (PE) frits and attached to its surface using benzophenone (BP), a photo-initiator capable to start the polymerisation from the surface of the support material. Key properties affecting the obtainment of a proper polymeric layer, such as polymerisation time and kind of cross-linker were optimised. The developed imprinted material has been applied as a selective sorbent for cleaning extracts of thiabendazole (TBZ), as model compound, from citrus samples. The use of different solvents for loading the analyte in the imprinted frits was investigated, as well as the binding capacity of the imprinted polymer. Imprinted frits showed good selectivity when loads were performed using toluene and a linear relationship was obtained for the target analyte up to 1000 ng of loaded analyte. Prepared composite material was applied to the SPE of TBZ in real samples extracts, showing an impressive clean-up ability. Calibrations showed good linearity in the concentration range of 0.05-5.00 μg g(-1), referred to the original solid sample, and the regression coefficients obtained were greater than 0.996. The calculated detection limit was 0.016 μg g(-1), low enough to satisfactory analysis of TBZ in real samples. RSDs at different spiking levels ranged below 15% in all the cases and imprinted frits were reusable without loss in their performance.

  5. Anharmonic force constants extracted from first-principles molecular dynamics: applications to heat transfer simulations.

    Science.gov (United States)

    Tadano, T; Gohda, Y; Tsuneyuki, S

    2014-06-04

    A systematic method to calculate anharmonic force constants of crystals is presented. The method employs the direct-method approach, where anharmonic force constants are extracted from the trajectory of first-principles molecular dynamics simulations at high temperature. The method is applied to Si where accurate cubic and quartic force constants are obtained. We observe that higher-order correction is crucial to obtain accurate force constants from the trajectory with large atomic displacements. The calculated harmonic and anharmonic force constants are, then, combined with the Boltzmann transport equation (BTE) and non-equilibrium molecular dynamics (NEMD) methods in calculating the thermal conductivity. The BTE approach successfully predicts the lattice thermal conductivity of bulk Si, whereas NEMD shows considerable underestimates. To evaluate the linear extrapolation method employed in NEMD to estimate bulk values, we analyze the size dependence in NEMD based on BTE calculations. We observe strong nonlinearity in the size dependence of NEMD in Si, which can be ascribed to acoustic phonons having long mean-free-paths and carrying considerable heat. Subsequently, we also apply the whole method to a thermoelectric material Mg2Si and demonstrate the reliability of the NEMD method for systems with low thermal conductivities.

  6. Preparation and characterization of magnetic molecularly imprinted polymers for the extraction of hexamethylenetetramine in milk samples.

    Science.gov (United States)

    Xu, Xing; Duhoranimana, Emmanuel; Zhang, Xiaoming

    2017-01-15

    Magnetic molecularly imprinted polymers (M-MIPs) were synthesized as the sorbents for extracting hexamethylenetetramine (HMT) from milk samples. Molecular simulations were used to calculate the interaction energies of the template monomers. The physical properties of M-MIPs were characterized. The adsorption isotherms and kinetics were investigated. Gas chromatography coupled with tandem mass spectrometry (GC-MS/MS) was applied to determine the amount of HMT residue in milk samples. In the optimized method, a linear calibration curve was obtained using a matrix-matched standard in the range of 1.0-50.0μgL(-1). The limit of detection (LOD) and limit of quantification (LOQ) was 0.3μgkg(-1) and 1.0μgkg(-1), respectively. The relative standard deviation (RSD) of the intra-day assay ranged from 2.6% to 5.2%, while that of the inter-day assay ranged from 3.6% to 11.5%. The recovery of HMT in milk samples ranged from 88.7% to 111.4%.

  7. Extraction and separation of mercury(II from succinate media with high molecular weight amine as an extractant

    Directory of Open Access Journals (Sweden)

    Chandrashekhar P. Mane

    2015-01-01

    Full Text Available The extraction of mercury(II from succinate solutions by 2-octylaminopyridine (2-OAP has been studied by metal distribution measurements. The optimum extraction conditions were determined from a critical study of effects of pH, sodium succinate concentration and 2-octylaminopyridine concentration. The probable composition of the species has been deduced from log–log plots. The extraction reaction proceeds with ion-pair formation and the stoichiometry of extracted species was found to be [(2OAPH+2 Hg(Succinate22−](org. The method has been used to separate mercury(II from commonly associated elements. The method has been further extended to separate and to estimate mercury in synthetic mixtures and real samples.

  8. Novel molecularly imprinted magnetic nanoparticles for the selective extraction of protoberberine alkaloids in herbs and rat plasma.

    Science.gov (United States)

    Meng, Jiawei; Zhang, Wenpeng; Bao, Tao; Chen, Zilin

    2015-06-01

    In this work, a novel magnetic nanomaterial functionalized with a molecularly imprinted polymer was prepared for the extraction of protoberberine alkaloids. Molecularly imprinted polymers were made on the surface of Fe3 O4 nanoparticles by using berberine as template, acetonitrile/water as porogen, acrylamide as functional monomer and ethylene glycol dimethacrylate as cross-linker. The optimized molar ratio of template/functional monomer was 1:7. The polymeric magnetic nanoparticles were characterized by transmission electron microscopy and Fourier transform infrared spectroscopy. The stability and adsorption capacity of the molecularly imprinted polymers were investigated. The molecularly imprinted polymers were used as a selective sorbent for the magnetic molecularly imprinted solid-phase extraction and determination of jatrorrhizine, palmatine, and berberine. Extraction parameters were studied including loading pH, sample volume, stirring speed, and extraction time. Finally, a magnetic molecularly imprinted solid-phase extraction coupled to high-performance liquid chromatography method was developed. Under the optimized conditions, the method showed good linear range of 0.1-150 ng/mL for berberine and 0.1-100 ng/mL for jatrorrhizine and palmatine. The limit of detection was 0.01 ng/mL for berberine and 0.02 ng/mL for jatrorrhizine and palmatine. The proposed method has been applied to determine protoberberine alkaloids in Cortex phellodendri and rat plasma samples. The recoveries ranged from 87.33-102.43%, with relative standard deviation less than 4.54% in Cortex phellodendri and from 102.22-111.15% with relative standard deviation less than 4.59% in plasma.

  9. Use of molecularly imprinted solid-phase extraction for the selective clean-up of clenbuterol from calf urine

    NARCIS (Netherlands)

    Berggren, C; Bayoudh, S; Sherrington, D; Ensing, K

    2000-01-01

    A feasibility study was performed in order to study the possibilities in using molecularly imprinted polymers (MIPs) as sorbent material in solid-phase extraction (MISPE) for clean-up of clenbuterol from urine. A binding study of clenbuterol in several solvents was performed on a clenbuterol imprint

  10. PASBio: predicate-argument structures for event extraction in molecular biology

    Directory of Open Access Journals (Sweden)

    Shah Parantu K

    2004-10-01

    Full Text Available Abstract Background The exploitation of information extraction (IE, a technology aiming to provide instances of structured representations from free-form text, has been rapidly growing within the molecular biology (MB research community to keep track of the latest results reported in literature. IE systems have traditionally used shallow syntactic patterns for matching facts in sentences but such approaches appear inadequate to achieve high accuracy in MB event extraction due to complex sentence structure. A consensus in the IE community is emerging on the necessity for exploiting deeper knowledge structures such as through the relations between a verb and its arguments shown by predicate-argument structure (PAS. PAS is of interest as structures typically correspond to events of interest and their participating entities. For this to be realized within IE a key knowledge component is the definition of PAS frames. PAS frames for non-technical domains such as newswire are already being constructed in several projects such as PropBank, VerbNet, and FrameNet. Knowledge from PAS should enable more accurate applications in several areas where sentence understanding is required like machine translation and text summarization. In this article, we explore the need to adapt PAS for the MB domain and specify PAS frames to support IE, as well as outlining the major issues that require consideration in their construction. Results We introduce PASBio by extending a model based on PropBank to the MB domain. The hypothesis we explore is that PAS holds the key for understanding relationships describing the roles of genes and gene products in mediating their biological functions. We chose predicates describing gene expression, molecular interactions and signal transduction events with the aim of covering a number of research areas in MB. Analysis was performed on sentences containing a set of verbal predicates from MEDLINE and full text journals. Results confirm

  11. Automatization of lexicographic work

    Directory of Open Access Journals (Sweden)

    Iztok Kosem

    2013-12-01

    Full Text Available A new approach to lexicographic work, in which the lexicographer is seen more as a validator of the choices made by computer, was recently envisaged by Rundell and Kilgarriff (2011. In this paper, we describe an experiment using such an approach during the creation of Slovene Lexical Database (Gantar, Krek, 2011. The corpus data, i.e. grammatical relations, collocations, examples, and grammatical labels, were automatically extracted from 1,18-billion-word Gigafida corpus of Slovene. The evaluation of the extracted data consisted of making a comparison between the time spent writing a manual entry and a (semi-automatic entry, and identifying potential improvements in the extraction algorithm and in the presentation of data. An important finding was that the automatic approach was far more effective than the manual approach, without any significant loss of information. Based on our experience, we would propose a slightly revised version of the approach envisaged by Rundell and Kilgarriff in which the validation of data is left to lower-level linguists or crowd-sourcing, whereas high-level tasks such as meaning description remain the domain of lexicographers. Such an approach indeed reduces the scope of lexicographer’s work, however it also results in the ability of bringing the content to the users more quickly.

  12. Preparation and evaluation of molecularly imprinted solid-phase micro-extraction fibers for selective extraction of phthalates in an aqueous sample.

    Science.gov (United States)

    He, Juan; Lv, Ruihe; Zhan, Haijun; Wang, Huizhi; Cheng, Jie; Lu, Kui; Wang, Fengcheng

    2010-07-26

    A novel molecularly imprinted polymer (MIP) that was applied to a solid-phase micro-extraction (SPME) device, which could be coupled directly to gas chromatograph and mass spectrometer (GC/MS), was prepared using dibutyl phthalate (DBP) as the template molecule. The characteristics and application of this fiber were investigated. Electron microscope images indicated that the MIP-coated solid-phase micro-extraction (MI-SPME) fibers were homogeneous and porous. The extraction yield of DBP with the MI-SPME fibers was higher than that of the non-imprinted polymer (NIP)-coated SPME (NI-SPME) fibers. The MI-SPME fibers had a higher selectivity to other phthalates that had similar structures as DBP. A method was developed for the determination of phthalates using MI-SPME fibers coupled with GC/MS. The extraction conditions were optimized. Detection limits for the phthalate samples were within the range of 2.17-20.84 ng L(-1). The method was applied to five kinds of phthalates dissolved in spiked aqueous samples and resulted in recoveries of up to 94.54-105.34%, respectively. Thus, the MI-SPME fibers are suitable for the extraction of trace phthalates in complicated samples.

  13. Preparation and evaluation of molecularly imprinted solid-phase micro-extraction fibers for selective extraction of phthalates in an aqueous sample

    Energy Technology Data Exchange (ETDEWEB)

    He Juan, E-mail: juanhe@haut.edu.cn [School of Chemistry and Chemical Engineering, Henan University of, Technology, LianHua Road, Zhengzhou 450051 (China); Lv Ruihe; Zhan Haijun; Wang Huizhi; Cheng Jie; Lu Kui; Wang Fengcheng [School of Chemistry and Chemical Engineering, Henan University of, Technology, LianHua Road, Zhengzhou 450051 (China)

    2010-07-26

    A novel molecularly imprinted polymer (MIP) that was applied to a solid-phase micro-extraction (SPME) device, which could be coupled directly to gas chromatograph and mass spectrometer (GC/MS), was prepared using dibutyl phthalate (DBP) as the template molecule. The characteristics and application of this fiber were investigated. Electron microscope images indicated that the MIP-coated solid-phase micro-extraction (MI-SPME) fibers were homogeneous and porous. The extraction yield of DBP with the MI-SPME fibers was higher than that of the non-imprinted polymer (NIP)-coated SPME (NI-SPME) fibers. The MI-SPME fibers had a higher selectivity to other phthalates that had similar structures as DBP. A method was developed for the determination of phthalates using MI-SPME fibers coupled with GC/MS. The extraction conditions were optimized. Detection limits for the phthalate samples were within the range of 2.17-20.84 ng L{sup -1}. The method was applied to five kinds of phthalates dissolved in spiked aqueous samples and resulted in recoveries of up to 94.54-105.34%, respectively. Thus, the MI-SPME fibers are suitable for the extraction of trace phthalates in complicated samples.

  14. Automatic extraction of shallow landslides based on SPOT-5 remote sensing images%基于SPOT5遥感影像的浅层滑坡体自动提取方法

    Institute of Scientific and Technical Information of China (English)

    杨树文; 谢飞; 韩惠; 冯光胜

    2012-01-01

    The thesis advanced an improved extraction method of shallow landslides on the basis of previous research. Firstly, bare land information was extracted from SPOT5 images based on CMSAVI method. Then, a series of further processions were done upon the extraction results; removed the shadows, then selected based on slope, after that the morphological filtering was done, then transformed the raster image into vector in order to do further selection based on area and downslope. Finally, the improved multi-peak histogram threshholding method was used for automatic extraction of landslide information. It' s improved by the experiment that this method could not only get rid of non-landslides and other interference information but also realize the automatic extraction of landslide information, increase the efficiency and accuracy of extraction and identification of occurred landslides.%本文在前人研究的基础上,对浅层滑坡体的提取方法进行了改进.首先利用改进的MSAVI算法提取SPOT5影像中的裸地信息,进而对提取的结果进行去阴影、坡度筛选、形态学滤波、栅-矢转换、面积和顺坡性筛选,并基于改进的多峰直方图阈值自动选取算法实现了滑坡体信息的自动提取.经过实验比较表明,改进的方法既有效地去除非滑坡体等于扰信息,又真正实现了滑坡体信息的自动提取,从而极大地提高了已发生滑坡体的识别、提取效率和精度.

  15. Highly selective and sensitive analysis of dopamine by molecularly imprinted stir bar sorptive extraction technique coupled with complementary molecularly imprinted polymer sensor.

    Science.gov (United States)

    Prasad, Bhim Bali; Srivastava, Amrita; Tiwari, Mahavir Prasad

    2013-04-15

    This paper reports a combination of molecularly imprinted stir bar sorptive extraction and complementary molecularly imprinted polymer-sensor for the analysis of dopamine as a biomarker of several neurodegenerative diseases occurred at ultra trace level. This exploited iniferter initiated polymerization via "surface grafting-from" approach onto magnetic stir bar (for sorptive extraction) and multiwalled carbon nanotubes-ceramic electrode (for detection). Such hyphenation helped dual pre-concentration of dopamine in aqueous, biological and pharmaceutical samples. This enabled high sensitivity to achieve the stringent limit [limit of detection: 4.9ngL(-1), RSD=2.4%, S/N=3, cerebrospinal fluid] of clinical detection, without any problems of non-specific contributions and cross-reactivity.

  16. Synthesis and Characterization of Molecular Imprinting Polymer Microspheres of Piperine: Extraction of Piperine from Spiked Urine

    Directory of Open Access Journals (Sweden)

    Rachel Marcella Roland

    2016-01-01

    Full Text Available Molecularly imprinted polymer (MIP microspheres for Piperine were synthesized by precipitation polymerization with a noncovalent approach. In this research Piperine was used as a template, acrylic acid as a functional monomer, ethylene glycol dimethacrylate as a cross-linker, and 2,2′-azobisisobutyronitrile (AIBN as an initiator and acetonitrile as a solvent. The imprinted and nonimprinted polymer particles were characterized by using Fourier transform infrared spectroscopy (FT-IR and Scanning Electron Microscopy (SEM. The synthesized polymer particles were further evaluated for their rebinding efficiency by batch binding assay. The highly selected imprinted polymer for Piperine was MIP 3 with a composition (molar ratio of 0.5 : 3 : 8, template : monomer : cross-linker, respectively. The MIP 3 exhibits highest binding capacity (84.94% as compared to other imprinted and nonimprinted polymers. The extraction efficiency of highly selected imprinted polymer of Piperine from spiked urine was above 80%.

  17. Flow system for optical activity detection of vegetable extracts employing molecular exclusion continuous chromatographic detection

    Science.gov (United States)

    Fajer, V.; Rodríguez, C.; Naranjo, S.; Mesa, G.; Mora, W.; Arista, E.; Cepero, T.; Fernández, H.

    2006-02-01

    The combination of molecular exclusion chromatography and laser polarimetric detection has turned into a carbohydrate separation and quantification system for plant fluids of industrial value, making it possible the evaluation of the quality of sugarcane juices, agave juices and many other plant extracts. Some previous papers described a system where liquid chromatography separation and polarimetric detection using a LASERPOL 101M polarimeter with He-Ne light source allowed the collection and quantification of discrete samples for analytical purposes. In this paper, the authors are introducing a new improved system which accomplishes polarimetric measurements in a continuous flux. Chromatograms of several carbohydrates standard solutions were obtained as useful references to study juice quality of several sugarcane varieties under different physiological conditions. Results by either discrete or continuous flux systems were compared in order to test the validation of the new system. An application of the system to the diagnostics of scalded foliar is described. A computer program allowing the output of the chromatograms to a display on line and the possibility of digital storing, maxima detections, zone integration, and some other possibilities make this system very competitive and self-convincing.

  18. Extracting the stepping dynamics of molecular motors in living cells from trajectories of single particles.

    Science.gov (United States)

    Bruno, Augusto; Bruno, Luciana; Levi, Valeria

    2013-01-01

    Molecular motors are responsible of transporting a wide variety of cargos in the cytoplasm. Current efforts are oriented to characterize the biophysical properties of motors in cells with the aim of elucidating the mechanisms of these nanomachines in the complex cellular environment. In this study, we present an algorithm designed to extract motor step sizes and dwell times between steps from trajectories of motors or cargoes driven by motors in cells. The algorithm is based on finding patterns in the trajectory compatible with the behavior expected for a motor step, i.e., a region of confined motion followed by a jump in the position to another region of confined motion with similar characteristics to the previous one. We show that this algorithm allows the analysis of 2D trajectories even if they present complex motion patterns such as active transport interspersed with diffusion and does not require the assumption of a given step size or dwell period. The confidence on the step detection can be easily obtained and allows the evaluation of the confidence of the dwell and step size distributions. To illustrate the possible applications of this algorithm, we analyzed trajectories of myosin-V driven organelles in living cells.

  19. Selective extraction of dimethoate from cucumber samples by use of molecularly imprinted microspheres

    Directory of Open Access Journals (Sweden)

    Jiao-Jiao Du

    2015-06-01

    Full Text Available Molecularly imprinted polymers for dimethoate recognition were synthesized by the precipitation polymerization technique using methyl methacrylate (MMA as the functional monomer and ethylene glycol dimethacrylate (EGDMA as the cross-linker. The morphology, adsorption and recognition properties were investigated by scanning electron microscopy (SEM, static adsorption test, and competitive adsorption test. To obtain the best selectivity and binding performance, the synthesis and adsorption conditions of MIPs were optimized through single factor experiments. Under the optimized conditions, the resultant polymers exhibited uniform size, satisfactory binding capacity and significant selectivity. Furthermore, the imprinted polymers were successfully applied as a specific solid-phase extractants combined with high performance liquid chromatography (HPLC for determination of dimethoate residues in the cucumber samples. The average recoveries of three spiked samples ranged from 78.5% to 87.9% with the relative standard deviations (RSDs less than 4.4% and the limit of detection (LOD obtained for dimethoate as low as 2.3 μg/mL.

  20. Selective extraction of dimethoate from cucumber samples by use of molecularly imprinted microspheres

    Institute of Scientific and Technical Information of China (English)

    Jiao-Jiao Du; Rui-Xia Gao; Hu Yu; Xiao-Jing Li; Hui Mu

    2015-01-01

    Molecularly imprinted polymers for dimethoate recognition were synthesized by the precipitation polymerization technique using methyl methacrylate (MMA) as the functional monomer and ethylene glycol dimethacrylate (EGDMA) as the cross-linker. The morphology, adsorption and recognition properties were investigated by scanning electron microscopy (SEM), static adsorption test, and competitive adsorption test. To obtain the best selectivity and binding performance, the synthesis and adsorption conditions of MIPs were optimized through single factor experiments. Under the optimized conditions, the resultant polymers exhibited uniform size, satisfactory binding capacity and significant selectivity. Furthermore, the imprinted polymers were successfully applied as a specific solid-phase extractants combined with high performance liquid chromatography (HPLC) for determination of dimethoate residues in the cucumber samples. The average recoveries of three spiked samples ranged from 78.5% to 87.9% with the relative standard deviations (RSDs) less than 4.4% and the limit of detection (LOD) obtained for dimethoate as low as 2.3μg/mL.

  1. Comparative analysis of four methods to extract DNA from paraffin-embedded tissues: effect on downstream molecular applications

    Directory of Open Access Journals (Sweden)

    Savelkoul Paul HM

    2010-09-01

    Full Text Available Abstract Background A large portion of tissues stored worldwide for diagnostic purposes is formalin-fixed and paraffin-embedded (FFPE. These FFPE-archived tissues are an extremely valuable source for retrospective (genetic studies. These include mutation screening in cancer-critical genes as well as pathogen detection. In this study we evaluated the impact of several widely used DNA extraction methods on the quality of molecular diagnostics on FFPE tissues. Findings We compared 4 DNA extraction methods from 4 identically processed FFPE mammary-, prostate-, colon- and lung tissues with regard to PCR inhibition, real time SNP detection and amplifiable fragment size. The extraction methods, with and without proteinase K pre-treatment, tested were: 1 heat-treatment, 2 QIAamp DNA-blood-mini-kit, 3 EasyMAG NucliSens and 4 Gentra Capture-Column-kit. Amplifiable DNA fragment size was assessed by multiplexed 200-400-600 bp PCR and appeared highly influenced by the extraction method used. Proteinase K pre-treatment was a prerequisite for proper purification of DNA from FFPE. Extractions with QIAamp, EasyMAG and heat-treatment were found suitable for amplification of fragments up to 400 bp from all tissues, 600 bp amplification was marginally successful (best was QIAamp. QIAamp and EasyMAG extracts were found suitable for downstream real time SNP detection. Gentra extraction was unsuitable. Hands-on time was lowest for heat-treatment, followed by EasyMAG. Conclusions We conclude that the extraction method plays an important role with regard to performance in downstream molecular applications.

  2. Improvement of extraction capability of magnetic molecularly imprinted polymer beads in aqueous media via dual-phase solvent system.

    Science.gov (United States)

    Hu, Yuling; Liu, Ruijin; Zhang, Yi; Li, Gongke

    2009-08-15

    In this study, a novel and simple dual-phase solvent system for the improvement of extraction capability of magnetic molecularly imprinted polymer (MIP) beads in aqueous sample was proposed. The method integrated MIP extraction and micro-liquid-liquid extraction (micro-LLE) into only one step. A magnetic MIP beads using atrazine as template was synthesized, and was applied to aqueous media by adding micro-volume of n-hexane to form a co-extraction system. The magnetic MIP beads preferred to suspend in the organic phase, which shielded them from the disturbance of water molecule. The target analytes in the water sample was extracted into the organic phase by micro-LLE and then further bound to the solid-phase of magnetic MIP beads. The beads specificity was significantly improved with the imprinting efficiency of template increasing from 0.5 to 4.4, as compared with that in pure aqueous media. The extraction capacity, equilibration process and cross-selectivity of the MIP dual-phase solvent extraction system were investigated. The proposed method coupled with high-performance liquid chromatography was applied to the analysis of atrazine, simazine, propazine, simetryn, prometryne, ametryn and terbutryn in complicated sample such as tomato, strawberry juice and milk. The method is selective, sensitive and low organic solvent-consuming, and has potential to broaden the range of MIP application in biological and environmental sample.

  3. Development of Solid-Phase Extraction Using Molecularly Imprinted Polymer for the Analysis of Organophosphorus Pesticides-(Chlorpyrifos) in Aqueous Solution

    OpenAIRE

    Binsalom, A.; Chianella, I.; Campbell, K.; Zourob, M.

    2016-01-01

    A new and selective sorbent for molecularly imprinted solid-phase extraction (MISPE) was prepared to extract chlorpyrifos (CPF) residue from solutions. The extracted analyte was analyzed by high performance liquid chromotography (HPLC) coupled with photodiode array detection. To synthesize the molecularly imprinted polymers, four different pyrogens (acetonitrile, toluene, dichloromethane and chloroform) were initially studied. CPF was used as the template molecule, methacrylic acid as the fun...

  4. LDFF, the large molecular weight DNA fragmentation factor, is responsible for the large molecular weight DNA degradation during apoptosis in Xenopus egg extracts

    Institute of Scientific and Technical Information of China (English)

    Zhi Gang LU; Chuan Mao ZHANG; Zhong He ZHAI

    2004-01-01

    DNA degradation is a biochemical hallmark in apoptosis. It has been demonstrated in many cell types that there are two stages of DNA fragmentation during the apoptotic execution. In the early stage, chromatin DNA is cut into large molecular weight DNA fragments, although the responsible nuclease(s) has not been recognized. In the late stage, the chromatin DNA is cleaved further into short oligonucleosomal fragments by a well-characterized nuclease in apoptosis,the caspase-activated DNase (CAD/DFF40). In this study, we demonstrate that large molecular weight DNA fragmentation also occurs in Xenopus egg extracts in apoptosis. We show that the large molecular weight DNA fragmentation factor (LDFF) is not the Xenopus CAD homolog XCAD. LDFF is activated by caspase-3. The large molecular weight DNA fragmentation activity of LDFF is Mg2+-dependent and Ca2+-independent, can occur in both acidic and neutral pH conditions and can tolerate 45℃ treatment. These results indicate that LDFF in Xenopus egg extracts might be a new DNase (or DNases) responsible for the large DNA fragmentation.

  5. Logic minimization and rule extraction for identification of functional sites in molecular sequences

    Directory of Open Access Journals (Sweden)

    Cruz-Cano Raul

    2012-08-01

    Full Text Available Abstract Background Logic minimization is the application of algebraic axioms to a binary dataset with the purpose of reducing the number of digital variables and/or rules needed to express it. Although logic minimization techniques have been applied to bioinformatics datasets before, they have not been used in classification and rule discovery problems. In this paper, we propose a method based on logic minimization to extract predictive rules for two bioinformatics problems involving the identification of functional sites in molecular sequences: transcription factor binding sites (TFBS in DNA and O-glycosylation sites in proteins. TFBS are important in various developmental processes and glycosylation is a posttranslational modification critical to protein functions. Methods In the present study, we first transformed the original biological dataset into a suitable binary form. Logic minimization was then applied to generate sets of simple rules to describe the transformed dataset. These rules were used to predict TFBS and O-glycosylation sites. The TFBS dataset is obtained from the TRANSFAC database, while the glycosylation dataset was compiled using information from OGLYCBASE and the Swiss-Prot Database. We performed the same predictions using two standard classification techniques, Artificial Neural Networks (ANN and Support Vector Machines (SVM, and used their sensitivities and positive predictive values as benchmarks for the performance of our proposed algorithm. SVM were also used to reduce the number of variables included in the logic minimization approach. Results For both TFBS and O-glycosylation sites, the prediction performance of the proposed logic minimization method was generally comparable and, in some cases, superior to the standard ANN and SVM classification methods with the advantage of providing intelligible rules to describe the datasets. In TFBS prediction, logic minimization produced a very small set of simple rules. In

  6. Nanostructured conducting molecularly imprinted polymer for selective extraction of salicylate from urine and serum samples by electrochemically controlled solid-phase micro-extraction

    Energy Technology Data Exchange (ETDEWEB)

    Ameli, Akram [Department of Chemistry, Faculty of Science, Tarbiat Modares University, P.O. Box 14115-175, Tehran (Iran, Islamic Republic of); Alizadeh, Naader, E-mail: alizaden@modares.ac.ir [Department of Chemistry, Faculty of Science, Tarbiat Modares University, P.O. Box 14115-175, Tehran (Iran, Islamic Republic of)

    2011-11-30

    Highlights: Black-Right-Pointing-Pointer Overoxidized polypyrrole templated with salicylate has been utilized as conducting molecular imprinted polymer for EC-SPME. Black-Right-Pointing-Pointer This first study reported on conducting molecular imprinted polymer was used to EC-SPME of salicylate. Black-Right-Pointing-Pointer Proposed method, is particularly effective in sample clean-up and selective monitoring of salicylate in physiological samples. - Abstract: Overoxidized polypyrrole (OPPy) films templated with salicylate (SA) have been utilized as conducting molecular imprinted polymers (CMIPs) for potential-induced selective solid-phase micro-extraction processes. Various important fabrication factors for controlling the performance of the OPPy films have been investigated using fluorescence spectrometry. Several key parameters such as applied potential for uptake, release, pH of uptake and release solution were varied to achieve the optimum micro-extraction procedure. The film template with SA exhibited excellent selectivity over some interference. The calibration graphs were linear in the ranges of 5 Multiplication-Sign 10{sup -8} to 5 Multiplication-Sign 10{sup -4} and 1.2 Multiplication-Sign 10{sup -6} to 5 Multiplication-Sign 10{sup -4} mol mL{sup -1} and the detection limit was 4 Multiplication-Sign 10{sup -8} mol L{sup -1}. The OPPy film as the solid-phase micro-extraction absorbent has been applied for the selective clean-up and quantification of trace amounts of SA from physiological samples. The results of scanning electron microscopy (SEM) have confirmed the nano-structure morphologies of the films.

  7. Fucans, sulfated polysaccharides extracted from brown seaweeds, inhibit vascular smooth muscle cell proliferation. II. Degradation and molecular weight effect.

    Science.gov (United States)

    Logeart, D; Prigent-Richard, S; Boisson-Vidal, C; Chaubet, F; Durand, P; Jozefonvicz, J; Letourneur, D

    1997-12-01

    Fucan, a sulfated polysaccharide extracted from brown seaweeds, inhibits smooth muscle cell (SMC) proliferation with a higher antiproliferative activity than heparin (Logeart et al., Eur. J. Cell Biol. 74, 1997, this issue). In order to investigate the structure-activity relationship of fucan on SMC growth, we have prepared by size exclusion chromatography fucan fractions of various molecular masses ranging from 5.5 to 556 kDa. Our experiments showed that the antiproliferative activity is dependent on the molecular weight of the polysaccharide. The molecular weight threshold indicated that about 30 saccharidic units on fucan were necessary to give the antiproliferative activity on SMCs. A kinetics study of DNA synthesis using tritiated thymidine uptake was also performed with different molecular weight fucan fractions. Although all tested fractions acted as soon as the cells enter the first cell cycle, the duration and potency of action varied. Moreover, displacement experiments of iodinated fucan revealed that the low molecular fucan fraction interacted weakly with the binding sites. Finally, gel permeation chromatography of internalized radiolabeled heparin and fucans was performed with SMCs. A rapid degradation of internalized heparin was observed, whereas only low molecular weight fucan fractions were partially degraded by SMCs. Together, these results indicate the significance of molecular weight on the antiproliferative activity of fucans on SMCs, and might help to understand their mechanism of action. In addition, the degradation experiments with internalized heparin and fucans ruled out a direct link between polysaccharide degradation and the antiproliferative effect on SMCs.

  8. High-capacity thermo-responsive magnetic molecularly imprinted polymers for selective extraction of curcuminoids.

    Science.gov (United States)

    You, Qingping; Zhang, Yuping; Zhang, Qingwen; Guo, Junfang; Huang, Weihua; Shi, Shuyun; Chen, Xiaoqin

    2014-08-08

    Thermo-responsive magnetic molecularly imprinted polymers (TMMIPs) for selective recognition of curcuminoids with high capacity and selectivity have firstly been developed. The resulting TMMIPs were characterized by TEM, FT-IR, TGA, VSM and UV, which indicated that TMMIPs showed thermo-responsiveness [lower critical solution temperature (LCST) at 33.71°C] and rapid magnetic separation (5s). The polymerization, adsorption and release conditions were optimized in detail to obtain the highest binding capacity, selectivity and release ratio. We found that the adopted thermo-responsive monomer [N-isopropylacrylamide (NIPAm)] could be considered not only as inert polymer backbone for thermo-responsiveness but also as functional co-monomers combination with basic monomer (4-VP) for more specific binding sites when ethanol was added in binding solution. The maximum adsorption capacity with highest selectivity of curcumin was 440.3μg/g (1.93 times that on MMIPs with no thermosensitivity) at 45°C (above LCST) in 20% (v/v) ethanol solution on shrunk TMMIPs, and the maximum release proportion was about 98% at 20°C (below LCST) in methanol-acetic acid (9/1, v/v) solution on swelled TMMIPs. The adsorption process between curcumin and TMMIPs followed Langumuir adsorption isotherm and pseudo-first-order reaction kinetics. The prepared TMMIPs also showed high reproducibility (RSD<6% for batch-to-batch evaluation) and stability (only 7% decrease after five cycles). Subsequently, the TMMIPs were successfully applied for selective extraction of curcuminoids from complex natural product, Curcuma longa.

  9. Selective solid-phase extraction using molecular imprinted polymer sorbent for the analysis of florfenicol in food samples.

    Science.gov (United States)

    Sadeghi, Susan; Jahani, Moslem

    2013-11-15

    A molecularly imprinted polymer (MIP) for the selective solid phase extraction (SPE) of florfenicol (FF) was prepared using FF as template and 4-vinyl pyridine (4-VP) as functional monomer. For comparison, non-imprinted polymer (NIP) was synthesized in the absence of FF. The synthesized polymers were characterised by infrared spectroscopy (IR), scanning electron microscopy (SEM), thermogravimetry analysis (TGA) and differential thermal analysis (DTA). A molecularly imprinted solid phase extraction (MISPE) procedure was performed in column method by spectrophotometry detection technique. The prepared FF-MIP showed higher adsorption capacity than the non-imprinted polymer (NIP) and the maximum static adsorption capacities of FF on the MIP and the NIP were 4.32 and 2.88mgg(-1), respectively. Kinetics of the adsorption was fast and the adsorption equilibrium was achieved in 30min. The accuracy of the developed method was satisfactory for determination of FF in fish, chicken meat and honey samples.

  10. Molecular characterization of antitumor effects of the rhizome extract from Curcuma zedoaria on human esophageal carcinoma cells.

    Science.gov (United States)

    Hadisaputri, Yuni Elsa; Miyazaki, Tatsuya; Suzuki, Shigemasa; Kubo, Norio; Zuhrotun, Ade; Yokobori, Takehiko; Abdulah, Rizky; Yazawa, Shin; Kuwano, Hiroyuki

    2015-12-01

    Curcuma zedoaria has been used as a traditional agent against malignant diseases. To elucidate detailed mechanisms producing such an activity, characterization and determination of molecular mechanisms of its antitumor effects was conducted. Inhibiting activities against cell proliferation, invasion and colony formation, and expression levels of corresponding molecules were investigated using human esophageal cancer TE-8 cells treated with the rhizome extract from C. zedoaria. Antitumor effect of the extract administered orally was also examined in tumor-bearing mice. The extract possessed strong anti-proliferation and invasion activities against TE-8 cells. Further, upregulated PTEN and downregulated phosphorylated Akt, mTOR and STAT3 expressions in the cells were induced shortly after treatment with the extract, followed by attenuation of FGFR1 and MMP-2, activation of caspase-9, caspase-3 and PARP, and suppression of Bcl-2 expressions, which led the cells to apoptotic cell death. Furthermore, tumor formation in mice was significantly suppressed through the oral administration of the extract. Taken together, these results suggest that the C. zedoaria extract could be a promising agent against esophageal cancer.

  11. Development of a selective solid phase extraction method for nitro musk compounds in environmental waters using a molecularly imprinted sorbent.

    Science.gov (United States)

    Lopez-Nogueroles, Marina; Lordel-Madeleine, Sonia; Chisvert, Alberto; Salvador, Amparo; Pichon, Valérie

    2013-06-15

    A powerful analytical method for the determination of the family of the nitro musk compounds at trace level in environmental waters-river, sea, and water from a treatment plant-is presented. The method is based on the use of molecularly imprinted silica (MIS) as sorbent for solid phase extraction (SPE) used for the clean-up and the concentration step of the target analytes previous to their determination by gas chromatography-mass spectrometry. The optimized extraction procedure allowed extraction recoveries between 61% and 87% using the MIS. The comparison with a non-imprinted silica (NIS) sorbent, for which extraction recoveries between 8% and 26% were obtained, showed the high selectivity of the MIS for the nitro musks. Moreover, high enrichment factors, ranging between 580 and 827, were achieved. The imprinted sorbent was compared to a conventional polymeric SPE sorbent for the extraction of the target compounds from environmental waters, showing high selectivity of the MIS and its clean-up potential. For the first time, the five nitro musk compounds were selectively extracted with an imprinted material.

  12. Design of a new cartridge for selective solid phase extraction using molecularly imprinted polymers: selective extraction of theophylline from human serum samples.

    Science.gov (United States)

    Khorrami, Afshin Rajabi; Rashidpur, Amene

    2009-11-15

    This paper describes design of a new cartridge for selective solid phase extraction (SPE) using molecularly imprinted polymers (MIPs). The apparatus which is termed solvent extraction-MISPE (SE-MISPE) cartridge, consisted of a modified conventional micro test tube and has been developed to perform simultaneous forward-extraction of analyte from aqueous sample solution to an organic phase and back-extraction to MIP solid phase. In order to evaluate the performance of the proposed method, extraction of theophylline (THP) from human serum sample was investigated. An appropriate amount of THP-imprinted polymer was placed in the bottom of the micro tube and an organic solvent pipetted onto it and left to swell the polymer completely. A polyethylene frit to secure MIP particles was positioned by two Teflon rings such that it was fixed below the level of the organic layer. Then, aqueous sample solution containing THP was layered over the organic phase and the lid was closed. After completion of extraction, the organic and aqueous phases were removed and the adsorbed analyte was desorbed using a polar organic solvent. In order to reach the highest recovery, the experimental parameters such as the type of organic solvent, pH and ionic strength of aqueous phase, organic to aqueous volume ratio, time of extraction, type and amount of desorbent solvent were optimized. Under the experimental conditions, a plot of HPLC peak areas vs. initial concentrations of THP in the concentration interval of 0.5-30 microg ml(-1) showed a good linearity (r=0.9974). The limit of detection (LOD) and limit of quantification (LOQ) based on three and ten times of the noise of HPLC profile were 0.09 and 0.3 microg ml(-1), respectively. The relative standard deviation (RSD) of the proposed method for the extraction and determination of 5 microg THP from 200 microl standard sample solution for 3 replicate measurements was 3.5%. The results showed that by means of the proposed cartridge, THP could

  13. 基于主动轮廓模型的肺纹理自动提取新方法%A Novel Automatic Extraction Method of Lung Texture Tree from HRCT Images

    Institute of Scientific and Technical Information of China (English)

    刘军伟; 冯焕清; 周颖玥; 李传富

    2009-01-01

    Computed tomography (CT) is the primary imaging modality for investigation of lung function and lung diseases. High resolution CT slice images of chest contain lots of texture information, which provides powerful datasets to research computer aid-diagnosis (CAD) system. But the extraction of lung tissue textures is a challenge task. In this paper, we introduce a novel method based on level set to extract lung tissue texture tree, which is automatic and effectual. Firstly, we propose an improved implicit active contour model driven by local binary fitting energy, and the parameters are dynamic and modulated by image gradient information. Secondly, a new technique of painting background based on intensity nonlinear mapping is brought forward to remove the influence of background during the evolution of single level set function. At last, a number of contrast experiments are performed, and the results of 3D surface reconstruction show our method is efficient and powerful for the segmentation of fine lung tree texture structures.

  14. Automatic Reading

    Institute of Scientific and Technical Information of China (English)

    胡迪

    2007-01-01

    <正>Reading is the key to school success and,like any skill,it takes practice.A child learns to walk by practising until he no longer has to think about how to put one foot in front of the other.The great athlete practises until he can play quickly,accurately and without thinking.Ed- ucators call it automaticity.

  15. One-step column chromatographic extraction with gradient elution followed by automatic separation of volatiles, flavonoids and polysaccharides from Citrus grandis.

    Science.gov (United States)

    Han, Han-Bing; Li, Hui; Hao, Rui-Lin; Chen, Ya-Fei; Ni, He; Li, Hai-Hang

    2014-02-15

    Citrus grandis Tomentosa is widely used in traditional Chinese medicine and health foods. Its functional components include volatiles, flavonoids and polysaccharides which cannot be effectively extracted through traditional methods. A column chromatographic extraction with gradient elution was developed for one-step extraction of all bioactive substances from C. grandis. Dried material was loaded into a column with petroleum ether: ethanol (8:2, PE) and sequentially eluted with 2-fold PE, 3-fold ethanol: water (6:4) and 8-fold water. The elutes was separated into an ether fraction containing volatiles and an ethanol-water fraction containing flavonoids and polysaccharides. The later was separated into flavonoids and polysaccharides by 80% ethanol precipitation of polysaccharides. Through this procedure, volatiles, flavonoids and polysaccharides in C. grandis were simultaneously extracted at 98% extraction rates and simply separated at higher than 95% recovery rates. The method provides a simple and high-efficient extraction and separation of wide range bioactive substances.

  16. Novel dummy molecularly imprinted polymers for matrix solid-phase dispersion extraction of eight fluoroquinolones from fish samples.

    Science.gov (United States)

    Sun, Xiaoli; Wang, Jincheng; Li, Yun; Yang, Jiajia; Jin, Jing; Shah, Syed Mazhar; Chen, Jiping

    2014-09-12

    A series of novel dummy molecularly imprinted polymers (DMIPs) were prepared as highly class-selective sorbents for fluoroquinolones. A non-poisonous dummy template, daidzein, was used for the first time to create specific molecular recognition sites for fluoroquinolones in the synthesized polymers. The influence of porogen polarity on dummy molecular imprinting effect was studied. The DMIP prepared using dimethylsulfoxide-acetonitrile (1:1.8, v/v) as porogen achieved the highest imprinting factors (IF) for fluoroquinolones over a range of IF 13.4-84.0. This DMIP was then used for selective extraction of eight fluoroquinolones (fleroxacin, ofloxacin, norfloxacin, pefloxacin, ciprofloxacin, lomefloxacin, enrofloxacin and gatifloxacin) from fish samples based on dummy molecularly imprinted matrix solid-phase dispersion (DMI-MSPD). The extracted fluoroquinolones were subsequently analyzed by high-performance liquid chromatography (HPLC) equipped with a fluorescence detector (FLD). The developed method had acceptable recoveries (64.4-102.7%) and precision (RSDs: 1.7-8.5%, n=5) for determination of fluoroquinolones in fish samples fortified at levels of 10 and 100ngg(-1). The limits of detection (LODs) for identification of eight fluoroquinolones ranged between 0.06 and 0.22ngg(-1). The results demonstrated great potential of the optimized method for sample preparation in routine analysis of trace fluoroquinolones in fish samples.

  17. Nanostructured conducting molecularly imprinted polymer for selective extraction of salicylate from urine and serum samples by electrochemically controlled solid-phase micro-extraction.

    Science.gov (United States)

    Ameli, Akram; Alizadeh, Naader

    2011-11-30

    Overoxidized polypyrrole (OPPy) films templated with salicylate (SA) have been utilized as conducting molecular imprinted polymers (CMIPs) for potential-induced selective solid-phase micro-extraction processes. Various important fabrication factors for controlling the performance of the OPPy films have been investigated using fluorescence spectrometry. Several key parameters such as applied potential for uptake, release, pH of uptake and release solution were varied to achieve the optimum micro-extraction procedure. The film template with SA exhibited excellent selectivity over some interference. The calibration graphs were linear in the ranges of 5×10(-8) to 5×10(-4) and 1.2×10(-6) to 5×10(-4)mol mL(-1) and the detection limit was 4×10(-8) mol L(-1). The OPPy film as the solid-phase micro-extraction absorbent has been applied for the selective clean-up and quantification of trace amounts of SA from physiological samples. The results of scanning electron microscopy (SEM) have confirmed the nano-structure morphologies of the films.

  18. Towards a rapid molecular diagnostic for melioidosis: comparison of DNA extraction methods from clinical specimens

    Science.gov (United States)

    Richardson, Leisha J; Kaestli, Mirjam; Mayo, Mark; Bowers, Jolene R; Tuanyok, Apichai; Schupp, Jim; Engelthaler, David; Wagner, David M; Keim, Paul S; Currie, Bart J

    2011-01-01

    Optimising DNA extraction from clinical samples for Burkholderia pseudomallei Type III secretion system real-time PCR in suspected melioidosis patients confirmed that urine and sputum are useful diagnostic samples. Direct testing on blood remains problematic; testing DNA extracted from plasma was superior to DNA from whole blood or buffy coat. PMID:22108495

  19. Vision preservation during retinal inflammation by anthocyanin-rich bilberry extract: cellular and molecular mechanism.

    Science.gov (United States)

    Miyake, Seiji; Takahashi, Noriko; Sasaki, Mariko; Kobayashi, Saori; Tsubota, Kazuo; Ozawa, Yoko

    2012-01-01

    Anthocyanin-rich bilberry extract, a plant-derived antioxidant, has been utilized as a popular supplement for ocular health worldwide. However, it is unclear whether this extract has any biological effect on visual function, and the mechanism for such an effect is completely unknown. In this study, we generated a mouse model of endotoxin-induced uveitis (EIU) that shows retinal inflammation, as well as uveitis, by injecting lipopolysaccharide. We pretreated the mice with anthocyanin-rich bilberry extract and analyzed the effect on the retina. Anthocyanin-rich bilberry extract prevented the impairment of photoreceptor cell function, as measured by electroretinogram. At the cellular level, we found that the EIU-associated rhodopsin decreased and the shortening of outer segments in photoreceptor cells were suppressed in the bilberry-extract-treated animals. Moreover, the extract prevented both STAT3 activation, which induces inflammation-related rhodopsin decrease, and the increase in interleukin-6 expression, which activates STAT3. In addition to its anti-inflammatory effect, the anthocyanin-rich bilberry extract ameliorated the intracellular elevation of reactive oxygen species and activated NF-κB, a redox-sensitive transcription factor, in the inflamed retina. Our findings indicate that anthocyanin-rich bilberry extract has a protective effect on visual function during retinal inflammation.

  20. Evaluation and optimization of nucleic acid extraction methods for the molecular analysis of bacterial communities associated with corroded carbon steel.

    Science.gov (United States)

    Marty, Florence; Ghiglione, Jean-François; Païssé, Sandrine; Gueuné, Hervé; Quillet, Laurent; van Loosdrecht, Mark C M; Muyzer, Gerard

    2012-01-01

    Different DNA and RNA extraction approaches were evaluated and protocols optimized on in situ corrosion products from carbon steel in marine environments. Protocols adapted from the PowerSoil DNA/RNA Isolation methods resulted in the best nucleic acid (NA) extraction performances (ie combining high NA yield, quality, purity, representativeness of microbial community and processing time efficiency). The PowerSoil RNA Isolation Kit was the only method which resulted in amplifiable RNA of good quality (ie intact 16S/23S rRNA). Sample homogenization and hot chemical (SDS) cell lysis combined with mechanical (bead-beating) lysis in presence of a DNA competitor (skim milk) contributed to improving substantially (around 23 times) the DNA yield of the PowerSoil DNA Isolation Kit. Apart from presenting NA extraction strategies for optimizing extraction parameters with corrosion samples from carbon steel, this study proposes DNA and RNA extraction procedures suited for comparative molecular analysis of total and active fractions of bacterial communities associated with carbon steel corrosion events, thereby contributing to improved MIC diagnosis and control.

  1. Application of QuickBird Remote Sensing Imagery in Automatic Extraction of Debris Flow Destroyed Area%快鸟影像用于泥石流冲毁区自动提取

    Institute of Scientific and Technical Information of China (English)

    何晓宁; 莫毅君; 童俊涛

    2015-01-01

    Aiming at the automatic extraction problem of debris flow destroyed areas,this study discusses an automatic extraction method of debris flow destroyed area based on QuickBird high resolution remote sensing imagery,and proposes an automatic extraction model of multi-information combination.Firstly,use a tasseled cap transformation for the original reflectance images to calculate moisture component and greenness component,and then use the difference of them to get the initial debris flow destroyed area image;Secondly,use automatic extraction technology to get threshold for separating suspected debris flow destroyed image from other surface features,and then get candidate debris flow destroyed image;Finally,extract the water and sparse vegetation areas to perform mask operation on candidate debris flow destroyed image for getting debris flow destroyed area,and perform post-processing for small spots in the debris flow destroyed area to get relatively accurate debris flow destroyed area.The experimental results show that the proposed model is feasible and effective,and achieves good results;the extraction accuracy of small debris flow is not high,which needs to be strengthened.%针对泥石流冲毁区难以自动提取的问题,该文基于快鸟(QuickBird)高分辨率影像,探讨了泥石流冲毁区自动提取方法,提出一种多信息结合自动提取模型。该方法首先对原始反射率影像做缨帽变换,利用湿度分量和绿度分量的差得到初始泥石流冲毁区影像;其次利用阈值自动提取技术将疑似泥石流冲毁区区域与其他地物分离,得到泥石流冲毁区候选区域;最后提取出水体信息和植被稀少地区,对泥石流冲毁区候选区域进行掩膜运算,得到泥石流冲毁区,并对泥石流冲毁区中的小斑块做后处理,得到相对准确的泥石流冲毁区分布范围。实验结果表明,此泥石流冲毁区自动提取模型是可行和有效的,取得了

  2. Molecularly Imprinted Polymers for Selective Extraction of Crystal Violet from Natural Seawater coupled with High- Performance Liquid Chromatographic Determination

    Institute of Scientific and Technical Information of China (English)

    LIAN Ziru; WANG Jiangtao

    2014-01-01

    Molecularly imprinted polymers (MIPs) were prepared by the bulk polymerization using crystal violet as the template molecule, and the methacrylic acid and ethylene glycol dimetheacrylate as functional monomer and cross-linker, respectively. Sys-tematic investigations of synthetic conditions were conducted. The surface morphology and recognition mechanism of the obtained polymers were studied using scanning electron microscope and spectrophotometric analysis. MIPs showed high affinity to template molecule and were successfully applied as special solid-phase extraction sorbent for selective extraction of crystal violet from natural seawater. An off-line molecularly imprinted solid-phase extraction (MISPE) method followed by high-performance liquid chroma-tography with diodearray detection for the analysis of crystal violet was also established. MISPE columns have good recoveries for crystal violet standard solutions and good linearity was obtained over the concentration range of 0-200μg L-1 (R2>0.99). Finally, two natural seawater samples were investigated. The recoveries of spiked seawater on the MISPE columns were from 44.47% to 62.34%, the relative standard deviation (n=3) being in the range of 2.89%-5.96%.

  3. Surface molecularly imprinted silica for selective solid-phase extraction of biochanin A, daidzein and genistein from urine samples.

    Science.gov (United States)

    Chrzanowska, Anna M; Poliwoda, Anna; Wieczorek, Piotr P

    2015-05-01

    Selective molecularly imprinted silica polymer (SiO2MIP) for extraction of biochanin A, daidzein and genistein was synthesized using the surface molecular imprinting technique with the silica gel as a support. Biochanin A (BCA) was used as a template, 3-aminopropyltriethoxysilane (APTES) as a functional monomer, and tetraethoxysilicane (TEOS) as a cross-linker. Non-imprinted polymer with the sol-gel process (SiO2NIP) was also prepared for comparison. The synthesized polymers were characterized by Fourier transform infrared spectrometry (FTIR), scanning electron microscopy (SEM) and a standard Brunauer-Emett-Teller (BET) and Barret-Joyner-Halenda (BJH) analysis. The obtained results indicated the structural differences between imprinted and non-imprinted polymers. Finally, the SiO2MIP and SiO2NIP were adopted as the adsorbents of solid phase extraction for isolation and preconcentration of biochanin A and its structural analogues-daidzein and genistein from aqueous and urine samples. The performance analysis revealed that SiO2MIP displayed better affinity to the three investigated isoflavones compared with SiO2NIP. The recoveries of spiked samples for studied analytes ranged from 65.7% to 102.6% for molecularly imprinted silica polymer and 8.9-16.0% for non-imprinted sorbents.

  4. Comparing an ionic liquid to a molecular solvent in the cesium cation extraction by a calixarene: a molecular dynamics study of the aqueous interfaces.

    Science.gov (United States)

    Sieffert, Nicolas; Wipff, Georges

    2006-10-01

    We report a molecular dynamics (MD) study of the interfacial behavior of key partners involved in the Cs(+) cation extraction by a calix[4]arene-crown-6 host (L), comparing an ionic liquid (IL) to a classical molecular solvent (chloroform) as receiving "oil" phase. The IL is composed of hydrophobic 1-butyl-3-methylimidazolium cations (BMI(+)) and bis(trifluoromethylsulfonyl)imide anions (Tf(2)N(-)) and forms a biphasic system with water. The simulations reveal similarities but also interesting differences between the two types of interfaces. Much longer times are needed to "equilibrate" IL systems, compared to classical liquid mixtures, and there is more intersolvent mixing with the IL than with chloroform, especially concerning the water-in-oil content. There is also some excess of the BMI(+) cations over the Tf(2)N(-) anions in the aqueous phase. Simulations on the Na(+)NO(3)(-) and Cs(+)NO(3)(-) ions show that they sometimes interact at the interface with the IL ions, forming hydrated intimate ion pairs, whereas they are "repelled" by the classical interface. The LCs(+) complex and L ligand also behave differently, depending on the "oil phase". They are better solvated by the IL than by chloroform and thus poorly attracted at the IL interface, whereas they adsorb at the chloroform interface, adopting well-defined amphiphilic orientations. The results are discussed in the context of assisted ion transfer and provide a number of arguments explaining the specificity and efficiency of IL based, compared to classical extraction systems.

  5. Presentation video retrieval using automatically recovered slide and spoken text

    Science.gov (United States)

    Cooper, Matthew

    2013-03-01

    Video is becoming a prevalent medium for e-learning. Lecture videos contain text information in both the presentation slides and lecturer's speech. This paper examines the relative utility of automatically recovered text from these sources for lecture video retrieval. To extract the visual information, we automatically detect slides within the videos and apply optical character recognition to obtain their text. Automatic speech recognition is used similarly to extract spoken text from the recorded audio. We perform controlled experiments with manually created ground truth for both the slide and spoken text from more than 60 hours of lecture video. We compare the automatically extracted slide and spoken text in terms of accuracy relative to ground truth, overlap with one another, and utility for video retrieval. Results reveal that automatically recovered slide text and spoken text contain different content with varying error profiles. Experiments demonstrate that automatically extracted slide text enables higher precision video retrieval than automatically recovered spoken text.

  6. Semi-automatic extraction of supra-glacial features using fuzzy logic approach for object-oriented classification on WorldView-2 imagery

    Science.gov (United States)

    Jawak, Shridhar D.; Palanivel, Yogesh V.; Alvarinho, Luis J.

    2016-04-01

    High resolution satellite data provide high spatial, spectral and contextual information. Spatial and contextual information of image objects are in demand to extract the information from high resolution satellite data. The supraglacial environment includes several features that are present on the surface of the glacier. The extraction of features from supraglacial environment is quite challenging using pixel-based image analysis. To overcome this, objectoriented approach is implemented. This paper aims at the extraction of geo-information from the supraglacial environment from high resolution satellite image by object-oriented image analysis using the fuzzy logic approach. The object-oriented image analysis involves the multiresolution segmentation for the creation of objects followed by the classification of objects using the fuzzy logic approach. The multiresolution segmentation is executed on the pixel level initially which merges pixels for the creation of objects thus minimizing their heterogeneity. This is followed by the development of rule sets for the classification of various features such as blue ice, debris, snow from the supraglacial environment in WorldView-2 data. The area of extracted feature is compared with the reference data and misclassified area of each feature using various bands is determined. The present object oriented classification achieved an overall accuracy of ≈ 92% for classifying supraglacial features. Finally, it is suggested that Red band is quite effective in the extraction of blue ice and snow, while NIR1 band is effective in debris extraction.

  7. Extraction, Characterization, and Molecular Weight Determination of Senna tora (L.) Seed Polysaccharide

    OpenAIRE

    Pawar, Harshal A.; K. G. Lalitha

    2015-01-01

    The objective of the present work was extraction of polysaccharide from Senna tora L. seed and its characterization as a pharmaceutical excipient. Polysaccharide extraction was based on mechanical separation of the endosperm of seeds of Senna tora, water dissolution, centrifugation, and precipitation with acetone. Standard procedures were used to study the viscosity, micromeritic properties, and microbial bioburden. Accelerated stability study was carried out on isolated polysaccharide for si...

  8. Selective extraction of proteins and other macromolecules from biological samples using molecular imprinted polymers.

    Science.gov (United States)

    Stevenson, Derek; El-Sharif, Hazim F; Reddy, Subrayal M

    2016-11-01

    The accurate determination of intact macromolecules in biological samples, such as blood, plasma, serum, urine, tissue and feces is a challenging problem. The increased interest in macromolecules both as candidate drugs and as biomarkers for diagnostic purposes means that new method development approaches are needed. This review charts developments in the use of molecularly imprinted polymers first for small-molecular-mass compounds then for proteins and other macromolecules. Examples of the development of molecularly imprinted polymers for macromolecules are highlighted. The two main application areas to date are sensors and separation science, particularly SPE. Examples include peptides and polypeptides, lysozyme, hemoglobin, ovalbumin, bovine serum albumin and viruses.

  9. Selective extraction and determination of fluoroquinolones in bovine milk samples with montmorillonite magnetic molecularly imprinted polymers and capillary electrophoresis.

    Science.gov (United States)

    Wang, Hongwu; Liu, Yanqing; Wei, Shoulian; Yao, Su; Zhang, Jiali; Huang, Huichang

    2016-01-01

    A sensitive and selective method for separating fluoroquinolones (FQs) from bovine milk samples was successfully developed using montmorillonite magnetic molecularly imprinted polymers (MMMIPs) as adsorbents. MMMIPs were prepared using montmorillonite as carrier, fleroxacin (FLE) as template molecule, and Fe3O4 magnetite as magnetic component. MMMIPs possessed high adsorption capacity of 46.3 mg g(-1) for FLE. A rapid and convenient magnetic solid-phase extraction procedure coupled with capillary electrophoresis was established with MMMIPs as adsorbents for simultaneous and selective extraction of four FQs in bovine milk samples. Limits of detection ranged between 12.9 and 18.8 μg L(-1), and the RSDs were between 1.8% and 8.6%. The proposed method was successfully applied to spike bovine milk samples with recoveries of 92.7%-108.6%.

  10. 基于VC++的视频字幕自动提取系统的设计与实现%Design and implementation of automatic text extraction in video image based on VC++

    Institute of Scientific and Technical Information of China (English)

    季丽琴

    2014-01-01

    This paper introduces a system for automatic text extraction in video images, which is based on Windows MFC with object-oriented language---Visual C++. First, this system uses three directions of edge detection operator to detect text edge information in three directions, then uses morphology for each direction of edge images. Finally, it uses “and” mergeing for text regions extraction. Experiments show that this system achieves good effect in property and text extraction.%介绍了一种基于面向对象的 Visual C++语言,在 Windows MFC 平台下开发出的视频字幕自动提取系统。该系统应用垂直、水平、对角方向的边缘检测算子检测出3个方向的字幕边缘信息,然后运用形态学对每个方向的边缘图像进行处理,最终运用与融合提取出字幕区域。实验结果验证,该系统性能稳定,字幕定位较精准。

  11. Separation and determination of citrinin in corn using HPLC fluorescence detection assisted by molecularly imprinted solid phase extraction clean-up

    Science.gov (United States)

    A liquid chromatography based method to detect citrinin in corn was developed using molecularly imprinted solid phase extraction (MISPE) sample clean-up. Molecularly imprinted polymers were synthesized using 1,4-dihydroxy-2-naphthoic acid as the template and an amine functional monomer. Density func...

  12. Extraction and isotopic analysis of medium molecular weight hydrocarbons from Murchison using supercritical carbon dioxide

    Science.gov (United States)

    Gilmour, Iain; Pillinger, Colin

    1993-01-01

    The large variety of organic compounds present in carbonaceous chondrites poses particular problems in their analysis not the least of which is terrestrial contamination. Conventional analytical approaches employ simple chromatographic techniques to fractionate the extractable compounds into broad classes of similar chemical structure. However, the use of organic solvents and their subsequent removal by evaporation results in the depletion or loss of semi-volatile compounds as well as requiring considerable preparative work to assure solvent purity. Supercritical fluids have been shown to provide a powerful alternative to conventional liquid organic solvents used for analytical extractions. A sample of Murchison from the Field Museum was analyzed. Two interior fragments were used; the first (2.85 g) was crushed in an agate pestel and mortar to a grain size of ca. 50-100 micron, the second (1.80 g) was broken into chips 3-8 mm in size. Each sample was loaded into a stainless steel bomb and placed in the extraction chamber of an Isco supercritical fluid extractor maintained at 35 C. High purity (99.9995 percent) carbon dioxide was used and was pressurized using an Isco syringe pump. The samples were extracted dynamically by flowing CO2 under pressure through the bomb and venting via a 50 micron fused filica capillary into 5 mls of hexane used as a collection solvent. The hexane was maintained at a temperature of 0.5 C. A series of extractions were done on each sample using CO2 of increasing density. The principal components extracted in each fraction are summarized.

  13. Extraction and isotopic analysis of medium molecular weight hydrocarbons from Murchison using supercritical carbon dioxide

    Science.gov (United States)

    Gilmour, Iain; Pillinger, Colin

    1993-03-01

    The large variety of organic compounds present in carbonaceous chondrites poses particular problems in their analysis not the least of which is terrestrial contamination. Conventional analytical approaches employ simple chromatographic techniques to fractionate the extractable compounds into broad classes of similar chemical structure. However, the use of organic solvents and their subsequent removal by evaporation results in the depletion or loss of semi-volatile compounds as well as requiring considerable preparative work to assure solvent purity. Supercritical fluids have been shown to provide a powerful alternative to conventional liquid organic solvents used for analytical extractions. A sample of Murchison from the Field Museum was analyzed. Two interior fragments were used; the first (2.85 g) was crushed in an agate pestel and mortar to a grain size of ca. 50-100 micron, the second (1.80 g) was broken into chips 3-8 mm in size. Each sample was loaded into a stainless steel bomb and placed in the extraction chamber of an Isco supercritical fluid extractor maintained at 35 C. High purity (99.9995 percent) carbon dioxide was used and was pressurized using an Isco syringe pump. The samples were extracted dynamically by flowing CO2 under pressure through the bomb and venting via a 50 micron fused filica capillary into 5 mls of hexane used as a collection solvent. The hexane was maintained at a temperature of 0.5 C. A series of extractions were done on each sample using CO2 of increasing density. The principal components extracted in each fraction are summarized.

  14. Molecularly imprinted pipette-tip solid phase extraction for selective determination of fluoroquinolones in human urine using HPLC-DAD.

    Science.gov (United States)

    de Oliveira, Hanna Leijoto; da Silva Anacleto, Sara; da Silva, Anny Talita Maria; Pereira, Arnaldo César; de Souza Borges, Warley; Figueiredo, Eduardo Costa; Borges, Keyller Bastos

    2016-10-15

    A simple method using HPLC-DAD was developed for the determination of fluoroquinolones in human urine including ciprofloxacin (CIPRO), enrofloxacino (ENRO), marbofloxacino (MARBO) and norfloxacin (NOR). In addition, it was studied the extraction of fluoroquinolones in human urine samples using pipette tip-based molecularly imprinted polymers solid phase extraction (PT-MIPs-SPE). With the goal of finding the best procedure for extraction of four fluoroquinolones in human urine, several parameters that are likely to affect the efficiency of extraction during sample preparation, including the washing solvent, type and volume of eluent, amount of material, the volume of the sample, pH and the ionic strength were systematically optimized. Chromatographic separations of fluoroquinolones were hit within 10min using a Synergi(®) C18 (250×4.6mm, 4μm) column and mobile phase consisting of water (10mM of phosphoric acid, the pH adjusted at 3.29 with triethylamine) : acetonitrile (85.7: 14.3, v/v) at a flow rate of 1.5mLmin(-1). Detection was performed at 290nm. The average extraction recoveries/standard deviation relative to ENRO, CIPRO, NOR and MARBO were 96.40±5.51%, 42.47±4.81%, 41.82±7.99% and 87.49±4.70, respectively. The method was liner from 39 to 1260ngmL(-1) for each fluoroquinolone with correlation coefficient of 0.9904, 0.9910, 0.9914 and 0.9919, to ENRO, CIPRO, NOR and MARBO, respectively. The assays of within-day and between-day precision and accuracy for all analytes were studied at three concentration levels and were lower than 15%. The method was successfully employed in a preliminary cumulative urinary excretion study after administration of CIPRO to a healthy volunteer.

  15. Synthesis of molecularly imprinted polymers for the application of selective clean-up vinblastine from Catharanthus roseus extract

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    Molecularly imprinted polymers (MIPs) are synthetic tailor-made polymers with high selectivity towards a particular substance (template).An MIP using vinblastine (VLB) as the template molecule was synthesized and characterized.The presence of monomer-template complexes in a non-covalent way was confirmed by UV-vis spectrometry analysis.The polymerization was performed using methacrylic acid (MAA) as the functional monomer,ethylene glycol dimethacrylate (EGDMA) as the cross-linking agent,and toluene as the porogenic solvent by a thermo-polymerization method.The characterization of the obtained MIP was evaluated by scanning electron microscopy (SEM) and Brunauer-Emmett-Teller (BET) analysis.It was observed that the morphology of the MIP was more porous and rough,and the surface area had a significant increase compared with that of the non-imprinted polymer (NIP).This MIP was used as the sorbents of solid-phase extraction (SPE) to assess the selectivity of the MIP after optimization of the SPE protocol.VLB was specifically adsorbed on the MIP cartridge,while to vincristine (VCR),the chemical analog of VLB,almost no selective binding appeared.On the basis of the results,Catharanthus roseus extract was applied to the MIP cartridge for investigating its capability to extract VLB from the plant extract,and the capacity of the MIP cartridge was also evaluated.It was shown that the MIP could effectively enrich VLB from C.roseus extract and the recovery amounted to 93.8%.The solvents dissolving the samples had significant influence on the capacity of the MIP cartridge;it was 750 μg/g in toluene,625 μg/g in chloroform,and 250 μg/g in methanol.

  16. On-line dynamic fractionation and automatic determination of inorganic phosphorous in environmental solid substrates exploiting sequential injection microcolumn extraction and flow injection analysi

    DEFF Research Database (Denmark)

    Buanuam, Janya; Miró, Manuel; Hansen, Elo Harald;

    2006-01-01

    Sequential injection microcolumn extraction (SI-MCE) based on the implementation of a soil containing microcartridge as external reactor in a sequential injection network is, for the first time, proposed for dynamic fractionation of macronutrients in environmental solids, as exemplified by the pa...... atomic absorption spectrometry....

  17. Automatic generation of time resolved motion vector fields of coronary arteries and 4D surface extraction using rotational x-ray angiography

    Science.gov (United States)

    Jandt, Uwe; Schäfer, Dirk; Grass, Michael; Rasche, Volker

    2009-01-01

    Rotational coronary angiography provides a multitude of x-ray projections of the contrast agent enhanced coronary arteries along a given trajectory with parallel ECG recording. These data can be used to derive motion information of the coronary arteries including vessel displacement and pulsation. In this paper, a fully automated algorithm to generate 4D motion vector fields for coronary arteries from multi-phase 3D centerline data is presented. The algorithm computes similarity measures of centerline segments at different cardiac phases and defines corresponding centerline segments as those with highest similarity. In order to achieve an excellent matching accuracy, an increasing number of bifurcations is included as reference points in an iterative manner. Based on the motion data, time-dependent vessel surface extraction is performed on the projections without the need of prior reconstruction. The algorithm accuracy is evaluated quantitatively on phantom data. The magnitude of longitudinal errors (parallel to the centerline) reaches approx. 0.50 mm and is thus more than twice as large as the transversal 3D extraction errors of the underlying multi-phase 3D centerline data. It is shown that the algorithm can extract asymmetric stenoses accurately. The feasibility on clinical data is demonstrated on five different cases. The ability of the algorithm to extract time-dependent surface data, e.g. for quantification of pulsating stenosis is demonstrated.

  18. Automatic generation of time resolved motion vector fields of coronary arteries and 4D surface extraction using rotational x-ray angiography

    Energy Technology Data Exchange (ETDEWEB)

    Jandt, Uwe; Schaefer, Dirk; Grass, Michael [Philips Research Europe-Hamburg, Roentgenstr. 24, 22335 Hamburg (Germany); Rasche, Volker [University of Ulm, Department of Internal Medicine II, Robert-Koch-Strasse 8, 89081 Ulm (Germany)], E-mail: ujandt@gmx.de

    2009-01-07

    Rotational coronary angiography provides a multitude of x-ray projections of the contrast agent enhanced coronary arteries along a given trajectory with parallel ECG recording. These data can be used to derive motion information of the coronary arteries including vessel displacement and pulsation. In this paper, a fully automated algorithm to generate 4D motion vector fields for coronary arteries from multi-phase 3D centerline data is presented. The algorithm computes similarity measures of centerline segments at different cardiac phases and defines corresponding centerline segments as those with highest similarity. In order to achieve an excellent matching accuracy, an increasing number of bifurcations is included as reference points in an iterative manner. Based on the motion data, time-dependent vessel surface extraction is performed on the projections without the need of prior reconstruction. The algorithm accuracy is evaluated quantitatively on phantom data. The magnitude of longitudinal errors (parallel to the centerline) reaches approx. 0.50 mm and is thus more than twice as large as the transversal 3D extraction errors of the underlying multi-phase 3D centerline data. It is shown that the algorithm can extract asymmetric stenoses accurately. The feasibility on clinical data is demonstrated on five different cases. The ability of the algorithm to extract time-dependent surface data, e.g. for quantification of pulsating stenosis is demonstrated.

  19. 面向导航型网页关键词自动抽取的视觉模型与算法%Visual representation model and automatic keywords extraction algorithm for hub Web pages

    Institute of Scientific and Technical Information of China (English)

    彭浩; 蔡美玲; 陈继锋; 刘炽; 余炳锐

    2012-01-01

    导航型网页中往往包含了大量的噪声信息,为自动提取网页中的关键词带来了较大的困难.为此,提出一个新的网页表示模型PIX-PAGE和导航型网页关键词自动抽取算法P-KEA.PIX-PAGE模型利用提出的区域合并算法,将一张网页分割为适当粒度的区域;然后,依据人类视觉特点,对各区域进行视觉“奇异性”量化,同时利用奇异性传递规则进一步强化关键词相关区域的视觉“奇异性”.P-KEA根据PIX-PAGE模型模型的视觉量化结果,能够较准确地找到视觉突出区域中的关键词.实验结果表明,与基于DocView模型的算法DVM相比,P-KEA的准确率平均提高了20.9%.%It is very hard to exactly extract keywords from hub Web pages because of its topic noise. To resolve this problem, a new sub Web page representation model and its automatic keywords extraction algorithm were proposed in this paper. At first, the new model segmented Web page into some blocks by using the block composition algorithm. Secondly, according to the visual recognition method of humanity, the new model computed the visual measurement of these blocks. At the same time, the transmission rule of visual measurement made blocks special where keywords were contained more specially. The automatic keywords extraction algorithm could exactly fmd these keywords in the most special hlocks. The experimental results show that the proposed algorithm has bumped up by 20. 9% on average in accuracy compared with keywords extraction algorithm based on DocView model.

  20. Molecular threading: mechanical extraction, stretching and placement of DNA molecules from a liquid-air interface.

    Directory of Open Access Journals (Sweden)

    Andrew C Payne

    Full Text Available We present "molecular threading", a surface independent tip-based method for stretching and depositing single and double-stranded DNA molecules. DNA is stretched into air at a liquid-air interface, and can be subsequently deposited onto a dry substrate isolated from solution. The design of an apparatus used for molecular threading is presented, and fluorescence and electron microscopies are used to characterize the angular distribution, straightness, and reproducibility of stretched DNA deposited in arrays onto elastomeric surfaces and thin membranes. Molecular threading demonstrates high straightness and uniformity over length scales from nanometers to micrometers, and represents an alternative to existing DNA deposition and linearization methods. These results point towards scalable and high-throughput precision manipulation of single-molecule polymers.

  1. Synthesis and Characterization of Molecular Imprinting Polymer Microspheres of Cinnamic Acid: Extraction of Cinnamic Acid from Spiked Blood Plasma

    Directory of Open Access Journals (Sweden)

    Alvin Leong Joke Chow

    2016-01-01

    Full Text Available The molecular imprinting technique is used to create the molecularly imprinted polymers (MIPs with higher binding capacity towards the template. In this research precipitation polymerization method with noncovalent approach was used to synthesize imprinted polymer microspheres. The polymerization reaction was conducted in a flask containing acetonitrile as a porogen, cinnamic acid as a template (T, acrylic acid (AA as a monomer, divinylbenzene (DVB as a cross-linker, and azobisisobutyronitrile as an initiator. The polymer particles were characterized by using SEM and FTIR. The rebinding efficiency was conducted by batch binding assay and the results were monitored by using HPLC. The batch binding results suggested MIP1 (T : AA : DVB, 1 : 6 : 20 molar ratio is most suitable composition for the rebinding of cinnamic acid. The highly selective polymer (MIP1 was used for the extraction of cinnamic acid from human plasma. The extraction efficiency of imprinted polymer of cinnamic acid from spiked plasma was above 75%.

  2. Selective solid-phase extraction using molecularly imprinted polymer as a sorbent for the analysis of fenarimol in food samples.

    Science.gov (United States)

    Khan, Shagufta; Bhatia, Tejasvi; Trivedi, Purushottam; Satyanarayana, G N V; Mandrah, Kapil; Saxena, Prem Narayan; Mudiam, Mohana Krishna Reddy; Roy, Somendu Kumar

    2016-05-15

    In the present communication, a non-covalent fenarimol-imprinted polymer was synthesized by precipitation polymerization technique using methacrylic acid (MAA) as a functional monomer, ethylene glycol dimethacrylate (EGDMA) as a cross-linker, and azobisisobutyronitrile (AIBN) as an initiator in different porogenic solvent. Binding study of molecularly imprinted and non-imprinted polymer (MIP and NIP) showed that MIP possesses a higher affinity towards this analyte compared to NIP. The binding affinity of MIP was calculated by static and kinetic adsorption study. Further, a MIP based cartridge was designed to use in extraction process, necessary for specific determination and quantification of the fungicide in food matrices. Under the optimum conditions, developed method was found to be linear (R(2)=0.9999-0.9994). Limit of detection (LOD) and limit of quantitation (LOQ) in samples were 0.03-0.06 and 0.12-0.21 μg mL(-1), respectively. The rate of recovery of fenarimol was 91.16-99.52% on MIPs. The validated method of molecularly imprinted solid-phase extraction (MISPE) cartridge was successfully applied to the food matrices and compared with commercial sorbent (RP18 and Oasis HLB). However we feel, this method has promising applications in the routine analysis of food samples in industry.

  3. A Portable, Pressure Driven, Room Temperature Nucleic Acid Extraction and Storage System for Point of Care Molecular Diagnostics.

    Science.gov (United States)

    Byrnes, Samantha; Fan, Andy; Trueb, Jacob; Jareczek, Francis; Mazzochette, Mark; Sharon, Andre; Sauer-Budge, Alexis F; Klapperich, Catherine M

    2013-07-07

    Many new and exciting portable HIV viral load testing technologies are emerging for use in global medicine. While the potential to provide fast, isothermal, and quantitative molecular diagnostic information to clinicians in the field will soon be a reality, many of these technologies lack a robust front end for sample clean up and nucleic acid preparation. Such a technology would enable many different downstream molecular assays. Here, we present a portable system for centrifuge-free room temperature nucleic acid extraction from small volumes of whole blood (70 µL), using only thermally stable reagents compatible with storage and transport in low resource settings. Quantitative reverse transcriptase polymerase chain reaction (qRT-PCR) analysis of simulated samples demonstrate a lower limit of detection of 1000 copies/ml, with the ability to detect differences in viral load across four orders of magnitude. The system can also be used to store extracted RNA on detachable cartridges for up to one week at ambient temperature, and can be operated using only hand generated air pressure.

  4. A Comparative Study on the Automatic Extraction of Two-character Word from Ancient Chinese%古汉语双字词自动获取方法的比较与分析

    Institute of Scientific and Technical Information of China (English)

    段磊; 韩芳; 宋继华

    2012-01-01

    Word extraction is of great importance in the research fields of natural language generation, computational lexicography, parsing, corpus linguistic, etc. To address the issue of automatic extraction of two-character word from ancient Chinese, this paper takes the "Records of the Grand Historian" corpus as an example, and uses the statistical methods that based on frequency, mutual information and hypothesis testing to extract two-character word, respectively. Then it compares and analyzes the results according to the manual marked result in detail. It paves the way for the scheme design for the two-character word extraction from ancient Chinese in different applications.%词汇的自动获取在自然语言生成、计算词典编纂、句法分析以及语料库语言学等领域均有着重要的研究价值.该文针对古汉语双字词的自动获取问题,以《史记》全文语料为例,分别应用基于频率、互信息、假设检验的统计方法获取古汉语双字词,并结合人工标注结果进行了详细的比较和分析,评价了各方法的优缺点及可靠性,为不同应用背景下的古汉语双字词自动获取提供了相应的解决方案.

  5. Chemical composition and molecular structure of polysaccharide-protein biopolymer from Durio zibethinus seed: extraction and purification process

    Directory of Open Access Journals (Sweden)

    Amid Bahareh

    2012-10-01

    Full Text Available Abstract Background The biological functions of natural biopolymers from plant sources depend on their chemical composition and molecular structure. In addition, the extraction and further processing conditions significantly influence the chemical and molecular structure of the plant biopolymer. The main objective of the present study was to characterize the chemical and molecular structure of a natural biopolymer from Durio zibethinus seed. A size-exclusion chromatography coupled to multi angle laser light-scattering (SEC-MALS was applied to analyze the molecular weight (Mw, number average molecular weight (Mn, and polydispersity index (Mw/Mn. Results The most abundant monosaccharide in the carbohydrate composition of durian seed gum were galactose (48.6-59.9%, glucose (37.1-45.1%, arabinose (0.58-3.41%, and xylose (0.3-3.21%. The predominant fatty acid of the lipid fraction from the durian seed gum were palmitic acid (C16:0, palmitoleic acid (C16:1, stearic acid (C18:0, oleic acid (C18:1, linoleic acid (C18:2, and linolenic acid (C18:2. The most abundant amino acids of durian seed gum were: leucine (30.9-37.3%, lysine (6.04-8.36%, aspartic acid (6.10-7.19%, glycine (6.07-7.42%, alanine (5.24-6.14%, glutamic acid (5.57-7.09%, valine (4.5-5.50%, proline (3.87-4.81%, serine (4.39-5.18%, threonine (3.44-6.50%, isoleucine (3.30-4.07%, and phenylalanine (3.11-9.04%. Conclusion The presence of essential amino acids in the chemical structure of durian seed gum reinforces its nutritional value.

  6. Selective mixed-bed solid phase extraction of atrazine herbicide from environmental water samples using molecularly imprinted polymer.

    Science.gov (United States)

    Zarejousheghani, Mashaalah; Fiedler, Petra; Möder, Monika; Borsdorf, Helko

    2014-11-01

    A novel approach for the selective extraction of organic target compounds from water samples has been developed using a mixed-bed solid phase extraction (mixed-bed SPE) technique. The molecularly imprinted polymer (MIP) particles are embedded in a network of silica gel to form a stable uniform porous bed. The capabilities of this method are demonstrated using atrazine as a model compound. In comparison to conventional molecularly imprinted-solid phase extraction (MISPE), the proposed mixed-bed MISPE method in combination with gas chromatography-mass spectrometry (GC-MS) analysis enables more reproducible and efficient extraction performance. After optimization of operational parameters (polymerization conditions, bed matrix ingredients, polymer to silica gel ratio, pH of the sample solution, breakthrough volume plus washing and elution conditions), improved LODs (1.34 µg L(-1) in comparison to 2.25 µg L(-1) obtained using MISPE) and limits of quantification (4.5 µg L(-1) for mixed-bed MISPE and 7.5 µg L(-1) for MISPE) were observed for the analysis of atrazine. Furthermore, the relative standard deviations (RSDs) for atrazine at concentrations between 5 and 200 µg L(-1) ranged between 1.8% and 6.3% compared to MISPE (3.5-12.1%). Additionally, the column-to-column reproducibility for the mixed-bed MISPE was significantly improved to 16.1%, compared with 53% that was observed for MISPE. Due to the reduced bed-mass sorbent and at optimized conditions, the total amount of organic solvents required for conditioning, washing and elution steps reduced from more than 25 mL for conventional MISPE to less than 2 mL for mixed-bed MISPE. Besides reduced organic solvent consumption, total sample preparation time of the mixed-bed MISPE method relative to the conventional MISPE was reduced from more than 20 min to less than 10 min. The amount of organic solvent required for complete elution diminished from 3 mL (conventional MISPE) to less than 0.4 mL with the mixed

  7. Determination of ochratoxin A in Italian red wines by molecularly imprinted solid phase extraction and HPLC analysis.

    Science.gov (United States)

    Giovannoli, Cristina; Passini, Cinzia; Di Nardo, Fabio; Anfossi, Laura; Baggiani, Claudio

    2014-06-04

    An extraction method based on molecularly imprinted polymer prepared through a mimic template approach was used for the determination of ochratoxin A in 17 red wines from different geographical regions of Italy. Sample loading (wine sample diluted 1:1 with 1% v/v aqueous solution of PEG 8000), washing (2 mL water/acetonitrile 4:1 v/v), and elution (2 mL of acetonitrile/acetic acid 98:2 v/v) conditions allowed the optimization of the extraction method, capable of preconcentrating ochratoxin A below the maximum permitted level of 2 ng/mL. Under optimized conditions, recoveries of ochratoxin A from spiked samples ranged from 88 to 102% with sample volumes up to 20 mL. The HPLC determination by fluorescence detection allowed limits of detection and quantification, respectively, of 0.075 and 0.225 ng/mL. Sample extractions by an immunoaffinity protocol showed the method to be comparable, demonstrating the potential of the imprinting approach to substitute for the current immunoaffinity method.

  8. Supported liquid membrane-protected molecularly imprinted beads for micro-solid phase extraction of sulfonamides in environmental waters.

    Science.gov (United States)

    Díaz-Álvarez, M; Barahona, F; Turiel, E; Martín-Esteban, A

    2014-08-29

    In this work, molecularly imprinted polymer (MIP) beads have been prepared and evaluated for the development of a supported liquid membrane-protected micro-solid phase extraction method for the analysis of sulfonamides (SAs) in aqueous samples. The performance of MIP beads was firstly evaluated in cartridges by conventional solid-phase extraction for the simultaneous analysis of SAs. Afterward, beads were packed into a polypropylene hollow fiber protected by an organic solvent immobilized in the pores of the capillary wall. During the process, the analytes were extracted from the aqueous sample to the immobilized organic solvent and then selectively retained by the MIP beads located inside the capillary. The effect of various experimental parameters as sample pH, time and stirring-rate among others, were studied for the establishment of optimum rebinding conditions. Relative recoveries for all sulfonamides tested in river and reservoir water samples by the proposed method using 100mL water sample spiked with 50μg L-1 of each sulfonamide were within 70-120%, with a relative standard deviation (RSD) <10% (n=3). The detection limits (LODs) were within 0.2-3μgL(-1), depending upon the sulfonamide and the type of water used.

  9. French Maritime Pine Bark Extract (Pycnogenol®) Effects on Human Skin: Clinical and Molecular Evidence.

    Science.gov (United States)

    Grether-Beck, Susanne; Marini, Alessandra; Jaenicke, Thomas; Krutmann, Jean

    2016-01-01

    Nutritional strategies to benefit skin health are of growing importance. Current approaches mainly involve nutritional supplements containing antioxidants which were initially designed to protect human skin against ultraviolet radiation-induced damage. Within recent years, however, a growing number of studies suggests that the beneficial effects of these products clearly extend beyond photoprotection. In this review we take the nutritional supplement Pycnogenol®, which is based on an extract prepared from French marine pine bark extract, as an example to illustrate this development. Accordingly, the existing data provide compelling evidence that Pycnogenol® intake does not only provide photoprotection, but may be used to (i) reduce hyperpigmentation of human skin and (ii) improve skin barrier function and extracellular matrix homeostasis.

  10. 基于厦门岛的海岸线自动提取方法研究%The Method of Coastline Automatic Extraction in Xiamen Island

    Institute of Scientific and Technical Information of China (English)

    齐宇; 任航科

    2012-01-01

    应用遥感的方法监测海岸线变化、提取海岸线、进行景观分析具有范围广、精度高、可动态监测的特点。提取海岸线由于海岸带类型的不同,选取的提取方法不同,会得出不同的结果。本文以厦门岛海岸线为例,使用TM和遥感影像,利用两种提取海岸线方法,得到计算机自动提取的两种海岸线位置,并通过实地调查确认海岸类型和叠加高空间分辨率的SPOT影像进行精度分析。探讨了根据不同海岸带类型,如何选取海岸线自动提取方法的问题。%In terms of supervising the change of coastline, extracting the coastline, and analyzing the landscape, re- mote sensing has many advantages: it is wider, more precise and dynamic. Owing to different types of coastal zone and different extracting methods,the results of coastline auto-extraction may differ significantly. Taking the coastal zone a- round Xiamen island as an example, this paper uses TM image and two different methods of computer coastline auto-ex- traction to extract its coastline,which are of two types: sandy-beach and artificial beach coasts. Based on the result of field research around the Xiamen island, the paper also precisely analyzes the result of the fusion with its high spatial res- olution SPOT image. Finally, the paper discusses how to select the methods of computer coastline auto-extraction subject to different coastal zones

  11. Molecularly imprinted coated graphene oxide solid-phase extraction monolithic capillary column for selective extraction and sensitive determination of phloxine B in coffee bean

    Energy Technology Data Exchange (ETDEWEB)

    Zhai, Haiyun, E-mail: zhaihaiyun@126.com [College of Pharmacy, Guangdong Pharmaceutical University, Guangzhou 510006 (China); Su, Zihao [College of Pharmacy, Guangdong Pharmaceutical University, Guangzhou 510006 (China); Chen, Zuanguang, E-mail: chenzg@mail.sysu.edu.cn [School of Pharmaceutical Science, Sun Yat-sen University, Guangzhou 510006 (China); Liu, Zhenping; Yuan, Kaisong; Huang, Lu [College of Pharmacy, Guangdong Pharmaceutical University, Guangzhou 510006 (China)

    2015-03-20

    Highlights: • A new GO-MISPE monolithic capillary column was prepared. • The column showed ability of impurities removal and excellent selectivity. • Phloxine B existed in real sample was enriched more than 90 times. • The GO-MISPE column presented good recovery and high stability. • The method was prospered to analyze phloxine B and LOD achieved 0.3 ng g{sup −1}. - Abstract: A method was developed to sensitively determine phloxine B in coffee bean by molecularly imprinted polymers (MIPs) coated graphene oxide (GO) solid-phase extraction (GO-MISPE) coupled with high-performance liquid chromatography and laser-induced fluorescence detection (HPLC–LIF). The GO-MISPE capillary monolithic column was prepared by water-bath in situ polymerization, using GO as supporting material, phloxine B, methacrylic acid (MAA), and ethylene dimethacrylate (EDMA) as template, functional monomer, and cross-linker, respectively. The properties of the homemade GO-MISPE capillary monolithic column, including capacity and specificity, were investigated under optimized conditions. The GO-MIPs were characterized by scanning electron microscopy (SEM) and Fourier transform-infrared spectroscopy (FT-IR). The mean recoveries of phloxine B in coffee bean ranged from 89.5% to 91.4% and the intra-day and inter-day relative standard deviation (RSD) values all ranged from 3.6% to 4.7%. Good linearity was obtained over 0.001–2.0 μg mL{sup −1} (r = 0.9995) with the detection limit (S/N = 3) of 0.075 ng mL{sup −1}. Under the selected conditions, enrichment factors of over 90-fold were obtained and extraction on the monolithic column effectively cleaned up the coffee bean matrix. The results demonstrated that the proposed GO-MISPE HPLC–LIF method can be applied to sensitively determine phloxine B in coffee bean.

  12. Synthesis of surface molecularly imprinted polymer and the selective solid phase extraction of imidazole from its structural analogs.

    Science.gov (United States)

    Zhu, Guifen; Fan, Jing; Gao, Yanbu; Gao, Xia; Wang, Jianji

    2011-05-30

    A surface molecularly imprinted polymer (MIP) was synthesized by using imidazole as the template and modified silica particles as the support material. The static adsorption, solid phase extraction (SPE) and high-performance liquid chromatography (HPLC) experiments were performed to investigate the adsorption properties and selective recognition characteristics of the polymer for imidazole and its structural analogs. It was shown that the maximum binding capacities of imidazole on the MIP and the non-imprinted polymer (NIP) were 312 and 169 μmol g(-1), respectively. The adsorption was fast and the adsorption equilibrium was achieved in 30 min. The binding process could be described by pseudo-second order kinetics. Compared with the corresponding non-imprinted polymer, the molecularly imprinted polymer exhibited much higher adsorption performance and selectivity for imidazole. The selective separation of imidazole from a mixture of 1-hexyl-3-methylimidazolium bromide ([C(6)mim][Br]) and 2,4-dichlorophenol could be achieved on the MIP-SPE column. The recoveries of imidazole and [C(6)mim][Br] were 97.6-102.7% and 12.2-17.3%, respectively, but 2,4-dichlorophenol could not be retained on the column. The surface molecularly imprinted polymer presented here may find useful application as a solid phase absorbent to separate trace imidazole in environmental water samples. This may also form the basis for our research program on the preparation and application of alkyl-imidazolium imprinted polymers.

  13. Synthetic approaches to parabens molecularly imprinted polymers and their applications to the solid-phase extraction of river water samples.

    Science.gov (United States)

    Beltran, A; Marcé, R M; Cormack, P A G; Borrull, F

    2010-09-10

    In this paper we describe the synthesis, characterisation and use of two distinct molecularly imprinted polymers (MIPs) prepared using esters of p-hydroxybenzoic acid (parabens) as templates: one MIP was synthesised by precipitation polymerisation using a semi-covalent molecularly imprinting strategy with methyl paraben as the template/target (MIP 1); the second MIP was prepared in monolithic form through a conventional non-covalent molecular imprinting strategy, with butyl paraben as the template (MIP 2). MIP 1 recognized methyl paraben, showed cross-selectivity for other parabens analytes used in the study and higher affinity towards these compounds than did a non-imprinted control polymer. Similarly, MIP 2 demonstrated higher affinity towards paraben analytes than a non-imprinted control polymer. For the analysis of environmental water samples, a solid-phase extraction (SPE) protocol was developed using MIP 2 as sorbent, and results were compared to a SPE using a commercial sorbent (Oasis HLB). With MIP 2 as sorbent and butyl paraben as target, when percolating 500 mL of river water spiked at 1 μg L(-1) through the SPE cartridge, and using 1 mL of isopropanol as cleaning solvent, a higher recovery of butyl 4-hydroxybenzoate (butyl paraben) and a cleaner chromatogram where achievable when using the MIP compared to the commercial sorbent.

  14. Realizing automatic extraction of Dianchi Lake watershed characteristics based on STRM DEM by ArcGIS%滇池SRTM DEM数据的流域特征自动提取

    Institute of Scientific and Technical Information of China (English)

    余杰; 左小清; 唐从国

    2011-01-01

    以滇池流域为试验对象,在NASA发布的3弧秒SRTM DEM数据的基础上,运用Arc Hydro Tools进行流域特征的提取,结果表明,以3弧秒的SRTM数据为基础提取的流域河网与水利部门提供的数字河网基本相符,而提取的流域面积与实际流域面积十分接近,显示了SRTM DEM数据在中小型湖泊流域地表水文模拟方面的优势.%In this paper, taking the basin of Dianchi Lake as an example, based on 3"SRTM DEM which was issued by NASA,the watershed characteristics could be extracted automatically by Arc Hydro Tools. The results showed that the river network was in accord with the digital river network which was obtained from the Water Departmen, and the extraction of drainage was close to the actual drainage area.It indicated the advantage of SRTM DEM in hydrogic simulation of the surface for small lake basin.

  15. Matrix molecularly imprinted mesoporous sol-gel sorbent for efficient solid-phase extraction of chloramphenicol from milk.

    Science.gov (United States)

    Samanidou, Victoria; Kehagia, Maria; Kabir, Abuzar; Furton, Kenneth G

    2016-03-31

    Highly selective and efficient chloramphenicol imprinted sol-gel silica based inorganic polymeric sorbent (sol-gel MIP) was synthesized via matrix imprinting approach for the extraction of chloramphenicol in milk. Chloramphenicol was used as the template molecule, 3-aminopropyltriethoxysilane (3-APTES) and triethoxyphenylsilane (TEPS) as the functional precursors, tetramethyl orthosilicate (TMOS) as the cross-linker, isopropanol as the solvent/porogen, and HCl as the sol-gel catalyst. Non-imprinted sol-gel polymer (sol-gel NIP) was synthesized under identical conditions in absence of template molecules for comparison purpose. Both synthesized materials were characterized by Scanning Electron Microscopy (SEM), Fourier Transform Infrared Spectroscopy (FT-IR) and nitrogen adsorption porosimetry, which unambiguously confirmed their significant structural and morphological differences. The synthesized MIP and NIP materials were evaluated as sorbents for molecularly imprinted solid phase extraction (MISPE) of chloramphenicol in milk. The effect of critical extraction parameters (flow rate, elution solvent, sample and eluent volume, selectivity coefficient, retention capacity) was studied in terms of retention and desorption of chloramphenicol. Competition and cross reactivity tests have proved that sol-gel MIP sorbent possesses significantly higher specific retention and enrichment capacity for chloramphenicol compared to its non-imprinted analogue. The maximum imprinting factor (IF) was found as 9.7, whereas the highest adsorption capacity of chloramphenicol by sol-gel MIP was 23 mg/g. The sol-gel MIP was found to be adequately selective towards chloramphenicol to provide the necessary minimum required performance limit (MRPL) of 0.3 μg/kg set forth by European Commission after analysis by LC-MS even without requiring time consuming solvent evaporation and sample reconstitution step, often considered as an integral part in solid phase extraction work-flow. Intra and

  16. Relationship of molecular weight distribution profile of unreduced gluten protein extracts with quality characteristics of bread.

    Science.gov (United States)

    Chaudhary, Nisha; Dangi, Priya; Khatkar, B S

    2016-11-01

    A statistical correlation was established among the molecular weight distribution patterns of unreduced gluten proteins and physicochemical, rheological and bread-making quality characteristics of wheat varieties. Size exclusion chromatography fractionated the gluten proteins apparently into five peaks. Peak I signified glutenins (30-130kDa), peak II as gliadins (20-55kDa), peak III as very low molecular weight monomeric gliadins (10-28kDa), peak IV and V, collectively, as albumins and globulins (bread loaf volume (r=0.848(∗∗)); however, peak II had negative (r=-0.818(∗∗)) impact. Bread firmness increased with increment in peak II (r=0.625(∗∗)), and decreased with accretion in peak I (r=-0.623(∗∗)).

  17. Preparation and selective recognition of a novel solid-phase microextraction fiber combined with molecularly imprinted polymers for the extraction of parabens in soy sample.

    Science.gov (United States)

    He, Juan; Chen, Si; Jiang, Yili; Shen, Yanzheng; Zhu, Jing; Wei, Hongliang; Zhang, Hongxia; Lu, Kui

    2012-01-01

    A prepared molecularly imprinted polymer with ethyl p-hydroxybenzoate as template molecule was applied for the first time to a homemade solid-phase microextraction fiber. The molecularly imprinted polymer-coated solid-phase microextraction fiber was characterized by scanning electron microscopy and thermogravimetric analysis. Various parameters were investigated, including extraction temperature, extraction time, and desorption time. Under the optimum extraction conditions, the molecularly imprinted polymer-coated solid-phase microextraction fiber exhibited higher selectivity with greater extraction capacity toward parabens compared with the nonimprinted polymer-coated solid-phase microextraction fiber and commercial fibers. The molecularly imprinted polymer-coated solid-phase microextraction fiber was tested using gas chromatography to determine parabens, including methyl p-hydroxybenzoate, ethyl p-hydroxybenzoate, and propyl p-hydroxybenzoate. The linear ranges were 0.01-10 μg/mL with a correlation coefficient above 0.9943. The detection limits (under signal-to-noise ratio of 3) were below 0.30 μg/L. The fiber was successfully applied to the simultaneous analysis of three parabens in spiked soy samples with satisfactory recoveries of 95.48, 97.86, and 92.17%, respectively. The relative standard deviations (n=6) were within 2.83-3.91%. The proposed molecularly imprinted polymer-coated solid-phase microextraction method is suitable for selective extraction and determination of trace parabens in food samples.

  18. How molecular motors extract order from chaos (a key issues review)

    Science.gov (United States)

    Hoffmann, Peter M.

    2016-03-01

    Molecular motors are the workhorses of living cells. Seemingly by ‘magic’, these molecules are able to complete purposeful tasks while being immersed in a sea of thermal chaos. Here, we review the current understanding of how these machines work, present simple models based on thermal ratchets, discuss implications for statistical physics, and provide an overview of ongoing research in this important and fascinating field of study.

  19. ADSORPTION PROCESS OF MOLECULARLY IMPRINTED SILICA FOR EXTRACTION OF LACTOSE FROM MILK

    Directory of Open Access Journals (Sweden)

    A. L. Balieiro

    Full Text Available Abstract In Brazil, about 25-30% of the population has some degree of intolerance to lactose, a disorder associated with the inability of the body to digest lactose due to a disability or absence of the enzyme lactase. The goal of this study was to evaluate the performance of adsorption of lactose from fresh milk using a fixed bed column of molecularly imprinted polymer (MIP. The polymeric material was characterized using Scanning electron microscopy (SEM analysis, thermal analysis (e.g., differential scanning calorimetric (DSC and thermogravimetric analysis (TGA, Fourier Transform Infrared Spectroscopy (FTIR, and the method of Braunauer, Emmet and Teller (BET. The adsorption column dynamics and performance were studied by the breakthrough curves using a 24-1 fractional factorial design. The chemical and structural characterization of the pure matrix and imprinted polymers confirmed the molecularly imprinted polymer (MIP imprinted with lactose. The highest capacity was 62.21 mgg-1, obtained at 307.1 K and a flow rate of 12.5 mL.min-1, with central point conditions, 320.1 K and 9 mL.min-1, with an average value of 50.9 mg.g-1. The results indicate that the molecularly imprinted polymer is efficient.

  20. Automatic extraction of forward stroke volume using dynamic PET/CT: a dual-tracer and dual-scanner validation in patients with heart valve disease

    OpenAIRE

    Harms, Hendrik Johannes; Tolbod, Lars Poulsen; Hansson, Nils Henrik Stubkjær; Kero, Tanja; Örndahl, Lovisa Holm; Kim, Won Yong; Bjerner, Tomas; Bouchelouche, Kirsten; Wiggers, Henrik; Frøkiær, Jørgen; Sörensen, Jens

    2015-01-01

    BACKGROUND: The aim of this study was to develop and validate an automated method for extracting forward stroke volume (FSV) using indicator dilution theory directly from dynamic positron emission tomography (PET) studies for two different tracers and scanners. METHODS: 35 subjects underwent a dynamic (11)C-acetate PET scan on a Siemens Biograph TruePoint-64 PET/CT (scanner I). In addition, 10 subjects underwent both dynamic (15)O-water PET and (11)C-acetate PET scans on a GE Discovery-ST PET...

  1. Matrix molecularly imprinted mesoporous sol–gel sorbent for efficient solid-phase extraction of chloramphenicol from milk

    Energy Technology Data Exchange (ETDEWEB)

    Samanidou, Victoria, E-mail: samanidu@chem.auth.gr [Laboratory of Analytical Chemistry, Department of Chemistry, Aristotle University of Thessaloniki (Greece); Kehagia, Maria [Laboratory of Analytical Chemistry, Department of Chemistry, Aristotle University of Thessaloniki (Greece); Kabir, Abuzar, E-mail: akabir@fiu.edu [International Forensic Research Institute, Department of Chemistry and Biochemistry, Florida International University, Miami, FL (United States); Furton, Kenneth G. [International Forensic Research Institute, Department of Chemistry and Biochemistry, Florida International University, Miami, FL (United States)

    2016-03-31

    Highly selective and efficient chloramphenicol imprinted sol–gel silica based inorganic polymeric sorbent (sol–gel MIP) was synthesized via matrix imprinting approach for the extraction of chloramphenicol in milk. Chloramphenicol was used as the template molecule, 3-aminopropyltriethoxysilane (3-APTES) and triethoxyphenylsilane (TEPS) as the functional precursors, tetramethyl orthosilicate (TMOS) as the cross-linker, isopropanol as the solvent/porogen, and HCl as the sol–gel catalyst. Non-imprinted sol–gel polymer (sol–gel NIP) was synthesized under identical conditions in absence of template molecules for comparison purpose. Both synthesized materials were characterized by Scanning Electron Microscopy (SEM), Fourier Transform Infrared Spectroscopy (FT-IR) and nitrogen adsorption porosimetry, which unambiguously confirmed their significant structural and morphological differences. The synthesized MIP and NIP materials were evaluated as sorbents for molecularly imprinted solid phase extraction (MISPE) of chloramphenicol in milk. The effect of critical extraction parameters (flow rate, elution solvent, sample and eluent volume, selectivity coefficient, retention capacity) was studied in terms of retention and desorption of chloramphenicol. Competition and cross reactivity tests have proved that sol–gel MIP sorbent possesses significantly higher specific retention and enrichment capacity for chloramphenicol compared to its non-imprinted analogue. The maximum imprinting factor (IF) was found as 9.7, whereas the highest adsorption capacity of chloramphenicol by sol–gel MIP was 23 mg/g. The sol–gel MIP was found to be adequately selective towards chloramphenicol to provide the necessary minimum required performance limit (MRPL) of 0.3 μg/kg set forth by European Commission after analysis by LC-MS even without requiring time consuming solvent evaporation and sample reconstitution step, often considered as an integral part in solid phase extraction work

  2. 一种新型自动深冷及活化分子筛的吸附泵设计%Design of a new adsorption pump with cryogenically refrigerated and automatically activated molecular sieve

    Institute of Scientific and Technical Information of China (English)

    邓云伟; 李军格; 杜卫星

    2012-01-01

    设计实现了一种新型自动深冷及活化分子筛的吸附泵.进行了吸附能力设计,采用基于PLC(可编程逻辑控制器)软硬件为核心的电气系统,方便地实现了对分子筛吸附泵的液氮自动输送以维持液氮量及分子筛活化的远程控制,有利于操作者操作和安全保障.验证实验结果表明,该分子筛吸附泵能快速吸附泄漏到密封容器里的有害气体,且吸附效果良好.%A new adsorption pump was designed and manufactured by applying the design technique of adsorption ability of molecular sieve. The hardware and software of the PLC (programmable logic controller) were used as the kernel of the electric system, which was applied to refrigerate cryogenically the molecular sieve by supplying and automatic -maintaining of the volume of the liquid nitrogen and activate the molecular sieve by heating the heater in the pump. The electric system made the pump operation easier and safer for operators. Further experiments demonstrated effectively rapid adsorption ability of the molecular sieve pump to deleterious gas leaked into the sealed box.

  3. Preparation of molecularly imprinted polymers for strychnine by precipitation polymerization and multistep swelling and polymerization and their application for the selective extraction of strychnine from nux-vomica extract powder.

    Science.gov (United States)

    Nakamura, Yukari; Matsunaga, Hisami; Haginaka, Jun

    2016-04-01

    Monodisperse molecularly imprinted polymers for strychnine were prepared by precipitation polymerization and multistep swelling and polymerization, respectively. In precipitation polymerization, methacrylic acid and divinylbenzene were used as a functional monomer and crosslinker, respectively, while in multistep swelling and polymerization, methacrylic acid and ethylene glycol dimethacrylate were used as a functional monomer and crosslinker, respectively. The retention and molecular recognition properties of the molecularly imprinted polymers prepared by both methods for strychnine were evaluated using a mixture of sodium phosphate buffer and acetonitrile as a mobile phase by liquid chromatography. In addition to shape recognition, ionic and hydrophobic interactions could affect the retention of strychnine in low acetonitrile content. Furthermore, molecularly imprinted polymers prepared by both methods could selectively recognize strychnine among solutes tested. The retention factors and imprinting factors of strychnine on the molecularly imprinted polymer prepared by precipitation polymerization were 220 and 58, respectively, using 20 mM sodium phosphate buffer (pH 6.0)/acetonitrile (50:50, v/v) as a mobile phase, and those on the molecularly imprinted polymer prepared by multistep swelling and polymerization were 73 and 4.5. These results indicate that precipitation polymerization is suitable for the preparation of a molecularly imprinted polymer for strychnine. Furthermore, the molecularly imprinted polymer could be successfully applied for selective extraction of strychnine in nux-vomica extract powder.

  4. Automatic extraction of himalayan glacial lakes with remote sensing%喜马拉雅山地区冰湖信息的遥感自动化提取

    Institute of Scientific and Technical Information of China (English)

    李均力; 盛永伟; 骆剑承

    2011-01-01

    在"全域-局部"分步迭代水体信息提取方法的基础上,通过对水体信息提取指标-水体指数的物理特性的分析实现了算法中全域阈值的自动选择与局部阈值的自适应调整,并结合DEM生成的山体坡度和阴影信息,减少局部迭代过程中对其他地表特征与水体信息的误判.在此基础上,建立一种适合于高山地区冰川湖泊的自动化提取方案.试验采用Landsat数据对喜马拉雅山地区的冰川湖泊进行信息提取,结果表明该方法能够快速准确地完成大区域范围内的冰川湖泊制图,并能最大程度地消除高山地区湖泊水体识别中冰川和山体阴影的影响.%The paper develops an automatic lake delineation algorithm based on "global-local" iterative scheme. The author uses NDWI (Normalized Difference Water Index) as the water identification index for the threshold segmentation process, and the slope maps and the shaded relief maps are applied in the algorithm to differentiate the shadow features from water features.Based on these methods. an automatic lakes delineation scheme is proposed to map the glacial lakes with Landsat Imagery in Himalayas mountains area. The results show that the proposed algorithm has good performance on lake mapping over the mountain areas, and lakes can be extracted automatically, accurately and efficiently, while most of melting glaciers and hill shadow features are eliminated from the segmentation processing.

  5. Molecular Docking Studies and Anti-enzymatic Activities of Thai Mango Seed Kernel Extract Against Snake Venoms

    Directory of Open Access Journals (Sweden)

    Patchreenart Saparpakorn

    2009-03-01

    Full Text Available The ethanolic extract from seed kernels of Thai mango (MSKE (Mangifera indica L. cv. ‘Fahlun’ (Anacardiaceae and its major phenolic principle (pentagalloyl glucopyranose exhibited dose-dependent inhibitory effects on enzymatic activities of phospholipase A2 (PLA2, hyaluronidase and L-amino acid oxidase (LAAO of Calloselasma rhodostoma (CR and Naja naja kaouthia (NKvenoms by in vitro tests. The anti-hemorrhagic and anti-dermonecrotic activities of MSKE against both venoms were clearly supported by in vivo tests. Molecular docking studies indicated that the phenolic molecules of the MSKE could selectively bind to the active sites or their proximity, or modify conserved residues that are critical for the catalysis of PLA2, and selectively bind to the LAAO binding pocket of both CR and NK venoms and thereby inhibit their enzymatic activities. The results imply a potential use of MSKE against snake venoms.

  6. Molecular docking studies and anti-enzymatic activities of Thai mango seed kernel extract against snake venoms.

    Science.gov (United States)

    Leanpolchareanchai, Jiraporn; Pithayanukul, Pimolpan; Bavovada, Rapepol; Saparpakorn, Patchreenart

    2009-03-31

    The ethanolic extract from seed kernels of Thai mango (MSKE) (Mangifera indica L. cv. 'Fahlun') (Anacardiaceae) and its major phenolic principle (pentagalloyl glucopyranose) exhibited dose-dependent inhibitory effects on enzymatic activities of phospholipase A(2) (PLA(2)), hyaluronidase and L-amino acid oxidase (LAAO) of Calloselasma rhodostoma (CR) and Naja naja kaouthia (NK)venoms by in vitro tests. The anti-hemorrhagic and anti-dermonecrotic activities of MSKE against both venoms were clearly supported by in vivo tests. Molecular docking studies indicated that the phenolic molecules of the MSKE could selectively bind to the active sites or their proximity, or modify conserved residues that are critical for the catalysis of PLA(2), and selectively bind to the LAAO binding pocket of both CR and NK venoms and thereby inhibit their enzymatic activities. The results imply a potential use of MSKE against snake venoms.

  7. Effectively designed molecularly imprinted polymers for selective extraction of glabridin from Glycyrrhiza glabra L. residues by screening the library of non-imprinted polymers.

    Science.gov (United States)

    Chen, Lingxiao; Ji, Wenhua; Duan, Wenjuan; Wang, Xiao; Gao, Qianshan; Geng, Yanling; Huang, Luqi

    2014-08-15

    Molecularly imprinted polymers (MIPs) with high selectivity and affinity to glabridin were designed based on the screening results of the library of non-imprinted polymers (NIPs). The NIP library contained 48 polymers that were polymerized with the combinations of different functional monomers, cross-linkers, and porogenic solvents. The distribution coefficient (k) values were used to estimate the affinity of NIPs to glabridin. The corresponding MIPs of the best three NIPs were prepared. After evaluating the imprinting effects and selectivity of the three MIPs, the performance of the best MIP as solid phase extraction sorbent was investigated. Glabridin with percent recovery of 83 was obtained from the extract of Glycyrrhiza glabra L. (G. glabra L.) residues by molecularly imprinted solid phase extraction (MISPE). Thus, this material can be successfully used for the extraction and purification of glabridin from G. glabra L. residues.

  8. Automatic extracting topic page links from Hub page%中心网页中主题网页链接的自动抽取

    Institute of Scientific and Technical Information of China (English)

    夏天

    2012-01-01

    基于扩展标记树,提出了一种从中心网页中自动抽取主题网页链接的方法。首先构建链接有序表,利用链接前缀树发现主题网页链接拒绝规则,实现对网页链接类型的预判定;其次,通过分组分割和相似分组重新合并,把页面中的链接归入到不同分组之中,进而识别分组的类型和核心区域所在的分组,最终把链接归入三类链接集合之中。实验结果表明该方法无需训练即可实现中心网页中主题网页链接的高精度抽取。%A topic link extraction method from Hub page based on extended label tree was proposed.Firs,a topic link sorted list was build and deny rules were learned by prefix tree,then,the link type was pre-determined.Second,by group splitting and re-merging,each candidate link was classified into different groups.The group type and the group which represented the hub page's core region were identified,and finally all links were put into three different collections.Experimental results show that this method can achieve high-precision for topic link extraction without training.

  9. Computational design of an enantioselective molecular imprinted polymer for the solid phase extraction of S-warfarin from plasma.

    Science.gov (United States)

    Ahmadi, F; Yawari, E; Nikbakht, M

    2014-04-18

    An enantioselective molecular imprinted polymer for S-warfarin was designed computationally by using the density functional theory (DFT) at B3LYP/631G+ (d, p) level and Gaussian 2003 package. The effect of polymerization solvent was also evaluated by the polarizable continuum model (PCM) and it was based on the measurement of interaction energies (ΔE) between S-warfarin and monomers in different polymerization solvents. The computational method showed that the methacrylic acid (MAA) and acetonitrile (AN) had the highest stabilization energy for the pre-polymerization adducts. Additionally, the mole ratio of 1:3 give the highest ΔE, therefore, the polymer was synthesized by the thermal bulk polymerization method with the mole ratio of S-warfarin-(MAA)3. The enantioselective extraction of MIP for R and S-warfarin was evaluated by chiral separation chromatography and polarimetry methods. The results revealed that the proposed S-warfarin molecular imprinted polymer has a moderate recognition for extraction of R-warfarin in a racemic mixture and had no recognition for other foreign drugs. In a racemic mixture of R and S-warfarin, the polymer is able to remove about 20% of R-warfarin. The linearity between responses (peak areas) and concentrations of S-warfarin in plasma sample was found in the range of 15.4-3080ngmL(-1) (R(2)=0.999).The linear range for a racemic mixture of R, S-warfarin in plasma which has been obtained by RP-C18-HPLC-UV method, was 12.0-2500ngmL(-1) (R(2)=0.998). The polymer was used for analysis of a real sample and as expected the accurate results were obtained.

  10. Novel surface dummy molecularly imprinted silica as sorbent for solid-phase extraction of bisphenol A from water samples.

    Science.gov (United States)

    Hu, Xiaolei; Wu, Xiao; Yang, Fanfan; Wang, Qiang; He, Chiyang; Liu, Shaorong

    2016-01-01

    A novel surface molecularly imprinted silica composite was prepared by a dummy-template imprinting strategy for the solid-phase extraction (SPE) of bisphenol A (BPA). 2,2-Bis(4-hydroxyphenyl) hexafluoropropane (BPAF) was chosen as the template molecule, and a hybrid technique was used for imprinting procedure. The imprinted silica was characterized by FT-IR spectroscopy, scanning electron microscope, thermo-gravimetric analysis, and nitrogen adsorption-desorption isotherms. The static binding test verified that the imprinted silica had much higher recognition ability for BPA than the non-imprinted silica, and the kinetic adsorption test presented the fast binding kinetics of the surface imprinted silica for BPA. When used as a SPE sorbent, the imprinted silica showed high extraction efficiencies and high enrichment factor for BPA. Based on the imprinted silica, a SPE-HPLC-UV method was developed and successfully applied to the detection of BPA in BPA-spiked lake water, tap water and drinking water samples with a high recovery of 97.3-106.0%, a RSD of 1.2-3.8% (n=3) and a limit of detection (S/N=3) of 0.3 ng/mL. The analysis results of a certified BPA sample also demonstrated the reliability of present method. The new surface dummy molecularly imprinted silica completely avoided the interference of the residual template molecules and greatly improved the binding kinetic of the target molecules. Therefore, it can be used as a good sorbent for SPE of BPA in environmental water samples.

  11. New Advance of Studies on Molecularly Imprinted Solid-phase Extraction%分子印迹固相萃取技术研究新进展

    Institute of Scientific and Technical Information of China (English)

    刘祺文; 熊远福; 王锦; 文祝友; 熊海蓉; 胡红远

    2015-01-01

    随着人们对环境污染和食品安全的关注,分子印迹固相萃取技术在各领域的应用有了进一步发展.在介绍分子印迹固相萃取技术的基础上,对近年来分子印迹固相萃取技术在环境样品中农药残留的检测,食品及饲料中药物残留的检测,功能药物成分提纯及药物检测,水土环境中的其它污染物检测等4大方面的研究现状进行了综述. 同时,指出了分子印迹固相萃取技术目前存在的问题,探讨了分子印迹固相萃取技术未来的发展方向.%With attention to environmental pollution and food safety, molecular imprinted solid phase extraction technique in various fields has been further developed. Therefore, molecular imprinted solid phase extraction were briefly described in this article. Molecular imprinted solid phase extraction enrichment and detection of pesticide residues, drug residues in food and feed, other contaminants in water and soil, and also molecular imprinted solid phase extraction of drug testing and purification of functional pharmaceutical ingredient in recent years were reviewed. In this paper, the problem molecular imprinted solid phase extraction technique encountered in recent years was analyzed, and the trend of molecular imprinted solid phase extraction technique was also discussed.

  12. Molecular characterization of ongoing enzymatic reactions in raw garlic cloves using extractive electrospray ionization mass spectrometry.

    Science.gov (United States)

    Zhang, Hua; Chingin, Konstantin; Zhu, Liang; Chen, Huanwen

    2015-03-03

    Characterization of enzymatic reactions occurring in untreated biological samples is of increasing interest. Herein, the chemical conversion of alliin to allicin, catalyzed by allinase, in raw garlic cloves has been followed in vivo by internal extractive electrospray ionization mass spectrometry (iEESI-MS). Both precursors and products of the enzymatic reaction were instantaneously extracted by infused solution running throughout the tissue and directly electrospray ionized on the edge of the bulk sample for online MS analysis. Compared to the room-temperature (+25 °C) scenario, the alliin conversion in garlic cloves decreased by (7.2 ± 1.4) times upon heating to +80 °C and by (5.9 ± 0.8) times upon cooling to -16 °C. Exposure of garlic to gentle ultrasound irradiation for 3 h accelerated the reaction by (1.2 ± 0.1) times. A 10 s microwave irradiation promoted alliin conversion by (1.6 ± 0.4) times, but longer exposure to microwave irradiation (90 s) slowed the reaction by (28.5 ± 7.5) times compared to the reference analysis. This method has been further employed to monitor the germination process of garlic. These data revealed that over a 2 day garlic sprouting, the allicin/alliin ratio increased by (2.2 ± 0.5) times, and the averaged degree of polymerization for the detected oligosaccharides/polysaccharides decreased from 11.6 to 9.4. Overall, these findings suggest the potential use of iEESI-MS for in vivo studies of enzymatic reactions in native biological matrices.

  13. Molecular characterization of two microalgal strains in Egypt and investigation of the antimicrobial activity of their extracts

    Directory of Open Access Journals (Sweden)

    El Semary, NA.

    2013-01-01

    Full Text Available The emergence of new pathogens and the increasing drug-resistance of recognized ones pose a difficult challenge. One way that this challenge is being addressed is through the discovery of new cost-effective drug resources in the form of bioactive compounds. Algae represent a promising source of bioactive compounds in this regard. In the present research, we used molecular and phylogenetic analysis to isolate and identify two microalgal strains. We found that one strain belonged to the phylum chrysophyta and the other to the cyanobacteria. We also investigated the antimicrobial activity of some of the lipophilic extracts of the two microalgal strains. Several fractions showed high individual antimicrobial bioactivity against multidrug-resistant Salmonella sp., Citrobacter sp., Aspergillus niger and Aspergillus flavus. Fraction III from Poterioochromonas malhamensis showed the highest level of activity against two multidrug-resistant bacterial pathogens. The inhibition zone diameter was 1.4 cm for Salmonella and 1.4 cm for Citrobacter. Meanwhile, another lipophilic fraction from the cyanobacterium Synechocystis salina showed broad-spectrum bioactivity (inhibition zone diameter of 0.9 cm for Aspergillus niger, 1 cm for Citrobacter and 0.9 cm for Salmonella. One lipophilic fraction from Aphanizomenon showed antifungal bioactivity against Aspergillus niger and Aspergillus flavus, where the inhibition zone diameter was 1.1 cm and 1.0 cm, respectively. The study highlights the antimicrobial bioactivity of extracts from local microalgae and emphasizes the importance of carrying out screening programs for those microorganisms.

  14. Molecular Mechanisms by Which a Fucus vesiculosus Extract Mediates Cell Cycle Inhibition and Cell Death in Pancreatic Cancer Cells

    Directory of Open Access Journals (Sweden)

    Ulf Geisen

    2015-07-01

    Full Text Available Pancreatic cancer is one of the most aggressive cancer entities, with an extremely poor 5-year survival rate. Therefore, novel therapeutic agents with specific modes of action are urgently needed. Marine organisms represent a promising source to identify new pharmacologically active substances. Secondary metabolites derived from marine algae are of particular interest. The present work describes cellular and molecular mechanisms induced by an HPLC-fractionated, hydrophilic extract derived from the Baltic brown seaweed Fucus vesiculosus (Fv1. Treatment with Fv1 resulted in a strong inhibition of viability in various pancreatic cancer cell lines. This extract inhibited the cell cycle of proliferating cells due to the up-regulation of cell cycle inhibitors, shown on the mRNA (microarray data and protein level. As a result, cells were dying in a caspase-independent manner. Experiments with non-dividing cells showed that proliferation is a prerequisite for the effectiveness of Fv1. Importantly, Fv1 showed low cytotoxic activity against non-malignant resting T cells and terminally differentiated cells like erythrocytes. Interestingly, accelerated killing effects were observed in combination with inhibitors of autophagy. Our in vitro data suggest that Fv1 may represent a promising new agent that deserves further development towards clinical application.

  15. Molecular Mechanisms by Which a Fucus vesiculosus Extract Mediates Cell Cycle Inhibition and Cell Death in Pancreatic Cancer Cells.

    Science.gov (United States)

    Geisen, Ulf; Zenthoefer, Marion; Peipp, Matthias; Kerber, Jannik; Plenge, Johannes; Managò, Antonella; Fuhrmann, Markus; Geyer, Roland; Hennig, Steffen; Adam, Dieter; Piker, Levent; Rimbach, Gerald; Kalthoff, Holger

    2015-07-20

    Pancreatic cancer is one of the most aggressive cancer entities, with an extremely poor 5-year survival rate. Therefore, novel therapeutic agents with specific modes of action are urgently needed. Marine organisms represent a promising source to identify new pharmacologically active substances. Secondary metabolites derived from marine algae are of particular interest. The present work describes cellular and molecular mechanisms induced by an HPLC-fractionated, hydrophilic extract derived from the Baltic brown seaweed Fucus vesiculosus (Fv1). Treatment with Fv1 resulted in a strong inhibition of viability in various pancreatic cancer cell lines. This extract inhibited the cell cycle of proliferating cells due to the up-regulation of cell cycle inhibitors, shown on the mRNA (microarray data) and protein level. As a result, cells were dying in a caspase-independent manner. Experiments with non-dividing cells showed that proliferation is a prerequisite for the effectiveness of Fv1. Importantly, Fv1 showed low cytotoxic activity against non-malignant resting T cells and terminally differentiated cells like erythrocytes. Interestingly, accelerated killing effects were observed in combination with inhibitors of autophagy. Our in vitro data suggest that Fv1 may represent a promising new agent that deserves further development towards clinical application.

  16. A Reductionist Approach to Extract Robust Molecular Markers from Microarray Data Series -Isolating Markers to Track Osseointegration.

    Science.gov (United States)

    Barik, Anwesha; Banerjee, Satarupa; Dhara, Santanu; Chakravorty, Nishant

    2017-03-10

    Complexities in the full genome expression studies hinder the extraction of tracker genes to analyze the course of biological events. In this study, we demonstrate the applications of supervised machine learning methods to reduce the irrelevance in microarray data series and thereby extract robust molecular markers to track biological processes. The methodology has been illustrated by analyzing whole genome expression studies on bone-implant integration (ossointegration). Being a biological process, osseointegration is known to leave a trail of genetic footprint during the course. In spite of existence of enormous amount of raw data in public repositories, researchers still do not have access to a panel of genes that can definitively track osseointegrtion. The results from our study revealed panels comprising of matrix metalloproteinases and collagen genes were able to track osseointegration on implant surfaces (MMP9 and COL1A2 on micro-textured; MMP12 and COL6A3 on superimposed nano-textured surfaces) 100% classification accuracy, specificity and sensitivity. Further, our analysis showed the importance of the progression of the duration in establishment of the mechanical connection at bone-implant surface. The findings from this study are expected to be useful to researchers investigating osseointegration of novel implant materials especially at the early stage. The methodology demonstrated can be easily adapted by scientists in different fields to analyze large databases for other biological processes.

  17. Preparation, characterization and usage of molecularly imprinted polymer for the isolation of quercetin from hydrolyzed nettle extract.

    Science.gov (United States)

    Karaman Ersoy, Şeyda; Tütem, Esma; Sözgen Başkan, Kevser; Apak, Reşat; Nergiz, Cevdet

    2016-04-01

    Quercetin (3,3',4',5,7-pentahydroxyflavone, QC) is a health-beneficial flavonoid, widely occurring in leaves, fruits, and flowers of various plants. In this work aiming isolation, purification and pre-concentration of QC, QC imprinted polymers (QC-MIPs) in different molar ratios {template:monomer:cross-linker (1:4:20, 1:5:30, 1:8:40, 1:10:50)} were prepared thermally through bulk polymerization by using QC as the template molecule, 4-vinylpyridine (4-VP), methacrylic acid (MAA), acrylamide (AA) as the functional monomers, ethylene glycol dimethacrylate (EDMA) as the cross-linker and 2,2'-azobisisobutyronitrile (AIBN) as initiator in the porogens of acetone and tetrahydrofuran. Their recognition and selectivity properties were investigated in solutions containing QC and other similar-structure phenolics by equilibrium binding experiments using different proportions of acetonitrile (ACN)-dimethylsulfoxide (DMSO) mixtures and methanol (MeOH) as solvents. The MIP with 1:4:20 molar ratio of QC:4-VP:EDMA was established as the most suitable for recognition of QC. Sorption parameters of the MIP and the NIP (non-imprinted polymer) were calculated by using Freundlich and Langmuir isotherms with QC solutions in ACN:DMSO (98:2, v/v). The mentioned MIP was found to be highly selective for quercetin over other phenolic compounds (rutin, catechin, etc.). Thus, molecularly imprinted solid-phase extraction (MISPE) procedures were applied for selective pre-concentration and purification of QC from synthetic mixtures of phenolic compounds and nettle extract, known as a source of official and folk medicine. The results demonstrated the possibility of direct extraction of certain pharmacophoric constituents such as QC and QC derivatives from nettle by MIP separation.

  18. Wavelet analysis of molecular dynamics: Efficient extraction of time-frequency information in ultrafast optical processes

    Energy Technology Data Exchange (ETDEWEB)

    Prior, Javier; Castro, Enrique [Departamento de Física Aplicada, Universidad Politécnica de Cartagena, Cartagena 30202 (Spain); Chin, Alex W. [Theory of Condensed Matter Group, University of Cambridge, J J Thomson Avenue, Cambridge CB3 0HE (United Kingdom); Almeida, Javier; Huelga, Susana F.; Plenio, Martin B. [Institut für Theoretische Physik, Albert-Einstein-Allee 11, Universität Ulm, D-89069 Ulm (Germany)

    2013-12-14

    New experimental techniques based on nonlinear ultrafast spectroscopies have been developed over the last few years, and have been demonstrated to provide powerful probes of quantum dynamics in different types of molecular aggregates, including both natural and artificial light harvesting complexes. Fourier transform-based spectroscopies have been particularly successful, yet “complete” spectral information normally necessitates the loss of all information on the temporal sequence of events in a signal. This information though is particularly important in transient or multi-stage processes, in which the spectral decomposition of the data evolves in time. By going through several examples of ultrafast quantum dynamics, we demonstrate that the use of wavelets provide an efficient and accurate way to simultaneously acquire both temporal and frequency information about a signal, and argue that this greatly aids the elucidation and interpretation of physical process responsible for non-stationary spectroscopic features, such as those encountered in coherent excitonic energy transport.

  19. Wavelet analysis of molecular dynamics: efficient extraction of time-frequency information in ultrafast optical processes.

    Science.gov (United States)

    Prior, Javier; Castro, Enrique; Chin, Alex W; Almeida, Javier; Huelga, Susana F; Plenio, Martin B

    2013-12-14

    New experimental techniques based on nonlinear ultrafast spectroscopies have been developed over the last few years, and have been demonstrated to provide powerful probes of quantum dynamics in different types of molecular aggregates, including both natural and artificial light harvesting complexes. Fourier transform-based spectroscopies have been particularly successful, yet "complete" spectral information normally necessitates the loss of all information on the temporal sequence of events in a signal. This information though is particularly important in transient or multi-stage processes, in which the spectral decomposition of the data evolves in time. By going through several examples of ultrafast quantum dynamics, we demonstrate that the use of wavelets provide an efficient and accurate way to simultaneously acquire both temporal and frequency information about a signal, and argue that this greatly aids the elucidation and interpretation of physical process responsible for non-stationary spectroscopic features, such as those encountered in coherent excitonic energy transport.

  20. Molecularly imprinted solid-phase extraction for the selective determination of methamphetamine, amphetamine, and methylenedioxyphenylalkylamine designer drugs in human whole blood by gas chromatography-mass spectrometry.

    Science.gov (United States)

    Kumazawa, Takeshi; Hasegawa, Chika; Hara, Kenji; Uchigasaki, Seisaku; Lee, Xiao-Pen; Seno, Hiroshi; Suzuki, Osamu; Sato, Keizo

    2012-03-01

    A novel method is described for the extraction of methamphetamine, amphetamine, and methylenedioxyphenylalkylamine designer drugs, such as 3,4-methylenedioxy-methamphetamine, 3,4-methylenedioxyamphetamine, 3,4-methylenedioxyethylamphetamine, N-methyl-1-(3,4-methylenedioxyphenyl)-2-butanamine, and 3,4-(methylenedioxyphenyl)-2-butanamine, from human whole blood using molecularly imprinted solid-phase extraction as highly selective sample clean-up technique. Whole blood samples were diluted with 10 mmol/L ammonium acetate (pH 8.6) and applied to a SupelMIP-Amphetamine molecularly imprinted solid-phase extraction cartridge. The cartridge was then washed to eliminate interferences, and the amphetamines of interest were eluted with formic acid/methanol (1:100, v/v). After derivatization with trifluoroacetic anhydride, the analytes were quantified using gas chromatography-mass spectrometry. Recoveries of the seven amphetamines spiked into whole blood were 89.1-102%. The limits of quantification for each compound in 200 μL of whole blood were between 0.25 and 1.0 ng. The maximum intra- and inter-day coefficients of variation were 9.96 and 13.8%, respectively. The results show that methamphetamine, amphetamine, and methylenedioxyphenylalkyl-amine designer drugs can be efficiently extracted from crude biological samples such as whole blood by molecularly imprinted solid-phase extraction with good reproducibility. This extraction method will be useful for the pretreatment of human samples before gas chromatography-mass spectrometry.

  1. Molecular mechanisms underlying the cholesterol-lowering effect of Ginkgo biloba extract in hepatocytes: a comparative study with Iovastatin

    Institute of Scientific and Technical Information of China (English)

    Zuo-quan XIE; Gai LIANG; Lu ZHANG; Qi WANG; Yi QU; Yang GAO; Li-bo LIN; Sai YE; Ji ZHANG; Hui WANG; Guo-ping ZHAO; Qing-hua ZHANG

    2009-01-01

    Aim: To explore the molecular mechanisms underlying the cholesterol-lowering effect of a Ginkgo biloba extract (GBE). Methods: Enzyme activity, cholesterol flux and changes in gene expression levels were assessed in cultured hepatocytes treated with GBE or Iovastatin. Results: GBE decreased the total cholesterol content in cultured hepatocytes and inhibited the activity of HMG-CoA reductase, as determined by an in vitro enzyme activity assay. In addition, GBE decreased cholesterol influx, whereas Iovastatin increased choles-terol influx. GBE treatment induced significant increases in the expression of cholesterogenic genes and genes involved in cholesterol metabolism, such as SREBF2, as determined by cDNA microarray and real-time RT-PCR. Furthermore, INSIG2, LDLR, LRP1, and LRP10 were differentially regulated by GBE and Iovastatin. The data imply that the two compounds modulate cholesterol metabolism through distinct mechanisms. Conclusion: By using a gene expression profiling approach, we were able to broaden the understanding of the molecular mechanisms by which GBE lowers cellular cholesterol levels. Specifically, we demonstrated that GBE exhibited dual effects on the cellular choles-terol pool by modulating both HMG-CoA reductase activity and inhibiting cholesterol influx.

  2. Microcystin-LR Detected in a Low Molecular Weight Fraction from a Crude Extract of Zoanthus sociatus

    Science.gov (United States)

    Domínguez-Pérez, Dany; Alexei Rodríguez, Armando; Osorio, Hugo; Azevedo, Joana; Castañeda, Olga; Vasconcelos, Vítor; Antunes, Agostinho

    2017-01-01

    Cnidarian constitutes a great source of bioactive compounds. However, research involving peptides from organisms belonging to the order Zoanthidea has received very little attention, contrasting to the numerous studies of the order Actiniaria, from which hundreds of toxic peptides and proteins have been reported. In this work, we performed a mass spectrometry analysis of a low molecular weight (LMW) fraction previously reported as lethal to mice. The low molecular weight (LMW) fraction was obtained by gel filtration of a Zoanthus sociatus (order Zoanthidea) crude extract with a Sephadex G-50, and then analyzed by matrix-assisted laser desorption/ionization time-of-flight/time-of-flight (MALDI-TOF/TOF) mass spectrometry (MS) in positive ion reflector mode from m/z 700 to m/z 4000. Afterwards, some of the most intense and representative MS ions were fragmented by MS/MS with no significant results obtained by Protein Pilot protein identification software and the Mascot algorithm search. However, microcystin masses were detected by mass-matching against libraries of non-ribosomal peptide database (NORINE). Subsequent reversed-phase C18 HPLC (in isocratic elution mode) and mass spectrometry analyses corroborated the presence of the cyanotoxin Microcystin-LR (MC-LR). To the best of our knowledge, this finding constitutes the first report of MC-LR in Z. sociatus, and one of the few evidences of such cyanotoxin in cnidarians. PMID:28257074

  3. Novel molecularly imprinted polymers based on multiwalled carbon nanotubes with bifunctional monomers for solid-phase extraction of rhein from the root of kiwi fruit.

    Science.gov (United States)

    Chen, Xing; Zhang, Zhaohui; Yang, Xiao; Liu, Yunan; Li, Jiaxing; Peng, Mijun; Yao, Shouzhuo

    2012-09-01

    A novel molecularly imprinted polymers based on multiwalled carbon nanotubes synthesized by precipitate polymerization was applied as a selective sorbent for separation and determination of rhein (4,5-dihydroxyanthraquinone-2-carboxylic acid) from the root of kiwi fruit samples coupled with high performance liquid chromatography (HPLC). The molecularly imprinted polymers were prepared with methacrylic acid and 4-vinylpyridine as bifunctional monomers. The chemical structure of the molecularly imprinted polymers was characterized by Fourier transform infrared spectrometer. The equilibrium rebinding experiment and competitive adsorption experiment showed that these imprinted polymers exhibited good adsorption ability toward rhein. The Langmuir adsorption equilibrium constant, K(m) , and theoretical maximum adsorption capacity, Q(m) , were estimated to be 0.43 and 6.77 mg g(-1) , respectively. Compared with molecularly imprinted polymers prepared with methacrylic acid or 4-vinylpyridine solely, the molecularly imprinted polymers synthesized with bifunctional monomers showed enhanced molecular imprinting effect and higher adsorption capacity for the template rhein. The performances of the molecularly imprinted polymers utilized as solid phase extraction sorbent were investigated in detail. The molecularly imprinted polymers prepared by the method proposed in this work could successfully apply to extraction and determination of rhein from the root of kiwi fruit samples coupled with HPLC.

  4. Easy, fast and environmental friendly method for the simultaneous extraction of the 16 EPA PAHs using magnetic molecular imprinted polymers (mag-MIPs).

    Science.gov (United States)

    Villar-Navarro, Mercedes; Martín-Valero, María Jesús; Fernández-Torres, Rut Maria; Callejón-Mochón, Manuel; Bello-López, Miguel Ángel

    2017-02-15

    An easy and environmental friendly method, based on the use of magnetic molecular imprinted polymers (mag-MIPs) is proposed for the simultaneous extraction of the 16 U.S. EPA polycyclic aromatic hydrocarbons (PAHs) priority pollutants. The mag-MIPs based extraction protocol is simple, more sensitive and low organic solvent consuming compared to official methods and also adequate for those PAHs more retained in the particulate matter. The new proposed extraction method followed by HPLC determination has been validated and applied to different types of water samples: tap water, river water, lake water and mineral water.

  5. Automatic Age Estimation System for Face Images

    OpenAIRE

    Chin-Teng Lin; Dong-Lin Li; Jian-Hao Lai; Ming-Feng Han; Jyh-Yeong Chang

    2012-01-01

    Humans are the most important tracking objects in surveillance systems. However, human tracking is not enough to provide the required information for personalized recognition. In this paper, we present a novel and reliable framework for automatic age estimation based on computer vision. It exploits global face features based on the combination of Gabor wavelets and orthogonal locality preserving projections. In addition, the proposed system can extract face aging features automatically in rea...

  6. UMLS-based automatic image indexing.

    Science.gov (United States)

    Sneiderman, C; Sneiderman, Charles Alan; Demner-Fushman, D; Demner-Fushman, Dina; Fung, K W; Fung, Kin Wah; Bray, B; Bray, Bruce

    2008-01-01

    To date, most accurate image retrieval techniques rely on textual descriptions of images. Our goal is to automatically generate indexing terms for an image extracted from a biomedical article by identifying Unified Medical Language System (UMLS) concepts in image caption and its discussion in the text. In a pilot evaluation of the suggested image indexing method by five physicians, a third of the automatically identified index terms were found suitable for indexing.

  7. 全自动固相萃取/超高压液相色谱测定食品中合成色素%Determination of Synthetic Colorants in Food by Automatic Solid Phase Extraction/UPLC

    Institute of Scientific and Technical Information of China (English)

    吴丽容

    2014-01-01

    建立了全自动固相萃取/超高压液相色谱法同时测定食品中10种人工合成色素柠檬黄、苋菜红、胭脂红、日落黄、亮蓝、诱惑红、靛蓝、赤藓红、新红、酸性红的方法。液体样品经加热驱除二氧化碳和酒精,固体或半固体样品经乙醇-水-氨水(70+29+1)溶液提取,所得待净化液采用全自动固相萃取仪经Strata X-AW SPE小柱净化,采用超高压液相色谱进行分析。用甲醇和0.02 mol/L乙酸铵溶液作为流动相进行梯度洗脱,流速0.3 mL/min,在4 min内实现10种合成色素的良好分离。10种色素在1~50μg/mL的范围内线性良好。10种色素的方法最低检出限是0.004 mg/kg,加标回收率在83.8%~111.2%之间,相对标准偏差在1.24%~4.18%之间(n=6)。本方法操作简单,灵敏度高,干扰少,能满足食品中多种合成色素同时分析测定要求。%An automatic solid phase extraction/ultra high pressure liquid chromatographic method was established for the simultaneous determination of 10 synthetic colorants tartrazine, amaranth, ponceau 4R, sunset yellow, brilliant blue, allura red, indigotine, erythrosine, new red, and carmoisine in food.Liquid samples were removed carbon dioxide and alcohol by heating , solid or semi-solid samples were extracted with alcohol -water-ammonia ( 70+29+1 ) solution , and the extract was purified on Strata X -AW SPE column by automatic solid phase extraction apparatus , than analyzed by UPLC.The mobile phase was methanol and 0.02 mol/L ammonium acetate solution in gradient condition.The flow rate was 0.3 mL/min.Using the best gradient condition , ten synthetic colorants achieved the grate separation in 4 min.All the ten synthetic colorants had a good linearity in a concentration range of 1 ~50 μg/mL.The detect limit of the method was 0.004 mg/kg.The spiked recoveries of ten colorants ranged from 83.8% to 111.2%, with the RSDs of 1.24%~4.18%( n =6 ).This method

  8. Encapsulation of citral isomers in extracted lemongrass oil with cyclodextrins: molecular modeling and physicochemical characterizations.

    Science.gov (United States)

    Rungsardthong Ruktanonchai, Uracha; Srinuanchai, Wanwisa; Saesoo, Somsak; Sramala, Issara; Puttipipatkhachorn, Satit; Soottitantawat, Apinan

    2011-01-01

    The complexation between two isomers of citral in lemongrass oil and varying types of cyclodextrins (CDs), α-CD, β-CD, and HP-β-CD, were studied by molecular modeling and physicochemical characterization. The results obtained revealed that the most favorable complex formation governing between citrals in lemongrass oil and CDs were found at a 1:2 mole ratio for all CDs. Complex formation between E-citral and CD was more favorable than between Z-citral and CD. The thermal stability of the inclusion complex was observed compared to the citral in the lemongrass oil. The release time course of citral from the inclusion complex was the diffusion control, and it correlated well with Avrami's equation. The release rate constants of the E- and Z-citral inclusion complexes at 50 °C, 50% RH were observed at 1.32×10(-2) h(-1) and 1.43×10(-2) h(-1) respectively.

  9. Hypoglycemic effect of Octomeles sumatrana aqueous extract in streptozotocin-induced diabetic rats and its molecular mechanisms

    Institute of Scientific and Technical Information of China (English)

    Mohd Aidil Azahar; Ghanya Al-Naqeb; Mizaton Hasan; Aishah Adam

    2012-01-01

    Objective:To investigate the hypoglycemic effect of the aqueous extract of Octomeles sumatrana (O. sumatrana) (OS) in streptozotocin-induced diabetic rats (STZ) and its molecular mechanisms. Methods: Diabetes was induced by intraperitoneal (i.p.) injection of streptozotocin (55 mg/kg) in to male Sprague-Dawley rats. Rats were divided into six different groups;normal control rats were not induced with STZ and served as reference, STZ diabetic control rats were given normal saline. Three groups were treated with OS aqueous extract at 0.2, 0.3 and 0.5 g/kg, orally twice daily continuously for 21 d. The fifth group was treated with glibenclamide (6 mg/kg) in aqueous solution orally continuously for 21 d. After completion of the treatment period, biochemical parameters and expression levels of glucose transporter 2 (Slc2a2), glucose-6-phosphatase (G6Pase) and phosphoenolpyruvate carboxykinase (PCK1) were determined in liver by quantitative real time PCR. Results: Administration of OS at different doses to STZ induced diabetic rats, resulted in significant decrease (P<0.05) in blood glucose level in a dose dependent manner by 36%, 48%, and 64%at doses of 0.2, 0.3 and 0.5 g/kg, respectively, in comparison to the STZ control values. Treatment with OS elicited an increase in the expression level of Slc2a2 gene but reduced the expression of G6Pase and PCK1 genes. Morefore, OS treated rats, showed significantly lower levels of serum alanine transaminase (ALT), aspartate aminotransferase (AST) and urea levels compared to STZ untreated rats. The extract at different doses elicited signs of recovery in body weight gain when compared to STZ diabetic controls although food and water consumption were significantly lower in treated groups compared to STZ diabetic control group. Conclusions:O. sumatrana aqueous extract is beneficial for improvement of hyperglycemia by increasing gene expression of liver Slc2a2 and reducing expression of G6Pase and PCK1 genes in streptozotocin

  10. 基于互联网1至5元文法语料库的多词表达自动提取%Automatic Extraction of Multiword Expressions from Web 1T 5-Gram Corpus

    Institute of Scientific and Technical Information of China (English)

    李康熙; 李为山

    2013-01-01

    Multiword expressions are used frequently in everyday language, whose automatic extraction plays a vital part in many natural language processing tasks. This paper proposes an approach to exploit statistical information from Web 1T 5-gram Corpus compiled and issued by Google Corporation for identifying multiword expressions in the written texts of British National Corpus. The pilot study shows that Google corpus provides a reliable as well as ample source of co-oc-currence information, hence greatly enhancing the precision of multiword expressions extraction and reducing data sparse-ness.%多词表达是自然语言中的常见现象,其自动提取对很多自然语言处理任务有着举足轻重的作用。本研究以Google公司发布的基于公共网页的1至5元文法语料库作为词频统计的依据,同时结合自动词性标注的信息,对英国国家语料库的书面语材料部分进行多词表达的自动提取。研究结果表明,该方法能够充分利用Google语料库的精确词频信息,从而提高了多词表达抽取的准确率,并且能够较好地缓解数据稀疏现象带来问题。

  11. n-alkane profiles of engine lubricating oil and particulate matter by molecular sieve extraction.

    Science.gov (United States)

    Caravaggio, Gianni A; Charland, Jean-Pierre; Macdonald, Penny; Graham, Lisa

    2007-05-15

    As part of the Canadian Atmospheric Fine Particle Research Program to obtain reliable primary source emission profiles, a molecular sieve method was developed to reliably determine n-alkanes in lubricating oils, vehicle emissions, and mobile source dominated ambient particulate matter (PM). This work was also initiated to better calculate carbon preference index values (CPI: the ratio of the sums of odd over even n-alkanes), a parameter for estimating anthropogenic versus biogenic contributions in PM. n-Alkanes in lubricating oil and mobile source dominated PM are difficult to identify and quantify by gas chromatography due to the presence of similar components that cannot be fully resolved. This results in a hump, the unresolved complex mixture (UCM) that leads to incorrect n-alkane concentrations and CPI values. The sieve method yielded better chromatography, unambiguous identification of n-alkanes and allowed examination of differences between n-alkane profiles in light (LDV) and heavy duty vehicle (HDV) lubricating oils that would have been otherwise difficult. These profile differences made it possible to relate the LDV profile to that of the PM samples collected during a tunnel study in August 2001 near Vancouver (British Columbia, Canada). The n-alkane PM data revealed that longer sampling times result in a negative artifact, i.e., the desorption of the more volatile n-alkanes from the filters. Furthermore, the sieve procedure yielded n-alkane data that allowed calculation of accurate CPI values for lubricating oils and PM samples. Finally, this method may prove helpful in estimating the respective diesel and gasoline contributions to ambient PM.

  12. 黄精中小分子糖提取工艺优化%Study on Extraction Technology of Low Molecular Weight Saccharide from Rhizoma Polygonati

    Institute of Scientific and Technical Information of China (English)

    李晓坤; 董晶晶; 贺海花; 杨云

    2011-01-01

    Objective:To establish a method for content determination of low molecular weight saccharide from Rhizoma Polygonati and optimize the extraction technology.Method: The content of low molecular weight saccharide was determined by phenol-sulfuric acid method.On the basis of single factor test and orthogonal design test, the extraction process of low molecular weight saccharide from Rhizoma Polygonati was optimized using the content of low molecular weight saccharide as index.Result: The optimum extraction technology condition was as follows: 90 ℃, the ratio of solid to solution 1∶ 30, extracted 2 hours every time.Conclusion: This process was simple, reasonable and more productive.%目的:建立黄精中小分子糖的含量测定方法,研究其最佳提取工艺.方法:采用苯酚-硫酸法测定小分子糖含量,以小分子糖含量为考察指标,通过单因素试验和正交试验法确定黄精中小分子糖的最佳提取工艺.结果:最佳提取工艺条件为提取温度90℃,料液比1:30,提取时间2 h.结论:该工艺简便、合理、小分子糖提取率较高.

  13. Enhancement of human adaptive immune responses by administration of a high-molecular-weight polysaccharide extract from the cyanobacterium Arthrospira platensis

    DEFF Research Database (Denmark)

    Pedersen, Morten Løbner; Walsted, Anette; Larsen, Rune

    2008-01-01

    The effect of consumption of Immulina, a high-molecular-weight polysaccharide extract from the cyanobacterium Arthrospira platensis, on adaptive immune responses was investigated by evaluation of changes in leukocyte responsiveness to two foreign recall antigens, Candida albicans (CA) and tetanus...

  14. Water-compatible molecularly imprinted polymer as a sorbent for the selective extraction and purification of adefovir from human serum and urine.

    Science.gov (United States)

    Pourfarzib, Mojgan; Dinarvand, Rasoul; Akbari-Adergani, Behrouz; Mehramizi, Ali; Rastegar, Hossein; Shekarchi, Maryam

    2015-05-01

    A molecularly imprinted polymer has been synthesized to specifically extract adefovir, an antiviral drug, from serum and urine by dispersive solid-phase extraction before high-performance liquid chromatography with UV analysis. The imprinted polymers were prepared by bulk polymerization by a noncovalent imprinting method that involved the use of adefovir (template molecule) and functional monomer (methacrylic acid) complex prior to polymerization, ethylene glycol dimethacrylate as cross-linker, and chloroform as porogen. Molecular recognition properties, binding capacity, and selectivity of the molecularly imprinted polymers were evaluated and the results show that the obtained polymers have high specific retention and enrichment for adefovir in aqueous medium. The new imprinted polymer was utilized as a molecular sorbent for the separation of adefovir from human serum and urine. The serum and urine extraction of adefovir by the molecularly imprinted polymer followed by high-performance liquid chromatography showed a linear calibration curve in the range of 20-100 μg/L with excellent precisions (2.5 and 2.8% for 50 μg/L), respectively. The limit of detection and limit of quantization were determined in serum (7.62 and 15.1 μg/L), and urine (5.45 and 16 μg/L). The recoveries for serum and urine samples were found to be 88.2-93.5 and 84.3-90.2%, respectively.

  15. Decision tree algorithm of automatically extracting mangrove forests information from Landsat 8 OLI imagery%基于决策树方法的Landsat8 OLI影像红树林信息自动提取

    Institute of Scientific and Technical Information of China (English)

    张雪红

    2016-01-01

    NDMI ( normalized difference moisture index ) is widely used to assess and retrieve vegetation liquid water content. In this study, decision tree method was employed to automatically extract mangrove forests information combining the NDMI and MNDPI ( modified normalized difference pond index) , modified according to the mangrove characteristics, with Landsat8 OLI imagery acquired at Shankou mangrove national ecosystem nature reserve in Guangxi. The research results show that mangrove forests spectra consist of vegetation and wetland characteristics due to the unique near-shore coastal habitat of mangrove forests. MNDPI and NDMI can represent the spectral contrast between shortwave infrared region and visible region, near infrared region respectively. Therefore, the two spectral indices can successfully be employed to extract wetland vegetation and effectively discriminate mangrove forests from other land cover types. The decision tree method effectively extracted mangrove forests information by combining the classification features of MNDPI and NDMI and using Landsat8 OLI remotely sensed data. The commission error and omission error of mangrove forests were 5. 34% and 1. 69% respectively.%基于广西山口国家红树林生态自然保护区的Landsat 8 OLI 影像数据,选用广泛应用于植被液态水含量反演的归一化差值湿度指数( normalized difference moisture index,NDMI)和修正的归一化差值池塘指数( modified normal-ized difference pond index, MNDPI)作为分类特征,运用决策树方法进行红树林信息的自动提取。研究结果表明:红树林独特的滨海湿地生境特点,使其光谱同时包含植被和湿地信息; MNDPI和NDMI可分别反映可见光-近红外波段反射率同短波红外波段反射光谱的反差,可成功应用于湿地植被信息的提取,能有效地将红树林同其他地物相区分;采用Landsat8 OLI遥感数据,并结合NDMI和MNDPI分类特征构建的决策树模型可有效地

  16. An Automatic Extraction Approach to Fractional Vegetation Cover of Saline Land with Digital Images%吉林西部盐碱地数字图像植被覆盖度的自动提取

    Institute of Scientific and Technical Information of China (English)

    丁艳玲; 赵凯; 李晓峰; 郑兴明

    2013-01-01

      植被覆盖度是生态环境变化的重要指标,也是遥感反演的关键参数。盐碱地植被覆盖度的准确测量对研究地表植被蒸腾、土壤水分蒸发及土壤退化、盐碱化等具有重要意义。过绿指数(Excess Green index,ExG)对绿色植被比较敏感,能突显植被信息,去除土壤、阴影的干扰。通过对吉林西部盐碱地玉米、高粱、绿豆、杂草、土壤数字图像特征分析,利用改进过绿指数(Modified Excess Green index,MExG)算法计算植被和土壤的MExG值;并确定区分植被和土壤的MExG阈值为40,进而计算植被覆盖度。本文采用监督分类的最大似然法对比验证MExG自动提取结果,并对两种方法计算的玉米、高粱、绿豆和杂草的覆盖度,分别进行目视判读和t检验。研究表明,MExG自动提取方法具有客观性强,处理时间短,分类精度高等优点,是计算不同植被类型覆盖度的有效方法。%Fractional vegetation cover is an important variable in ecological environment and a key parameter in remote sensing estimation, which is needed in the modeling of the land-atmosphere exchanges of momentum, en-ergy, water, and trace gases. Determination of fractional vegetation cover exactly is necessary for studies on plant transpiration, ground surface evaporation, soil degradation and salinization. Excess green, highlighting veg-etation and inhibiting the interference of soil and shadow, was used as a contrast enhancement for identifying plants from soil regions. This study uses modified excess green index to extract fractional vegetation cover by an-alyzing RGB color features of corn, sorghum, mung beans and weeds growing in saline land in western Jilin Province. The digital images are geometrically corrected in order to eliminate distortion. The automatic extrac-tion approach using modified excess green indexes which is about 40 for vegetation growing on the saline land of western

  17. Rational design and synthesis of water-compatible molecularly imprinted polymers for selective solid phase extraction of amiodarone.

    Science.gov (United States)

    Muhammad, Turghun; Cui, Liu; Jide, Wang; Piletska, Elena V; Guerreiro, Antonio R; Piletsky, Sergey A

    2012-01-04

    Novel water-compatible molecularly imprinted polymers (MIPs) selective for amiodarone (AD) were designed via a new methodology which relies on screening library of non-imprinted polymers (NIPs). The NIP library consisted of eighteen cross-linked co-polymers synthesized from monomers commonly used in molecular imprinting. The binding capacity of each polymer in the library was analyzed in two different solvents. Binding in water was used to assess non-specific (hydrophobic) interactions and binding in an appropriate organic solvent was used to assess specific interactions. A good correlation was found between the screening tests and modeling of monomer-template interactions performed using computational approach. Additionally, analysis of template-monomer interactions was performed using UV-vis spectroscopy. As the result, 4-vinylpyridine (4-VP) was selected as the best monomer for developing MIP for AD. The 4-VP-based polymers demonstrated imprinting factor equal 3.9. The polymers performance in SPE was evaluated using AD and its structural analogues. The recovery of AD was as high as 96% when extracted from spiked phosphate buffer (pH 4.5) solution and 82.1% from spiked serum samples. The developed MIP shown as a material with specific binding to AD, comparing to its structural analogues, 1-(2-diethylaminoethoxy)-2,6-diiodo-4-nitrobenzene and lidocaine, which shown 9.9% and 25.4% of recovery from the buffer solution, correspondingly. We believe that the screening of NIP library could be proposed as an alternative to commonly used computational and combinatorial approaches.

  18. Improving molecular detection of Candida DNA in whole blood: comparison of seven fungal DNA extraction protocols using real-time PCR.

    Science.gov (United States)

    Metwally, L; Fairley, D J; Coyle, P V; Hay, R J; Hedderwick, S; McCloskey, B; O'Neill, H J; Webb, C H; Elbaz, W; McMullan, R

    2008-03-01

    The limitations of classical diagnostic methods for invasive Candida infections have led to the development of molecular techniques such as real-time PCR to improve diagnosis. However, the detection of low titres of Candida DNA in blood from patients with candidaemia requires the use of extraction methods that efficiently lyse yeast cells and recover small amounts of DNA suitable for amplification. In this study, a Candida-specific real-time PCR assay was used to detect Candida albicans DNA in inoculated whole blood specimens extracted using seven different extraction protocols. The yield and quality of total nucleic acids were estimated using UV absorbance, and specific recovery of C. albicans genomic DNA was estimated quantitatively in comparison with a reference (Qiagen kit/lyticase) method currently in use in our laboratory. The extraction protocols were also compared with respect to sensitivity, cost and time required for completion. The TaqMan PCR assay used to amplify the DNA extracts achieved high levels of specificity, sensitivity and reproducibility. Of the seven extraction protocols evaluated, only the MasterPure yeast DNA extraction reagent kit gave significantly higher total nucleic acid yields than the reference method, although nucleic acid purity was highest using either the reference or YeaStar genomic DNA kit methods. More importantly, the YeaStar method enabled C. albicans DNA to be detected with highest sensitivity over the entire range of copy numbers evaluated, and appears to be an optimal method for extracting Candida DNA from whole blood.

  19. Development of sample preparation method for auxin analysis in plants by vacuum microwave-assisted extraction combined with molecularly imprinted clean-up procedure.

    Science.gov (United States)

    Hu, Yuling; Li, Yuanwen; Zhang, Yi; Li, Gongke; Chen, Yueqin

    2011-04-01

    A novel sample preparation method for auxin analysis in plant samples was developed by vacuum microwave-assisted extraction (VMAE) followed by molecularly imprinted clean-up procedure. The method was based on two steps. In the first one, conventional solvent extraction was replaced by VMAE for extraction of auxins from plant tissues. This step provided efficient extraction of 3-indole acetic acid (IAA) from plant with dramatically decreased extraction time, furthermore prevented auxins from degradation by creating a reduced oxygen environment under vacuum condition. In the second step, the raw extract of VMAE was further subjected to a clean-up procedure by magnetic molecularly imprinted polymer (MIP) beads. Owing to the high molecular recognition ability of the magnetic MIP beads for IAA and 3-indole-butyric acid (IBA), the two target auxins in plants can be selectively enriched and the interfering substance can be eliminated by dealing with a magnetic separation procedure. Both the VMAE and the molecularly imprinted clean-up conditions were investigated. The proposed sample preparation method was coupled with high-performance liquid chromatogram and fluorescence detection for determination of IAA and IBA in peas and rice. The detection limits obtained for IAA and IBA were 0.47 and 1.6 ng/mL and the relative standard deviation were 2.3% and 2.1%, respectively. The IAA contents in pea seeds, pea embryo, pea roots and rice seeds were determined. The recoveries were ranged from 70.0% to 85.6%. The proposed method was also applied to investigate the developmental profiles of IAA concentration in pea seeds and rice seeds during seed germination.

  20. A (-)-norephedrine-based molecularly imprinted polymer for the solid-phase extraction of psychoactive phenylpropylamino alkaloids from Khat (Catha edulis Vahl. Endl.) chewing leaves.

    Science.gov (United States)

    Atlabachew, Minaleshewa; Torto, Nelson; Chandravanshi, Bhagwan Singh; Redi-Abshiro, Mesfin; Chigome, Samuel; Mothibedi, Kediemetse; Combrinck, Sandra

    2016-07-01

    A molecularly imprinted polymer (MIP) was prepared using (-)-norephedrine as the template, methacrylic acid as the functional monomer, ethylene glycol dimethacrylate as the cross-linker and chloroform as the porogen. The MIP was used as a selective sorbent in the molecularly imprinted solid-phase extraction (MIP-SPE) of the psychoactive phenylpropylamino alkaloids, norephedrine and its analogs, cathinone and cathine, from Khat (Catha edulis Vahl. Endl.) leaf extracts prior to HPLC-DAD analysis. The MIP was able to selectively extract the alkaloids from the aqueous extracts of Khat. Loading, washing and elution of the alkaloids bound to the MIP were evaluated under different conditions. The clean baseline of the Khat extract obtained after MIP-SPE confirmed that a selective and efficient sample clean-up was achieved. Good recoveries (90.0-107%) and precision (RSDs 2.3-3.2%) were obtained in the validation of the MIP-SPE-HPLC procedure. The content of the three alkaloids in Khat samples determined after treatment with MIP-SPE and a commercial Isolute C18 (EC) SPE cartridge were in good agreement. These findings indicate that MIP-SPE is a reliable method that can be used for sample pre-treatment for the determination of Khat alkaloids in plant extracts or similar matrices and could be applicable in pharmaceutical, forensic and biomedical laboratories. Copyright © 2015 John Wiley & Sons, Ltd.

  1. Evaluation of molecularly imprinted anion-functionalized poly(ionic liquid)s by multi-phase dispersive extraction of flavonoids from plant.

    Science.gov (United States)

    Bi, Wentao; Tian, Minglei; Row, Kyung Ho

    2013-01-15

    Molecularly imprinted anion-functionalized poly(ionic liquid)s (MAPILs) were prepared by radical polymerization for the multi-phase dispersive extraction (MPDE) of flavonoids from plants. Poly(ionic liquid)s were functionalized with different anions via anion metathesis to enhance their separation efficiency, called anion-functionalized poly(ionic liquid)s (APILs). A molecularly imprinting technique was introduced to produce specific recognition sites by forming complexes between the template molecules and anion-functionalized ionic liquid monomers to reduce the interactions with the interference substances and increase the selectivity. Multi-phase dispersive extraction (MPDE) was applied for separation instead of the traditional solid phase extraction method. The target compounds were first extracted by three-phase (sample-solvent-sorbent) dispersive extraction and cleaned up after removing the sample matrix. This method significantly decrease in the interference and analysis cost. A suitable sorbent for MPDE could be identified based on the adsorption behaviors of flavonoids on different MAPILs. The mean recovery yields of quercitrin, myricetin, and amentoflavone from Chamaecyparis obtusa under the optimized conditions were 88.07, 93.59, and 95.13%. This is a promising method for the extraction, separation and determination of flavonoids or other polyphenolic compounds from natural and other sources.

  2. Selective extraction of Bactrocera oleae sexual pheromone from olive oil by dispersive magnetic microsolid phase extraction using a molecularly imprinted nanocomposite.

    Science.gov (United States)

    Del Carmen Alcudia-León, María; Lucena, Rafael; Cárdenas, Soledad; Valcárcel, Miguel

    2016-07-15

    Bactrocera oleae Gmelin, also known as olive fruit fly, is the main olive tree pest. It produces a severe effect not only on the productivity but also on the quality of the olive-related products. In fact, the oil obtained from infected olives has a lower antioxidant power. In addition, an increase of the oil acidity, peroxide index and UV-absorbance can also be observed. 1,7-dioxaspiro-[5,5]-undecane (DSU), is the main component of the sexual pheromone of this pest and may be used as marker of the pest incidence. In this context, the development of new methods able to detect the pheromones in several samples, including agri-food or environmental ones, is interesting. In this work, we synthesized a molecularly imprinted polymer (MIPS) layer over magnetic nanoparticles (Fe3O4@SiO2@MIP) for the selective recognition of DSU. They were prepared using DSU as template and 3-aminopropyltriethoxysilane (APTES) to associate the target analyte on the surface of the magnetic substrate and the later polymerization of ethylene glycol dimethacrylate (EGDMA) in presence of 2,2-azobisisobutyonnitrile (AIBN). The resulting Fe3O4@SiO2@MIP composite was characterized by different techniques. The maximum adsorption capacity of DSU on Fe3O4@SiO2@MIP in hexane was 32mg/g (5.3 times than that obtained for the non-imprinted composite). In addition, Fe3O4@SiO2@MIP showed a short equilibrium time (45min) and potential reusability. The combination of dispersive magnetic microsolid phase extraction and gas chromatography with mass spectrometric detection allows the determination of DSU in real samples at concentrations as low as 10μg/L with precision better than 7.5% (expressed as relative standard deviation). The relative recoveries are in the range between 95 and 99%, which indicates the potential of the methodology. Finally, it has been applied to real olive oil samples being the presence of the pest detected is some of them.

  3. Molecular detection and in vitro antioxidant activity of S-allyl-L-cysteine (SAC) extracted from Allium sativum.

    Science.gov (United States)

    Sun, Y-E; Wang, W-D

    2016-06-30

    It is well known that Allium sativum has potential applications to clinical treatment of various cancers due to its remarkable ability in eliminating free radicals and increasing metabolism. An allyl-substituted cysteine derivative - S-allyl-L-cysteine (SAC) was separated and identified from Allium sativum. The extracted SAC was reacted with 1-pyrenemethanol to obtain pyrene-labelled SAC (Py-SAC) to give SAC fluorescence properties. Molecular detection of Py-SAC was conducted by steady-state fluorescence spectroscopy and time-resolved fluorescence method to quantitatively measure concentrations of Py-SAC solutions. The ability of removing 1,1-diphenyl-2-picrylhydrazyl (DPPH) and hydroxyl radical using Py-SAC was determined through oxygen radical absorbance capacity (ORAC). Results showed the activity of Py-SAC and Vitamin C (VC) with ORAC as index, the concentrations of Py-SAC and VC were 58.43 mg/L and 5.72 mg/L respectively to scavenge DPPH, and 8.16 mg/L and 1.67 mg/L to scavenge •OH respectively. Compared with VC, the clearance rates of Py-SAC to scavenge DPPH were much higher, Py-SAC could inhibit hydroxyl radical. The ability of removing radical showed a dose-dependent relationship within the scope of the drug concentration.

  4. Selective solid-phase extraction of artificial chemicals from milk samples using multiple-template surface molecularly imprinted polymers.

    Science.gov (United States)

    Zhang, Jing; Ni, Yan-li; Wang, Ling-ling; Ma, Jin-qin; Zhang, Zhi-qi

    2015-08-01

    A novel multiple-template surface molecularly imprinted polymer (MTMIP) was synthesized using ofloxacin and 17β-estradiol as templates and modified monodispersed poly(glycidylmethacrylate-co-ethylene dimethacrylate) (PGMA/EDMA ) beads as the support material. Static adsorption, solid-phase extraction and high-performance liquid chromatography were performed to investigate the adsorption properties and selective recognition characteristics of the polymer templates and their structural analogs. The maximum binding capacities of ofloxacin and 17β-estradiol on the MTMIP were 9.0 and 6.6 mg/g, respectively. Compared with the corresponding nonimprinted polymer, the MTMIP exhibited a much higher adsorption performance and selectivity toward three quinolones and three estrogens, which are common drug residues in food. The MTMIP served as a simple and effective pretreatment method and could be successfully applied to the simultaneous analysis of multiple target components in complex samples. Furthermore, the MTMIP may find useful applications as a solid-phase absorbent in the simultaneous determination of trace quinolones and estrogens in milk samples, as the recoveries were in the range 77.6-98.0%.

  5. Facile synthesis of magnetic molecularly imprinted polymers and its application in magnetic solid phase extraction for fluoroquinolones in milk samples.

    Science.gov (United States)

    Zheng, Hao-Bo; Mo, Jie-Zhen; Zhang, Yu; Gao, Qiang; Ding, Jun; Yu, Qiong-Wei; Feng, Yu-Qi

    2014-02-14

    In this work, we proposed a simple co-mixing method to fabricate magnetic molecularly imprinted polymers (magnetic MIPs). MIPs were commercial products while magnetic nanoparticles (MNPs) were prepared by chemical oxidation and solvothermal methods. When MNPs and MIPs (with mass ratio 1:1) were co-mixed and vortexed evenly in methanol, they could assemble into magnetic composites spontaneously and thus be magnetically separable. To testify the feasibility of the magnetic composites in sample preparation, the resultant magnetic MIPs were applied as sorbents for magnetic solid-phase extraction (MSPE) of fluoroquinolones (FQs) in milk samples. Under optimized conditions, a rapid, convenient, and efficient method for the determination of three FQs in milk samples was established by magnetic MIPs based MSPE coupling with high performance liquid chromatography with ultraviolet detector (HPLC-UV). The limits of detection (LODs) for three FQs were found to be 1.8-3.2ng/g. The intra- and inter-day relative standard deviations (RSDs) were less than 9.5% and 12.5%, respectively. The recoveries of FQs for two spiked milk samples were in the range from 94.0% to 124.4% with the RSDs less than 11.6%.

  6. Cellular and Molecular Mechanisms in Vascular Smooth Muscle Cells by which Total Saponin Extracted from Tribulus Terrestris Protects Against Artherosclerosis

    Directory of Open Access Journals (Sweden)

    Mengquan Li

    2013-11-01

    Full Text Available Background/Aims: Total saponin extracted from Tribulus terrestris (TSETT has been reported to protect against atherosclerosis. We here investigate the cellular and molecular mechanisms of TSETT underlying protection against atherosclerosis. Methods: Cell proliferation was measured with Methyl thiazolyl tetrazolium (MTT; Intracellular H2O2 was measured with DCFH-DA, a fluorescent dye; Intracellular free Ca2+ was measured with a confocal laser scanning microscopy; Genes expression was measured with gene array and real-time quantitative polymerase chain reaction (RT-PCR; Phosphorylation of extracellular signal-regulated kinase 1/2 (phospho-ERK1/2 was measured with cell-based enzyme-linked immunosorbent assay (ELISA and western blotting. Results: TSETT significantly suppressed the increase in cells proliferation induced by angiotensin II, significantly suppressed the increase in the intracellular production of H2O2 induced by angiotensin II, significantly inhibited the increase in intracellular free Ca2+ induced by H2O2, significantly inhibited the increase in phospho-ERK1/2 induced by angiotensin II; significantly inhibited the increase in mRNA expression of c-fos, c-jun and pkc-α induced by angiotensin II. Conclusion: These findings provide a new insight into the antiatherosclerotic properties of TSETT and provide a pharmacological basis for the clinical application of TSETT in anti-atherosclerosis.

  7. Physics of Automatic Target Recognition

    CERN Document Server

    Sadjadi, Firooz

    2007-01-01

    Physics of Automatic Target Recognition addresses the fundamental physical bases of sensing, and information extraction in the state-of-the art automatic target recognition field. It explores both passive and active multispectral sensing, polarimetric diversity, complex signature exploitation, sensor and processing adaptation, transformation of electromagnetic and acoustic waves in their interactions with targets, background clutter, transmission media, and sensing elements. The general inverse scattering, and advanced signal processing techniques and scientific evaluation methodologies being used in this multi disciplinary field will be part of this exposition. The issues of modeling of target signatures in various spectral modalities, LADAR, IR, SAR, high resolution radar, acoustic, seismic, visible, hyperspectral, in diverse geometric aspects will be addressed. The methods for signal processing and classification will cover concepts such as sensor adaptive and artificial neural networks, time reversal filt...

  8. Highly sensitive determination of polycyclic aromatic hydrocarbons in ambient air dust by gas chromatography-mass spectrometry after molecularly imprinted polymer extraction

    Energy Technology Data Exchange (ETDEWEB)

    Krupadam, Reddithota J.; Bhagat, Bhagyashree; Khan, Muntazir S. [National Environmental Engineering Research Institute, Nagpur (India)

    2010-08-15

    A method based on solid-phase extraction with a molecularly imprinted polymer (MIP) has been developed to determine five probable human carcinogenic polycyclic aromatic hydrocarbons (PAHs) in ambient air dust by gas chromatography-mass spectrometry (GC-MS). Molecularly imprinted poly(vinylpyridine-co-ethylene glycol dimethacrylate) was chosen as solid-phase extraction (SPE) material for PAHs. The conditions affecting extraction efficiency, for example surface properties, concentration of PAHs, and equilibration times were evaluated and optimized. Under optimum conditions, pre-concentration factors for MIP-SPE ranged between 80 and 93 for 10 mL ambient air dust leachate. PAHs recoveries from MIP-SPE after extraction from air dust were between 85% and 97% and calibration graphs of the PAHs showed a good linearity between 10 and 1000 ng L{sup -1} (r=0.99). The extraction efficiency of MIP for PAHs was compared with that of commercially available SPE materials - powdered activated carbon (PAC) and polystyrene-divinylbenzene resin (XAD) - and it was shown that the extraction capacity of the MIP was better than that of the other two SPE materials. Organic matter in air dust had no effect on MIP extraction, which produced a clean extract for GC-MS analysis. The detection limit of the method proposed in this article is 0.15 ng L{sup -1} for benzo[a]pyrene, which is a marker molecule of air pollution. The method has been applied to the determination of probable carcinogenic PAHs in air dust of industrial zones and satisfactory results were obtained. (orig.)

  9. Highly sensitive determination of polycyclic aromatic hydrocarbons in ambient air dust by gas chromatography-mass spectrometry after molecularly imprinted polymer extraction.

    Science.gov (United States)

    Krupadam, Reddithota J; Bhagat, Bhagyashree; Khan, Muntazir S

    2010-08-01

    A method based on solid--phase extraction with a molecularly imprinted polymer (MIP) has been developed to determine five probable human carcinogenic polycyclic aromatic hydrocarbons (PAHs) in ambient air dust by gas chromatography-mass spectrometry (GC-MS). Molecularly imprinted poly(vinylpyridine-co-ethylene glycol dimethacrylate) was chosen as solid-phase extraction (SPE) material for PAHs. The conditions affecting extraction efficiency, for example surface properties, concentration of PAHs, and equilibration times were evaluated and optimized. Under optimum conditions, pre-concentration factors for MIP-SPE ranged between 80 and 93 for 10 mL ambient air dust leachate. PAHs recoveries from MIP-SPE after extraction from air dust were between 85% and 97% and calibration graphs of the PAHs showed a good linearity between 10 and 1000 ng L(-1) (r = 0.99). The extraction efficiency of MIP for PAHs was compared with that of commercially available SPE materials--powdered activated carbon (PAC) and polystyrene-divinylbenzene resin (XAD)--and it was shown that the extraction capacity of the MIP was better than that of the other two SPE materials. Organic matter in air dust had no effect on MIP extraction, which produced a clean extract for GC-MS analysis. The detection limit of the method proposed in this article is 0.15 ng L(-1) for benzo[a]pyrene, which is a marker molecule of air pollution. The method has been applied to the determination of probable carcinogenic PAHs in air dust of industrial zones and satisfactory results were obtained.

  10. A needle extraction utilizing a molecularly imprinted-sol-gel xerogel for on-line microextraction of the lung cancer biomarker bilirubin from plasma and urine samples.

    Science.gov (United States)

    Moein, Mohammad Mahdi; Jabbar, Dunia; Colmsjö, Anders; Abdel-Rehim, Mohamed

    2014-10-31

    In the present work, a needle trap utilizing a molecularly imprinted sol-gel xerogel was prepared for the on-line microextraction of bilirubin from plasma and urine samples. Each prepared needle could be used for approximately one hundred extractions before it was discarded. Imprinted and non-imprinted sol-gel xerogel were applied for the extraction of bilirubin from plasma and urine samples. The produced molecularly imprinted sol-gel xerogel polymer showed high binding capacity and fast adsorption/desorption kinetics for bilirubin in plasma and urine samples. The adsorption capacity of molecularly imprinted sol-gel xerogel polymer was approximately 60% higher than that of non-imprinted polymer. The effect of the conditioning, washing and elution solvents, pH, extraction time, adsorption capacity and imprinting factor were investigated. The limit of detection and the lower limit of quantification were set to 1.6 and 5nmolL(-1), respectively using plasma or urine samples. The standard calibration curves were obtained within the concentration range of 5-1000nmolL(-1) in both plasma and urine samples. The coefficients of determination values (R(2)) were ≥0.998 for all runs. The extraction recovery was approximately 80% for BR in the human plasma and urine samples.

  11. Genetic diversity assessment of sesame core collection in China by phenotype and molecular markers and extraction of a mini-core collection

    Directory of Open Access Journals (Sweden)

    Zhang Yanxin

    2012-11-01

    Full Text Available Abstract Background Sesame (Sesamum indicum L. is one of the four major oil crops in China. A sesame core collection (CC was established in China in 2000, but no complete study on its genetic diversity has been carried out at either the phenotypic or molecular level. To provide technical guidance, a theoretical basis for further collection, effective protection, reasonable application, and a complete analysis of sesame genetic resources, a genetic diversity assessment of the sesame CC in China was conducted using phenotypic and molecular data and by extracting a sesame mini-core collection (MC. Results Results from a genetic diversity assessment of sesame CC in China were significantly inconsistent at the phenotypic and molecular levels. A Mantel test revealed the insignificant correlation between phenotype and molecular marker information (r = 0.0043, t = 0.1320, P = 0.5525. The Shannon-Weaver diversity index (I and Nei genetic diversity index (h were higher (I = 0.9537, h = 0.5490 when calculated using phenotypic data from the CC than when using molecular data (I = 0.3467, h = 0.2218. A mini-core collection (MC containing 184 accessions was extracted based on both phenotypic and molecular data, with a low mean difference percentage (MD, 1.64%, low variance difference percentage (VD, 22.58%, large variable rate of coefficient of variance (VR, 114.86%, and large coincidence rate of range (CR, 95.76%. For molecular data, the diversity indices and the polymorphism information content (PIC for the MC were significantly higher than for the CC. Compared to an alternative random sampling strategy, the advantages of capturing genetic diversity and validation by extracting a MC using an advanced maximization strategy were proven. Conclusions This study provides a comprehensive characterization of the phenotypic and molecular genetic diversities of the sesame CC in China. A MC was extracted using both phenotypic and molecular data. Low MD% and VD%, and

  12. A BioPerl based remote automatic extraction of NCBI resistance gene sequences%基于Bioperl实现远程自动获取抗逆基因序列

    Institute of Scientific and Technical Information of China (English)

    张晓婧; 潘伟民; 曹兴芹

    2014-01-01

    BioPerl has a good performance to acquire and process large amounts of biological data. NCBI provides BioPerl interface to directly access its subordinate Entrez databases( including PubMed) , the E-Utilities. In order to get NCBI gene sequences automatically to build a secondly database for biological stress resistance genes, in this paper, We designed BioPerl based program to extract stress tolerance gene sequence program. This program is smart,lean, and with powerful text processing capability of Perl language,it can achieve different types of remote access to gene sequences for most of the researchers and provide a better way to gain a specific sequence.%BioPerl对于现今大量的生物数据来说,具有很好的获取和处理能力,并且NCBI提供了可以直接访问它下属的 Entrez数据库(包括 PubMed)的编程接口,即E-Utilities。为了从NCBI中自动获取大量抗逆基因序列,使得生物抗逆基因二次数据库得以搭建,该文基于BioPerl 设计了远程自动获取大量抗逆基因序列的程序。此程序灵巧、精悍, Perl 语言强大的文本处理功能使程序能实现不同类型基因序列的远程获取。

  13. Study of molecularly imprinted solid-phase extraction of gonyautoxins 2,3 in the cultured dinoflagellate Alexandrium tamarense by high-performance liquid chromatography with fluorescence detection.

    Science.gov (United States)

    Lian, Zi-Ru; Wang, Jiang-Tao

    2013-11-01

    A highly selective sample cleanup procedure combined with molecularly imprinted solid-phase extraction (MISPE) was developed for the isolation of gonyautoxins 2,3 (GTX2,3) from Alexandrium tamarense sample. The molecularly imprinted polymer microspheres (MIPMs) were prepared by suspension polymerization using caffeine as the dummy template molecule, methacrylic acid as the functional monomer, ethylene glycol dimethacrylate as the cross-linker and polyvinyl alcohol as the dispersive reagent. The polymer microspheres were used as a selective sorbent for the solid-phase extraction of gonyautoxins 2,3. An off-line MISPE method followed by high-performance liquid chromatography (HPLC) with fluorescence detection for the analysis of gonyautoxins 2,3 was established. Finally, the extract samples from Alexandrium tamarense were analyzed. The results showed the imprinted polymer microspheres exhibited high affinity and selectivity for gonyautoxins 2,3. The interference matrix in the extract were obviously cleaned by MISPE and the extraction efficiency of gonyautoxins 2,3 in the sample ranged from 81.74% to 85.86%.

  14. Hierarchical Feature Extraction and Selection Method and the Applications in Automatic Target Recognition System%分级特征提取与选择及在自动目标识别系统中的应用

    Institute of Scientific and Technical Information of China (English)

    梅雪; 张继法; 许松松; 巩建鸣

    2012-01-01

    应用于遥感图像、武器制导等的自动目标识别系统中,经常遇到形状相似目标的鉴别问题。为提高其识别的快速性和识别率,提出一种分级的基于形状的目标识别方法。借鉴人类视觉感知方式提取多尺度特征,大尺度下采用全局特征快速粗分类,小尺度下采用局部特征鉴别形状相似目标。然后运用模糊规则对提取的特征进行选择,降低特征维数,加快目标匹配过程。实验结果表明:该方法能快速有效地识别形状相似的目标,特征选择后平均识别率较选择之前提高了6.99/6。%Similar shape object recognition is widely used in automatic target recognition system of remote sensing and weapon guidance. A hierarchical method of shape feature extraction and selection is proposed to increase the recognition efficiency and rate. I.earning from human visual perception, multi-scale features are extracted. C-lobal features are used to make a quick classification,and local features are used to distinguish targets with similar shape. To achieve the feature selection, fuzzy criterion is introduced which improves the matching processing and increases the recognition rate. Experimental results show this method is an effective and general way in recognizing targets with similar shape,and the feature selection improves the recognition rate by 6.9%than before.

  15. Contribution of molecular modeling and of structure-activity relations to the liquid-liquid extraction. Application to the case of U(VI) extraction by monoamides; Apport de la modelisation moleculaire et des relations structure -activite a l`extraction liquide-liquide. Application au cas de l`extraction d`U(VI) par les monoamides

    Energy Technology Data Exchange (ETDEWEB)

    Rabbe, C.

    1996-06-07

    In France, spent fuels are in most cases reprocessed. The aim of the reprocessing is to separate the recyclable fissile materials (for instance, uranium and plutonium) of radioactive wastes. The industrial process used until now is the Purex (Plutonium Uranium Refining by EXtraction) process. Recently (1991), the CEA has undertaken researches on the fields of separation and transmutation of long-lived radionuclides as minor actinides. Some molecules with an amide function have been at first considered especially for the uranium extraction. In order to rationalize the research of new extracting molecules, some molecular modeling methods (quantum chemistry calculations, molecular mechanics) have been used. In fact, there are three determining parameters for a molecule to be a good extractant: it has to own: (1) one or several sites which present a sufficient electron density in order that the metallic cation be complexed (2) the smallest possible substituents to avoid interferences with the complexation (3) a sufficient lipophilic effect. (O.M.). 139 refs., 43 figs., 36 tabs.

  16. Automatic identification for standing tree limb pruning

    Institute of Scientific and Technical Information of China (English)

    Sun Renshan; Li Wenbin; Tian Yongchen; Hua Li

    2006-01-01

    To meet the demand of automatic pruning machines,this paper presents a new method for dynamic automatic identification of standing tree limbs and capture of the digital images of Platycladus orientalis.Methods of computer vision,image processing and wavelet analysis technology were used to compress,filter,segment,abate noise and capture the outline of the picture.We then present the arithmetic for dynamic automatic identification of standing tree limbs,extracting basic growth characteristics of the standing trees such as the form,size,degree of bending and their relative spatial position.We use pattern recognition technology to confirm the proportionate relationship matching the database and thus achieve the goal of dynamic automatic identification of standing tree limbs.

  17. Intramembranous bone healing process subsequent to tooth extraction in mice: micro-computed tomography, histomorphometric and molecular characterization.

    Science.gov (United States)

    Vieira, Andreia Espindola; Repeke, Carlos Eduardo; Ferreira Junior, Samuel de Barros; Colavite, Priscila Maria; Biguetti, Claudia Cristina; Oliveira, Rodrigo Cardoso; Assis, Gerson Francisco; Taga, Rumio; Trombone, Ana Paula Favaro; Garlet, Gustavo Pompermaier

    2015-01-01

    Bone tissue has a significant potential for healing, which involves a significant the interplay between bone and immune cells. While fracture healing represents a useful model to investigate endochondral bone healing, intramembranous bone healing models are yet to be developed and characterized. In this study, a micro-computed tomography, histomorphometric and molecular (RealTimePCRarray) characterization of post tooth-extraction alveolar bone healing was performed on C57Bl/6 WT mice. After the initial clot dominance (0 h), the development of a provisional immature granulation tissue is evident (7 d), characterized by marked cell proliferation, angiogenesis and inflammatory cells infiltration; associated with peaks of growth factors (BMP-2-4-7,TGFβ1,VEGFa), cytokines (TNFα, IL-10), chemokines & receptors (CXCL12, CCL25, CCR5, CXCR4), matrix (Col1a1-2, ITGA4, VTN, MMP1a) and MSCs (CD105, CD106, OCT4, NANOG, CD34, CD146) markers expression. Granulation tissue is sequentially replaced by more mature connective tissue (14 d), characterized by inflammatory infiltrate reduction along the increased bone formation, marked expression of matrix remodeling enzymes (MMP-2-9), bone formation/maturation (RUNX2, ALP, DMP1, PHEX, SOST) markers, and chemokines & receptors associated with healing (CCL2, CCL17, CCR2). No evidences of cartilage cells or tissue were observed, strengthening the intramembranous nature of bone healing. Bone microarchitecture analysis supports the evolving healing, with total tissue and bone volumes as trabecular number and thickness showing a progressive increase over time. The extraction socket healing process is considered complete (21 d) when the dental socket is filled by trabeculae bone with well-defined medullary canals; it being the expression of mature bone markers prevalent at this period. Our data confirms the intramembranous bone healing nature of the model used, revealing parallels between the gene expression profile and the

  18. Channel selection for automatic seizure detection

    DEFF Research Database (Denmark)

    Duun-Henriksen, Jonas; Kjaer, Troels Wesenberg; Madsen, Rasmus Elsborg

    2012-01-01

    of an automatic channel selection method. The characteristics of the seizures are extracted by the use of a wavelet analysis and classified by a support vector machine. The best channel selection method is based upon maximum variance during the seizure. Results: Using only three channels, a seizure detection...

  19. Automatic characterization of dynamics in Absence Epilepsy

    DEFF Research Database (Denmark)

    Petersen, Katrine N. H.; Nielsen, Trine N.; Kjær, Troels W.;

    2013-01-01

    Dynamics of the spike-wave paroxysms in Childhood Absence Epilepsy (CAE) are automatically characterized using novel approaches. Features are extracted from scalograms formed by Continuous Wavelet Transform (CWT). Detection algorithms are designed to identify an estimate of the temporal development...

  20. Metsulfuron-methyl Molecularly Imprinted Stir Bar Sorptive Extraction Coupled with High Performance Liquid Chromatography for Trace Sulfonylurea Herbicides Analysis in Complex Samples

    Institute of Scientific and Technical Information of China (English)

    XU Zhi-gang; DU Zhuo; LIAN Hai-xian; HU Yu-ling; LI Gong-ke

    2012-01-01

    Metsulfuron-methyl molecularly imprinted polymer(MIP)-coated stir bar was prepared for sorptive extraction of sulfonylurea herbicides in complex samples.The MIP-coating was about 21.3 μm thickness with the relative standard deviation(RSD) of 4.4%(n=10).It was homogeneous and porous with good thermal stability and chemical stability.The extraction capability of the MIP-coating was 2.8 timcs over that of the non-imprinted polymer (NIP)-coating in hexane.The MIP-coating exhibited selective adsorption ability to the template and its analogues.The extraction conditions,including extraction solvent,desorption solvent,extraction time,desorption time and stirring speed,were optimized.A method for the determination of six sulfonylurea herbicides by MIP-coated stir bar sorptive extraction coupled with high performance liquid chromatography(HPLC) was developed.The linear range was 10-200 μg/L and the detection limits were within a range of 2.0-3.3 μg/L.It was also applied to the analysis of sulfonylurea herbicides in spiked river water,soil and rice samples.

  1. Induction of apoptosis by pistachio (Pistacia vera L.) hull extract and its molecular mechanisms of action in human hepatoma cell line HepG2.

    Science.gov (United States)

    Fathalizadeh, J; Bagheri, V; Khorramdelazad, H; Kazemi Arababadi, M; Jafarzadeh, A; Mirzaei, M R; Shamsizadeh, A; Hajizadeh, M R

    2015-11-30

    Several important Pistacia species such as P. vera have been traditionally used for treating a wide range of diseases (for instance, liver-related disorders). There is a relative lack of research into pharmacological aspects of pistachio hull. Hence, this study was aimed at investigating whether pistachio rosy hull (PRH) extract exerts apoptotic impacts on HepG2 liver cancer cell line. In order to evaluate cell viability and apoptosis in response to treatment with the extract, MTT assay and Annexin-V-fluorescein/propidium iodide (PI) double staining were performed, respectively. Moreover, molecular mechanism of apoptosis induced by the extract was determined using human apoptosis PCR array. Our findings showed that PRH extract treatment reduced cell viability (IC50 ~ 0.3 mg/ml) in a dose-dependent manner. Flow cytometric analysis revealed that the extract significantly induced apoptosis in HepG2 cells. In addition, quantitative PCR array results demonstrated the regulation of a considerable number of apoptosis-related genes belonging to the TNF, BCL2, IAP, TRAF, and caspase families. We observed altered expression of both pro-apoptotic and anti-apoptotic genes associated with the extrinsic and intrinsic apoptosis signaling pathways. These results suggest that the aqueous extract of PRH possesses apoptotic activity through cytotoxic and apoptosis-inducing effects on HepG2 cells.

  2. Automatic Fiscal Stabilizers

    Directory of Open Access Journals (Sweden)

    Narcis Eduard Mitu

    2013-11-01

    Full Text Available Policies or institutions (built into an economic system that automatically tend to dampen economic cycle fluctuations in income, employment, etc., without direct government intervention. For example, in boom times, progressive income tax automatically reduces money supply as incomes and spendings rise. Similarly, in recessionary times, payment of unemployment benefits injects more money in the system and stimulates demand. Also called automatic stabilizers or built-in stabilizers.

  3. Research on automatic Chinese-English term extraction based on order and position feature of words%基于语序位置特征的汉英术语对自动抽取研究

    Institute of Scientific and Technical Information of China (English)

    张莉; 刘昱显

    2015-01-01

    双语的术语抽取和对齐在跨语言检索、构建双语词典和机器翻译等研究领域有着重要的作用。提出一种基于语序位置特征信息的汉英术语对自动对齐算法。该算法对双语术语抽取两步走策略中的术语对齐部分进行了改进,将基于短语的机器翻译中的语序位置特征融合进术语对齐算法中,通过对基准方法的对比,新方法显著提高了术语对齐的精确率,特别在术语翻译概率较低时提高更为明显,同时又避免了基于短语的机器翻译中计算效率低的缺陷。%With the explosion of information and in current society,knowledge is spreading among information in various areas and also in different languages.The characteristic of knowledge spreading brings people tremendous obstacles in understanding,retrieving and exchanging their thinking.Bilingual terminology is an important language resource for natural language processing tasks such as machine translation,data mining and bilingual information re-trieval.The collecting of bilingual terminology is often challenging and time-consuming because texts to be aligned are usually in different languages such as Chinese and English and there are significant differences in many cases. Thus bilingual terminology extraction and alignment becomes more important and brings more and more attention in the information processing and it plays an important role in cross-language retrieval,building bilingual dictionaries and machine translation research.The development of bilingual terminology extraction and alignment will benefit the building of translation memory in the field of machine-assisted translation and it can improve the quality of the machine translations while adding the bilingual terminology information.We propose an automatic Chinese-English terminology alignment algorithm based on the order and position feature information of words.The algorithm improves the terminology alignment of two

  4. 基于Landsat-8影像森林植被信息计算机自动提取研究%Forest Vegetation Information Computer Automatic Extraction Base on Landsat-8

    Institute of Scientific and Technical Information of China (English)

    张颖; 王越男; 陈利; 刘秀英

    2014-01-01

    classification and used the computer automatic extraction, the overall accuracy was 84.7%, with an area of forest vegetation of 150911.7 hm2. Compared with the previous threshold band using only gray values and vegetation index, the accuracy was significantly increased and the method was also improved, which could led to better extraction results.

  5. Automatic differentiation bibliography

    Energy Technology Data Exchange (ETDEWEB)

    Corliss, G.F. (comp.)

    1992-07-01

    This is a bibliography of work related to automatic differentiation. Automatic differentiation is a technique for the fast, accurate propagation of derivative values using the chain rule. It is neither symbolic nor numeric. Automatic differentiation is a fundamental tool for scientific computation, with applications in optimization, nonlinear equations, nonlinear least squares approximation, stiff ordinary differential equation, partial differential equations, continuation methods, and sensitivity analysis. This report is an updated version of the bibliography which originally appeared in Automatic Differentiation of Algorithms: Theory, Implementation, and Application.

  6. Development of a selective sorbent for the solid-phase extraction of terbuthylazine in olive oil samples: a molecular imprinting strategy.

    Science.gov (United States)

    Garcia, Raquel; Martins, Nuno; Carreiro, Elisabete P; Simões, Marco; Carrott, Maria M L Ribeiro; Carrott, Peter J M; Burke, Anthony J; Cabrita, Maria João

    2015-04-01

    Aiming to implement an analytical methodology that is highly selective for the extraction and quantification of terbuthylazine from olive oil, we successfully achieved: (i) the development of a molecularly imprinted polymer by bulk polymerization using terbuthylazine as template molecule, methacrylic acid as functional monomer, ethylene glycol dimethacrylate as cross-linker, and dichloromethane as porogen; (ii) characterization of the imprinting material using Fourier transform infrared spectroscopy, thermogravimetric analysis, nitrogen adsorption at 77 K, and scanning electron microscopy; (iii) their molecular recognition for the template molecule using high-performance liquid chromatography, and (iv) optimization of a solid-phase extraction procedure using as sorbent the synthesized molecularly imprinted polymer for the selective extraction and clean-up of terbuthylazine from spiked organic olive oil and further quantification of the pesticide levels by high-performance liquid chromatography. The suitability of the implemented analytical methodology was demonstrated, as concentrations of terbuthylazine below the tolerated maximum residue limits in the spiked organic olive oil samples could be satisfactorily analyzed with good precision/accuracy with high recovery rates (96%). Overall, the implemented methodology has proven to be reliable and robust and is highly promising in the field of sample preparation, particularly for the isolation/preconcentration of terbuthylazine in complex food samples.

  7. Microbial diversity in fecal samples depends on DNA extraction method

    DEFF Research Database (Denmark)

    Mirsepasi, Hengameh; Persson, Søren; Struve, Carsten

    2014-01-01

    BACKGROUND: There are challenges, when extracting bacterial DNA from specimens for molecular diagnostics, since fecal samples also contain DNA from human cells and many different substances derived from food, cell residues and medication that can inhibit downstream PCR. The purpose of the study...... was to evaluate two different DNA extraction methods in order to choose the most efficient method for studying intestinal bacterial diversity using Denaturing Gradient Gel Electrophoresis (DGGE). FINDINGS: In this study, a semi-automatic DNA extraction system (easyMag®, BioMérieux, Marcy I'Etoile, France......) and a manual one (QIAamp DNA Stool Mini Kit, Qiagen, Hilden, Germany) were tested on stool samples collected from 3 patients with Inflammatory Bowel disease (IBD) and 5 healthy individuals. DNA extracts obtained by the QIAamp DNA Stool Mini Kit yield a higher amount of DNA compared to DNA extracts obtained...

  8. Analysis of iminosugars and other low molecular weight carbohydrates in Aglaonema sp. extracts by hydrophilic interaction liquid chromatography coupled to mass spectrometry.

    Science.gov (United States)

    Rodríguez-Sánchez, S; García-Sarrió, M J; Quintanilla-López, J E; Soria, A C; Sanz, M L

    2015-12-01

    A method by hydrophilic interaction liquid chromatography coupled to tandem mass spectrometry (HILIC-MS(2)) has been successfully developed for the simultaneous analysis of bioactive iminosugars and other low molecular weight carbohydrates in Aglaonema leaf extracts. Among other experimental chromatographic conditions, mobile phase eluents, additives and column temperature were evaluated in terms of retention time, resolution, peak width and symmetry provided for target carbohydrates. In general, narrow peaks (wh: 0.2-0.6min) with good symmetry (As: 0.9-1.3) and excellent resolution (Rs>1.8) were obtained for iminosugars using an acetonitrile:water gradient with 5mM ammonium acetate in both eluents at 55°C. Tandem mass spectra were used to confirm the presence of previously detected iminosugars in Aglaonema extracts and to tentatively identify for the first time others such as miglitol isomer, glycosyl-miglitol isomers and glycosyl-DMDP isomers. Concentration of total iminosugars varied from 1.35 to 2.84mgg(-1) in the extracts of the different Aglaonema samples analyzed. To the best of our knowledge, this is the first time that a HILIC-MS(2) method has been proposed for the simultaneous analysis of iminosugars and other low molecular weight carbohydrates of Aglaonema sp. extracts.

  9. Molecularly imprinted polymers based on multi-walled carbon nanotubes for selective solid-phase extraction of oleanolic acid from the roots of kiwi fruit samples.

    Science.gov (United States)

    Chen, Xing; Zhang, Zhaohui; Yang, Xiao; Li, Jiaxing; Liu, Yunan; Chen, Hongjun; Rao, Wei; Yao, Shouzhuo

    2012-09-15

    This study describes the synthesis of novel molecularly imprinted polymers based on multi-walled carbon nanotubes (MWNTs@MIPs) using oleanolic acid as the template, 4-vinylpyridine as the functional monomer and divinylbenzene as the cross-linker by heat-induced polymerization. The MWNTs@MIPs were characterized with Fourier transform infrared (FT-IR) spectrometry and scanning electron microscopy (SEM). The adsorption process of the MWNTs@MIPs towards oleanolic acid was investigated in detail. The properties of MWNTs@MIPs for solid-phase extraction (SPE) were also evaluated. The results demonstrated the good imprinting effect and the comparable selectivity of MWNTs@MIPs. The optimized molecularly imprinted solid-phase extraction (MISPE) procedure was applied to extract oleanolic acid from the extracts of the roots of kiwi fruit samples. The recoveries of spiked oleanolic acid in kiwi fruit samples were in the range of 84-92.6% with relative standard deviations below 5%, and its limit of detection reached 2.56 μg L(-1).

  10. Selective and simultaneous determination of trace bisphenol A and tebuconazole in vegetable and juice samples by membrane-based molecularly imprinted solid-phase extraction and HPLC.

    Science.gov (United States)

    Wu, Ya-Ting; Zhang, Yan-Hong; Zhang, Meng; Liu, Fei; Wan, Ying-Chun; Huang, Zheng; Ye, Lei; Zhou, Qi; Shi, Yun; Lu, Bin

    2014-12-01

    Nanofibrous molecularly imprinted membranes (nano-MIMs) with multi-analyte selectivity were prepared by encapsulating two types of molecularly imprinted polymer nanoparticles (MIP-NPs) into electrospun polyvinyl alcohol nanofibers. The obtained nano-MIMs maintained high molecular selectivity offered by each of the MIP-NPs. Nano-MIM embedding BPA-imprinted nanoparticles and TBZ-imprinted nanoparticles together showed the highest binding selectivity for acid bisphenol A (BPA) and basic tebuconazole (TBZ). This nano-MIM was used as affinity material of membrane-based molecularly imprinted solid-phase extraction (m-MISPE) to extract trace BPA and TBZ in vegetables and juices simultaneously. The recoveries of BPA and TBZ from different samples were higher than 70.33% with RSDs lower than 9.57%. m-MISPE gave better HPLC separation efficiencies and higher recoveries than conventional SPE based on C18/SCX. Multi-analyte selective m-MISPE combined with HPLC realized selective and simultaneous determination of several trace analytes with opposite charges/polarities in different food samples.

  11. Mediation and Automatization.

    Science.gov (United States)

    Hutchins, Edwin

    This paper discusses the relationship between the mediation of task performance by some structure that is not inherent in the task domain itself and the phenomenon of automatization, in which skilled performance becomes effortless or phenomenologically "automatic" after extensive practice. The use of a common simple explicit mediating…

  12. Digital automatic gain control

    Science.gov (United States)

    Uzdy, Z.

    1980-01-01

    Performance analysis, used to evaluated fitness of several circuits to digital automatic gain control (AGC), indicates that digital integrator employing coherent amplitude detector (CAD) is best device suited for application. Circuit reduces gain error to half that of conventional analog AGC while making it possible to automatically modify response of receiver to match incoming signal conditions.

  13. Automatic Differentiation Package

    Energy Technology Data Exchange (ETDEWEB)

    2007-03-01

    Sacado is an automatic differentiation package for C++ codes using operator overloading and C++ templating. Sacado provide forward, reverse, and Taylor polynomial automatic differentiation classes and utilities for incorporating these classes into C++ codes. Users can compute derivatives of computations arising in engineering and scientific applications, including nonlinear equation solving, time integration, sensitivity analysis, stability analysis, optimization and uncertainity quantification.

  14. Preparation and evaluation of a novel molecularly imprinted polymer coating for selective extraction of indomethacin from biological samples by electrochemically controlled in-tube solid phase microextraction

    Energy Technology Data Exchange (ETDEWEB)

    Asiabi, Hamid [Department of Chemistry, Tarbiat Modares University, P.O. Box 14115-175, Tehran (Iran, Islamic Republic of); Yamini, Yadollah, E-mail: yyamini@modares.ac.ir [Department of Chemistry, Tarbiat Modares University, P.O. Box 14115-175, Tehran (Iran, Islamic Republic of); Seidi, Shahram; Ghahramanifard, Fazel [Department of Analytical Chemistry, Faculty of Chemistry, K.N. Toosi University of Technology, Tehran (Iran, Islamic Republic of)

    2016-03-24

    In the present work, an automated on-line electrochemically controlled in-tube solid-phase microextraction (EC-in-tube SPME) coupled with HPLC-UV was developed for the selective extraction and preconcentration of indomethacin as a model analyte in biological samples. Applying an electrical potential can improve the extraction efficiency and provide more convenient manipulation of different properties of the extraction system including selectivity, clean-up, rate, and efficiency. For more enhancement of the selectivity and applicability of this method, a novel molecularly imprinted polymer coated tube was prepared and applied for extraction of indomethacin. For this purpose, nanostructured copolymer coating consisting of polypyrrole doped with ethylene glycol dimethacrylate was prepared on the inner surface of a stainless-steel tube by electrochemical synthesis. The characteristics and application of the tubes were investigated. Electron microscopy provided a cross linked porous surface and the average thickness of the MIP coating was 45 μm. Compared with the non-imprinted polymer coated tubes, the special selectivity for indomethacin was discovered with the molecularly imprinted coated tube. Moreover, stable and reproducible responses were obtained without being considerably influenced by interferences commonly existing in biological samples. Under the optimal conditions, the limits of detection were in the range of 0.07–2.0 μg L{sup −1} in different matrices. This method showed good linearity for indomethacin in the range of 0.1–200 μg L{sup −1}, with coefficients of determination better than 0.996. The inter- and intra-assay precisions (RSD%, n = 3) were respectively in the range of 3.5–8.4% and 2.3–7.6% at three concentration levels of 7, 70 and 150 μg L{sup −1}. The results showed that the proposed method can be successfully applied for selective analysis of indomethacin in biological samples. - Graphical abstract: An automated on

  15. Method of information extraction of marbling image characteristic and automatic classification for beef%牛肉大理石花纹图像特征信息提取及自动分级方法

    Institute of Scientific and Technical Information of China (English)

    周彤; 彭彦昆

    2013-01-01

    . Light intensity was regulated through a light controller, and the distance between the camera lens and the beef samples was adjusted though translation stages in the image acquisition device. Collected images were automatically stored in the computer for further image processing. First, some methods such as image denoising, background removal, and image enhancement were adopted to preprocess the image to obtain a region of interest (ROI). In this step, the image was cropped to separate the beef from the background. Then, an iteration method was used to segment the beef area, obtain the beef marbling area and fat area. The redundant fat area was removed to extract an effective rib-eye region. Ten characteristic parameters of beef marbling namely, the rate of marbling area in the rib-eye region, the number of large grain fat, medium grain fat, small grain fat, total grain fat, the density of large grain fat, medium grain fat, small grain fat, total grain fat and, the evenness degree of fat distribution in the rib-eye region can reflect the amount of marbling and its distribution. So they were used to establish principal component regression (PCR) model. The PCR model result yielded a correction coefficient (Rv) of 0.88 and a standard error of prediction (SEP) of 0.56. And the PCR model showed that the rate of the marbling area in the rib-eye region had the greatest effect on the grade of beef marbling. Fisher discriminant functions were constructed based on the PCR model results to classify the grade of beef marbling. Experimental results showed that the classification accuracy was 97.0%in the calibration set and 91.2%in the prediction set. On this basis, a software system was developed for the automatic grading of beef marbling. A corresponding hardware device was also developed, controlled by the software system for real time application. The speed and accuracy of the algorithm were verified with theoretical analysis and a practical test. Through tests, the average

  16. Evaluation and optimization of nucleic acid extraction methods for the molecular analysis of bacterial communities associated with corrored steel

    NARCIS (Netherlands)

    Marty, F.; Ghiglione, J.-F.; Païsse, S.; Gueuné, H.; Quillet, L.; van Loosdrecht, M.C.M.; Muyzer, G.

    2012-01-01

    Different DNA and RNA extraction approaches were evaluated and protocols optimized on in situ corrosion products from carbon steel in marine environments. Protocols adapted from the PowerSoil DNA/RNA Isolation methods resulted in the best nucleic acid (NA) extraction performances (ie combining high

  17. Liquid–liquid anion exchange extraction studies of samarium(III from salicylate media using high molecular weight amine

    Directory of Open Access Journals (Sweden)

    Aniruddha M. Mandhare

    2015-07-01

    Full Text Available Liquid–liquid extraction and separation of samarium(III were carried out by using 0.025 mol dm−3 2-octylaminopyridine(2-OAP in xylene at 298 K. The extraction behavior of samarium was studied as a function of pH, weak acid concentration, extractant concentration, diluent, and equilibration time. Samarium was quantitatively extracted at pH 7.5 to 10.0 from 0.01 mol dm−3 sodium salicylate solution with 0.025 mol dm−3 2-OAP. The possible composition of the extracted species in organic phase has been determined by using model of slope analysis method and extraction mechanism was found to proceed via an anion exchange mechanism. The stripping efficiency was found to be quantitative in HNO3, HCl and CH3COOH. The robustness of the procedure was demonstrated by the average recoveries obtained (>99.6% for samarium(III extraction in the presence of several cations and anions which are commonly associated with it. The proposed method facilitates the separation and determination of samarium(III from binary and synthetic mixtures. The various thermodynamic functions like free energy (ΔG, enthalpy (ΔH and entropy (ΔS of extraction mechanism were discussed.

  18. Molecularly imprinted polymers with synthetic dummy template for simultaneously selective removal and enrichment of ginkgolic acids from Ginkgo biloba L. leaves extracts.

    Science.gov (United States)

    Ji, Wenhua; Ma, Xiuli; Xie, Hongkai; Chen, Lingxiao; Wang, Xiao; Zhao, Hengqiang; Huang, Luqi

    2014-11-14

    Dummy molecularly imprinted polymers (DMIPs) for simultaneously selective removal and enrichment of ginkgolic acids (GAs) during the processing of Ginkgo biloba leaves have been prepared. Two dummy template molecule with similar structural skeleton to GAs, 6-methoxysalicylic acid (MOSA, DT-1) and 6-hexadecyloxysalicylic acid (HOSA, DT-2), have been designed and synthesized. The performance of the DMIPs and NIPs were evaluated including selective recognition capacity, adsorption isotherm, and adsorption kinetics. The selective recognition capacity of the three GAs with four analogues on the sorbents illustrated that the DMIPs sorbents have high specificity for GAs. An efficient method based on DMIP-HOSA coupled with solid-phase extraction (SPE) was developed for simultaneously selective removal and enrichment of ginkgolic acids (GAs) during the processing of Ginkgo biloba leaves. The method showed excellent recoveries (82.5-88.7%) and precision (RSD 0.5-2.6%, n=5) for licorice extracts, Gastrodia elata extracts and pepper extracts spiked at three concentration levels each (50, 100, 200 μg mL(-1)). The results indicated that GAs and standardized Ginkgo biloba leaves extracts could be obtained simultaneously through the DMIP-SPE.

  19. Molecularly imprinted polymer-sol-gel tablet toward micro-solid phase extraction: I. Determination of methadone in human plasma utilizing liquid chromatography-tandem mass spectrometry.

    Science.gov (United States)

    El-Beqqali, Aziza; Abdel-Rehim, Mohamed

    2016-09-14

    In the present work molecularly imprinted sol-gel tablet (MIP-Tablet) was prepared. The MIP-sol-gel was prepared as a thin layer on polyethylene material in a tablet form. Methadone-d9 was selected as the template and 3-(propylmethacrylate)-trimethoxysilane was used as precursor. MIP-Tablet was applied for micro-solid phase extraction (μ-SPE). The MIP-Tablet was used for the determination of methadone in human plasma samples utilizing liquid chromatography-tandem mass spectrometry; and each tablet could be used twenty times. The extraction time was 10 min while desorption time was 6 min. Factors affecting the extraction efficiency such as desorption solvents, sample pH, salt addition, extraction time, desorption time and adsorption capacity were investigated. The calibration curves were obtained within the range of 5-5000 ng/mL using methadone in human plasma samples. The coefficients of determination (r(2)) values were ≥0.999 for all runs and the extraction recovery was >80%. The accuracy values for quality control samples varied from +3.6 to +9.7% and the inter-day precision (RSD %) values were ranged from 5.0 to 8.0%. The limit of detection was 1.0 ng/mL and the lower limit of quantification was 5 ng/mL utilizing methadone in human plasma samples.

  20. Analysis of the influence of tectonics on the evolution valley network based on the SRTM DEM and the relationship of automatically extracted lineaments and the tectonic faults, Jemma River basin, Ethiopia

    Science.gov (United States)

    Kusák, Michal

    2016-04-01

    The Ethiopian Highland is good example of high plateau landscape formed by combination of tectonic uplift and episodic volcanism (Kazmin, 1975; Pik et al., 2003; Gani et al., 2009). Deeply incised gorges indicate active fluvial erosion which leads to instabilities of over-steepened slopes. In this study we focus on Jemma River basin which is a left tributary of Abay - Blue Nile to assess the influence of neotectonics on the evolution of its river and valley network. Tectonic lineaments, shape of valley networks, direction of river courses and intensity of fluvial erosion were compared in six subregions which were delineate beforehand by means of morphometric analysis. The influence of tectonics on the valley network is low in the older deep and wide canyons and in the and on the high plateau covered with Tertiary lava flows while younger upper part of the canyons it is high. Furthermore, the coincidence of the valley network with the tectonic lineaments differs in the subregions. The fluvial erosion along the main tectonic zones (NE-SW) direction made the way for backward erosion possible to reach far distant areas in E for the fluvial erosion. This tectonic zone also separates older areas in the W from the youngest landscape evolution subregions in the E, next to the Rift Valley. We studied the functions that can automatically extract lineaments in programs ArcGIS 10.1 and PCI Geomatica. The values of input parameters and their influence of the final shape and number of lineaments. A map of automated extracted lineaments was created and compared with 1) the tectonic faults by Geology Survey of Ethiopia (1996); and 2) the lineaments based on visual interpretation of by the author. The comparation of lineaments by automated visualization in GIS and visual interpretation of lineaments by the author proves that both sets of lineaments are in the same azimuth (NE-SW) - the same direction as the orientation of the rift. But it the mapping of lineaments by automated

  1. A Statistical Approach to Automatic Speech Summarization

    Science.gov (United States)

    Hori, Chiori; Furui, Sadaoki; Malkin, Rob; Yu, Hua; Waibel, Alex

    2003-12-01

    This paper proposes a statistical approach to automatic speech summarization. In our method, a set of words maximizing a summarization score indicating the appropriateness of summarization is extracted from automatically transcribed speech and then concatenated to create a summary. The extraction process is performed using a dynamic programming (DP) technique based on a target compression ratio. In this paper, we demonstrate how an English news broadcast transcribed by a speech recognizer is automatically summarized. We adapted our method, which was originally proposed for Japanese, to English by modifying the model for estimating word concatenation probabilities based on a dependency structure in the original speech given by a stochastic dependency context free grammar (SDCFG). We also propose a method of summarizing multiple utterances using a two-level DP technique. The automatically summarized sentences are evaluated by summarization accuracy based on a comparison with a manual summary of speech that has been correctly transcribed by human subjects. Our experimental results indicate that the method we propose can effectively extract relatively important information and remove redundant and irrelevant information from English news broadcasts.

  2. High efficiency protocol of DNA extraction from Micromys minutus mandibles from owl pellets: a tool for molecular research of cryptic mammal species.

    Science.gov (United States)

    Buś, Magdalena M; Zmihorski, Michał; Romanowski, Jerzy; Balčiauskienė, Laima; Cichocki, Jan; Balčiauskas, Linas

    2014-01-01

    Owl pellets have high potential as a source of DNA. However, this noninvasive method of collecting DNA is rarely used, and its methodological aspects are poorly understood. We investigated the methodology for DNA extraction and amplification from owl pellets containing the smallest European rodent-the Harvest mouse Micromys minutus-as an example. We used mandibles identified in owl pellets for mitochondrial and nuclear DNA amplification. For DNA extraction, we tested two commercial protocols and utilized a protocol being a combination of two commercial kits which ensured high efficiency of DNA extraction. Additionally, we recorded that the amount of DNA was five times higher in extracts from teeth as compared to DNA extracts from jawbones derived from the same mandible. The quantity of DNA was significantly positively correlated with biological sample weight; however, the age of the pellet remains had an impact on the level of inhibition. We recorded inhibition in 40 % of mtDNA extracts derived from pellets older than 150 months, whereas in DNA extracts from pellets younger than 80 months, we did not observe a negative impact of inhibition on PCR efficiency. The amplification success rate was 89.9 % for the mitochondrial fragment and 39.4 % in the case of the nuclear fragment. We observed partial degradation of DNA evidenced by the fact that the longest fragments that we were able to amplify in the case of mtDNA were 450 and 200 bp for nuDNA. The study shows that pellets can be considered as a source of DNA and have high potential for molecular research in the case of threatened species and species that are difficult to study using standard field techniques.

  3. Preparation of High Purity, High Molecular-Weight Chitin from Ionic Liquids for Use as an Adsorbate for the Extraction of Uranium from Seawater

    Energy Technology Data Exchange (ETDEWEB)

    Rogers, Robin [Univ. of Alabama, Tuscaloosa, AL (United States)

    2013-12-21

    Ensuring a domestic supply of uranium is a key issue facing the wider implementation of nuclear power. Uranium is mostly mined in Kazakhstan, Australia, and Canada, and there are few high-grade uranium reserves left worldwide. Therefore, one of the most appealing potential sources of uranium is the vast quantity dissolved in the oceans (estimated to be 4.4 billion tons worldwide). There have been research efforts centered on finding a means to extract uranium from seawater for decades, but so far none have resulted in an economically viable product, due in part to the fact that the materials that have been successfully demonstrated to date are too costly (in terms of money and energy) to produce on the necessary scale. Ionic Liquids (salts which melt below 100{degrees}C) can completely dissolve raw crustacean shells, leading to recovery of a high purity, high molecular weight chitin powder and to fibers and films which can be spun directly from the extract solution suggesting that continuous processing might be feasible. The work proposed here will utilize the unprecedented control this makes possible over the chitin fiber a) to prepare electrospun nanofibers of very high surface area and in specific architectures, b) to modify the fiber surfaces chemically with selective extractant capacity, and c) to demonstrate their utility in the direct extraction and recovery of uranium from seawater. This approach will 1) provide direct extraction of chitin from shellfish waste thus saving energy over the current industrial process for obtaining chitin; 2) allow continuous processing of nanofibers for very high surface area fibers in an economical operation; 3) provide a unique high molecular weight chitin not available from the current industrial process, leading to stronger, more durable fibers; and 4) allow easy chemical modification of the large surface areas of the fibers for appending uranyl selective functionality providing selectivity and ease of stripping. The

  4. Selective trace enrichment of acidic pharmaceuticals in real water and sediment samples based on solid-phase extraction using multi-templates molecularly imprinted polymers.

    Science.gov (United States)

    Duan, Yan-Ping; Dai, Chao-Meng; Zhang, Ya-Lei; Ling-Chen

    2013-01-03

    A novel multi-templates molecularly imprinted polymer (MIP), using acidic pharmaceuticals mixture (ibuprofen (IBP), naproxen (NPX), ketoprofen (KEP), diclofenac (DFC), and clofibric acid (CA)) as the template, was prepared as solid-phase extraction (SPE) material for the quantitative enrichment of acidic pharmaceuticals in environmental samples and off-line coupled with liquid chromatography-mass spectrometry (LC/MS/MS). Washing solvent was optimized in terms of kind and volume for removing the matrix constituents nonspecifically adsorbed on the MIP. When 1L of water sample spiked at 1μg/L was loaded onto the cartridge, the binding capacity of the MIP cartridge were 48.7μg/g for KEP, 60.7μg/g for NPX, 52μg/g for CA, 61.3μg/g for DFC and 60.7μg/g for IBP, respectively, which are higher than those of the commercial single template MIP in organic medium (e.g. toluene) reported in the literature. Recoveries of the five acidic pharmaceuticals extracted from 1L of real water samples such as lake water and wastewater spiked at 1μg/L were more than 95%. The recoveries of acidic pharmaceuticals extracted from 10-g sediment sample spiked at the 10ng/g level were in the range of 77.4-90.6%. To demonstrate the potential of the MIP obtained, a comparison with commercial C18 SPE cartridge was performed. Molecularly imprinted solid-phase extraction (MISPE) cartridge showed higher recoveries than commercial C18 SPE cartridge for acidic pharmaceuticals. These results showed the suitability of the MISPE method for the selective extraction of a group of structurally related compounds such as acidic pharmaceuticals.

  5. Development of molecularly imprinted poly(methacrylic acid)/silica for clean-up and selective extraction of cholesterol in milk prior to analysis by HPLC-UV.

    Science.gov (United States)

    Clausen, D N; Visentainer, J V; Tarley, C R T

    2014-10-07

    In the present paper the assessment of a novel molecularly imprinted polymer, poly(methacrylic acid)/silica, for clean-up and selective extraction of cholesterol in milk samples is described. The relative selectivity coefficient (k) values for cholesterol/5-α-cholestane and cholesterol/7-dehydrocholesterol systems were found to be 5.08 and 6.08, respectively, thus attesting the selectivity of the MIP for cholesterol under competitive adsorption with structurally analogous steroid compounds. The milk analysis was initially based on saponification followed by liquid-liquid extraction with n-hexane. Then, the protocol of molecularly imprinted solid phase extraction (MISPE) was carried out by loading the milk hexanic extract through 200 mg of MIP or NIP (non-imprinted polymer) packed into SPE cartridges at a flow rate of 0.6 mL min(-1). The washing step was performed by using n-hexane followed by further elution with ethanol and HPLC-UV analysis at 208 nm. From the breakthrough curve the maximum adsorption capacity of the MIP towards cholesterol was found to be 29.51 mg g(-1). The precision of the MISPE protocol was assessed as intra- and inter-days yielding RSD (relative standard deviations) lower than 4.10%. Cleaner HPLC chromatograms were obtained for milk samples submitted to the MISPE protocol in comparison to the solid phase extraction using the NIP or modified octadecyl silica (C18). Recoveries varying from 96.6 up to 102.2% for milk samples spiked with cholesterol were achieved, thus ensuring the accuracy of the proposed method.

  6. Molecularly imprinted-solid phase extraction combined with simultaneous derivatization and dispersive liquid-liquid microextraction for selective extraction and preconcentration of methamphetamine and ecstasy from urine samples followed by gas chromatography.

    Science.gov (United States)

    Djozan, Djavanshir; Farajzadeh, Mir Ali; Sorouraddin, Saeed Mohammad; Baheri, Tahmineh

    2012-07-27

    In this study, a developed technique was reported for extraction and pre-concentration of methamphetamine (MAMP) and 3,4-methylenedioxymethamphetamine (MDMA, ecstasy) from urine samples using molecularly imprinted-solid phase extraction (MISPE) along with simultaneous derivatization and dispersive liquid-liquid microextraction (DLLME). Molecularly imprinted microspheres as sorbent in solid phase extraction (SPE) procedure were synthesized using precipitation polymerization with MAMP as the template. Aqueous solution of the target analytes was passed through MAMP-MIP cartridge and the adsorbed analytes were then eluted with methanol. The collected eluate was mixed with butylchloroformate which served as the derivatization reagent as well as the extraction solvent. The mixture was immediately injected into deionized water. After centrifugation, 1 μL of the settled organic phase was injected into gas chromatography-flame ionization detection (GC-FID) or gas chromatography-mass spectrometry (GC-MS). Various experimental parameters affecting the performance of both of the steps (MISPE and DLLME) were thoroughly investigated. The calibration graphs were linear in the ranges of 10-1500 ng mL(-1) (MAMP) and 50-1500 ng mL(-1) (MDMA), and the detection limits (LODs) were 2 and 18 ng mL(-1), respectively. The relative standard deviations (%RSDs) obtained for six repeated experiments (100 ng mL(-1) of each drug) were 5.1% and 6.8% for MAMP and MDMA, respectively. The relative recoveries obtained for the analytes in human urine samples, spiked with different levels of each drug, were within the range of 80-88%.

  7. Preparation of molecular imprinted microspheres based on inorganic-organic co-functional monomer for miniaturized solid-phase extraction of fluoroquinolones in milk.

    Science.gov (United States)

    Wang, Hui; Wang, Ruiling; Han, Yehong

    2014-02-15

    An inorganic-organic co-functional monomer, methacrylic acid-vinyltriethoxysilan (MAA-VTES) was designed for the synthesis of molecularly imprinted microspheres (MIMs). By virtue of the aqueous suspension polymerization and dummy template (pazufloxacin), the obtained MAA-VTES based MIMs exhibited good recognition and selectivity to fluoroquinolones (FQs), and were successfully applied as selective sorbents of a miniaturized home-made solid phase extraction device for the determination of ofloxacin (OFL), lomefloxacin (LOM) and ciprofloxacin (CIP) in milk samples. Under the optimum conditions of the miniaturized molecularly imprinted solid phase extraction (mini-MISPE) coupled with liquid chromatography-ultraviolet detector (LC-UV), good linearities were obtained for three FQs in a range of 0.2-20.0μgmL(-1) and the average recoveries at three spiked levels were ranged from 87.2% to 106.1% with the relative standard deviation (RSD) less than 5.4%. The presented co-functional monomer based mini-MISPE-LC-UV protocol introduced the rigidity and flexibility of inorganic silicon materials, exhibited excellent extraction performance towards targets, and could be potentially applied to the determination of FQs in milk samples.

  8. Synthesis of lab-in-a-pipette-tip extraction using hydrophilic nano-sized dummy molecularly imprinted polymer for purification and analysis of prednisolone.

    Science.gov (United States)

    Arabi, Maryam; Ghaedi, Mehrorang; Ostovan, Abbas; Wang, Shaobin

    2016-10-15

    A novel pipette-tip based on nano-sized dummy molecularly imprinted polymer (PT-DMIP) assisted by ultrasonication for the effective enrichment and analysis of prednisolone from urine samples was developed. The PT-DMIP cartridge was prepared by packing the dummy molecularly imprinted polymer at the tip of the micropipette. The polymerization used betamethasone (BM) as the dummy template, 3-aminopropyltrimethoxysilane (APTMS) as the functionalized monomer, tetraethyl orthosilicate (TEOS) as the cross-linker and aluminum ion (Al(3+)) as a dopant to produce Lewis acid sites in the silica matrix for metal coordinative interactions with the analyte. Compared to conventional solid phase extraction (SPE), the PT-DMIP is cost-effective, fast, and easy to handle, while the system is very approachable and reduces the consumption of toxic organic solvent. HPLC-UV analysis revealed successful applicability of the sorbent for highly efficient extraction of perdnisolone from urine matrices. The extraction recovery was investigated and optimum conditions were obtained using central composite design. Good linearity for prednisolone in the range of 0.22-220μgL(-1) with regression coefficients of 0.99 reveals high applicability of the method for trace analysis. Under the optimized conditions, the recoveries are 89.0-96.1 with relative standard deviations (RSD) of less than 9.0%.

  9. Molecularly imprinted microspheres synthesized by a simple, fast, and universal suspension polymerization for selective extraction of the topical anesthetic benzocaine in human serum and fish tissues.

    Science.gov (United States)

    Sun, Hui; Lai, Jia-Ping; Chen, Fang; Zhu, De-Rong

    2015-02-01

    A simple, fast, and universal suspension polymerization method was used to synthesize the molecularly imprinted microspheres (MIMs) for the topical anesthetic benzocaine (BZC). The desired diameter (10-20 μm) and uniform morphology of the MIMs were obtained easily by changing one or more of the synthesis conditions, including type and amount of surfactant, stirring rate, and ratio of organic to water phase. The MIMs obtained were used as a molecular-imprinting solid-phase-extraction (MISPE) material for extraction of BZC in human serum and fish tissues. The MISPE results revealed that the BZC in these biosamples could be enriched effectively after the MISPE operation. The recoveries of BZC on MIMs cartridges were higher than 90% (n = 3). Finally, an MISPE-HPLC method with UV detection was developed for highly selective extraction and fast detection of trace BZC in human serum and fish tissues. The developed method could also be used for the enrichment and detection of BZC in other complex biosamples.

  10. Dispersive solid-phase extraction based on magnetic dummy molecularly imprinted microspheres for selective screening of phthalates in plastic bottled beverages.

    Science.gov (United States)

    Qiao, Jindong; Wang, Mingyu; Yan, Hongyuan; Yang, Gengliang

    2014-04-02

    A new magnetic dummy molecularly imprinted dispersive solid-phase extraction (MAG-MIM-dSPE) coupled with gas chromatography-FID was developed for selective determination of phthalates in plastic bottled beverages. The new magnetic dummy molecularly imprinted microspheres (MAG-MIM) using diisononyl phthalate as a template mimic were synthesized by coprecipitation coupled with aqueous suspension polymerization and were successfully applied as the adsorbents for MAG-MIM-dSPE to extract and isolate five phthalates from plastic bottled beverages. Validation experiments showed that the MAG-MIM-dSPE method had good linearity at 0.0040-0.40 μg/mL (0.9991-0.9998), good precision (3.1-6.9%), and high recovery (89.5-101.3%), and limits of detection were obtained in a range of 0.53-1.2 μg/L. The presented MAG-MIM-dSPE method combines the quick separation of magnetic particles, special selectivity of MIM, and high extraction efficiency of dSPE, which could potentially be applied to selective screening of phthalates in beverage products.

  11. Monolithic molecularly imprinted solid-phase extraction for the selective determination of trace cytokinins in plant samples with liquid chromatography-electrospray tandem mass spectrometry.

    Science.gov (United States)

    Du, Fuyou; Ruan, Guihua; Liang, Shenghua; Xie, Fuwei; Liu, Huwei

    2012-08-01

    Cytokinins (CTKs) are a class of growth-regulating hormones involved in various physiological and developmental processes. More novel analytical methods for the accurate identification and quantitative determination of trace CTKs in plants have been desired to better elucidate the roles of CTKs. In this work, a novel method based on monolithic molecularly imprinted solid-phase extraction followed by liquid chromatography-electrospray tandem mass spectrometry (mMI-SPE-LC-MS/MS) was developed for accurate determination of four CTKs in plant samples. The molecularly imprinted polymer monolith was prepared by using kinetin as the template in syringes and exhibited specific recognition ability for the four CTKs in comparison with that of non-imprinted polymer monolith. Several factors affecting the extraction performance of mMI-SPE, including the pH of loading sample solution, the nature and volume of elution solvent, the flow rate of sample loading, and sample volume, were investigated, respectively. Under the optimized conditions, the proposed mMI-SPE-LC-MS/MS method was successfully applied in the selective extraction and determination of four CTKs in plant tissues, and it offers detection limits (S/N = 3) of 104, 113, 130, and 89 pg/mL and mean recoveries of 85.9%, 79.3%, 73.5%, and 70.1% for kinetin, kinetin glucoside, trans-zeatin, and meta-topolin (mT), respectively, with the corresponding RSDs less than 15%.

  12. Molecularly imprinted solid-phase extraction combined with electrochemical oxidation fluorimetry for the determination of methotrexate in human serum and urine.

    Science.gov (United States)

    Chen, Suming; Zhang, Zhujun

    2008-06-01

    The method of synthesis and evaluation of molecularly imprinted polymers was reported. As a selective solid-phase extraction sorbent, the polymers were coupled with electrochemical fluorimetry detection for the efficient determination of methotrexate in serum and urine. Methotrexate was preconcentrated in the molecularly imprinted solid-phase extraction microcolumn packed with molecularly imprinted polymers, and then eluted. The eluate was detected by fluorescence spectrophotometer after electrochemical oxidation. The conditions of preconcentration, elution, electrochemical oxidation and determination were carefully studied. Under the selected experimental conditions, the calibration graph of the fluorescence intensity versus methotrexate concentration was linear from 4x10(-9) g mL(-1) to 5x10(-7) g mL(-1), and the detection limit was 8.2x10(-10) g mL(-1) (3sigma). The relative standard deviation was 3.92% (n=7) for 1x10(-7) g mL(-1) methotrexate. The experiments showed that the selectivity and sensitivity of fluorimetry could be greatly improved by the proposed method. This method has been successfully applied to the determination of methotrexate. At the same time, the binding characteristics of the polymers to the methotrexate were evaluated by batch and dynamic methods.

  13. Molecularly imprinted polymer on a SiO2 -coated graphene oxide surface for the fast and selective dispersive solid-phase extraction of Carbamazepine from biological samples.

    Science.gov (United States)

    Khalilian, Faezeh; Ahmadian, Setareh

    2016-04-01

    A surface carbamazepine-imprinted polymer was grafted and synthesized on the SiO2 /graphene oxide surface. Firstly SiO2 was coated on synthesized graphene oxide sheet using the sol-gel technique. Prior to polymerization, the vinyl group was incorporated on to the surface of SiO2 /graphene oxide to direct selective polymerization on the surface. Methacrylic acid, ethylene glycol dimethacrylate and ethanol were used as monomer, cross-linker and porogen, respectively. Nonimprinted polymer was also prepared for comparison. The properties of the molecularly imprinted polymer were characterized using field-emission scanning electron microscopy and Fourier-transform infrared spectroscopy. The surface molecularly imprinted polymer was utilized as an adsorbent of dispersive solid-phase extraction for separation and preconcentration of carbamazepine. The effects of the different parameters influencing the extraction efficiency, such as sample pH were investigated and optimized. The specificity of the molecular imprinted polymer over the nonimprinted polymer was examined in absence and presence of competitive drugs. The carbamazepine calibration curve showed linearity in the ranges 0.5-500 μg/L. The limits of detection and quantification under the optimized conditions were 0.1 and 0.3 μg/L, respectively. The within-day and between-day relative standard deviations (n = 3) were 3.6 and 4.3%, respectively. Furthermore, the relative recoveries for spiked biological samples were above 85%.

  14. Fingerprint Feature Extraction Algorithm

    Directory of Open Access Journals (Sweden)

    Mehala. G

    2014-03-01

    Full Text Available The goal of this paper is to design an efficient Fingerprint Feature Extraction (FFE algorithm to extract the fingerprint features for Automatic Fingerprint Identification Systems (AFIS. FFE algorithm, consists of two major subdivisions, Fingerprint image preprocessing, Fingerprint image postprocessing. A few of the challenges presented in an earlier are, consequently addressed, in this paper. The proposed algorithm is able to enhance the fingerprint image and also extracting true minutiae.

  15. Improving molecular detection of fungal DNA in formalin-fixed paraffin-embedded tissues: comparison of five tissue DNA extraction methods using panfungal PCR.

    Science.gov (United States)

    Muñoz-Cadavid, C; Rudd, S; Zaki, S R; Patel, M; Moser, S A; Brandt, M E; Gómez, B L

    2010-06-01

    DNA extraction from formalin-fixed paraffin-embedded (FFPE) tissues is difficult and requires special protocols in order to extract small amounts of DNA suitable for amplification. Most described methods report an amplification success rate between 60 and 80%; therefore, there is a need to improve molecular detection and identification of fungi in FFPE tissue. Eighty-one archived FFPE tissues with a positive Gomori methenamine silver (GMS) stain were evaluated using five different commercial DNA extraction kits with some modifications. Three different panfungal PCR assays were used to detect fungal DNA, and two housekeeping genes were used to assess the presence of amplifiable DNA and to detect PCR inhibitors. The sensitivities of the five extraction protocols were compared, and the quality of DNA detection (calculated for each kit as the number of housekeeping gene PCR-positive samples divided by the total number of samples) was 60 to 91% among the five protocols. The efficiencies of the three different panfungals used (calculated as the number of panfungal-PCR-positive samples divided by the number of housekeeping gene PCR-positive samples) were 58 to 93%. The panfungal PCR using internal transcribed spacer 3 (ITS3) and ITS4 primers yielded a product in most FFPE tissues. Two of the five DNA extraction kits (from TaKaRa and Qiagen) showed similar and promising results. However, one method (TaKaRa) could extract fungal DNA from 69 of the 74 FFPE tissues from which a housekeeping gene could be amplified and was also cost-effective, with a nonlaborious protocol. Factors such as sensitivity, cost, and labor will help guide the selection of the most appropriate method for the needs of each laboratory.

  16. Oocytes Polar Body Detection for Automatic Enucleation

    Directory of Open Access Journals (Sweden)

    Di Chen

    2016-02-01

    Full Text Available Enucleation is a crucial step in cloning. In order to achieve automatic blind enucleation, we should detect the polar body of the oocyte automatically. The conventional polar body detection approaches have low success rate or low efficiency. We propose a polar body detection method based on machine learning in this paper. On one hand, the improved Histogram of Oriented Gradient (HOG algorithm is employed to extract features of polar body images, which will increase success rate. On the other hand, a position prediction method is put forward to narrow the search range of polar body, which will improve efficiency. Experiment results show that the success rate is 96% for various types of polar bodies. Furthermore, the method is applied to an enucleation experiment and improves the degree of automatic enucleation.

  17. Automatic Image-Based Pencil Sketch Rendering

    Institute of Scientific and Technical Information of China (English)

    王进; 鲍虎军; 周伟华; 彭群生; 徐迎庆

    2002-01-01

    This paper presents an automatic image-based approach for converting greyscale images to pencil sketches, in which strokes follow the image features. The algorithm first extracts a dense direction field automatically using Logical/Linear operators which embody the drawing mechanism. Next, a reconstruction approach based on a sampling-and-interpolation scheme is introduced to generate stroke paths from the direction field. Finally, pencil strokes are rendered along the specified paths with consideration of image tone and artificial illumination.As an important application, the technique is applied to render portraits from images with little user interaction. The experimental results demonstrate that the approach can automatically achieve compelling pencil sketches from reference images.

  18. Automatic Age Estimation System for Face Images

    Directory of Open Access Journals (Sweden)

    Chin-Teng Lin

    2012-11-01

    Full Text Available Humans are the most important tracking objects in surveillance systems. However, human tracking is not enough to provide the required information for personalized recognition. In this paper, we present a novel and reliable framework for automatic age estimation based on computer vision. It exploits global face features based on the combination of Gabor wavelets and orthogonal locality preserving projections. In addition, the proposed system can extract face aging features automatically in real‐time. This means that the proposed system has more potential in applications compared to other semi‐automatic systems. The results obtained from this novel approach could provide clearer insight for operators in the field of age estimation to develop real‐world applications.

  19. Testing a Low Molecular Mass Fraction of a Mushroom (Lentinus edodes Extract Formulated as an Oral Rinse in a Cohort of Volunteers

    Directory of Open Access Journals (Sweden)

    Caterina Signoretto

    2011-01-01

    Full Text Available Although foods are considered enhancing factors for dental caries and periodontitis, laboratory researches indicate that several foods and beverages contain components endowed with antimicrobial and antiplaque activities. A low molecular mass (LMM fraction of an aqueous mushroom extract has been found to exert these activities in in vitro experiments against potential oral pathogens. We therefore conducted a clinical trial in which we tested an LMM fraction of shiitake mushroom extract formulated in a mouthrinse in 30 young volunteers, comparing the results with those obtained in two identical cohorts, one of which received water (placebo and the other Listerine. Plaque index, gingival index and bacterial counts in plaque samples were determined in all volunteers over the 11 days of the clinical trial. Statistically significant differences (P<0.05 were obtained for the plaque index on day 12 in subjects treated with mushroom versus placebo, while for the gingival index significant differences were found for both mushroom versus placebo and mushroom versus Listerine. Decreases in total bacterial counts and in counts of specific oral pathogens were observed for both mushroom extract and Listerine in comparison with placebo. The data suggest that a mushroom extract may prove beneficial in controlling dental caries and/or gingivitis/periodontitis.

  20. Preparation and evaluation of a molecularly imprinted sol-gel material as the solid-phase extraction adsorbents for the specific recognition of cloxacilloic acid in cloxacillin.

    Science.gov (United States)

    Du, Kangli; Luo, Zhimin; Guo, Pengqi; Tang, Weili; Wu, Ningli; Zheng, Penglei; Du, Wei; Zeng, Aiguo; Jing, Wanghui; Chang, Chun; Fu, Qiang

    2016-02-01

    Highly selective molecularly imprinted polymers on the surface of silica gels were prepared by a sol-gel process and used as solid-phase extraction adsorbents for the specific recognition, enrichment and detection of cloxacilloic acid in cloxacillin. The obtained polymers were characterized by scanning electron microscopy, FTIR spectroscopy, nitrogen adsorption and desorption, elemental analysis and thermogravimetric analysis. The imprinted polymers not only possessed high adsorption capacity (6.5 μg/mg), but also exhibited fast adsorption kinetics (they adsorb 80% of the maximum amount within 20 min) and excellent selectivity (the imprinted factor was 3.6). A method using the imprinted polymers as solid-phase extraction adsorbents coupled with high-performance liquid chromatography was established with good specificity, linearity (r = 0.9962), precision (ranging from 0.5 to 6.7%), accuracy (ranging from 93.9 to 97.7%) and extraction recoveries (ranging from 78.8 to 89.8%). The limits of detection and quantification were 0.07 and 0.25 mg/g, respectively. This work could provide a promising method in the enrichment, extraction and detection of allergenic impurities in the manufacture, storage and application of cloxacillin.

  1. Novel molecularly imprinted polymers with carbon nanotube as matrix for selective solid-phase extraction of emodin from kiwi fruit root.

    Science.gov (United States)

    Yang, Xiao; Zhang, Zhaohui; Li, Jiaxing; Chen, Xing; Zhang, Minlei; Luo, Lijuan; Yao, Shouzhuo

    2014-02-15

    In this paper, we present a novel surface imprinting technique for the preparation of molecularly imprinted polymers/multi-walled carbon nanotubes (MIPs/MWNTs) for extraction of emodin from kiwi fruit root. The MIPs/MWNTs were characterised by scanning electron microscopy (SEM) and Fourier transform-infrared spectroscopy (FT-IR). The properties involving adsorption dynamics, static adsorption, and selective recognition capacity were evaluated. The MIPs/MWNTs exhibited good site accessibility in which it only took 60 min to achieve adsorption equilibrium and highly selective recognition for the template emodin. Furthermore, the performance of the MIPs/MWNTs as solid phase extraction (SPE) material was investigated in detail. The proposed MIPs/MWNTs-SPE procedure for emodin exhibited satisfactory recoveries ranging from 89.2% to 93.8% for real samples. It was used for the purification and enrichment of emodin from kiwi fruit root successfully.

  2. Identification and characterization of low molecular weight polyphenols in berry leaf extracts by HPLC-DAD and LC-ESI/MS.

    Science.gov (United States)

    Oszmiański, Jan; Wojdyło, Aneta; Gorzelany, Józef; Kapusta, Ireneusz

    2011-12-28

    This paper reports the results of qualitative and quantitative analyses of low molecular weight phenolics from five berry leaf extract using HPLC-DAD and LC-ESI/MS. The identification of the black currant, raspberry, bilberry, honeysuckle, and strawberry leaf phytochemicals was based on the comparison of UV-vis absorption maxima (λ(max)) and mass spectral analysis. The peak identification in samples was also based on comparisons of the retention times (t(R)) of the isolated phytochemical standards. Knowledge of the precise phenolic profile of berry leaves may offer a scientific basis to put the underutilized berry leaves to good use as very cheap raw materials for polyphenol extract production. These studies indicated that these leaves can be used as a good and cheap source of bioactive constituents. These results suggest that berry leaves are a potential source of phenolics and have potential pro-healthy properties to contribute to human health.

  3. Multiresidue analysis of cephalosporin antibiotics in bovine milk based on molecularly imprinted polymer extraction followed by liquid chromatography-tandem mass spectrometry.

    Science.gov (United States)

    Baeza, A N; Urraca, J L; Chamorro, R; Orellana, G; Castellari, M; Moreno-Bondi, M C

    2016-11-25

    This work reports the preparation of molecularly imprinted polymers (MIPs) selective to cephalosporin (CF) antibiotics, and their application as molecularly imprinted solid-phase extraction (MISPE) sorbents for the determination of these antimicrobials in milk samples. Several functional monomers and cross-linkers have been screened to select the best combination that provides high selectivity for the simultaneous multiresidue extraction of cefthiofur (THIO), cefazolin (AZO), cefquinome (QUI), cephapirin (API), cephalexin (ALE) and cephalonium (ALO) from the samples. The novel MIPs were prepared by a non-covalent imprinting approach in the form of spherical microparticles using the synthetic surrogate molecule sodium 7-(2-biphenylylcarboxamido)-3-methyl-3-cepheme-4-carboxylate, N-3,5-bis(trifluoromethyl)phenyl-N'-4-vinylphenyl urea (VPU) as functional monomer, and divinylbenzene (DVB) as crosslinking agent in a 1:2:20 molar ratio. The optimized MISPE method allowed the extraction of the target antimicrobials from raw cow milk samples using a selective washing with 5mL methanol/2-[4-(2-hydroxyethyl)-1-piperazinyl]ethanesulfonic acid (HEPES) buffer (0.1M, pH 7.5) (2:98, v/v) to remove the non-specifically retained compounds, followed by elution with 1mL of trifluoroacetic acid (TFA) in methanol (0.1:99.9, v/v). The extracts have been analysed by UHPLC-MS/MS and the analytical method has been validated according to EU guideline 2002/657/EC. The limits of quantification (S/N=10) were in the 1.7-12.5μgkg(-1) range, well below the maximum residue limits (MRLs) currently established for the quantified cephalosporins in milk samples. The developed MIP allows mutiresidual determination of the six cephalosporin antibiotics mentioned above, significantly broadening the application to food analysis of MISPE methods.

  4. Unification of automatic target tracking and automatic target recognition

    Science.gov (United States)

    Schachter, Bruce J.

    2014-06-01

    The subject being addressed is how an automatic target tracker (ATT) and an automatic target recognizer (ATR) can be fused together so tightly and so well that their distinctiveness becomes lost in the merger. This has historically not been the case outside of biology and a few academic papers. The biological model of ATT∪ATR arises from dynamic patterns of activity distributed across many neural circuits and structures (including retina). The information that the brain receives from the eyes is "old news" at the time that it receives it. The eyes and brain forecast a tracked object's future position, rather than relying on received retinal position. Anticipation of the next moment - building up a consistent perception - is accomplished under difficult conditions: motion (eyes, head, body, scene background, target) and processing limitations (neural noise, delays, eye jitter, distractions). Not only does the human vision system surmount these problems, but it has innate mechanisms to exploit motion in support of target detection and classification. Biological vision doesn't normally operate on snapshots. Feature extraction, detection and recognition are spatiotemporal. When vision is viewed as a spatiotemporal process, target detection, recognition, tracking, event detection and activity recognition, do not seem as distinct as they are in current ATT and ATR designs. They appear as similar mechanism taking place at varying time scales. A framework is provided for unifying ATT and ATR.

  5. A Portable, Pressure Driven, Room Temperature Nucleic Acid Extraction and Storage System for Point of Care Molecular Diagnostics

    OpenAIRE

    Byrnes, Samantha; Fan, Andy; Trueb, Jacob; Jareczek, Francis; Mazzochette, Mark; Sharon, Andre; Sauer-Budge, Alexis F.; Klapperich, Catherine M.

    2013-01-01

    Many new and exciting portable HIV viral load testing technologies are emerging for use in global medicine. While the potential to provide fast, isothermal, and quantitative molecular diagnostic information to clinicians in the field will soon be a reality, many of these technologies lack a robust front end for sample clean up and nucleic acid preparation. Such a technology would enable many different downstream molecular assays. Here, we present a portable system for centrifuge-free room tem...

  6. Molecularly imprinted solid-phase extraction combined with ultrasound-assisted dispersive liquid-liquid microextraction for the determination of four Sudan dyes in sausage samples.

    Science.gov (United States)

    Yan, Hongyuan; Qiao, Jindong; Wang, Hui; Yang, Gengliang; Row, Kyung Ho

    2011-06-21

    A simple and highly selective molecularly imprinted solid-phase extraction (MISPE) combined with ultrasound-assisted dispersive liquid-liquid microextraction (DLLME) was developed for the determination of four Sudan dye (I, II, III, and IV) residues in sausage products. The novel molecularly imprinted microspheres (MIMs) synthesized by aqueous suspension polymerization using phenylamine-naphthol as the dummy template show high affinity to the four Sudan dyes and were applied as selective sorbents of MISPE-DLLME to overcome the drawbacks of template leakage in quantitative analysis. Good linearity was obtained in a range of 0.005-2.0 μg g(-1) and the average recoveries of the four Sudan dyes at three spiked levels ranged from 86.3 to 107.5%. The MISPE-DLLME-HPLC protocol significantly improved the purification and enrichment of the analytes and eliminated the template leakage of the conventional MISPE on quantitative analysis.

  7. Word Automaticity of Tree Automatic Scattered Linear Orderings Is Decidable

    CERN Document Server

    Huschenbett, Martin

    2012-01-01

    A tree automatic structure is a structure whose domain can be encoded by a regular tree language such that each relation is recognisable by a finite automaton processing tuples of trees synchronously. Words can be regarded as specific simple trees and a structure is word automatic if it is encodable using only these trees. The question naturally arises whether a given tree automatic structure is already word automatic. We prove that this problem is decidable for tree automatic scattered linear orderings. Moreover, we show that in case of a positive answer a word automatic presentation is computable from the tree automatic presentation.

  8. Effective Approaches For Extraction Of Keywords

    Directory of Open Access Journals (Sweden)

    Jasmeen Kaur

    2010-11-01

    Full Text Available Keywords are index terms that contain most important information. Automatic keyword extraction is the task to identify a small set of words , keyphrases or keywords from a document that can describe the meaning of document. Keyword extraction is considered as core technology of all automatic processing for text materials. In this paper, a Survey of Keyword Extraction techniques have been presented that can be applied to extract effective keywords that uniquely identify a document.

  9. Quantitative and qualitative validations of a sonication-based DNA extraction approach for PCR-based molecular biological analyses.

    Science.gov (United States)

    Dai, Xiaohu; Chen, Sisi; Li, Ning; Yan, Han

    2016-05-15

    The aim of this study was to comprehensively validate the sonication-based DNA extraction method, in hope of the replacement of the so-called 'standard DNA extraction method' - the commercial kit method. Microbial cells in the digested sludge sample, containing relatively high amount of PCR-inhibitory substances, such as humic acid and protein, were applied as the experimental alternatives. The procedure involving solid/liquid separation of sludge sample and dilution of both DNA templates and inhibitors, the minimum templates for PCR-based analyses, and the in-depth understanding from the bias analysis by pyrosequencing technology were obtained and confirmed the availability of the sonication-based DNA extraction method.

  10. Application of an inexpensive and high-throughput genomic DNA extraction method for the molecular ecology of zooplanktonic diapausing eggs

    DEFF Research Database (Denmark)

    Montero-Pau, Javier; Gómez, Africa; Muñoz, Joaquin

    2008-01-01

    We describe the application of a simple, low-cost, and effective method of DNA extraction (hot sodium hydroxide and Tris, HotSHOT) to the diapausing propagules of continental aquatic invertebrates for its use in PCR amplification. We illustrate the use of the technique in cladocerans, rotifers...

  11. Poder Antioxidante de Extractos de Romero Concentrados por Destilación Molecular Antioxidant Potential of Rosemary Extracts Concentrated by Molecular Distillation

    OpenAIRE

    2005-01-01

    Se ha estudiado el poder antioxidativo de extractos de romero concentrados por destilación molecular. Las hojas de romero fueron molidas y secadas previamente a la extracción, la cual fue llevada a cabo en un equipo de lixiviación de lecho fijo utilizando alcohol isopropílico como solvente. El solvente fue separado del extracto mediante destilación bajo vacío. El rendimiento promedio de extracción fue del 15,5%. El extracto resultante, verde y altamente viscoso, fue sometido a concentración p...

  12. Fast Automatic Heuristic Construction Using Active Learning

    OpenAIRE

    Ogilvie, William; Petoumenos, Pavlos; Wang, Zheng; Leather, Hugh

    2015-01-01

    Building effective optimization heuristics is a challenging task which often takes developers several months if not years to complete. Predictive modelling has recently emerged as a promising solution, automatically constructing heuristics from training data. However, obtaining this data can take months per platform. This is becoming an ever more critical problem and if no solution is found we shall be left with out of date heuristics which cannot extract the best performance from modern mach...

  13. Using Protege for Automatic Ontology Instantiation

    OpenAIRE

    2004-01-01

    This paper gives an overview on the use of Protégé in the Artequakt system, which integrated Protégé with a set of natural language tools to automatically extract knowledge about artists from web documents and instantiate a given ontology. Protégé was also linked to structured templates that generate documents from the knowledge fragments it maintains.

  14. Automatic approach for generating ETL operators

    OpenAIRE

    Bakari, Wided; Ali, Mouez; Ben-Abdallah, Hanene

    2012-01-01

    This article addresses the generation of the ETL operators(Extract-Transform-Load) for supplying a Data Warehouse from a relational data source. As a first step, we add new rules to those proposed by the authors of [1], these rules deal with the combination of ETL operators. In a second step, we propose an automatic approach based on model transformations to generate the ETL operations needed for loading a data warehouse. This approach offers the possibility to set some designer requirements ...

  15. Ionic liquid molecularly imprinted polymers for application in pipette-tip solid-phase extraction coupled with gas chromatography for rapid screening of dicofol in celery.

    Science.gov (United States)

    Yan, Hongyuan; Yang, Chen; Sun, Yunyun; Row, Kyung Ho

    2014-09-26

    A new type of ionic liquid molecularly imprinted polymers (IL-MIPs) synthesized by precipitation polymerization using 1-allyl-3-methylimidazolium bromide as an auxiliary solvent and α-chloro-dichlorodiphenyltrichloroethane (α-chloro-DDT) as the template was applied as a selective sorbent of minimized pipette tip-solid-phase extraction (PT-SPE) for rapid isolation and extraction of dicofol (DCF) from celery samples. The pretreatment procedure of celery samples involved only 2.0mg of IL-MIPs, 0.8 mL of acetonitrile-water (ACN-H2O; 1:1, v/v) (washing solvent), and 1.0 mL of acetone-10% acetic acid (HOAc) (elution solvent). Compared with molecularly imprinted polymers (MIPs), ionic liquid-non-imprinted polymers (IL-NIPs) and conventional sorbents such as C18, Si, NH2, and Al2O3-N, IL-MIPs showed higher adsorption and purification capacity to DCF in aqueous solution. Good linearity for DCF was observed in the range from 2.3 to 232.5 ng g(-1) (r(2)=0.9995). The average recoveries at three spiking levels ranged from 86.6% to 101.9% with relative standard deviations (RSDs) of ≤ 6.5% (n=3). The presented IL-MIPs-PT-SPE-GC/ECD method combines the advantages of MIPs, IL, and PT-SPE, and can be used in aqueous conditions with high affinity and selectivity to analytes of complex samples.

  16. Multi-walled carbon nanotube modified dummy-template magnetic molecularly imprinted microspheres as solid-phase extraction material for the determination of polychlorinated biphenyls in fish.

    Science.gov (United States)

    Du, Xiaowen; Lin, Saichai; Gan, Ning; Chen, Xidong; Cao, Yuting; Li, Tianhua; Zhan, Pan

    2014-07-01

    Novel multi-walled carbon nanotube modified dummy-template molecularly imprinted microspheres (MWCNTs@DMMIPs) were successfully synthesized as adsorbents for six kinds of polychlorinated biphenyls (PCBs). MWCNTs@DMMIPs were prepared by a surface molecular imprinting technique. Core-shell Fe3 O4 @SiO2 nanoparticles were employed as magnetic support. 3,4-Dichlorobenzene acetic acid was used as a dummy template instead of PCBs, methacrylic acid was used as functional monomer and ethylene glycol dimethacrylate was used as the cross-linker. The resulting absorbent was characterized by various methods. The adsorbent was employed for extracting PCBs and exhibited good selectivity and high adsorption efficiency. Furthermore, it was reusable and capable of magnetic separation. Adsorption kinetics fit well with a pseudo-second-order kinetic equation and also exhibited a three-stage intra-particle diffusion model. The Freundlich model was used to describe the adsorption isotherms. The materials were successfully applied to the magnetic dispersive solid-phase extraction of six kinds of PCBs followed by gas chromatography with mass spectrometry determination in fish samples, the limit of detection of six kinds of PCBs were 0.0028-0.0068 μg/L and spiked recoveries ranged between 73.41 and 114.21%. The prepared adsorbent was expected to be a new material for the removal and recovery of PCBs from contaminated foods.

  17. Water-compatible dummy molecularly imprinted resin prepared in aqueous solution for green miniaturized solid-phase extraction of plant growth regulators.

    Science.gov (United States)

    Wang, Mingyu; Chang, Xiaochen; Wu, Xingyu; Yan, Hongyuan; Qiao, Fengxia

    2016-08-01

    A water-compatible dummy molecularly imprinted resin (MIR) was synthesized in water using melamine, urea, and formaldehyde as hydrophilic monomers of co-polycondensation. A triblock copolymer (PEO-PPO-PEO, P123) was used as porogen to dredge the network structure of MIR, and N-(1-naphthyl) ethylenediamine dihydrochloride, which has similar shape and size to the target analytes, was the dummy template of molecular imprinting. The obtained MIR was used as the adsorbent in a green miniaturized solid-phase extraction (MIR⬜mini-SPE) of plant growth regulators, and there was no organic solvent used in the entire MIR⬜mini-SPE procedure. The calibration linearity of MIR⬜mini-SPE⬜HPLC method was obtained in a range 5⬜250ngmL(↙1) for IAA, IPA, IBA, and NAA with correlation coefficient (r) Ⱕ0.9998. Recoveries at three spike levels are in the range of 87.6⬜100.0% for coconut juice with relative standard deviations Ⱔ8.1%. The MIR⬜mini-SPE method possesses the advantages of environmental friendliness, simple operation, and high efficiency, so it is potential to apply the green pretreatment strategy to extraction of trace analytes in aqueous samples.

  18. Glyoxal-Urea-Formaldehyde Molecularly Imprinted Resin as Pipette Tip Solid-Phase Extraction Adsorbent for Selective Screening of Organochlorine Pesticides in Spinach.

    Science.gov (United States)

    Yang, Chen; Lv, Tianwei; Yan, Hongyuan; Wu, Gaochan; Li, Haonan

    2015-11-01

    A new kind of glyoxal-urea-formaldehyde molecularly imprinted resin (GUF-MIR) was synthesized by a glyoxal-urea-formaldehyde (GUF) gel imprinting method with 4,4'-dichlorobenzhydrol as a dummy template. The obtained GUF-MIR was characterized by scanning electron microscopy (SEM) and Fourier transform infrared spectroscopy (FT-IR) and applied as a selective adsorbent of miniaturized pipet tip solid-phase extraction (PT-SPE) for the separation and extraction of three organochlorine pesticides (dicofol (DCF), dichlorodiphenyl dichloroethane (DDD), and tetradifon) in spinach samples. The proposed pretreatment procedures of spinach samples involved only 5.0 mg of GUF-MIR, 0.7 mL of MeOH-H2O (1:1, v/v) (washing solvent), and 0.6 mL of cyclohexane-ethyl acetate (9:1, v/v) (elution solvent). In comparison with other adsorbents (such as silica gel, C18, NH2-silica gel, and neutral alumina (Al2O3-N)), GUF-MIR showed higher adsorption and purification capacity for DCF, DDD, and tetradifon in aqueous solution. The average recoveries at three spiked levels ranged from 89.1% to 101.9% with relative standard deviations (RSDs) ≤ 7.1% (n = 3). The presented GUF-MIR-PT-SPE method combines the advantages of molecularly imprinted polymers (MIPs), GUF, and PT-SPE and can be used in polar solutions with high affinity and selectivity to the analytes in complex samples.

  19. Analysis of Benzo[a]pyrene in Vegetable Oils Using Molecularly Imprinted Solid Phase Extraction (MISPE Coupled with Enzyme-Linked Immunosorbent Assay (ELISA

    Directory of Open Access Journals (Sweden)

    Michael Pschenitza

    2014-05-01

    Full Text Available This paper describes the development of a molecularly imprinted polymer-based solid phase extraction (MISPE method coupled with enzyme-linked immunosorbent assay (ELISA for determination of the PAH benzo[a]pyrene (B[a]P in vegetable oils. Different molecularly imprinted polymers (MIPs were prepared using non-covalent 4-vinylpyridine/divinylbenzene co-polymerization at different ratios and dichloromethane as porogen. Imprinting was done with a template mixture of phenanthrene and pyrene yielding a broad-specific polymer for PAHs with a maximum binding capacity (Q of ~32 μg B[a]P per 50 mg of polymer. The vegetable oil/n-hexane mixture (1:1, (v/v was pre-extracted with acetonitrile, the solvent evaporated, the residue reconstituted in n-hexane and subjected to MISPE. The successive washing with n-hexane and isopropanol revealed most suitable to remove lipid matrix constituents. After elution of bound PAHs from MISPE column with dichloromethane, the solvent was evaporated, the residue reconstituted with dimethyl sulfoxide and diluted 100-fold with methanol/water (10:90, (v/v for analysis of B[a]P equivalents with an ELISA. The B[a]P recovery rates in spiked vegetable oil samples of different fatty acid composition were determined between 63% and 114%. The presence of multiple PAHs in the oil sample, because of MIP selectivity and cross-reactivity of the ELISA, could yield overestimated B[a]P values.

  20. A novel surface molecularly imprinted polymer as the solid-phase extraction adsorbent for the selective determination of ampicillin sodium in milk and blood samples

    Directory of Open Access Journals (Sweden)

    Ningli Wu

    2016-06-01

    Full Text Available Surface molecularly imprinted polymers (SMIPs for selective adsorption of ampicillin sodium were synthesized using surface molecular imprinting technique with silica gel as a support. The physical and morphological characteristics of the polymers were investigated by scanning electron microscope (SEM, Fourier transform infrared spectroscopy (FT-IR, thermogravimetric analysis (TGA, elemental analysis and nitrogen adsorption–desorption test. The obtained results showed that the SMIPs displayed great adsorption capacity (13.5 μg/mg, high recognition ability (the imprinted factor is 3.2 and good binding kinetics for ampicillin sodium. Finally, as solid phase extraction adsorbents, the SMIPs coupled with HPLC method were validated and applied for the enrichment, purification and determination of ampicillin sodium in real milk and blood samples. The averages of spiked accuracy ranged from 92.1% to 107.6%. The relative standard deviations of intra- and inter-day precisions were less than 4.6%. This study provides a new and promising method for enriching, extracting and determining ampicillin sodium in complex biological samples.

  1. A novel surface molecularly imprinted polymer as the solid-phase extraction adsorbent for the selective determination of ampicillin sodium in milk and blood samples$

    Institute of Scientific and Technical Information of China (English)

    Ningli Wu; Qiang Fu; Zhimin Luo; Yanhui Ge; Pengqi Guo; Kangli Du; Weili Tang; Wei Du; Aiguo Zeng; Chun Chang

    2016-01-01

    Surface molecularly imprinted polymers (SMIPs) for selective adsorption of ampicillin sodium were synthesized using surface molecular imprinting technique with silica gel as a support. The physical and morphological characteristics of the polymers were investigated by scanning electron microscope (SEM), Fourier transform infrared spectroscopy (FT-IR), thermogravimetric analysis (TGA), elemental analysis and nitrogen adsorption–desorption test. The obtained results showed that the SMIPs displayed great adsorption capacity (13.5μg/mg), high recognition ability (the imprinted factor is 3.2) and good binding kinetics for ampicillin sodium. Finally, as solid phase extraction adsorbents, the SMIPs coupled with HPLC method were validated and applied for the enrichment, purification and determination of ampicillin sodium in real milk and blood samples. The averages of spiked accuracy ranged from 92.1%to 107.6%. The relative standard deviations of intra-and inter-day precisions were less than 4.6%. This study provides a new and promising method for enriching, extracting and determining ampicillin sodium in complex biological samples.

  2. On automatic machine translation evaluation

    Directory of Open Access Journals (Sweden)

    Darinka Verdonik

    2013-05-01

    Full Text Available An important task of developing machine translation (MT is evaluating system performance. Automatic measures are most commonly used for this task, as manual evaluation is time-consuming and costly. However, to perform an objective evaluation is not a trivial task. Automatic measures, such as BLEU, TER, NIST, METEOR etc., have their own weaknesses, while manual evaluations are also problematic since they are always to some extent subjective. In this paper we test the influence of a test set on the results of automatic MT evaluation for the subtitling domain. Translating subtitles is a rather specific task for MT, since subtitles are a sort of summarization of spoken text rather than a direct translation of (written text. Additional problem when translating language pair that does not include English, in our example Slovene-Serbian, is that commonly the translations are done from English to Serbian and from English to Slovenian, and not directly, since most of the TV production is originally filmed in English. All this poses additional challenges to MT and consequently to MT evaluation. Automatic evaluation is based on a reference translation, which is usually taken from an existing parallel corpus and marked as a test set. In our experiments, we compare the evaluation results for the same MT system output using three types of test set. In the first round, the test set are 4000 subtitles from the parallel corpus of subtitles SUMAT. These subtitles are not direct translations from Serbian to Slovene or vice versa, but are based on an English original. In the second round, the test set are 1000 subtitles randomly extracted from the first test set and translated anew, from Serbian to Slovenian, based solely on the Serbian written subtitles. In the third round, the test set are the same 1000 subtitles, however this time the Slovene translations were obtained by manually correcting the Slovene MT outputs so that they are correct translations of the

  3. A molecularly imprinted polymer as the sorptive phase immobilized in a rotating disk extraction device for the determination of diclofenac and mefenamic acid in wastewater

    Energy Technology Data Exchange (ETDEWEB)

    Manzo, Valentina; Ulisse, Karla [Department of Inorganic and Analytical Chemistry, Faculty of Chemical and Pharmaceutical Sciences, University of Chile, P.O. Box 653, Santiago (Chile); Rodríguez, Inés [Department of Analytical and Inorganic Chemistry, Faculty of Chemical Sciences, University of Concepción (Chile); Pereira, Eduardo, E-mail: epereira@udec.cl [Department of Analytical and Inorganic Chemistry, Faculty of Chemical Sciences, University of Concepción (Chile); Richter, Pablo, E-mail: prichter@ciq.uchile.cl [Department of Inorganic and Analytical Chemistry, Faculty of Chemical and Pharmaceutical Sciences, University of Chile, P.O. Box 653, Santiago (Chile)

    2015-08-19

    The microextraction of diclofenac and mefenamic acid from water samples was performed by using rotating disk sorptive extraction (RDSE) with molecularly imprinted polymer (MIP) as the sorptive phase. The MIP was synthesized from the monomer 1-vinylimidazol (VI) together with the cross-linker divinylbenzene (DVB) using diphenylamine as the template molecule. Scanning electron microscopy (SEM) analyses of the MIP revealed clusters of spherical particles having a narrow size distribution, with diameters of approximately 1 μm. The optimized extraction conditions involved a disk rotation velocity of 3000 rpm, an extraction time of 120 min, a sample volume of 50 mL, and a sample pH of 2 as well as 25 mg of MIP immobilized in the disk. Desorption of the extracted analytes was performed with 5 mL of methanol for 10 min. Analysis by gas chromatography-mass spectrometry (GC–MS) was carried out after derivatization of the analytes with N-tert-butyldimethylsilyl-N-methyltrifluoroacetamide (MTBSTFA). Nonmolecularly imprinted polymer (NIP) was also synthesized for comparison. It was observed that under the same conditions, MIP extracted significantly more NSAIDs containing diphenylamine (or part of this molecule) in their structure than NIP. Higher significant differences between MIP and NIP were observed for diclofenac, mefenamic acid and paracetamol, clearly indicating the effect of the template on the extraction. Recoveries of the method were between 100 and 112%, with relative standard deviations of 5–6%. The limits of detection were between 60 and 223 ng L{sup −1}. Water samples from a wastewater treatment plant (WWTP) of Santiago de Chile, were found to contain concentrations of these acidic drugs between 1.6 and 4.3 μg L{sup −1} and between 1.4 and 3.3 μg L{sup −1} in the influent and effluent, respectively. - Highlights: • A MIP immobilized in a rotating disk sucessfully extracts NSAIDs from wastewater. • MIP had remarkably superior binding

  4. EFFECT OF MOLECULAR OXYGEN ON ADSORPTIVE CAPACITY AND EXTRACTION EFFICIENCY OF GRANULATED ACTIVATED CARBON FOR THREE ORTHO-SUBSTITUTED PHENOLS

    Science.gov (United States)

    Adsorptive capacity of activated carbon for several organic compounds was found to be strongly influenced by the presence of molecular oxygen. This influence is manifested by the polymerization of adsorbate on the surface of activated carbon. As a result, GAC exhibits much high...

  5. Automatic Planning of External Search Engine Optimization

    Directory of Open Access Journals (Sweden)

    Vita Jasevičiūtė

    2015-07-01

    Full Text Available This paper describes an investigation of the external search engine optimization (SEO action planning tool, dedicated to automatically extract a small set of most important keywords for each month during whole year period. The keywords in the set are extracted accordingly to external measured parameters, such as average number of searches during the year and for every month individually. Additionally the position of the optimized web site for each keyword is taken into account. The generated optimization plan is similar to the optimization plans prepared manually by the SEO professionals and can be successfully used as a support tool for web site search engine optimization.

  6. Research on automatic human chromosome image analysis

    Science.gov (United States)

    Ming, Delie; Tian, Jinwen; Liu, Jian

    2007-11-01

    Human chromosome karyotyping is one of the essential tasks in cytogenetics, especially in genetic syndrome diagnoses. In this thesis, an automatic procedure is introduced for human chromosome image analysis. According to different status of touching and overlapping chromosomes, several segmentation methods are proposed to achieve the best results. Medial axis is extracted by the middle point algorithm. Chromosome band is enhanced by the algorithm based on multiscale B-spline wavelets, extracted by average gray profile, gradient profile and shape profile, and calculated by the WDD (Weighted Density Distribution) descriptors. The multilayer classifier is used in classification. Experiment results demonstrate that the algorithms perform well.

  7. Salting-out assisted liquid-liquid extraction and partial least squares regression to assay low molecular weight polycyclic aromatic hydrocarbons leached from soils and sediments

    Science.gov (United States)

    Bressan, Lucas P.; do Nascimento, Paulo Cícero; Schmidt, Marcella E. P.; Faccin, Henrique; de Machado, Leandro Carvalho; Bohrer, Denise

    2017-02-01

    A novel method was developed to determine low molecular weight polycyclic aromatic hydrocarbons in aqueous leachates from soils and sediments using a salting-out assisted liquid-liquid extraction, synchronous fluorescence spectrometry and a multivariate calibration technique. Several experimental parameters were controlled and the optimum conditions were: sodium carbonate as the salting-out agent at concentration of 2 mol L- 1, 3 mL of acetonitrile as extraction solvent, 6 mL of aqueous leachate, vortexing for 5 min and centrifuging at 4000 rpm for 5 min. The partial least squares calibration was optimized to the lowest values of root mean squared error and five latent variables were chosen for each of the targeted compounds. The regression coefficients for the true versus predicted concentrations were higher than 0.99. Figures of merit for the multivariate method were calculated, namely sensitivity, multivariate detection limit and multivariate quantification limit. The selectivity was also evaluated and other polycyclic aromatic hydrocarbons did not interfere in the analysis. Likewise, high performance liquid chromatography was used as a comparative methodology, and the regression analysis between the methods showed no statistical difference (t-test). The proposed methodology was applied to soils and sediments of a Brazilian river and the recoveries ranged from 74.3% to 105.8%. Overall, the proposed methodology was suitable for the targeted compounds, showing that the extraction method can be applied to spectrofluorometric analysis and that the multivariate calibration is also suitable for these compounds in leachates from real samples.

  8. To Remove or Not to Remove? The Challenge of Extracting the Template to Make the Cavities Available in Molecularly Imprinted Polymers (MIPs

    Directory of Open Access Journals (Sweden)

    Angel Concheiro

    2011-07-01

    Full Text Available Template removal is a critical step in the preparation of most molecularly imprinted polymers (MIPs. The polymer network itself and the affinity of the imprinted cavities for the template make its removal hard. If there are remaining template molecules in the MIPs, less cavities will be available for rebinding, which decreases efficiency. Furthermore, if template bleeding occurs during analytical applications, errors will arise. Despite the relevance to the MIPs performance, template removal has received scarce attention and is currently the least cost-effective step of the MIP development. Attempts to reach complete template removal may involve the use of too drastic conditions in conventional extraction techniques, resulting in the damage or the collapse of the imprinted cavities. Advances in the extraction techniques in the last decade may provide optimized tools. The aim of this review is to analyze the available data on the efficiency of diverse extraction techniques for template removal, paying attention not only to the removal yield but also to MIPs performance. Such an analysis is expected to be useful for opening a way to rational approaches for template removal (minimizing the costs of solvents and time instead of the current trial-and-error methods.

  9. Structural Characterization and Antioxidative Activity of Low-Molecular-Weights Beta-1,3-Glucan from the Residue of Extracted Ganoderma lucidum Fruiting Bodies

    Directory of Open Access Journals (Sweden)

    Pai-Feng Kao

    2012-01-01

    Full Text Available The major cell wall constituent of Ganoderma lucidum (G. lucidum is β-1,3-glucan. This study examined the polysaccharide from the residues of alkaline-extracted fruiting bodies using high-performance anion-exchange chromatography (HPAEC, and it employed nuclear magnetic resonance (NMR and mass spectrometry (MS to confirm the structures. We have successfully isolated low-molecular-weight β-1,3-glucan (LMG, in high yields, from the waste residue of extracted fruiting bodies of G. lucidum. The 3-(4,5-dimethylthiazol-2-yl-2,5-diphenyl tetrazolium bromide (MTT assay evaluated the capability of LMG to suppress H2O2-induced cell death in RAW264.7 cells, identifying that LMG protected cells from H2O2-induced damage. LMG treatment decreased H2O2-induced intracellular reactive oxygen species (ROS production. LMG also influenced sphingomyelinase (SMase activity, stimulated by cell death to induce ceramide formation, and then increase cell ROS production. Estimation of the activities of neutral and acid SMases in vitro showed that LMG suppressed the activities of both neutral and acid SMases in a concentration-dependent manner. These results suggest that LMG, a water-soluble β-1,3-glucan recycled from extracted residue of G. lucidum, possesses antioxidant capability against H2O2-induced cell death by attenuating intracellular ROS and inhibiting SMase activity.

  10. On-line restricted access molecularly imprinted solid phase extraction of ivermectin in meat samples followed by HPLC-UV analysis.

    Science.gov (United States)

    de Lima, Marcela Marília; Vieira, André Coutinho; Martins, Isarita; Boralli, Vanessa Bergamin; Borges, Keyll