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Sample records for automatically extracting molecular

  1. Automatic Keyword Extraction from Individual Documents

    Energy Technology Data Exchange (ETDEWEB)

    Rose, Stuart J.; Engel, David W.; Cramer, Nicholas O.; Cowley, Wendy E.

    2010-05-03

    This paper introduces a novel and domain-independent method for automatically extracting keywords, as sequences of one or more words, from individual documents. We describe the method’s configuration parameters and algorithm, and present an evaluation on a benchmark corpus of technical abstracts. We also present a method for generating lists of stop words for specific corpora and domains, and evaluate its ability to improve keyword extraction on the benchmark corpus. Finally, we apply our method of automatic keyword extraction to a corpus of news articles and define metrics for characterizing the exclusivity, essentiality, and generality of extracted keywords within a corpus.

  2. Automatic liquid-liquid extraction system

    International Nuclear Information System (INIS)

    This invention concerns an automatic liquid-liquid extraction system ensuring great reproducibility on a number of samples, stirring and decanting of the two liquid phases, then the quantitative removal of the entire liquid phase present in the extraction vessel at the end of the operation. This type of system has many applications, particularly in carrying out analytical processes comprising a stage for the extraction, by means of an appropriate solvent, of certain components of the sample under analysis

  3. An automatic system for multielement solvent extractions

    International Nuclear Information System (INIS)

    The automatic system described is suitable for multi-element separations by solvent extraction techniques with organic solvents heavier than water. The analysis is run automatically by a central control unit and includes steps such as pH regulation and reduction or oxidation. As an example, the separation of radioactive Hg2+, Cu2+, Mo6+, Cd2+, As5+, Sb5+, Fe3+, and Co3+ by means of diethyldithiocarbonate complexes is reported. (Auth.)

  4. Automatic Keywords Extraction for Punjabi Language

    Directory of Open Access Journals (Sweden)

    Vishal Gupta

    2011-09-01

    Full Text Available Automatic keywords extraction is the task to identify a small set of words, key phrases, keywords, or key segments from a document that can describe the meaning of the document. Keywords are useful tools as they give the shortest summary of the document. This paper concentrates on Automatic keywords extraction for Punjabi language text. It includes various phases like removing stop words, Identification of Punjabi nouns and noun stemming, Calculation of Term Frequency and Inverse Sentence Frequency (TF-ISF, Punjabi keywords as nouns with high TF-ISF score and title/headline feature for Punjabi text. The extracted keywords are very much helpful in automatic indexing, text summarization, information retrieval, classification, clustering, topic detection and tracking and web searches etc.

  5. 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.

  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 Planetary Image Features

    Science.gov (United States)

    Troglio, G.; LeMoigne, J.; Moser, G.; Serpico, S. B.; Benediktsson, J. A.

    2009-01-01

    With the launch of several Lunar missions such as the Lunar Reconnaissance Orbiter (LRO) and Chandrayaan-1, a large amount of Lunar images will be acquired and will need to be analyzed. Although many automatic feature extraction methods have been proposed and utilized for Earth remote sensing images, these methods are not always applicable to Lunar data that often present low contrast and uneven illumination characteristics. In this paper, we propose a new method for the extraction of Lunar features (that can be generalized to other planetary images), based on the combination of several image processing techniques, a watershed segmentation and the generalized Hough Transform. This feature extraction has many applications, among which image registration.

  9. Automatic Feature Extraction from Planetary Images

    Science.gov (United States)

    Troglio, Giulia; Le Moigne, Jacqueline; Benediktsson, Jon A.; Moser, Gabriele; Serpico, Sebastiano B.

    2010-01-01

    With the launch of several planetary missions in the last decade, a large amount of planetary images has already been acquired and much more will be available for analysis in the coming years. The image data need to be analyzed, preferably by automatic processing techniques because of the huge amount of data. Although many automatic feature extraction methods have been proposed and utilized for Earth remote sensing images, these methods are not always applicable to planetary data that often present low contrast and uneven illumination characteristics. Different methods have already been presented for crater extraction from planetary images, but the detection of other types of planetary features has not been addressed yet. Here, we propose a new unsupervised method for the extraction of different features from the surface of the analyzed planet, based on the combination of several image processing techniques, including a watershed segmentation and the generalized Hough Transform. The method has many applications, among which image registration and can be applied to arbitrary planetary images.

  10. 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…

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

    OpenAIRE

    Haijian Chen; Dongmei Han; Yonghui Dai; Lina Zhao

    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 ...

  12. Automatic ion extraction from high-frequency ion source

    International Nuclear Information System (INIS)

    A description and results of tests of device for automatic extraction of ions from a high-frequency ion source are presented. The automatic regime is realized by introducing feedback with respect to the current of the source cathode and requires low sinusoidal modulation of the exctracting voltage. By varying the power of the discharge the beam current was controlled in the 90-1470μA range with automatic preservation of the optimal conditions in the extraction system. The device was used on a 210-kV neutron generator

  13. Morphological method for automatic extraction of the coronary arteries

    International Nuclear Information System (INIS)

    Coronary arteriography is a clinically important diagnostic tool for the evaluation of coronary artery disease, and can provide detailed information. For the quantitative assessment of the coronary arteriograms. Several studies concerning the extraction of vessel edges have been published, and automatic extraction of vessel edges has been used in clinical diagnostic systems. However, these methods are not satisfactory, because manual modification by the operator is unavoidable in some cases. To reduce manual operation, accurate and automatic extraction of the coronary arteries is necessary. In this paper, we propose a new technique for automatic extraction of the coronary arteries using morphological operators. This method includes the following steps: contrast enhancement using a morphological Top-Hat operator, enhancement of thin vessels and reduction of pulse noise using a morphological erosion operator, elimination of obvious background pixels by semi-binary thresholding, and extraction of the coronary arteries by labeling and counting the area. (author)

  14. Automatic fault extraction using a modified ant-colony algorithm

    International Nuclear Information System (INIS)

    The basis of automatic fault extraction is seismic attributes, such as the coherence cube which is always used to identify a fault by the minimum value. The biggest challenge in automatic fault extraction is noise, including that of seismic data. However, a fault has a better spatial continuity in certain direction, which makes it quite different from noise. Considering this characteristic, a modified ant-colony algorithm is introduced into automatic fault identification and tracking, where the gradient direction and direction consistency are used as constraints. Numerical model test results show that this method is feasible and effective in automatic fault extraction and noise suppression. The application of field data further illustrates its validity and superiority. (paper)

  15. 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.

  16. Automatic extraction of left ventricular contours from MRI images

    International Nuclear Information System (INIS)

    In the MRI cardiac function analysis, left ventricular volume curves and diagnostic parameters are obtained by extracting the left ventricular cavities as regions of interest (ROI) from the MR cine images. The ROI extractions had to be done by manual operations, so the examination efficiency and data analysis reproducibility were poor in diagnoses on site. In this paper, we outline an automatic extraction method for the left ventricular contours from MR cine images to improve cardiac function diagnosis. With this method, the operator needs to manually indicate only 3 points on the 1st image, and can then get all the contours from the total sequence of images automatically. (author)

  17. Automatic target extraction in complicated background for camera calibration

    Science.gov (United States)

    Guo, Xichao; Wang, Cheng; Wen, Chenglu; Cheng, Ming

    2016-03-01

    In order to perform high precise calibration of camera in complex background, a novel design of planar composite target and the corresponding automatic extraction algorithm are presented. Unlike other commonly used target designs, the proposed target contains the information of feature point coordinate and feature point serial number simultaneously. Then based on the original target, templates are prepared by three geometric transformations and used as the input of template matching based on shape context. Finally, parity check and region growing methods are used to extract the target as final result. The experimental results show that the proposed method for automatic extraction and recognition of the proposed target is effective, accurate and reliable.

  18. 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...

  19. Automatic extraction of left ventricle in SPECT myocardial perfusion imaging

    International Nuclear Information System (INIS)

    An automatic method of extracting left ventricle from SPECT myocardial perfusion data was introduced. This method was based on the least square analysis of the positions of all short-axis slices pixels from the half sphere-cylinder myocardial model, and used a iterative reconstruction technique to automatically cut off the non-left ventricular tissue from the perfusion images. Thereby, this technique provided the bases for further quantitative analysis

  20. 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

  1. Automatic Eye Extraction in Human Face Images

    Institute of Scientific and Technical Information of China (English)

    LIU Rujie; YUAN Baozong

    2001-01-01

    This paper presents a fuzzy-basedmethod to locate the position and the size of irises ina head-shoulder image with plain background. Thismethod is composed of two stages: the face region es-timation stage and the eye feature extraction stage.In the first stage, a region growing method is adoptedto estimate the face region. In the second stage, thecoarse eye area is firstly extracted based on the loca-tion of the nasion, and the deformable template al-gorithm is then applied to eye area to determine theposition and the size of irises. Experimental resultsshow the efficiency and robustness of this method.

  2. A Risk Assessment System with Automatic Extraction of Event Types

    Science.gov (United States)

    Capet, Philippe; Delavallade, Thomas; Nakamura, Takuya; Sandor, Agnes; Tarsitano, Cedric; Voyatzi, Stavroula

    In this article we describe the joint effort of experts in linguistics, information extraction and risk assessment to integrate EventSpotter, an automatic event extraction engine, into ADAC, an automated early warning system. By detecting as early as possible weak signals of emerging risks ADAC provides a dynamic synthetic picture of situations involving risk. The ADAC system calculates risk on the basis of fuzzy logic rules operated on a template graph whose leaves are event types. EventSpotter is based on a general purpose natural language dependency parser, XIP, enhanced with domain-specific lexical resources (Lexicon-Grammar). Its role is to automatically feed the leaves with input data.

  3. 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.

  4. 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.

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

    OpenAIRE

    Chuqing Cao; Ying Sun

    2014-01-01

    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....

  6. 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

  7. 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.

  8. 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. PMID:26448738

  9. 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.

  10. 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.

  11. 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.

  12. Automatic local Gabor Features extraction for face recognition

    CERN Document Server

    Jemaa, Yousra Ben

    2009-01-01

    We present in this paper a biometric system of face detection and recognition in color images. The face detection technique is based on skin color information and fuzzy classification. A new algorithm is proposed in order to detect automatically face features (eyes, mouth and nose) and extract their correspondent geometrical points. These fiducial points are described by sets of wavelet components which are used for recognition. To achieve the face recognition, we use neural networks and we study its performances for different inputs. We compare the two types of features used for recognition: geometric distances and Gabor coefficients which can be used either independently or jointly. This comparison shows that Gabor coefficients are more powerful than geometric distances. We show with experimental results how the importance recognition ratio makes our system an effective tool for automatic face detection and recognition.

  13. Automatic object extraction over multiscale edge field for multimedia retrieval.

    Science.gov (United States)

    Kiranyaz, Serkan; Ferreira, Miguel; Gabbouj, Moncef

    2006-12-01

    In this work, we focus on automatic extraction of object boundaries from Canny edge field for the purpose of content-based indexing and retrieval over image and video databases. A multiscale approach is adopted where each successive scale provides further simplification of the image by removing more details, such as texture and noise, while keeping major edges. At each stage of the simplification, edges are extracted from the image and gathered in a scale-map, over which a perceptual subsegment analysis is performed in order to extract true object boundaries. The analysis is mainly motivated by Gestalt laws and our experimental results suggest a promising performance for main objects extraction, even for images with crowded textural edges and objects with color, texture, and illumination variations. Finally, integrating the whole process as feature extraction module into MUVIS framework allows us to test the mutual performance of the proposed object extraction method and subsequent shape description in the context of multimedia indexing and retrieval. A promising retrieval performance is achieved, and especially in some particular examples, the experimental results show that the proposed method presents such a retrieval performance that cannot be achieved by using other features such as color or texture. PMID:17153949

  14. Feature extraction and classification in automatic weld seam radioscopy

    International Nuclear Information System (INIS)

    The investigations conducted have shown that automatic feature extraction and classification procedures permit the identification of weld seam flaws. Within this context the favored learning fuzzy classificator represents a very good alternative to conventional classificators. The results have also made clear that improvements mainly in the field of image registration are still possible by increasing the resolution of the radioscopy system. Since, only if the flaw is segmented correctly, i.e. in its full size, and due to improved detail recognizability and sufficient contrast difference will an almost error-free classification be conceivable. (orig./MM)

  15. Morphological Feature Extraction for Automatic Registration of Multispectral Images

    Science.gov (United States)

    Plaza, Antonio; LeMoigne, Jacqueline; Netanyahu, Nathan S.

    2007-01-01

    The task of image registration can be divided into two major components, i.e., the extraction of control points or features from images, and the search among the extracted features for the matching pairs that represent the same feature in the images to be matched. Manual extraction of control features can be subjective and extremely time consuming, and often results in few usable points. On the other hand, automated feature extraction allows using invariant target features such as edges, corners, and line intersections as relevant landmarks for registration purposes. In this paper, we present an extension of a recently developed morphological approach for automatic extraction of landmark chips and corresponding windows in a fully unsupervised manner for the registration of multispectral images. Once a set of chip-window pairs is obtained, a (hierarchical) robust feature matching procedure, based on a multiresolution overcomplete wavelet decomposition scheme, is used for registration purposes. The proposed method is validated on a pair of remotely sensed scenes acquired by the Advanced Land Imager (ALI) multispectral instrument and the Hyperion hyperspectral instrument aboard NASA's Earth Observing-1 satellite.

  16. 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.

  17. Automatically extracting functionally equivalent proteins from SwissProt

    Directory of Open Access Journals (Sweden)

    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

  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. 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.

  20. Layer-Wise Floorplan Extraction for Automatic Urban Building Reconstruction.

    Science.gov (United States)

    Sui, Wei; Wang, Lingfeng; Fan, Bin; Xiao, Hongfei; Wu, Huaiyu; Pan, Chunhong

    2016-03-01

    Urban building reconstruction is an important step for urban digitization and realisticvisualization. In this paper, we propose a novel automatic method to recover urban building geometry from 3D point clouds. The proposed method is suitable for buildings composed of planar polygons and aligned with the gravity direction, which are quite common in the city. Our key observation is that the building shapes are usually piecewise constant along the gravity direction and determined by several dominant shapes. Based on this observation, we formulate building reconstruction as an energy minimization problem under the Markov Random Field (MRF) framework. Specifically, point clouds are first cutinto a sequence of slices along the gravity direction. Then, floorplans are reconstructed by extracting boundaries of these slices, among which dominant floorplans are extracted and propagated to other floors via MRF. To guarantee correct propagation, a new distance measurement for floorplans is designed, which first encodes floorplans into strings and then calculates distances between their corresponding strings. Additionally, an image based editing method is also proposed to recover detailed window structures. Experimental results on both synthetic and real data sets have validated the effectiveness of our method. PMID:26661472

  1. Automatic Building Extraction From LIDAR Data Covering Complex Urban Scenes

    Science.gov (United States)

    Awrangjeb, M.; Lu, G.; Fraser, C.

    2014-08-01

    This paper presents a new method for segmentation of LIDAR point cloud data for automatic building extraction. Using the ground height from a DEM (Digital Elevation Model), the non-ground points (mainly buildings and trees) are separated from the ground points. Points on walls are removed from the set of non-ground points by applying the following two approaches: If a plane fitted at a point and its neighbourhood is perpendicular to a fictitious horizontal plane, then this point is designated as a wall point. When LIDAR points are projected on a dense grid, points within a narrow area close to an imaginary vertical line on the wall should fall into the same grid cell. If three or more points fall into the same cell, then the intermediate points are removed as wall points. The remaining non-ground points are then divided into clusters based on height and local neighbourhood. One or more clusters are initialised based on the maximum height of the points and then each cluster is extended by applying height and neighbourhood constraints. Planar roof segments are extracted from each cluster of points following a region-growing technique. Planes are initialised using coplanar points as seed points and then grown using plane compatibility tests. If the estimated height of a point is similar to its LIDAR generated height, or if its normal distance to a plane is within a predefined limit, then the point is added to the plane. Once all the planar segments are extracted, the common points between the neghbouring planes are assigned to the appropriate planes based on the plane intersection line, locality and the angle between the normal at a common point and the corresponding plane. A rule-based procedure is applied to remove tree planes which are small in size and randomly oriented. The neighbouring planes are then merged to obtain individual building boundaries, which are regularised based on long line segments. Experimental results on ISPRS benchmark data sets show that the

  2. 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.

  3. 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....

  4. Study on automatic control of high uranium concentration solvent extraction with pulse sieve-plate column

    International Nuclear Information System (INIS)

    The author mainly described the working condition of the automatic control system of high uranium concentration solvent extraction with pulse sieve-plate column on a large scale test. The use of the automatic instrument and meter, automatic control circuit, and the best feedback control point of the solvent extraction processing with pulse sieve-plate column are discussed in detail. The writers point out the success of this experiment on automation, also present some questions that should be cared for the automatic control, instruments and meters in production in the future

  5. 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.

  6. Automatic archaeological feature extraction from satellite VHR images

    Science.gov (United States)

    Jahjah, Munzer; Ulivieri, Carlo

    2010-05-01

    Archaeological applications need a methodological approach on a variable scale able to satisfy the intra-site (excavation) and the inter-site (survey, environmental research). The increased availability of high resolution and micro-scale data has substantially favoured archaeological applications and the consequent use of GIS platforms for reconstruction of archaeological landscapes based on remotely sensed data. Feature extraction of multispectral remotely sensing image is an important task before any further processing. High resolution remote sensing data, especially panchromatic, is an important input for the analysis of various types of image characteristics; it plays an important role in the visual systems for recognition and interpretation of given data. The methods proposed rely on an object-oriented approach based on a theory for the analysis of spatial structures called mathematical morphology. The term "morphology" stems from the fact that it aims at analysing object shapes and forms. It is mathematical in the sense that the analysis is based on the set theory, integral geometry, and lattice algebra. Mathematical morphology has proven to be a powerful image analysis technique; two-dimensional grey tone images are seen as three-dimensional sets by associating each image pixel with an elevation proportional to its intensity level. An object of known shape and size, called the structuring element, is then used to investigate the morphology of the input set. This is achieved by positioning the origin of the structuring element to every possible position of the space and testing, for each position, whether the structuring element either is included or has a nonempty intersection with the studied set. The shape and size of the structuring element must be selected according to the morphology of the searched image structures. Other two feature extraction techniques were used, eCognition and ENVI module SW, in order to compare the results. These techniques were

  7. Automatic molecular structure perception for the universal force field.

    Science.gov (United States)

    Artemova, Svetlana; Jaillet, Léonard; Redon, Stephane

    2016-05-15

    The Universal Force Field (UFF) is a classical force field applicable to almost all atom types of the periodic table. Such a flexibility makes this force field a potential good candidate for simulations involving a large spectrum of systems and, indeed, UFF has been applied to various families of molecules. Unfortunately, initializing UFF, that is, performing molecular structure perception to determine which parameters should be used to compute the UFF energy and forces, appears to be a difficult problem. Although many perception methods exist, they mostly focus on organic molecules, and are thus not well-adapted to the diversity of systems potentially considered with UFF. In this article, we propose an automatic perception method for initializing UFF that includes the identification of the system's connectivity, the assignment of bond orders as well as UFF atom types. This perception scheme is proposed as a self-contained UFF implementation integrated in a new module for the SAMSON software platform for computational nanoscience (http://www.samson-connect.net). We validate both the automatic perception method and the UFF implementation on a series of benchmarks. PMID:26927616

  8. Feature extraction of musical content for automatic music transcription

    OpenAIRE

    Zhou, Ruohua; Mattavelli, Marco

    2007-01-01

    The purpose of this thesis is to develop new methods for automatic transcription of melody and harmonic parts of real-life music signal. Music transcription is here defined as an act of analyzing a piece of music signal and writing down the parameter representations, which indicate the pitch, onset time and duration of each pitch, loudness and instrument applied in the analyzed music signal. The proposed algorithms and methods aim at resolving two key sub-problems in automatic music transcrip...

  9. Feature extraction of musical content for automatic music transcription

    OpenAIRE

    Zhou, Ruohua

    2006-01-01

    The purpose of this thesis is to develop new methods for automatic transcription of melody and harmonic parts of real-life music signal. Music transcription is here defined as an act of analyzing a piece of music signal and writing down the parameter representations, which indicate the pitch, onset time and duration of each pitch, loudness and instrument applied in the analyzed music signal. The proposed algorithms and methods aim at resolving two key sub-problems in automatic music transcrip...

  10. Development of automatic extraction method of left ventricular contours on long axis view MR cine images

    International Nuclear Information System (INIS)

    In the MRI cardiac function analysis, left ventricular volume curves and diagnosis parameters are obtained by extracting the left ventricular cavities as regions of interest (ROI) from long axis view MR cine images. The ROI extractions had to be done by manual operations, because automatization of the extraction is difficult. A long axis view left ventricular contour consists of a cardiac wall part and an aortic valve part. The above mentioned difficulty is due to the decline of contrast on the cardiac wall part, and the disappearance of edge on the aortic valve part. In this paper, we report a new automatic extraction method for long axis view MR cine images, which needs only 3 manually indicated points on the 1st image to extract all the contours from the total sequence of images. At first, candidate points of a contour are detected by edge detection. Then, selecting the best matched combination of candidate points by Dynamic Programming, the cardiac wall part is automatically extracted. The aortic valve part is manually extracted for the 1st image by indicating both the end points, and is automatically extracted for the rest of the images, by utilizing the aortic valve motion characteristics throughout a cardiac cycle. (author)

  11. Physiologically Motivated Feature Extraction for Robust Automatic Speech Recognition

    OpenAIRE

    Ibrahim Missaoui; Zied Lachiri

    2016-01-01

    In this paper, a new method is presented to extract robust speech features in the presence of the external noise. The proposed method based on two-dimensional Gabor filters takes in account the spectro-temporal modulation frequencies and also limits the redundancy on the feature level. The performance of the proposed feature extraction method was evaluated on isolated speech words which are extracted from TIMIT corpus and corrupted by background noise. The evaluation results demonstrate that ...

  12. Physiologically Motivated Feature Extraction for Robust Automatic Speech Recognition

    Directory of Open Access Journals (Sweden)

    Ibrahim Missaoui

    2016-04-01

    Full Text Available In this paper, a new method is presented to extract robust speech features in the presence of the external noise. The proposed method based on two-dimensional Gabor filters takes in account the spectro-temporal modulation frequencies and also limits the redundancy on the feature level. The performance of the proposed feature extraction method was evaluated on isolated speech words which are extracted from TIMIT corpus and corrupted by background noise. The evaluation results demonstrate that the proposed feature extraction method outperforms the classic methods such as Perceptual Linear Prediction, Linear Predictive Coding, Linear Prediction Cepstral coefficients and Mel Frequency Cepstral Coefficients.

  13. FOLKSONOMIES VERSUS AUTOMATIC KEYWORD EXTRACTION: AN EMPIRICAL STUDY

    OpenAIRE

    Al-Khalifa, Hend S.; Davis, Hugh C.

    2006-01-01

    This paper reports on an evaluation of the keywords produced by Yahoo API context-based term extractor compared to a folksonomy set for the same website. The evaluation process is made in two ways: automatically, by measuring the percentage of overlap between the folksonomy set and Yahoo keywords set; and subjectively, by asking a human indexer to rate the quality of the generated keywords from both systems. The result of the experiment will be considered as an evidence for the rich semantics...

  14. Beam extraction system in AIC-144 automatic isochronous cyclotron

    International Nuclear Information System (INIS)

    Project of beam extraction system in Cracow AIC-144 cyclotron is described. The problems of increase of beam emittance, and change of the magnetic field in the cyclotron chamber are discussed. Expected extraction coefficient of the beam is about 0.7. (S.B.)

  15. Automatic Segmentation of Raw LIDAR Data for Extraction of Building Roofs

    OpenAIRE

    Mohammad Awrangjeb; Fraser, Clive S.

    2014-01-01

    Automatic extraction of building roofs from remote sensing data is important for many applications, including 3D city modeling. This paper proposes a new method for automatic segmentation of raw LIDAR (light detection and ranging) data. Using the ground height from a DEM (digital elevation model), the raw LIDAR points are separated into two groups. The first group contains the ground points that form a “building mask”. The second group contains non-ground points that are clustered using the b...

  16. An automatic abrupt information extraction method based on singular value decomposition and higher-order statistics

    International Nuclear Information System (INIS)

    One key aspect of local fault diagnosis is how to effectively extract abrupt features from the vibration signals. This paper proposes a method to automatically extract abrupt information based on singular value decomposition and higher-order statistics. In order to observe the distribution law of singular values, a numerical analysis to simulate the noise, periodic signal, abrupt signal and singular value distribution is conducted. Based on higher-order statistics and spectrum analysis, a method to automatically choose the upper and lower borders of the singular value interval reflecting the abrupt information is built. And the selected singular values derived from this method are used to reconstruct abrupt signals. It is proven that the method is able to obtain accurate results by processing the rub-impact fault signal measured from the experiments. The analytical and experimental results indicate that the proposed method is feasible for automatically extracting abrupt information caused by faults like the rotor–stator rub-impact. (paper)

  17. 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.

  18. 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.

  19. Automatic Extraction of Leaf Characters from Herbarium Specimens

    OpenAIRE

    Corney, DPA; Clark, JY; Tang, HL; Wilkin, P

    2012-01-01

    Herbarium specimens are a vital resource in botanical taxonomy. Many herbaria are undertaking large-scale digitization projects to improve access and to preserve delicate specimens, and in doing so are creating large sets of images. Leaf characters are important for describing taxa and distinguishing between them and they can be measured from herbarium specimens. Here, we demonstrate that herbarium images can be analysed using suitable software and that leaf characters can be extracted automa...

  20. Automatic extraction of soft tissues from 3D MRI images of the head

    International Nuclear Information System (INIS)

    This paper presents an automatic extraction method of soft tissues from 3D MRI images of the head. A 3D region growing algorithm is used to extract soft tissues such as cerebrum, cerebellum and brain stem. Four information sources are used to control the 3D region growing. Model of each soft tissue has been constructed in advance and provides a 3D region growing space. Head skin area which is automatically extracted from input image provides an unsearchable area. Zero-crossing points are detected by using Laplacian operator, and by examining sign change between neighborhoods. They are used as a control condition in the 3D region growing process. Graylevels of voxels are also directly used to extract each tissue region as a control condition. Experimental results applied to 19 samples show that the method is successful. (author)

  1. Fully automatic extraction of salient objects from videos in near real-time

    CERN Document Server

    Kazuma, Akamine; Kimura, Akisato; Takagi, Shigeru

    2010-01-01

    Automatic video segmentation plays an important role in a wide range of computer vision and image processing applications. Recently, various methods have been proposed for this purpose. The problem is that most of these methods are far from real-time processing even for low-resolution videos due to the complex procedures. To this end, we propose a new and quite fast method for automatic video segmentation with the help of 1) efficient optimization of Markov random fields with polynomial time of number of pixels by introducing graph cuts, 2) automatic, computationally efficient but stable derivation of segmentation priors using visual saliency and sequential update mechanism, and 3) an implementation strategy in the principle of stream processing with graphics processor units (GPUs). Test results indicates that our method extracts appropriate regions from videos as precisely as and much faster than previous semi-automatic methods even though any supervisions have not been incorporated.

  2. A Semi-Automatic Method for Extracting Vocal-Tract Movements from X-Ray Films

    OpenAIRE

    Fontecave Jallon, Julie; Berthommier, Frédéric

    2008-01-01

    Despite the development of new imaging techniques, existing X-ray data remain an appropriate tool to study speech production phenomena. However, to exploit these images, the shapes of the vocal tract articulators must first be extracted. This task, usually manually realized, is long and laborious. This paper describes a semi-automatic technique for facilitating the extraction of vocal tract contours from complete sequences of large existing cineradiographic databases in the context of continu...

  3. Automatic extraction of gene and protein synonyms from MEDLINE and journal articles.

    OpenAIRE

    Hong YU; Hatzivassiloglou, Vasileios; Friedman, Carol; Rzhetsky, Andrey; Wilbur, W. John

    2002-01-01

    Genes and proteins are often associated with multiple names, and more names are added as new functional or structural information is discovered. Because authors often alternate between these synonyms, information retrieval and extraction benefits from identifying these synonymous names. We have developed a method to extract automatically synonymous gene and protein names from MEDLINE and journal articles. We first identified patterns authors use to list synonymous gene and protein names. We d...

  4. An automatic and fast centerline extraction algorithm for virtual colonoscopy.

    Science.gov (United States)

    Jiang, Guangxiang; Gu, Lixu

    2005-01-01

    This paper introduces a new refined centerline extraction algorithm, which is based on and significantly improved from distance mapping algorithms. The new approach include three major parts: employing a colon segmentation method; designing and realizing a fast Euclidean Transform algorithm and inducting boundary voxels cutting (BVC) approach. The main contribution is the BVC processing, which greatly speeds up the Dijkstra algorithm and improves the whole performance of the new algorithm. Experimental results demonstrate that the new centerline algorithm was more efficient and accurate comparing with existing algorithms. PMID:17281406

  5. Automatic Extraction of Document Keyphrases for Use in Digital Libraries: Evaluation and Applications.

    Science.gov (United States)

    Jones, Steve; Paynter, Gordon W.

    2002-01-01

    Discussion of finding relevant documents in electronic document collections focuses on an evaluation of the Kea automatic keyphrase extraction algorithm which was developed by members of the New Zealand Digital Library Project. Results are based on evaluations by human assessors of the quality and appropriateness of Kea keyphrases. (Author/LRW)

  6. Automatic Extraction of Pathological Area in 2D MR Brain Scan

    Czech Academy of Sciences Publication Activity Database

    Dvořák, P.; Bartušek, Karel; Gescheidtová, E.

    Cambridge: The Electromagnetics Academy, 2014, s. 1885-1889. ISBN 978-1-934142-28-8. [PIERS 2014. Progress In Electromagnetics Research Symposium /35./. Guangzhou (CN), 25.08.2014-28.08.2014] R&D Projects: GA ČR GAP102/12/1104 Institutional support: RVO:68081731 Keywords : brain tumor * MRI * automatic extraction Subject RIV: JA - Electronics ; Optoelectronics, Electrical Engineering

  7. 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.

  8. Automatic extraction of tumor region on x-ray image of animals

    International Nuclear Information System (INIS)

    Diagnosis by CT images is increasing. But we often use X-ray images because of scanning time and scan cost. It is difficult to extract tumor region of X-ray images, and pathologists have to diagnose many images of tumor. Therefore, demand for the development of CAD system is increasing to support pathologists. Images that we use are dog images. Many people research human Images, but animal images are not researched well. In this paper, automatic extraction of tumor region is studied. We used operation of normalized correlation. Template of this filter looks like mountain. We also used Quoit-filter, that detected region that had possibility of tumor. We calculated edge of tumor to see easily tumors. Our method detected some tumor candidate edge. As future work, we should extract bone region, and some fixed value, including filter size should be automatically determined. (author)

  9. Automatic centerline extraction of coronary arteries in coronary computed tomographic angiography.

    Science.gov (United States)

    Yang, Guanyu; Kitslaar, Pieter; Frenay, Michel; Broersen, Alexander; Boogers, Mark J; Bax, Jeroen J; Reiber, Johan H C; Dijkstra, Jouke

    2012-04-01

    Coronary computed tomographic angiography (CCTA) is a non-invasive imaging modality for the visualization of the heart and coronary arteries. To fully exploit the potential of the CCTA datasets and apply it in clinical practice, an automated coronary artery extraction approach is needed. The purpose of this paper is to present and validate a fully automatic centerline extraction algorithm for coronary arteries in CCTA images. The algorithm is based on an improved version of Frangi's vesselness filter which removes unwanted step-edge responses at the boundaries of the cardiac chambers. Building upon this new vesselness filter, the coronary artery extraction pipeline extracts the centerlines of main branches as well as side-branches automatically. This algorithm was first evaluated with a standardized evaluation framework named Rotterdam Coronary Artery Algorithm Evaluation Framework used in the MICCAI Coronary Artery Tracking challenge 2008 (CAT08). It includes 128 reference centerlines which were manually delineated. The average overlap and accuracy measures of our method were 93.7% and 0.30 mm, respectively, which ranked at the 1st and 3rd place compared to five other automatic methods presented in the CAT08. Secondly, in 50 clinical datasets, a total of 100 reference centerlines were generated from lumen contours in the transversal planes which were manually corrected by an expert from the cardiology department. In this evaluation, the average overlap and accuracy were 96.1% and 0.33 mm, respectively. The entire processing time for one dataset is less than 2 min on a standard desktop computer. In conclusion, our newly developed automatic approach can extract coronary arteries in CCTA images with excellent performances in extraction ability and accuracy. PMID:21637981

  10. Towards Automatic Music Transcription: Extraction of MIDI-Data out of Polyphonic Piano Music

    Directory of Open Access Journals (Sweden)

    Jens Wellhausen

    2005-06-01

    Full Text Available Driven by the increasing amount of music available electronically the need of automatic search and retrieval systems for music becomes more and more important. In this paper an algorithm for automatic transcription of polyphonic piano music into MIDI data is presented, which is a very interesting basis for database applications and music analysis. The first part of the algorithm performs a note accurate temporal audio segmentation. The resulting segments are examined to extract the notes played in the second part. An algorithm for chord separation based on Independent Subspace Analysis is presented. Finally, the results are used to build a MIDI file.

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

    DEFF Research Database (Denmark)

    Harms, Hans; Tolbod, Lars Poulsen; Hansson, Nils Henrik; Kim, Won Yong; Wiggers, Henrik; Frøkiær, Jørgen; Sørensen, Jens

    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...

  12. Automatic Extraction of Femur Contours from Calibrated X-Ray Images using Statistical Information

    Directory of Open Access Journals (Sweden)

    Xiao Dong

    2007-09-01

    Full Text Available Automatic identification and extraction of bone contours from x-ray images is an essential first step task for further medical image analysis. In this paper we propose a 3D statistical model based framework for the proximal femur contour extraction from calibrated x-ray images. The automatic initialization to align the 3D model with the x-ray images is solved by an Estimation of Bayesian Network Algorithm to fit a simplified multiple component geometrical model of the proximal femur to the x-ray data. Landmarks can be extracted from the geometrical model for the initialization of the 3D statistical model. The contour extraction is then accomplished by a joint registration and segmentation procedure. We iteratively updates the extracted bone contours and an instanced 3D model to fit the x-ray images. Taking the projected silhouettes of the instanced 3D model on the registered x-ray images as templates, bone contours can be extracted by a graphical model based Bayesian inference. The 3D model can then be updated by a non-rigid 2D/3D registration between the 3D statistical model and the extracted bone contours. Preliminary experiments on clinical data sets verified its validity.

  13. Automatic landmark extraction from image data using modified growing neural gas network.

    Science.gov (United States)

    Fatemizadeh, Emad; Lucas, Caro; Soltanian-Zadeh, Hamid

    2003-06-01

    A new method for automatic landmark extraction from MR brain images is presented. In this method, landmark extraction is accomplished by modifying growing neural gas (GNG), which is a neural-network-based cluster-seeking algorithm. Using modified GNG (MGNG) corresponding dominant points of contours extracted from two corresponding images are found. These contours are borders of segmented anatomical regions from brain images. The presented method is compared to: 1) the node splitting-merging Kohonen model and 2) the Teh-Chin algorithm (a well-known approach for dominant points extraction of ordered curves). It is shown that the proposed algorithm has lower distortion error, ability of extracting landmarks from two corresponding curves simultaneously, and also generates the best match according to five medical experts. PMID:12834162

  14. AUTOMATIC ROAD EXTRACTION BASED ON INTEGRATION OF HIGH RESOLUTION LIDAR AND AERIAL IMAGERY

    OpenAIRE

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

    2015-01-01

    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...

  15. Automatic Feature Extraction, Categorization and Detection of Malicious Code in Android Applications

    OpenAIRE

    Muhammad Zuhair Qadir; Atif Nisar Jilani; Hassam Ullah Sheikh

    2014-01-01

    Since Android has become a popular software platform for mobile devices recently; they offer almost the same functionality as personal computers. Malwares have also become a big concern. As the number of new Android applications tends to be rapidly increased in the near future, there is a need for automatic malware detection quickly and efficiently. In this paper, we define a simple static analysis approach to first extract the features of the android application based on intents and categori...

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

    OpenAIRE

    Khandait, S. P.; Dr. R.C.Thool; P.D.Khandait

    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...

  17. 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.

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

    DEFF Research Database (Denmark)

    Harms, Hans; Tolbod, Lars Poulsen; Hansson, Nils Henrik Stubkjær; Kero, Tanja; Orndahl, Lovisa Holm; Kim, Won Yong; Bjerner, Tomas; Bouchelouche, Kirsten; Wiggers, Henrik; Frøkiær, Jørgen; Sørensen, 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/CT (scanner II). The left ventricular (LV)-aortic time-activity curve (TAC) was extracted automatically...

  19. Computer Vision Based Automatic Extraction and Thickness Measurement of Deep Cervical Flexor from Ultrasonic Images.

    Science.gov (United States)

    Kim, Kwang Baek; Song, Doo Heon; Park, Hyun Jun

    2016-01-01

    Deep Cervical Flexor (DCF) muscles are important in monitoring and controlling neck pain. While ultrasonographic analysis is useful in this area, it has intrinsic subjectivity problem. In this paper, we propose automatic DCF extractor/analyzer software based on computer vision. One of the major difficulties in developing such an automatic analyzer is to detect important organs and their boundaries under very low brightness contrast environment. Our fuzzy sigma binarization process is one of the answers for that problem. Another difficulty is to compensate information loss that happened during such image processing procedures. Many morphologically motivated image processing algorithms are applied for that purpose. The proposed method is verified as successful in extracting DCFs and measuring thicknesses in experiment using two hundred 800 × 600 DICOM ultrasonography images with 98.5% extraction rate. Also, the thickness of DCFs automatically measured by this software has small difference (less than 0.3 cm) for 89.8% of extracted DCFs. PMID:26949411

  20. 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...

  1. 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.

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

    International Nuclear Information System (INIS)

    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. (paper)

  3. 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.

  4. 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.

  5. Automatic fuzzy object-based analysis of VHSR images for urban objects extraction

    Science.gov (United States)

    Sebari, Imane; He, Dong-Chen

    2013-05-01

    We present an automatic approach for object extraction from very high spatial resolution (VHSR) satellite images based on Object-Based Image Analysis (OBIA). The proposed solution requires no input data other than the studied image. Not input parameters are required. First, an automatic non-parametric cooperative segmentation technique is applied to create object primitives. A fuzzy rule base is developed based on the human knowledge used for image interpretation. The rules integrate spectral, textural, geometric and contextual object proprieties. The classes of interest are: tree, lawn, bare soil and water for natural classes; building, road, parking lot for man made classes. The fuzzy logic is integrated in our approach in order to manage the complexity of the studied subject, to reason with imprecise knowledge and to give information on the precision and certainty of the extracted objects. The proposed approach was applied to extracts of Ikonos images of Sherbrooke city (Canada). An overall total extraction accuracy of 80% was observed. The correctness rates obtained for building, road and parking lot classes are of 81%, 75% and 60%, respectively.

  6. An automatic extraction algorithm of three dimensional shape of brain parenchyma from MR images

    International Nuclear Information System (INIS)

    For the simulation of surgical operations, the extraction of the selected region using MR images is useful. However, this segmentation requires a high level of skill and experience from the technicians. We have developed an unique automatic extraction algorithm for extracting three dimensional brain parenchyma using MR head images. It is named the ''three dimensional gray scale clumsy painter method''. In this method, a template having the shape of a pseudo-circle, a so called clumsy painter (CP), moves along the contour of the selected region and extracts the region surrounded by the contour. This method has advantages compared with the morphological filtering and the region growing method. Previously, this method was applied to binary images, but there were some problems in that the results of the extractions were varied by the value of the threshold level. We introduced gray level information of images to decide the threshold, and depend upon the change of image density between the brain parenchyma and CSF. We decided the threshold level by the vector of a map of templates, and changed the map according to the change of image density. As a result, the over extracted ratio was improved by 36%, and the under extracted ratio was improved by 20%. (author)

  7. Automatic extraction of building boundaries using aerial LiDAR data

    Science.gov (United States)

    Wang, Ruisheng; Hu, Yong; Wu, Huayi; Wang, Jian

    2016-01-01

    Building extraction is one of the main research topics of the photogrammetry community. This paper presents automatic algorithms for building boundary extractions from aerial LiDAR data. First, segmenting height information generated from LiDAR data, the outer boundaries of aboveground objects are expressed as closed chains of oriented edge pixels. Then, building boundaries are distinguished from nonbuilding ones by evaluating their shapes. The candidate building boundaries are reconstructed as rectangles or regular polygons by applying new algorithms, following the hypothesis verification paradigm. These algorithms include constrained searching in Hough space, enhanced Hough transformation, and the sequential linking technique. The experimental results show that the proposed algorithms successfully extract building boundaries at rates of 97%, 85%, and 92% for three LiDAR datasets with varying scene complexities.

  8. Automatic extraction of abnormal signals from diffusion-weighted images using 3D-ACTIT

    International Nuclear Information System (INIS)

    Recent developments in medical imaging equipment have made it possible to acquire large amounts of image data and to perform detailed diagnosis. However, it is difficult for physicians to evaluate all of the image data obtained. To address this problem, computer-aided detection (CAD) and expert systems have been investigated. In these investigations, as the types of images used for diagnosis has expanded, the requirements for image processing have become more complex. We therefore propose a new method which we call Automatic Construction of Tree-structural Image Transformation (3D-ACTIT) to perform various 3D image processing procedures automatically using instance-based learning. We have conducted research on diffusion-weighted image (DWI) data and its processing. In this report, we describe how 3D-ACTIT performs processing to extract only abnormal signal regions from 3D-DWI data. (author)

  9. Automatic analysis of uranium-bearing extracts in amine solvent extraction plants processing sulfate leach liquors

    International Nuclear Information System (INIS)

    Instrumentation based on continuous segmented flow analysis is suggested for the control of uranium loading in the amine phase of solvent extraction processing sulfate leach liquors. It can be installed with relatively little capital outlay and operational costs are expected to be low. The uranium(VI) in up to 60 samples of extract (proportional 0.1 to 5 g l-1 U) per hour can be determined. Application of spectrophotometry to the analysis of various process streams is discussed and it is concluded that it compares favourably in several important respects with the use of alternative techniques. (orig.)

  10. Molecular design of the phenol type extractants

    OpenAIRE

    Semenov, Sergey A; Reznik, Aleksandr M

    2013-01-01

    A method of optimisation of new extractants structure using the desirable function has been developed. Earlier the desirable function has been proposed by Harrington (Ind Qual Control 21: 494-498, 1965) for the optimisation of processes with several response functions. The developed method of optimisation of new extractants structure has been used for construction of phenolic type extractants (PTE) (a class of N-(2-hydroxy-5-nonylbenzil)-dialkylamines). It has been offered to use the charge o...

  11. Semi-Automatic Mapping Generation for the DBpedia Information Extraction Framework

    Directory of Open Access Journals (Sweden)

    Arup Sarkar, Ujjal Marjit, Utpal Biswas

    2013-03-01

    Full Text Available DBpedia is one of the very well known live projectsfrom the Semantic Web. It is likeamirror version ofthe Wikipedia site in Semantic Web. Initially itpublishes the information collected from theWikipedia, but only that part which is relevant tothe Semantic Web.Collecting information forSemantic Web from the Wikipedia is demonstratedas the extraction of structured data. DBpedianormally do this by using a specially designedframework called DBpedia Information ExtractionFramework. This extraction framework do itsworks thorough the evaluation of the similarproperties from the DBpedia Ontology and theWikipedia template. This step is known as DBpediamapping.At present mostof the mapping jobs aredone complete manually.In this paper a newframework is introduced considering the issuesrelated to the template to ontology mapping. A semi-automatic mapping tool for the DBpedia projectisproposedwith the capability of automaticsuggestion generation for the end usersso thatusers can identify the similar Ontology and templateproperties.Proposed framework is useful since afterselection of similar properties, the necessary code tomaintain the mapping between Ontology andtemplate is generated automatically.

  12. Automatic Segmentation of Raw LIDAR Data for Extraction of Building Roofs

    Directory of Open Access Journals (Sweden)

    Mohammad Awrangjeb

    2014-04-01

    Full Text Available Automatic extraction of building roofs from remote sensing data is important for many applications, including 3D city modeling. This paper proposes a new method for automatic segmentation of raw LIDAR (light detection and ranging data. Using the ground height from a DEM (digital elevation model, the raw LIDAR points are separated into two groups. The first group contains the ground points that form a “building mask”. The second group contains non-ground points that are clustered using the building mask. A cluster of points usually represents an individual building or tree. During segmentation, the planar roof segments are extracted from each cluster of points and refined using rules, such as the coplanarity of points and their locality. Planes on trees are removed using information, such as area and point height difference. Experimental results on nine areas of six different data sets show that the proposed method can successfully remove vegetation and, so, offers a high success rate for building detection (about 90% correctness and completeness and roof plane extraction (about 80% correctness and completeness, when LIDAR point density is as low as four points/m2. Thus, the proposed method can be exploited in various applications.

  13. Automatic extraction of tumors from multiple MR images with self-organizing maps

    International Nuclear Information System (INIS)

    In MR images, the contrast between tumors and surrounding soft tissues is not always clear, and it may be difficult to determine the tumor region. In this report, we propose a method for the automatic and objective extraction of tumors based on the correlations among multiple MR images. First, a map reflecting the correlations of three types of MR images (Gd-enhanced, T1-weighted, and T2-weighted images) is created by training of Self-Organizing Maps (SOM). Second, the SOM are grouped into a number of clusters determined in advance, and the original MR images are divided into clusters according to the clustered SOM. Finally, the tumor region in the clustered MR images is refined by reclassification, improving the accuracy of extraction. This method was applied to 10 cases in a clinical study, and in 8 of these cases, the tumor could be distinguished from other regions as an independent cluster. The proposed method is expected to be useful for the automatic extraction of tumors in MR images. (author)

  14. 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......The purpose of this paper is to demonstrate the potential for generating interesting aggregate data on certain aspect of the lives of thousands of composers, and indeed other creative groups, from large on-line dictionaries and to be able to do so relatively quickly. A purpose-built java...

  15. 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.

  16. Gene Ontology density estimation and discourse analysis for automatic GeneRiF extraction

    Directory of Open Access Journals (Sweden)

    Mottaz Anaïs

    2008-04-01

    Full Text Available Abstract Background This paper describes and evaluates a sentence selection engine that extracts a GeneRiF (Gene Reference into Functions as defined in ENTREZ-Gene based on a MEDLINE record. Inputs for this task include both a gene and a pointer to a MEDLINE reference. In the suggested approach we merge two independent sentence extraction strategies. The first proposed strategy (LASt uses argumentative features, inspired by discourse-analysis models. The second extraction scheme (GOEx uses an automatic text categorizer to estimate the density of Gene Ontology categories in every sentence; thus providing a full ranking of all possible candidate GeneRiFs. A combination of the two approaches is proposed, which also aims at reducing the size of the selected segment by filtering out non-content bearing rhetorical phrases. Results Based on the TREC-2003 Genomics collection for GeneRiF identification, the LASt extraction strategy is already competitive (52.78%. When used in a combined approach, the extraction task clearly shows improvement, achieving a Dice score of over 57% (+10%. Conclusions Argumentative representation levels and conceptual density estimation using Gene Ontology contents appear complementary for functional annotation in proteomics.

  17. 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

    Dynamic cardiac positron emission tomography (PET) is used to quantify molecular processes in vivo. However, measurements of left-ventricular (LV) mass and volumes require electrocardiogram (ECG)-gated PET data. The aim of this study was to explore the feasibility of measuring LV geometry using non...... generated from non-gated dynamic data. Using software-based structure recognition the LV wall was automatically segmented from K1 images to derive mLV and wall thickness (WT). End-systolic (ESV) and end-diastolic (EDV) volumes were calculated using blood pool images and used to obtain stroke volume (SV) and...

  18. Evaluation of information retrieval and text mining tools on automatic named entity extraction. Intelligence and security informatics. Proceedings

    OpenAIRE

    Kumar, Nishant; De Beer, Jan; Vanthienen, Jan; Moens, Marie-Francine

    2006-01-01

    We will report evaluation of Automatic Named Entity Extraction feature of IR tools on Dutch, French, and English text. The aim is to analyze the competency of off-the-shelf information extraction tools in recognizing entity types including person, organization, location, vehicle, time, & currency from unstructured text. Within such an evaluation one can compare the effectiveness of different approaches for identifying named entities.

  19. 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.

  20. Automatic extraction of highway light poles and towers from mobile LiDAR data

    Science.gov (United States)

    Yan, Wai Yeung; Morsy, Salem; Shaker, Ahmed; Tulloch, Mark

    2016-03-01

    Mobile LiDAR has been recently demonstrated as a viable technique for pole-like object detection and classification. Despite that a desirable accuracy (around 80%) has been reported in the existing studies, majority of them were presented in the street level with relatively flat ground and very few of them addressed how to extract the entire pole structure from the ground or curb surface. Therefore, this paper attempts to fill the research gap by presenting a workflow for automatic extraction of light poles and towers from mobile LiDAR data point cloud, with a particular focus on municipal highway. The data processing workflow includes (1) an automatic ground filtering mechanism to separate aboveground and ground features, (2) an unsupervised clustering algorithm to cluster the aboveground data point cloud, (3) a set of decision rules to identify and classify potential light poles and towers, and (4) a least-squares circle fitting algorithm to fit the circular pole structure so as to remove the ground points. The workflow was tested with a set of mobile LiDAR data collected for a section of highway 401 located in Toronto, Ontario, Canada. The results showed that the proposed method can achieve an over 91% of detection rate for five types of light poles and towers along the study area.

  1. 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.

  2. AUTOMR: An automatic processing program system for the molecular replacement method

    International Nuclear Information System (INIS)

    An automatic processing program system of the molecular replacement method AUTMR is presented. The program solves the initial model of the target crystal structure using a homologous molecule as the search model. It processes the structure-factor calculation of the model molecule, the rotation function, the translation function and the rigid-group refinement successively in one computer job. Test calculations were performed for six protein crystals and the structures were solved in all of these cases. (orig.)

  3. Automatic Extraction of High-Resolution Rainfall Series from Rainfall Strip Charts

    Science.gov (United States)

    Saa-Requejo, Antonio; Valencia, Jose Luis; Garrido, Alberto; Tarquis, Ana M.

    2015-04-01

    Soil erosion is a complex phenomenon involving the detachment and transport of soil particles, storage and runoff of rainwater, and infiltration. The relative magnitude and importance of these processes depends on a host of factors, including climate, soil, topography, cropping and land management practices among others. Most models for soil erosion or hydrological processes need an accurate storm characterization. However, this data are not always available and in some cases indirect models are generated to fill this gap. In Spain, the rain intensity data known for time periods less than 24 hours back to 1924 and many studies are limited by it. In many cases this data is stored in rainfall strip charts in the meteorological stations but haven't been transfer in a numerical form. To overcome this deficiency in the raw data a process of information extraction from large amounts of rainfall strip charts is implemented by means of computer software. The method has been developed that largely automates the intensive-labour extraction work based on van Piggelen et al. (2011). The method consists of the following five basic steps: 1) scanning the charts to high-resolution digital images, 2) manually and visually registering relevant meta information from charts and pre-processing, 3) applying automatic curve extraction software in a batch process to determine the coordinates of cumulative rainfall lines on the images (main step), 4) post processing the curves that were not correctly determined in step 3, and 5) aggregating the cumulative rainfall in pixel coordinates to the desired time resolution. A colour detection procedure is introduced that automatically separates the background of the charts and rolls from the grid and subsequently the rainfall curve. The rainfall curve is detected by minimization of a cost function. Some utilities have been added to improve the previous work and automates some auxiliary processes: readjust the bands properly, merge bands when

  4. 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. PMID:25019134

  5. An automatic device for sample insertion and extraction to/from reactor irradiation facilities

    International Nuclear Information System (INIS)

    At the previous European Triga Users Conference in Vienna,a paper was given describing a new handling tool for irradiated samples at the L.E.N.A plant. This tool was the first part of an automatic device for the management of samples to be irradiated in the TRIGA MARK ii reactor and successively extracted and stored. So far sample insertion and extraction to/from irradiation facilities available on reactor top (central thimble,rotatory specimen rack and channel f),has been carried out manually by reactor and health-physics operators using the ''traditional'' fishing pole provided by General Atomic, thus exposing reactor personnel to ''unjustified'' radiation doses. The present paper describes the design and the operation of a new device, a ''robot''type machine,which, remotely operated, takes care of sample insertion into the different irradiation facilities,sample extraction after irradiation and connection to the storage pits already described. The extraction of irradiated sample does not require the presence of reactor personnel on the reactor top and,therefore,radiation doses are strongly reduced. All work from design to construction has been carried out by the personnel of the electronic group of the L.E.N.A plant. (orig.)

  6. Automatic Extraction of Tide-Coordinated Shoreline Using Open Source Software and Landsat Imagery

    Science.gov (United States)

    Goncalves, G.; Duro, N.; Sousa, E.; Figueiredo, I.

    2015-04-01

    Due to both natural and anthropogenic causes, the coastal lines keeps changing dynamically and continuously their shape, position and extend over time. In this paper we propose an approach to derive a tide-coordinate shoreline from two extracted instantaneous shorelines corresponding to a nearly low tide and high tide events. First, all the multispectral images are panshaperned to meet the 15 meters spatial resolution of the panchromatic images. Second, by using the Modification of Normalized Difference Water Index (MNDWI) and the kmeans clustering method we extract the raster shoreline for each image acquisition time. Third, each raster shoreline is smoothed and vectorized using a penalized least square method. Fourth, a 2D constrained Delaunay triangulation is built from the two extracted instantaneous shorelines with their respective heights interpolated from a Tidal gauche station. Finally, the desired tide-coordinate shoreline is interpolated from the previous triangular intertidal surface. The results show that an automatic tide-coordinated extraction method can be efficiently implemented using free available remote sensing imagery data (Landsat 8) and open source software (QGIS and Orfeo toolbox) and python scripting for task automation and software integration.

  7. 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

  8. A FAST AND ACCURATE METHOD FOR AUTOMATIC CORONARY ARTERIAL TREE EXTRACTION IN ANGIOGRAMS

    Directory of Open Access Journals (Sweden)

    Rohollah Moosavi Tayebi

    2014-01-01

    Full Text Available Coronary arterial tree extraction in angiograms is an essential component of each cardiac image processing system. Once physicians decide to check up coronary arteries from x-ray angiograms, extraction must be done precisely, fast, automatically and including whole arterial tree to help diagnosis or treatment during the cardiac surgical operation. This application is very helpful for the surgeon on deciding the target vessels prior to coronary artery bypass graft surgery. Some techniques and algorithms are proposed for extracting coronary arteries in angiograms. However, most of them suffer from some disadvantages such as time complexity, low accuracy, extracting only parts of main arteries instead of the full coronary arterial tree, need manual segmentation, appearance of artifacts and so forth. This study presents a new method for extracting whole coronary arterial tree in angiography images using Starlet wavelet transform. To this end, firstly we remove noise from raw angiograms and then sharpen the coronary arteries. Then coronary arterial tree is extracted by applying a modified Starlet wavelet transform and afterwards the residual noises and artifacts are cleaned. For evaluation, we measure proposed method performance on our created data set from 4932 Left Coronary Artery (LCA and Right Coronary Artery (RCA angiograms and compared with some state-of-the-art approaches. The proposed method shows much higher accuracy 96% for LCA and 97% for RCA, higher sensitivity 86% for LCA and 89% for RCA, higher specificity 98% for LCA and 99% for RCA and also higher precision 87% for LCA and 93% for RCA angiograms.

  9. 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.

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

    Science.gov (United States)

    Yu, Kun; Ji, Guangrong; Zheng, Haiyong

    2016-05-01

    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 eff ectively 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 eff ects.

  11. 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

  12. An automatic integrated image segmentation, registration and change detection method for water-body extraction using HSR images and GIS data

    OpenAIRE

    H.G. Sui; Chen, G.; Hua, L.

    2013-01-01

    Automatic water-body extraction from remote sense images is a challenging problem. Using GIS data to update and extract waterbody is an old but active topic. However, automatic registration and change detection of the two data sets often presents difficulties. In this paper, a novel automatic water-body extraction method is proposed. The core idea is to integrate image segmentation, image registration and change detection with GIS data as a whole processing. A new iterative segmentat...

  13. Molecular and supramolecular speciation of monoamide extractant systems

    International Nuclear Information System (INIS)

    DEHiBA (N,N-di-(ethyl-2-hexyl)isobutyramide, a monoamide, was chosen as selective extractant for the recovery of uranium in the first cycle of the GANEX process, which aims to realize the grouped extraction of actinides in the second step of the process. The aim of this work is an improved description of monoamide organic solutions in alkane diluent after solutes extraction: water, nitric acid and uranyl nitrate. A parametric study was undertaken to characterize species at molecular scale (by IR spectroscopy, UV-visible spectroscopy, time-resolved laser-induced fluorescence spectroscopy, and electro-spray ionisation mass spectrometry) and at supramolecular scale (by vapor pressure osmometry and small angle X-ray scattering coupled to molecular dynamic simulations). Extraction isotherms were modelled taking into account the molecular and supramolecular speciation. These works showed that the organization of the organic solution depends on the amide concentration, the nature and the concentration of the extracted solute. Three regimes can be distinguished. 1/For extractant concentration less than 0.5 mol/L, monomers are predominate species. 2/ For extractant concentrations between 0.5 and 1 mol/L, small aggregates are formed containing 2 to 4 molecules of monoamide. 3/ For more concentrated solutions (greater than 1 mol/L), slightly larger species can be formed after water or nitric acid extraction. Concerning uranyl nitrate extraction, an important and strong organization of the organic phase is observed, which no longer allows the formation of well spherical defined aggregates. At molecular scale, complexes are not sensitive to the organization of the solution: the same species are observed, regardless of the solute and extractant concentrations in organic phase. (author)

  14. 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. PMID:22412336

  15. 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.

  16. 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.

  17. 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. PMID:26518205

  18. 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.

  19. Automatic Extraction of Open Space Area from High Resolution Urban Satellite Imagery

    Directory of Open Access Journals (Sweden)

    Hiremath P S & Kodge B G

    2010-06-01

    Full Text Available In the 21st century, Aerial and satellite images are information rich. They are alsocomplex to analyze. For GIS systems, many features require fast and reliableextraction of open space area from high resolution satellite imagery. In this paperwe will study efficient and reliable automatic extraction algorithm to find out theopen space area from the high resolution urban satellite imagery. This automaticextraction algorithm uses some filters and segmentations and grouping isapplying on satellite images. And the result images may use to calculate the totalavailable open space area and the built up area. It may also use to compare thedifference between present and past open space area using historical urbansatellite images of that same projection.

  20. 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.

  1. Automatic Feature Extraction, Categorization and Detection of Malicious Code in Android Applications

    Directory of Open Access Journals (Sweden)

    Muhammad Zuhair Qadir

    2014-02-01

    Full Text Available Since Android has become a popular software platform for mobile devices recently; they offer almost the same functionality as personal computers. Malwares have also become a big concern. As the number of new Android applications tends to be rapidly increased in the near future, there is a need for automatic malware detection quickly and efficiently. In this paper, we define a simple static analysis approach to first extract the features of the android application based on intents and categories the application into a known major category and later on mapping it with the permissions requested by the application and also comparing it with the most obvious intents of category.  As a result, getting to know which apps are using features which they are not supposed to use or they do not need.

  2. DEVELOPMENT OF AUTOMATIC EXTRACTION METHOD FOR ROAD UPDATE INFORMATION BASED ON PUBLIC WORK ORDER OUTLOOK

    Science.gov (United States)

    Sekimoto, Yoshihide; Nakajo, Satoru; Minami, Yoshitaka; Yamaguchi, Syohei; Yamada, Harutoshi; Fuse, Takashi

    Recently, disclosure of statistic data, representing financial effects or burden for public work, through each web site of national or local government, enables us to discuss macroscopic financial trends. However, it is still difficult to grasp a basic property nationwide how each spot was changed by public work. In this research, our research purpose is to collect road update information reasonably which various road managers provide, in order to realize efficient updating of various maps such as car navigation maps. In particular, we develop the system extracting public work concerned and registering summary including position information to database automatically from public work order outlook, released by each local government, combinating some web mining technologies. Finally, we collect and register several tens of thousands from web site all over Japan, and confirm the feasibility of our method.

  3. DEM automatic extraction on Rio de Janeiro from WV2 stereo pair images

    International Nuclear Information System (INIS)

    The use of three-dimensional data has become, for a lot of mapping applications, very important. DEM are applied for modelling purposes, i.e. the 3D city model generation, but principally for imagery orthorectification. In aerial photogrammetry is well known the suitable use of stereo imagery to produce an accurate DEM, but the limits of the process (cost, schedule of data collection, highly technical staff) and the new advanced digital image processing algorithms have open the work scenario to the remote sensing data. This research has wanted to investigate the possibility to obtain accurate DEMs by means of automatic terrain extraction algorithms implemented in Leica Photogrammetry Suite (LPS) from stereoscopic remote sensing images collected by DigitalGlobe's WorldView-2 (WV2) satellite. The DEM of Rio de Janeiro (Brazil) and the correspondent digital orthoimages have been the results

  4. 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

  5. Comparison of edge detection techniques for the automatic information extraction of Lidar data

    Science.gov (United States)

    Li, H.; di, L.; Huang, X.; Li, D.

    2008-05-01

    In recent years, there has been much interest in information extraction from Lidar point cloud data. Many automatic edge detection algorithms have been applied to extracting information from Lidar data. Generally they can be divided as three major categories: early vision gradient operators, optimal detectors and operators using parametric fitting models. Lidar point cloud includes the intensity information and the geographic information. Thus, traditional edge detectors used in remote sensed images can take advantage with the coordination information provided by point data. However, derivation of complex terrain features from Lidar data points depends on the intensity properties and topographic relief of each scene. Take road for example, in some urban area, road has the alike intensity as buildings, but the topographic relationship of road is distinct. The edge detector for road in urban area is different from the detector for buildings. Therefore, in Lidar extraction, each kind of scene has its own suitable edge detector. This paper compares application of the different edge detectors from the previous paragraph to various terrain areas, in order to figure out the proper algorithm for respective terrain type. The Canny, EDISON and SUSAN algorithms were applied to data points with the intensity character and topographic relationship of Lidar data. The Lidar data for test are over different terrain areas, such as an urban area with a mass of buildings, a rural area with vegetation, an area with slope, or an area with a bridge, etc. Results using these edge detectors are compared to determine which algorithm is suitable for a specific terrain area. Key words: Edge detector, Extraction, Lidar, Point data

  6. Automatic extraction of soft tissues from 3D MRI head images using model driven analysis

    International Nuclear Information System (INIS)

    This paper presents an automatic extraction system (called TOPS-3D : Top Down Parallel Pattern Recognition System for 3D Images) of soft tissues from 3D MRI head images by using model driven analysis algorithm. As the construction of system TOPS we developed, two concepts have been considered in the design of system TOPS-3D. One is the system having a hierarchical structure of reasoning using model information in higher level, and the other is a parallel image processing structure used to extract plural candidate regions for a destination entity. The new points of system TOPS-3D are as follows. (1) The TOPS-3D is a three-dimensional image analysis system including 3D model construction and 3D image processing techniques. (2) A technique is proposed to increase connectivity between knowledge processing in higher level and image processing in lower level. The technique is realized by applying opening operation of mathematical morphology, in which a structural model function defined in higher level by knowledge representation is immediately used to the filter function of opening operation as image processing in lower level. The system TOPS-3D applied to 3D MRI head images consists of three levels. First and second levels are reasoning part, and third level is image processing part. In experiments, we applied 5 samples of 3D MRI head images with size 128 x 128 x 128 pixels to the system TOPS-3D to extract the regions of soft tissues such as cerebrum, cerebellum and brain stem. From the experimental results, the system is robust for variation of input data by using model information, and the position and shape of soft tissues are extracted corresponding to anatomical structure. (author)

  7. Extraction of High Molecular Weight DNA from Microbial Mats

    OpenAIRE

    Bey, Benjamin S.; Fichot, Erin B.; Norman, R. Sean

    2011-01-01

    Successful and accurate analysis and interpretation of metagenomic data is dependent upon the efficient extraction of high-quality, high molecular weight (HMW) community DNA. However, environmental mat samples often pose difficulties to obtaining large concentrations of high-quality, HMW DNA. Hypersaline microbial mats contain high amounts of extracellular polymeric substances (EPS)1 and salts that may inhibit downstream applications of extracted DNA. Direct and harsh methods are often used i...

  8. Solvent extraction of molybdophosphoric acid with high-molecular alkylamines

    International Nuclear Information System (INIS)

    Extraction of dodecamolibdophosphoric acid H3PMo12O40 by nitrates of some high molecular amines (di-(2-ethylene-hexyl)-amine, diponylamine, diisoamyloctylamine) dichlorthane solution has been studied. The composition of associates in the organic phase may be presented as (BH3)PMo12O40, where BH+ is the protonized form of the amine. The overall conventional equilibrium constant of complex formation and extraction equals (1.51+-0.35)x1011

  9. 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. PMID:23255435

  10. 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

  11. 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.

  12. Uncertain Training Data Edition for Automatic Object-Based Change Map Extraction

    Science.gov (United States)

    Hajahmadi, S.; Mokhtarzadeh, M.; Mohammadzadeh, A.; Valadanzouj, M. J.

    2013-09-01

    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.

  13. Automatic Extraction of Spatio-Temporal Information from Arabic Text Documents

    Directory of Open Access Journals (Sweden)

    Abdelkoui Feriel

    2015-10-01

    Full Text Available Unstructured Arabic text documents are an important source of geographical and temporal information. The possibility of automatically tracking spatio-temporal information, capturing changes relating to events from text documents, is a new challenge in the fields of geographic information retrieval (GIR, temporal information retrieval (TIR and natural language processing (NLP. There was a lot of work on the extraction of information in other languages that use Latin alphabet, such as English,, French, or Spanish, by against the Arabic language is still not well supported in GIR and TIR and it needs to conduct more researches. In this paper, we present an approach that support automated exploration and extraction of spatio-temporal information from Arabic text documents in order to capture and model such information before it can be utilized in search and exploration tasks. The system has been successfully tested on 50 documents that include a mixture of types of Spatial/temporal information. The result achieved 91.01% of recall and of 80% precision. This illustrates that our approach is effective and its performance is satisfactory.

  14. 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.

  15. 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.

  16. Multiple adaptive neuro-fuzzy inference system with automatic features extraction algorithm for cervical cancer recognition.

    Science.gov (United States)

    Al-batah, Mohammad Subhi; Isa, Nor Ashidi Mat; Klaib, Mohammad Fadel; Al-Betar, Mohammed Azmi

    2014-01-01

    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. PMID:24707316

  17. 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. .

  18. ANTIOXIDATIVE LOW MOLECULAR WEIGHT EXTRACTIVES FROM TRIPLOID POPULUS TOMENTOSA XYLEM

    Directory of Open Access Journals (Sweden)

    Yong-Hao Ni

    2011-02-01

    Full Text Available Triploid Populus tomentosa Carr. (Salicaceae is a good alternative to meet the increasing need of the global pulp and paper industry. Meanwhile, the xylem of this species could be a useful bioresource to develop low molecular extractives with significant bioactive potential. In the present work, a phytochemical investigation on aqueous EtOH extractives of Triploid P. tomentosa xylem, by systematical performance of Sephadex LH-20 open column chromatography and Thin Layer Chromatography (TLC, resulted in the isolation of two phenolic acids (ρ-coumaric acid (I and caffeic acid (II, two flavonoids (apigenin (III and luteolin (IV, and three phenolic glucosides (salicortin (V, salireposide (VI and populoside (VII. The structure elucidation and determination of the isolated extractives were based on their spectroscopical data and physiochemical evidences. This was the first time to report the low molecular weight extractives of Triploid P. tomentosa. Various low molecular weight extractives from Triploid P. tomentosa xylem exhibited significant antioxidative activities by DPPH and hydroxyl radical scavenging assays.

  19. 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.

  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. 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.

  2. A technique for automatically extracting useful field of view and central field of view images

    Science.gov (United States)

    Pandey, Anil Kumar; Sharma, Param Dev; Aheer, Deepak; Kumar, Jay Prakash; Sharma, Sanjay Kumar; Patel, Chetan; Kumar, Rakesh; Bal, Chandra Sekhar

    2016-01-01

    Introduction: It is essential to ensure the uniform response of the single photon emission computed tomography gamma camera system before using it for the clinical studies by exposing it to uniform flood source. Vendor specific acquisition and processing protocol provide for studying flood source images along with the quantitative uniformity parameters such as integral and differential uniformity. However, a significant difficulty is that the time required to acquire a flood source image varies from 10 to 35 min depending both on the activity of Cobalt-57 flood source and the pre specified counts in the vendors protocol (usually 4000K-10,000K counts). In case the acquired total counts are less than the total prespecified counts, and then the vendor's uniformity processing protocol does not precede with the computation of the quantitative uniformity parameters. In this study, we have developed and verified a technique for reading the flood source image, remove unwanted information, and automatically extract and save the useful field of view and central field of view images for the calculation of the uniformity parameters. Materials and Methods: This was implemented using MATLAB R2013b running on Ubuntu Operating system and was verified by subjecting it to the simulated and real flood sources images. Results: The accuracy of the technique was found to be encouraging, especially in view of practical difficulties with vendor-specific protocols. Conclusion: It may be used as a preprocessing step while calculating uniformity parameters of the gamma camera in lesser time with fewer constraints. PMID:27095858

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

    International Nuclear Information System (INIS)

    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. (paper)

  5. Extraction of high molecular weight DNA from microbial mats.

    Science.gov (United States)

    Bey, Benjamin S; Fichot, Erin B; Norman, R Sean

    2011-01-01

    Successful and accurate analysis and interpretation of metagenomic data is dependent upon the efficient extraction of high-quality, high molecular weight (HMW) community DNA. However, environmental mat samples often pose difficulties to obtaining large concentrations of high-quality, HMW DNA. Hypersaline microbial mats contain high amounts of extracellular polymeric substances (EPS)1 and salts that may inhibit downstream applications of extracted DNA. Direct and harsh methods are often used in DNA extraction from refractory samples. These methods are typically used because the EPS in mats, an adhesive matrix, binds DNA during direct lysis. As a result of harsher extraction methods, DNA becomes fragmented into small sizes. The DNA thus becomes inappropriate for large-insert vector cloning. In order to circumvent these limitations, we report an improved methodology to extract HMW DNA of good quality and quantity from hypersaline microbial mats. We employed an indirect method involving the separation of microbial cells from the background mat matrix through blending and differential centrifugation. A combination of mechanical and chemical procedures was used to extract and purify DNA from the extracted microbial cells. Our protocol yields approximately 2 μg of HMW DNA (35-50 kb) per gram of mat sample, with an A(260/280) ratio of 1.6. Furthermore, amplification of 16S rRNA genes suggests that the protocol is able to minimize or eliminate any inhibitory effects of contaminants. Our results provide an appropriate methodology for the extraction of HMW DNA from microbial mats for functional metagenomic studies and may be applicable to other environmental samples from which DNA extraction is challenging. PMID:21775955

  6. Automatic Sleep Staging using Multi-dimensional Feature Extraction and Multi-kernel Fuzzy Support Vector Machine

    OpenAIRE

    Yanjun Zhang; Xiangmin Zhang; Wenhui Liu; Yuxi Luo; Enjia Yu; Keju Zou; Xiaoliang Liu

    2014-01-01

    This paper employed the clinical Polysomnographic (PSG) data, mainly including all-night Electroencephalogram (EEG), Electrooculogram (EOG) and Electromyogram (EMG) signals of subjects, and adopted the American Academy of Sleep Medicine (AASM) clinical staging manual as standards to realize automatic sleep staging. Authors extracted eighteen different features of EEG, EOG and EMG in time domains and frequency domains to construct the vectors according to the existing literatures as well as cl...

  7. Extraction: a system for automatic eddy current diagnosis of steam generator tubes in nuclear power plants

    International Nuclear Information System (INIS)

    Improving speed and quality of Eddy Current non-destructive testing of steam generator tubes leads to automatize all processes that contribute to diagnosis. This paper describes how we use signal processing, pattern recognition and artificial intelligence to build a software package that is able to automatically provide an efficient diagnosis. (authors). 2 figs., 5 refs

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

    International Nuclear Information System (INIS)

    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

  9. Automatic extraction of road seeds from high-resolution aerial images

    Directory of Open Access Journals (Sweden)

    Aluir P. Dal-Poz

    2005-09-01

    Full Text Available This article presents an automatic methodology for extraction of road seeds from high-resolution aerial images. The method is based on a set of four road objects and another set of connection rules among road objects. Each road object is a local representation of an approximately straight road fragment and its construction is based on a combination of polygons describing all relevant image edges, according to some rules embodying road knowledge. Each one of the road seeds is composed by a sequence of connected road objects, in which each sequence of this type can be geometrically structured as a chain of contiguous quadrilaterals. Experiments carried out with high-resolution aerial images showed that the proposed methodology is very promising in extracting road seeds. This article presents the fundamentals of the method and the experimental results, as well.Este artigo apresenta uma metodologia automática para extração de sementes de rodovia a partir de imagens aéreas de alta resolução. O método se baseia em um conjunto de quatro objetos de rodovia e em um conjunto de regras de conexão entre tais objetos. Cada objeto de rodovia é uma representação local de um fragmento de rodovia aproximadamente reto e sua construção é baseada na combinação de polígonos que descrevem todas as bordas relevantes da imagem, de acordo com algumas regras que incorporam conhecimento sobre a feição rodovia. Cada uma das sementes de rodovia é composta por uma sucessão de objetos de rodovia conectados, sendo que cada sucessão deste tipo pode ser geometricamente estruturada como uma cadeia de quadriláteros contíguos. Os experimentos realizados com imagens aéreas de alta resolução mostraram que a metodologia proposta é muito promissora na extração de sementes de rodovia. Este artigo apresenta os fundamentos do método, bem como os resultados experimentais.

  10. Automatic Extraction of Optimal Endmembers from Airborne Hyperspectral Imagery Using Iterative Error Analysis (IEA and Spectral Discrimination Measurements

    Directory of Open Access Journals (Sweden)

    Ahram Song

    2015-01-01

    Full Text Available Pure surface materials denoted by endmembers play an important role in hyperspectral processing in various fields. Many endmember extraction algorithms (EEAs have been proposed to find appropriate endmember sets. Most studies involving the automatic extraction of appropriate endmembers without a priori information have focused on N-FINDR. Although there are many different versions of N-FINDR algorithms, computational complexity issues still remain and these algorithms cannot consider the case where spectrally mixed materials are extracted as final endmembers. A sequential endmember extraction-based algorithm may be more effective when the number of endmembers to be extracted is unknown. In this study, we propose a simple but accurate method to automatically determine the optimal endmembers using such a method. The proposed method consists of three steps for determining the proper number of endmembers and for removing endmembers that are repeated or contain mixed signatures using the Root Mean Square Error (RMSE images obtained from Iterative Error Analysis (IEA and spectral discrimination measurements. A synthetic hyperpsectral image and two different airborne images such as Airborne Imaging Spectrometer for Application (AISA and Compact Airborne Spectrographic Imager (CASI data were tested using the proposed method, and our experimental results indicate that the final endmember set contained all of the distinct signatures without redundant endmembers and errors from mixed materials.

  11. Automatic urban building boundary extraction from high resolution aerial images using an innovative model of active contours

    Science.gov (United States)

    Ahmadi, Salman; Zoej, M. J. Valadan; Ebadi, Hamid; Moghaddam, Hamid Abrishami; Mohammadzadeh, Ali

    2010-06-01

    To present a new method for building boundary detection and extraction based on the active contour model, is the main objective of this research. Classical models of this type are associated with several shortcomings; they require extensive initialization, they are sensitive to noise, and adjustment issues often become problematic with complex images. In this research a new model of active contours has been proposed that is optimized for the automatic building extraction. This new active contour model, in comparison to the classical ones, can detect and extract the building boundaries more accurately, and is capable of avoiding detection of the boundaries of features in the neighborhood of buildings such as streets and trees. Finally, the detected building boundaries are generalized to obtain a regular shape for building boundaries. Tests with our proposed model demonstrate excellent accuracy in terms of building boundary extraction. However, due to the radiometric similarity between building roofs and the image background, our system fails to recognize a few buildings.

  12. Computer Vision Based Automatic Extraction and Thickness Measurement of Deep Cervical Flexor from Ultrasonic Images

    OpenAIRE

    Kwang Baek Kim; Doo Heon Song; Hyun Jun Park

    2016-01-01

    Deep Cervical Flexor (DCF) muscles are important in monitoring and controlling neck pain. While ultrasonographic analysis is useful in this area, it has intrinsic subjectivity problem. In this paper, we propose automatic DCF extractor/analyzer software based on computer vision. One of the major difficulties in developing such an automatic analyzer is to detect important organs and their boundaries under very low brightness contrast environment. Our fuzzy sigma binarization process is one of t...

  13. 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.

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

    International Nuclear Information System (INIS)

    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

  15. 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. PMID:25618718

  16. Automatic Vehicle Extraction from Airborne LiDAR Data Using an Object-Based Point Cloud Analysis Method

    Directory of Open Access Journals (Sweden)

    Jixian Zhang

    2014-09-01

    Full Text Available Automatic vehicle extraction from an airborne laser scanning (ALS point cloud is very useful for many applications, such as digital elevation model generation and 3D building reconstruction. In this article, an object-based point cloud analysis (OBPCA method is proposed for vehicle extraction from an ALS point cloud. First, a segmentation-based progressive TIN (triangular irregular network densification is employed to detect the ground points, and the potential vehicle points are detected based on the normalized heights of the non-ground points. Second, 3D connected component analysis is performed to group the potential vehicle points into segments. At last, vehicle segments are detected based on three features, including area, rectangularity and elongatedness. Experiments suggest that the proposed method is capable of achieving higher accuracy than the exiting mean-shift-based method for vehicle extraction from an ALS point cloud. Moreover, the larger the point density is, the higher the achieved accuracy is.

  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. Automatic ECG wave extraction in long-term recordings using Gaussian mesa function models and nonlinear probability estimators.

    Science.gov (United States)

    Dubois, Rémi; Maison-Blanche, Pierre; Quenet, Brigitte; Dreyfus, Gérard

    2007-12-01

    This paper describes the automatic extraction of the P, Q, R, S and T waves of electrocardiographic recordings (ECGs), through the combined use of a new machine-learning algorithm termed generalized orthogonal forward regression (GOFR) and of a specific parameterized function termed Gaussian mesa function (GMF). GOFR breaks up the heartbeat signal into Gaussian mesa functions, in such a way that each wave is modeled by a single GMF; the model thus generated is easily interpretable by the physician. GOFR is an essential ingredient in a global procedure that locates the R wave after some simple pre-processing, extracts the characteristic shape of each heart beat, assigns P, Q, R, S and T labels through automatic classification, discriminates normal beats (NB) from abnormal beats (AB), and extracts features for diagnosis. The efficiency of the detection of the QRS complex, and of the discrimination of NB from AB, is assessed on the MIT and AHA databases; the labeling of the P and T wave is validated on the QTDB database. PMID:17997186

  19. Automatic extraction analysis of the anatomical functional area for normal brain 18F-FDG PET imaging

    International Nuclear Information System (INIS)

    Using self-designed automatic extraction software of brain functional area, the grey scale distribution of 18F-FDG imaging and the relationship between the 18F-FDG accumulation of brain anatomic function area and the 18F-FDG injected dose, the level of glucose, the age, etc., were studied. According to the Talairach coordinate system, after rotation, drift and plastic deformation, the 18F-FDG PET imaging was registered into the Talairach coordinate atlas, and then the average gray value scale ratios between individual brain anatomic functional area and whole brain area was calculated. Further more the statistics of the relationship between the 18F-FDG accumulation of every brain anatomic function area and the 18F-FDG injected dose, the level of glucose and the age were tested by using multiple stepwise regression model. After images' registration, smoothing and extraction, main cerebral cortex of the 18F-FDG PET brain imaging can be successfully localized and extracted, such as frontal lobe, parietal lobe, occipital lobe, temporal lobe, cerebellum, brain ventricle, thalamus and hippocampus. The average ratios to the inner reference of every brain anatomic functional area were 1.01 ± 0.15. By multiple stepwise regression with the exception of thalamus and hippocampus, the grey scale of all the brain functional area was negatively correlated to the ages, but with no correlation to blood sugar and dose in all areas. To the 18F-FDG PET imaging, the brain functional area extraction program could automatically delineate most of the cerebral cortical area, and also successfully reflect the brain blood and metabolic study, but extraction of the more detailed area needs further investigation

  20. 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.

  1. Extracting the diffusion tensor from molecular dynamics simulation with Milestoning.

    Science.gov (United States)

    Mugnai, Mauro L; Elber, Ron

    2015-01-01

    We propose an algorithm to extract the diffusion tensor from Molecular Dynamics simulations with Milestoning. A Kramers-Moyal expansion of a discrete master equation, which is the Markovian limit of the Milestoning theory, determines the diffusion tensor. To test the algorithm, we analyze overdamped Langevin trajectories and recover a multidimensional Fokker-Planck equation. The recovery process determines the flux through a mesh and estimates local kinetic parameters. Rate coefficients are converted to the derivatives of the potential of mean force and to coordinate dependent diffusion tensor. We illustrate the computation on simple models and on an atomically detailed system-the diffusion along the backbone torsions of a solvated alanine dipeptide. PMID:25573551

  2. 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.

  3. 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.

  4. Automatic electricity markets data extraction for realistic multi-agent simulations

    DEFF Research Database (Denmark)

    Pereira, Ivo F.; Sousa, Tiago M.; Praca, Isabel;

    2014-01-01

    different market sources, even including different market types; machine learning approach for automatic definition of downloads periodicity of new information available on-line. This is a crucial tool to go a step forward in electricity markets simulation, since the integration of this database with a...... scenarios generation tool, based on knowledge discovery techniques, provides a framework to study real market scenarios allowing simulators improvement and validation....

  5. 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.

  6. An automatic heart wall contour extraction method on MR images using the Active Contour Model

    International Nuclear Information System (INIS)

    In this paper, we propose a new method of extracting heart wall contours using the Active Contour Model (snakes). We use an adaptive contrast enhancing method, which made it possible to extract both inner and outer contours of the left ventricule of the heart. Experimental results showed the efficiency of this method. (author)

  7. Development of automatic blood extraction device with a micro-needle for blood-sugar level measurement

    Science.gov (United States)

    Kawanaka, Kaichiro; Uetsuji, Yasutomo; Tsuchiya, Kazuyoshi; Nakamachi, Eiji

    2008-12-01

    In this study, a portable type HMS (Health Monitoring System) device is newly developed. It has features 1) puncturing a blood vessel by using a minimally invasive micro-needle, 2) extracting and transferring human blood and 3) measuring blood glucose level. This miniature SMBG (Self-Monitoring of Blood Glucose) device employs a syringe reciprocal blood extraction system equipped with an electro-mechanical control unit for accurate and steady operations. The device consists of a) a disposable syringe unit, b) a non-disposable body unit, and c) a glucose enzyme sensor. The syringe unit consists of a syringe itself, its cover, a piston and a titanium alloy micro-needle, whose inner diameter is about 100µm. The body unit consists of a linear driven-type stepping motor, a piston jig, which connects directly to the shaft of the stepping motor, and a syringe jig, which is driven by combining with the piston jig and slider, which fixes the syringe jig. The required thrust to drive the slider is designed to be greater than the value of the blood extraction force. Because of this driving mechanism, the automatic blood extraction and discharging processes are completed by only one linear driven-type stepping motor. The experimental results using our miniature SMBG device was confirmed to output more than 90% volumetric efficiency under the driving speed of the piston, 1.0mm/s. Further, the blood sugar level was measured successfully by using the glucose enzyme sensor.

  8. An automatic countercurrent liquid-liquid micro-extraction system coupled with atomic absorption spectrometry for metal determination.

    Science.gov (United States)

    Mitani, Constantina; Anthemidis, Aristidis N

    2015-02-01

    A novel and versatile automatic sequential injection countercurrent liquid-liquid microextraction (SI-CC-LLME) system coupled with atomic absorption spectrometry (FAAS) is presented for metal determination. The extraction procedure was based on the countercurrent flow of aqueous and organic phases which takes place into a newly designed lab made microextraction chamber. A noteworthy feature of the extraction chamber is that it can be utilized for organic solvents heavier or lighter than water. The proposed method was successfully demonstrated for on-line lead determination and applied in environmental water samples using an amount of 120 μL of chloroform as extractant and ammonium diethyldithiophosphate as chelating reagent. The effect of the major experimental parameters including the volume of extractant, as well as the flow rate of aqueous and organic phases were studied and optimized. Under the optimum conditions for 6 mL sample consumption an enhancement factor of 130 was obtained. The detection limit was 1.5 μg L(-1) and the precision of the method, expressed as relative standard deviation (RSD) was 2.7% at 40.0 μg L(-1) Pb(II) concentration level. The proposed method was evaluated by analyzing certified reference materials and spiked environmental water samples. PMID:25435230

  9. Automatic Extraction of Small Spatial Plots from Geo-Registered UAS Imagery

    Science.gov (United States)

    Cherkauer, Keith; Hearst, Anthony

    2015-04-01

    Accurate extraction of spatial plots from high-resolution imagery acquired by Unmanned Aircraft Systems (UAS), is a prerequisite for accurate assessment of experimental plots in many geoscience fields. If the imagery is correctly geo-registered, then it may be possible to accurately extract plots from the imagery based on their map coordinates. To test this approach, a UAS was used to acquire visual imagery of 5 ha of soybean fields containing 6.0 m2 plots in a complex planting scheme. Sixteen artificial targets were setup in the fields before flights and different spatial configurations of 0 to 6 targets were used as Ground Control Points (GCPs) for geo-registration, resulting in a total of 175 geo-registered image mosaics with a broad range of geo-registration accuracies. Geo-registration accuracy was quantified based on the horizontal Root Mean Squared Error (RMSE) of targets used as checkpoints. Twenty test plots were extracted from the geo-registered imagery. Plot extraction accuracy was quantified based on the percentage of the desired plot area that was extracted. It was found that using 4 GCPs along the perimeter of the field minimized the horizontal RMSE and enabled a plot extraction accuracy of at least 70%, with a mean plot extraction accuracy of 92%. The methods developed are suitable for work in many fields where replicates across time and space are necessary to quantify variability.

  10. MiDas: automatic extraction of a common domain of discourse in sleep medicine for multi-center data integration.

    Science.gov (United States)

    Sahoo, Satya S; Ogbuji, Chimezie; Luo, Lingyun; Dong, Xiao; Cui, Licong; Redline, Susan S; Zhang, Guo-Qiang

    2011-01-01

    Clinical studies often use data dictionaries with controlled sets of terms to facilitate data collection, limited interoperability and sharing at a local site. Multi-center retrospective clinical studies require that these data dictionaries, originating from individual participating centers, be harmonized in preparation for the integration of the corresponding clinical research data. Domain ontologies are often used to facilitate multi-center data integration by modeling terms from data dictionaries in a logic-based language, but interoperability among domain ontologies (using automated techniques) is an unresolved issue. Although many upper-level reference ontologies have been proposed to address this challenge, our experience in integrating multi-center sleep medicine data highlights the need for an upper level ontology that models a common set of terms at multiple-levels of abstraction, which is not covered by the existing upper-level ontologies. We introduce a methodology underpinned by a Minimal Domain of Discourse (MiDas) algorithm to automatically extract a minimal common domain of discourse (upper-domain ontology) from an existing domain ontology. Using the Multi-Modality, Multi-Resource Environment for Physiological and Clinical Research (Physio-MIMI) multi-center project in sleep medicine as a use case, we demonstrate the use of MiDas in extracting a minimal domain of discourse for sleep medicine, from Physio-MIMI's Sleep Domain Ontology (SDO). We then extend the resulting domain of discourse with terms from the data dictionary of the Sleep Heart and Health Study (SHHS) to validate MiDas. To illustrate the wider applicability of MiDas, we automatically extract the respective domains of discourse from 6 sample domain ontologies from the National Center for Biomedical Ontologies (NCBO) and the OBO Foundry. PMID:22195180

  11. First results of dose to patient in CT extracted with an automatic registration system

    International Nuclear Information System (INIS)

    Radiation protection of the patient in computed tomography (CT) is a priority for several reasons: the dose received during a scan is relatively high, is the diagnostic mode with greater contribution to dose to patient collective and the frequency of completion of TC is increasing rapidly the past few years. On the other hand, are currently beginning to commercially offer automated registration of dose to patient receiving dosimetric parameters of all scans performed on the equipment connected to the system. In this communication the first results are presented from two TC connected to an automatic system of this kind recently installed at our Center. (Author)

  12. 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...

  13. Boosting the Coverage of a Semantic Lexicon by Automatically Extracted Event Nominalizations

    OpenAIRE

    Gábor, Kata; Apidianaki, Marianna; Sagot, Benoît; Villemonte De La Clergerie, Éric

    2012-01-01

    An important trend in recent works on lexical semantics has been the development of learning methods capable of extracting semantic information from text corpora. The majority of these methods are based on the distributional hypothesis of meaning and acquire semantic information by identifying distributional patterns in texts. In this article, we present a distributional analysis method for extracting nominalization relations from monolingual corpora. The acquisition method makes use of distr...

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

    OpenAIRE

    Ben Abacha Asma; Zweigenbaum Pierre

    2011-01-01

    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) r...

  15. AN EFFICIENT METHOD FOR AUTOMATIC ROAD EXTRACTION BASED ON MULTIPLE FEATURES FROM LiDAR DATA

    OpenAIRE

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

    2016-01-01

    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...

  16. Improvement in the performance of CAD for the Alzheimer-type dementia based on automatic extraction of temporal lobe from coronal MR images

    International Nuclear Information System (INIS)

    In this study, we extracted whole brain and temporal lobe images from MR images (26 healthy elderly controls and 34 Alzheimer-type dementia patients) by means of binarize, mask processing, template matching, Hough transformation, and boundary tracing etc. We assessed the extraction accuracy by comparing the extracted images to images extracts by a radiological technologist. The results of assessment by consistent rate; brain images 91.3±4.3%, right temporal lobe 83.3±6.9%, left temporal lobe 83.7±7.6%. Furthermore discriminant analysis using 6 textural features demonstrated sensitivity and specificity of 100% when the healthy elderly controls were compared to the Alzheimer-type dementia patients. Our research showed the possibility of automatic objective diagnosis of temporal lobe abnormalities by automatic extracted images of the temporal lobes. (author)

  17. Semi-automatic building extraction in informal settlements from high-resolution satellite imagery

    Science.gov (United States)

    Mayunga, Selassie David

    The extraction of man-made features from digital remotely sensed images is considered as an important step underpinning management of human settlements in any country. Man-made features and buildings in particular are required for varieties of applications such as urban planning, creation of geographical information systems (GIS) databases and Urban City models. The traditional man-made feature extraction methods are very expensive in terms of equipment, labour intensive, need well-trained personnel and cannot cope with changing environments, particularly in dense urban settlement areas. This research presents an approach for extracting buildings in dense informal settlement areas using high-resolution satellite imagery. The proposed system uses a novel strategy of extracting building by measuring a single point at the approximate centre of the building. The fine measurement of the building outlines is then effected using a modified snake model. The original snake model on which this framework is based, incorporates an external constraint energy term which is tailored to preserving the convergence properties of the snake model; its use to unstructured objects will negatively affect their actual shapes. The external constrained energy term was removed from the original snake model formulation, thereby, giving ability to cope with high variability of building shapes in informal settlement areas. The proposed building extraction system was tested on two areas, which have different situations. The first area was Tungi in Dar Es Salaam, Tanzania where three sites were tested. This area is characterized by informal settlements, which are illegally formulated within the city boundaries. The second area was Oromocto in New Brunswick, Canada where two sites were tested. Oromocto area is mostly flat and the buildings are constructed using similar materials. Qualitative and quantitative measures were employed to evaluate the accuracy of the results as well as the performance

  18. AUTOMATIC EXTRACTION OF ROCK JOINTS FROM LASER SCANNED DATA BY MOVING LEAST SQUARES METHOD AND FUZZY K-MEANS CLUSTERING

    Directory of Open Access Journals (Sweden)

    S. Oh

    2012-09-01

    Full Text Available Recent development of laser scanning device increased the capability of representing rock outcrop in a very high resolution. Accurate 3D point cloud model with rock joint information can help geologist to estimate stability of rock slope on-site or off-site. An automatic plane extraction method was developed by computing normal directions and grouping them in similar direction. Point normal was calculated by moving least squares (MLS method considering every point within a given distance to minimize error to the fitting plane. Normal directions were classified into a number of dominating clusters by fuzzy K-means clustering. Region growing approach was exploited to discriminate joints in a point cloud. Overall procedure was applied to point cloud with about 120,000 points, and successfully extracted joints with joint information. The extraction procedure was implemented to minimize number of input parameters and to construct plane information into the existing point cloud for less redundancy and high usability of the point cloud itself.

  19. Review of Automatic Feature Extraction from High-Resolution Optical Sensor Data for UAV-Based Cadastral Mapping

    Directory of Open Access Journals (Sweden)

    Sophie Crommelinck

    2016-08-01

    Full Text Available Unmanned Aerial Vehicles (UAVs have emerged as a rapid, low-cost and flexible acquisition system that appears feasible for application in cadastral mapping: high-resolution imagery, acquired using UAVs, enables a new approach for defining property boundaries. However, UAV-derived data are arguably not exploited to its full potential: based on UAV data, cadastral boundaries are visually detected and manually digitized. A workflow that automatically extracts boundary features from UAV data could increase the pace of current mapping procedures. This review introduces a workflow considered applicable for automated boundary delineation from UAV data. This is done by reviewing approaches for feature extraction from various application fields and synthesizing these into a hypothetical generalized cadastral workflow. The workflow consists of preprocessing, image segmentation, line extraction, contour generation and postprocessing. The review lists example methods per workflow step—including a description, trialed implementation, and a list of case studies applying individual methods. Furthermore, accuracy assessment methods are outlined. Advantages and drawbacks of each approach are discussed in terms of their applicability on UAV data. This review can serve as a basis for future work on the implementation of most suitable methods in a UAV-based cadastral mapping workflow.

  20. Detection of fiducial gold markers for automatic on-line megavoltage position verification using a marker extraction kernel (MEK)

    International Nuclear Information System (INIS)

    Purpose: In this study automatic detection of implanted gold markers in megavoltage portal images for on-line position verification was investigated. Methods and Materials: A detection method for fiducial gold markers, consisting of a marker extraction kernel (MEK), was developed. The detection success rate was determined for different markers using this MEK. The localization accuracy was investigated by measuring distances between markers, which were fixed on a perspex template. In order to generate images comparable to images of patients with implanted markers, this template was placed on the skin of patients before the start of the treatment. Portal images were taken of lateral prostate fields at 18 MV within 1-2 monitor units (MU). Results: The detection success rates for markers of 5 mm length and 1.2 and 1.4 mm diameter were 0.95 and 0.99 respectively when placed at the beam entry and 0.39 and 0.86 when placed at the beam exit. The localization accuracy appears to be better than 0.6 mm for all markers. Conclusion: Automatic marker detection with an acceptable accuracy at the start of a radiotherapy fraction is feasible. Further minimization of marker diameters may be achieved with the help of an a-Si flat panel imager and may increase the clinical acceptance of this technique

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

    Directory of Open Access Journals (Sweden)

    M.L. Khodra

    2011-04-01

    Full Text Available 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 performer (80.68% is SVM classifier with all features.

  2. Method of automatic endocardium extraction from chest MRI images using three-dimensional digital image processing

    International Nuclear Information System (INIS)

    In this paper, we propose a method of endocardium extraction from chest MRI images. The proposed procedure constructed with three-dimentional digital image processing techniques is executed without manual intervention. A digital figure of endocardium is obtained as two components: left chambers and right chambers. The shape of extracted endocardium was verified by observing a voxel expression image displayed with depth-coded shading. Volume change curves of left and right chambers were calculated to show feasibility of using the results for measurement of cardiac functions. (author)

  3. Automatic Extraction of IndoorGML Core Model from OpenStreetMap

    Science.gov (United States)

    Mirvahabi, S. S.; Abbaspour, R. A.

    2015-12-01

    Navigation has become an essential component of human life and a necessary component in many fields. Because of the increasing size and complexity of buildings, a unified data model for navigation analysis and exchange of information. IndoorGML describes an appropriate data model and XML schema of indoor spatial information that focuses on modelling indoor spaces. Collecting spatial data by professional and commercial providers often need to spend high cost and time, which is the major reason that VGI emerged. One of the most popular VGI projects is OpenStreetMap (OSM). In this paper, a new approach is proposed for the automatic generation of IndoorGML data core file from OSM data file. The output of this approach is the file of core data model that can be used alongside the navigation data model for navigation application of indoor space.

  4. 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.

  5. 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...

  6. Water-compatible molecularly imprinted polymers for selective solid phase extraction of dencichine from the aqueous extract of Panax notoginseng.

    Science.gov (United States)

    Ji, Wenhua; Xie, Hongkai; Zhou, Jie; Wang, Xiao; Ma, Xiuli; Huang, Luqi

    2016-01-01

    Specific molecularly imprinted polymers for dencichine were developed for the first time in this study by the bulk polymerization using phenylpyruvic acid and dl-tyrosine as multi-templates. The photographs confirmed that molecularly imprinted polymers prepared using N,N'-methylene diacrylamide as cross-linker and glycol dimethyl ether as porogen displayed excellent hydrophilicity. Selectivity, adsorption isotherm and adsorption kinetics were investigated. The sample loading-washing-eluting solvent was optimized to evaluate the property of molecularly imprinted solid phase extract. Compared with LC/WCX-SPE, water-compatible molecularly imprinted solid phase extraction displayed more excellent specific adsorption performance. The extracted dencichine from Panax notoginseng with the purity of 98.5% and the average recovery of 85.6% (n=3) was obtained. PMID:26680322

  7. Design and screening of extractants for Zr4+-Hf4+ separation: synergistic approach using molecular modelling and solvent extraction

    International Nuclear Information System (INIS)

    The preferential selectivity of Zr4+ over Hf4+ ion towards mixed alkyl organophosphorus extractants is predicted using molecular modelling and solvent extraction studies. Density Functional theory successfully captures the higher complexation stability of mixed alkyl phosphine oxide (MAPO) over mixed alkyl substituted phosphine oxide (MSAPO) for both Zr4+ and Hf4+ ions as observed in the solvent extraction experiment. Further, the extraction energy for Zr4+ ion is higher than Hf4+ ion with MAPO over MSAPO. The calculated extraction energy follows the same order of distribution constant as predicted by the solvent extraction which shows that MAPO is the best extractant in terms of higher distribution constant and selectivity over MSAPO. (author)

  8. Clinical application of automatic extraction of left ventricular contours. Evaluation of left ventricular volumes by contrast-enhanced breath-hold ultrafast cine MR imaging

    International Nuclear Information System (INIS)

    To assess the validity of automatic extraction of left ventricular inner contours based on contrast-enhanced ultrafast cine-MR images, phantom (n=15) and clinical (n=60) studies were performed. In phantom study, left ventricular volumes obtained by biplane modified Simpson's method based on automatic extraction of left ventricular inner contour was significantly correlated to phantom's volumes(r=0.991). Contrast-enhanced breath-hold ultrafast cine MR imaging was shown to provide accurate cardiac images with high success rate (89% in horizontal long axis section and 88% in vertical long axis section) in clinical study. However, the extraction of left ventricular inner contour depends on operator's manual tracing and the time required for data analysis is longer. The automatic extraction time of left ventricular inner contour was 4 second/frame, on the other hand conventional manual tracing time was 60-90 second/frame. Comparison with left ventricular volumes showed a high correlation between contrast-enhanced ultrafast cine MR imaging (monoplane area-length's and biplane modified Simpson's methods based on automatic extraction of left ventricle) and digital subtraction left ventriculography (biplane area-length's method). (author)

  9. GDRMS: a system for automatic extraction of the disease-centre relation

    Science.gov (United States)

    Yang, Ronggen; Zhang, Yue; Gong, Lejun

    2012-01-01

    With the rapidly increasing of biomedical literature, the deluge of new articles is leading to information overload. Extracting the available knowledge from the huge amount of biomedical literature has become a major challenge. GDRMS is developed as a tool that extracts the relationship between disease and gene, gene and gene from biomedical literatures using text mining technology. It is a ruled-based system which also provides disease-centre network visualization, constructs the disease-gene database, and represents a gene engine for understanding the function of the gene. The main focus of GDRMS is to provide a valuable opportunity to explore the relationship between disease and gene for the research community about etiology of disease.

  10. Automatic fuzzy contouring and parameter extraction of the left ventricle from multi-slice MR images

    International Nuclear Information System (INIS)

    Cardiac MR Imaging is a non invasive technique that allows the acquisition of a series of short-axis slices of the heart. These images encompass the entire left ventricle in the different phases of the cardiac cycle. The principal physiological parameters extracted from this series are the ejection fraction and the wall thickness. To this end, the determination of both the endocardial and the epicardial contour is required. Following the extraction of three parameters for each pixel, the fuzzy set of the cardiac contour points is defined. The first parameter depends on the pixel grey level value, the second on the presence of an edge and the third on the information retrieved on the previous slice. The calculation of the membership degree to the fuzzy set of the cardiac contour points for each pixel involves the creation of a matrix of membership degrees. The cardiac contours are determined on this matrix with the aid of a dynamic programming technique, graph searching. (authors)

  11. 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.

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

    OpenAIRE

    J. Del Rio Vera; Coiras, E.; Groen, J; Evans, B.

    2009-01-01

    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...

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

    Science.gov (United States)

    Del Rio Vera, J.; Coiras, E.; Groen, J.; Evans, B.

    2009-12-01

    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.

  14. Automatic extraction of PIOPED interpretations from ventilation/perfusion lung scan reports.

    OpenAIRE

    Fiszman, M.; Haug, P. J.; Frederick, P. R.

    1998-01-01

    Free-text documents are the main type of data produced by a radiology department in a hospital information system. While this type of data is readily accessible for clinical data review it can not be accessed by other applications to perform medical decision support, quality assurance, and outcome studies. In an attempt to solve this problem, natural language processing systems have been developed and tested against chest x-rays reports to extract relevant clinical information and make it acc...

  15. Automatic extraction of protein point mutations using a graph bigram association.

    Directory of Open Access Journals (Sweden)

    Lawrence C Lee

    2007-02-01

    Full Text Available Protein point mutations are an essential component of the evolutionary and experimental analysis of protein structure and function. While many manually curated databases attempt to index point mutations, most experimentally generated point mutations and the biological impacts of the changes are described in the peer-reviewed published literature. We describe an application, Mutation GraB (Graph Bigram, that identifies, extracts, and verifies point mutations from biomedical literature. The principal problem of point mutation extraction is to link the point mutation with its associated protein and organism of origin. Our algorithm uses a graph-based bigram traversal to identify these relevant associations and exploits the Swiss-Prot protein database to verify this information. The graph bigram method is different from other models for point mutation extraction in that it incorporates frequency and positional data of all terms in an article to drive the point mutation-protein association. Our method was tested on 589 articles describing point mutations from the G protein-coupled receptor (GPCR, tyrosine kinase, and ion channel protein families. We evaluated our graph bigram metric against a word-proximity metric for term association on datasets of full-text literature in these three different protein families. Our testing shows that the graph bigram metric achieves a higher F-measure for the GPCRs (0.79 versus 0.76, protein tyrosine kinases (0.72 versus 0.69, and ion channel transporters (0.76 versus 0.74. Importantly, in situations where more than one protein can be assigned to a point mutation and disambiguation is required, the graph bigram metric achieves a precision of 0.84 compared with the word distance metric precision of 0.73. We believe the graph bigram search metric to be a significant improvement over previous search metrics for point mutation extraction and to be applicable to text-mining application requiring the association of words.

  16. Can Automatic Abstracting Improve on Current Extracting Techniques in Aiding Users to Judge the Relevance of Pages in Search Engine Results?

    OpenAIRE

    Liang, SF

    2004-01-01

    Current search engines use sentence extraction techniques to produce snippet result summaries, which users may find less than ideal for determining the relevance of pages. Unlike extracting, abstracting programs analyse the context of documents and rewrite them into informative summaries. Our project aims to produce abstracting summaries which are coherent and easy to read thereby lessening users’ time in judging the relevance of pages. However, automatic abstracting technique has its domain ...

  17. 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; Grudpan, Kate; Hansen, Elo Harald

    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...... overcoming the above shortcomings, so-called bead-injection (BI) analysis, based on automated renewal of the sorbent material per assay exploiting the various generations of flow-injection analysis. It addresses novel instrumental developments for implementing BI and a number of alternatives for online...

  18. 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.

  19. 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

  20. 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%.

  1. Automatic extraction of pectoral muscle in the MLO view of mammograms

    International Nuclear Information System (INIS)

    A mammogram is the standard modality used for breast cancer screening. Computer-aided detection (CAD) approaches are helpful for improving breast cancer detection rates when applied to mammograms. However, automated analysis of a mammogram often leads to inaccurate results in the presence of the pectoral muscle. Therefore, it is necessary to first handle pectoral muscle segmentation separately before any further analysis of a mammogram. One difficulty to overcome when segmenting out pectoral muscle is its strong overlapping with dense glandular tissue which tampers with its extraction. This paper introduces an automated two-step approach for pectoral muscle extraction. The pectoral region is firstly estimated through segmentation by mean of a modified Fuzzy C-Means clustering algorithm. After contour validation, the final boundary is delineated through iterative refinement of edge point using average gradient. The proposed method is quite simple in implementation and yields accurate results. It was tested on a set of images from the MIAS database and yielded results which, compared to those of some state-of-the-art approaches, were better. (paper)

  2. 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.

  3. A system automatic study for the spent fuel rod cutting and simulated fuel pellet extraction device

    International Nuclear Information System (INIS)

    A fuel pellet extraction device of the spent fuel rods is described. The device consists of a cutting device of the spent fuel rods and the decladding device of the fuel pellets. The cutting device is to cut a spent fuel rod to n optimal size for fast decladding operation. To design the device, the fuel rod properties are investigated including the dimension and material of fuel rod tubes and pellets. Also, various methods of existing cutting method are investigated. The design concepts accommodate remote operability for the Hot-Cell(radioactive ) area operation. Also, the modularization of the device structure is considered for the easy maintenance. The decladding device is to extract the fuel pellet from the rod cut. To design this device, the existing method is investigated including the chemical and mechanical decladding methods. From the view point of fuel recovery and feasibility of implementation. it is concluded that the chemical decladding method is not appropriate due to the mass production of radioactive liquid wastes, in spite of its high fuel recovery characteristics. Hence, in this paper, the mechanical decladding method is adopted and the device is designed so as to be applicable to various lengths of rod-cuts. As like the cutting device,the concepts of remote operability and maintainability is considered. Both devices are fabricated and the performance is investigated through a series of experiments. From the experimental result, the optimal operational condition of the devices is established

  4. 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.

  5. 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...

  6. Automatic molecular collection and detection by using fuel-powered microengines

    Science.gov (United States)

    Han, Di; Fang, Yangfu; Du, Deyang; Huang, Gaoshan; Qiu, Teng; Mei, Yongfeng

    2016-04-01

    We design and fabricate a simple self-powered system to collect analyte molecules in fluids for surface-enhanced Raman scattering (SERS) detection. The system is based on catalytic Au/SiO/Ti/Ag-layered microengines by employing rolled-up nanotechnology. Pronounced SERS signals are observed on microengines with more carrier molecules compared with the same structure without automatic motions.We design and fabricate a simple self-powered system to collect analyte molecules in fluids for surface-enhanced Raman scattering (SERS) detection. The system is based on catalytic Au/SiO/Ti/Ag-layered microengines by employing rolled-up nanotechnology. Pronounced SERS signals are observed on microengines with more carrier molecules compared with the same structure without automatic motions. Electronic supplementary information (ESI) available: Experimental procedures, characterization, SERS enhancement factor calculation and videos. See DOI: 10.1039/c6nr00117c

  7. 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

  8. Automatic extraction of the mid-sagittal plane using an ICP variant

    Science.gov (United States)

    Fieten, Lorenz; Eschweiler, Jörg; de la Fuente, Matías; Gravius, Sascha; Radermacher, Klaus

    2008-03-01

    Precise knowledge of the mid-sagittal plane is important for the assessment and correction of several deformities. Furthermore, the mid-sagittal plane can be used for the definition of standardized coordinate systems such as pelvis or skull coordinate systems. A popular approach for mid-sagittal plane computation is based on the selection of anatomical landmarks located either directly on the plane or symmetrically to it. However, the manual selection of landmarks is a tedious, time-consuming and error-prone task, which requires great care. In order to overcome this drawback, previously it was suggested to use the iterative closest point (ICP) algorithm: After an initial mirroring of the data points on a default mirror plane, the mirrored data points should be registered iteratively to the model points using rigid transforms. Finally, a reflection transform approximating the cumulative transform could be extracted. In this work, we present an ICP variant for the iterative optimization of the reflection parameters. It is based on a closed-form solution to the least-squares problem of matching data points to model points using a reflection. In experiments on CT pelvis and skull datasets our method showed a better ability to match homologous areas.

  9. Evaluation of left ventricular volume curve by Gd-DTPA enhanced ultrafast cine MR imaging. Clinical application of automatic extraction left ventricular contours on long axis views

    International Nuclear Information System (INIS)

    Contrast-enhanced breath-hold ultrafast cine MR imaging was shown to provide accurate cardiac images with higher success rate (89% in horizontal long axis view and 88% in vertical long axis view). However, the data analysis method still depends on operator's manual tracing of left ventricular (LV) contours which cannot exclude subjectivity, so not only the operator's contributions but also the data analysis results' reproducibility problems remains. We propose an automatic extraction method of LV contours on cine MR images, which needs only 3 manually inputted points at the 1st cardiac frame and require no manual operation for another frames. The automatic LV edge extraction time was 4 second/frame by this method, on the other hand, conventional manual tracing time was 60-90 second/frame. Comparison with LV volumes showed a high correlation (r=0.953 in EDVI, r=0.962 in ESVI) between manual and automatic tracing of LV contours on horizontal long axis view. We have developed an automatic extraction method of LV contours on long axis view in contrast-enhanced ultrafast cine MR images. This is an accurate highly reproducible method of evaluating LV volumetry and volume curve. (author)

  10. Noncontact optical imaging in mice with full angular coverage and automatic surface extraction

    Science.gov (United States)

    Meyer, Heiko; Garofalakis, Anikitos; Zacharakis, Giannis; Psycharakis, Stylianos; Mamalaki, Clio; Kioussis, Dimitris; Economou, Eleftherios N.; Ntziachristos, Vasilis; Ripoll, Jorge

    2007-06-01

    During the past decade, optical imaging combined with tomographic approaches has proved its potential in offering quantitative three-dimensional spatial maps of chromophore or fluorophore concentration in vivo. Due to its direct application in biology and biomedicine, diffuse optical tomography (DOT) and its fluorescence counterpart, fluorescence molecular tomography (FMT), have benefited from an increase in devoted research and new experimental and theoretical developments, giving rise to a new imaging modality. The most recent advances in FMT and DOT are based on the capability of collecting large data sets by using CCDs as detectors, and on the ability to include multiple projections through recently developed noncontact approaches. For these to be implemented, we have developed an imaging setup that enables three-dimensional imaging of arbitrary shapes in fluorescence or absorption mode that is appropriate for small animal imaging. This is achieved by implementing a noncontact approach both for sources and detectors and coregistering surface geometry measurements using the same CCD camera. A thresholded shadowgrammetry approach is applied to the geometry measurements to retrieve the surface mesh. We present the evaluation of the system and method in recovering three-dimensional surfaces from phantom data and live mice. The approach is used to map the measured in vivo fluorescence data onto the tissue surface by making use of the free-space propagation equations, as well as to reconstruct fluorescence concentrations inside highly scattering tissuelike phantom samples. Finally, the potential use of this setup for in vivo small animal imaging and its impact on biomedical research is discussed.

  11. 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

  12. Automatic Sleep Staging using Multi-dimensional Feature Extraction and Multi-kernel Fuzzy Support Vector Machine

    Directory of Open Access Journals (Sweden)

    Yanjun Zhang

    2014-01-01

    Full Text Available This paper employed the clinical Polysomnographic (PSG data, mainly including all-night Electroencephalogram (EEG, Electrooculogram (EOG and Electromyogram (EMG signals of subjects, and adopted the American Academy of Sleep Medicine (AASM clinical staging manual as standards to realize automatic sleep staging. Authors extracted eighteen different features of EEG, EOG and EMG in time domains and frequency domains to construct the vectors according to the existing literatures as well as clinical experience. By adopting sleep samples self-learning, the linear combination of weights and parameters of multiple kernels of the fuzzy support vector machine (FSVM were learned and the multi-kernel FSVM (MK-FSVM was constructed. The overall agreement between the experts' scores and the results presented was 82.53%. Compared with previous results, the accuracy of N1 was improved to some extent while the accuracies of other stages were approximate, which well reflected the sleep structure. The staging algorithm proposed in this paper is transparent, and worth further investigation.

  13. 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.

  14. Automatic fault feature extraction of mechanical anomaly on induction motor bearing using ensemble super-wavelet transform

    Science.gov (United States)

    He, Wangpeng; Zi, Yanyang; Chen, Binqiang; Wu, Feng; He, Zhengjia

    2015-03-01

    Mechanical anomaly is a major failure type of induction motor. It is of great value to detect the resulting fault feature automatically. In this paper, an ensemble super-wavelet transform (ESW) is proposed for investigating vibration features of motor bearing faults. The ESW is put forward based on the combination of tunable Q-factor wavelet transform (TQWT) and Hilbert transform such that fault feature adaptability is enabled. Within ESW, a parametric optimization is performed on the measured signal to obtain a quality TQWT basis that best demonstrate the hidden fault feature. TQWT is introduced as it provides a vast wavelet dictionary with time-frequency localization ability. The parametric optimization is guided according to the maximization of fault feature ratio, which is a new quantitative measure of periodic fault signatures. The fault feature ratio is derived from the digital Hilbert demodulation analysis with an insightful quantitative interpretation. The output of ESW on the measured signal is a selected wavelet scale with indicated fault features. It is verified via numerical simulations that ESW can match the oscillatory behavior of signals without artificially specified. The proposed method is applied to two engineering cases, signals of which were collected from wind turbine and steel temper mill, to verify its effectiveness. The processed results demonstrate that the proposed method is more effective in extracting weak fault features of induction motor bearings compared with Fourier transform, direct Hilbert envelope spectrum, different wavelet transforms and spectral kurtosis.

  15. Design of molecularly imprinted polymers for sensors and solid phase extraction

    OpenAIRE

    Subrahmanyam, Sreenath

    2002-01-01

    This thesis presents broadly the applications of molecularly imprinted polymers in sensors and solid phase extraction. Sensors for creatine and creatinine have been reported using a novel method of rational design of molecularly imprinted polymers (MIPs), and solid phase extraction of aflatoxin-B 1 has also been described in the thesis. A method for the selective detection of creataine and creatinine is reported in this thesis, which is based on the reaction between polymeri...

  16. Preparation of molecularly imprinted polymers based on magnetic nanoparticles for the selective extraction of protocatechuic acid from plant extracts.

    Science.gov (United States)

    Xie, Xiaoyu; Wei, Fen; Chen, Liang; Wang, Sicen

    2015-03-01

    In this study, highly selective core-shell molecularly imprinted polymers on the surface of magnetic nanoparticles were prepared using protocatechuic acid as the template molecule. The resulting magnetic molecularly imprinted polymers were characterized by transmission electron microscopy, Fourier transform infrared spectroscopy, X-ray diffraction, and vibrating sample magnetometry. The binding performances of the prepared materials were evaluated by static and selective adsorption. The binding isotherms were obtained for protocatechuic acid and fitted by the Langmuir isotherm model and Freundlich isotherm model. Furthermore, the resulting materials were used as the solid-phase extraction materials coupled to high-performance liquid chromatography for the selective extraction and detection of protocatechuic acid from the extracts of Homalomena occulta and Cynomorium songaricum with the recoveries in the range 86.3-102.2%. PMID:25641806

  17. Solvent extraction studies on uranium (VI) with high molecular weight carboxylic acids from acetate medium

    International Nuclear Information System (INIS)

    Carboxylic acids are cation exchanger type of extractant which extract metal ions from weak acidic solutions by ion exchange mechanism. They are present as dimer (H2A2) in the non polar organic diluents. High molecular weight carboxylic acids such as versatic 10 acid and naphthenic acid are used for the separation of high purity of yttrium from heavy fraction of rare earths. Extraction behavior of rare earths with different types of carboxylic acids is also reported. Literature survey revealed that the extraction behavior of uranium from aqueous solutions with carboxylic acids is scanty. An attempt has been made in the present work to examine the extraction behavior of U(VI) with three different types of high molecular weight carboxylic acids namely cekanoic acid, neoheptanoic acid and versatic 10 acid dissolved in xylene. Extraction of metal ions is very much dependent on pH of the solution

  18. Application of pattern recognition in molecular spectroscopy: Automatic line search in high-resolution spectra

    Science.gov (United States)

    Bykov, A. D.; Pshenichnikov, A. M.; Sinitsa, L. N.; Shcherbakov, A. P.

    2004-07-01

    An expert system has been developed for the initial analysis of a recorded spectrum, namely, for the line search and the determination of line positions and intensities. The expert system is based on pattern recognition algorithms. Object recognition learning allows the system to achieve the needed flexibility and automatically detect groups of overlapping lines, whose profiles should be fit together. Gauss, Lorentz, and Voigt profiles are used as model profiles to which spectral lines are fit. The expert system was applied to processing of the Fourier transform spectrum of the D2O molecule in the region 3200-4200 cm-1, and it detected 4670 lines in the spectrum, which consisted of 439000 dots. No one experimentally observed line exceeding the noise level was missed.

  19. Extracting Structure Parameters of Dimers for Molecular Tunneling Ionization Model

    Science.gov (United States)

    Zhao, Song-Feng; Huang, Fang; Wang, Guo-Li; Zhou, Xiao-Xin

    2016-03-01

    We determine structure parameters of the highest occupied molecular orbital (HOMO) of 27 dimers for the molecular tunneling ionization (so called MO-ADK) model of Tong et al. [Phys. Rev. A 66 (2002) 033402]. The molecular wave functions with correct asymptotic behavior are obtained by solving the time-independent Schrödinger equation with B-spline functions and molecular potentials which are numerically created using the density functional theory. We examine the alignment-dependent tunneling ionization probabilities from MO-ADK model for several molecules by comparing with the molecular strong-field approximation (MO-SFA) calculations. We show the molecular Perelomov-Popov-Terent'ev (MO-PPT) can successfully give the laser wavelength dependence of ionization rates (or probabilities). Based on the MO-PPT model, two diatomic molecules having valence orbital with antibonding systems (i.e., Cl2, Ne2) show strong ionization suppression when compared with their corresponding closest companion atoms. Supported by National Natural Science Foundation of China under Grant Nos. 11164025, 11264036, 11465016, 11364038, the Specialized Research Fund for the Doctoral Program of Higher Education of China under Grant No. 20116203120001, and the Basic Scientific Research Foundation for Institution of Higher Learning of Gansu Province

  20. Multiple Features Based Approach to Extract Bio-molecular Event Triggers Using Conditional Random Field

    Directory of Open Access Journals (Sweden)

    Amit Majumder

    2012-11-01

    Full Text Available The purpose of Biomedical Natural Language Processing (BioNLP is to capture biomedical phenomena from textual data by extracting relevant entities, information and relations between biomedical entities (i.e. proteins and genes. In general, in most of the published papers, only binary relations were extracted. In a recent past, the focus is shifted towards extracting more complex relations in the form of bio-molecular events that may include several entities or other relations. In this paper we propose an approach that enables event trigger extraction of relatively complex bio-molecular events. We approach this problem as a detection of bio-molecular event trigger using the well-known algorithm, namely Conditional Random Field (CRF. We apply our experiments on development set. It shows the overall average recall, precision and F-measure values of 64.27504%, 69.97559% and 67.00429%, respectively for the event detection.

  1. 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.

  2. Pomegranate Extracts and Cancer Prevention: Molecular and Cellular Activities

    OpenAIRE

    Syed, Deeba N.; Chamcheu, Jean-Christopher; Adhami, Vaqar M.; Mukhtar, Hasan

    2013-01-01

    There is increased appreciation by the scientific community that dietary phytochemicals can be potential weapons in the fight against cancer. Emerging data has provided new insights into the molecular and cellular framework needed to establish novel mechanism-based strategies for cancer prevention by selective bioactive food components. The unique chemical composition of the pomegranate fruit, rich in antioxidant tannins and flavonoids has drawn the attention of many investigators. Polyphenol...

  3. Molecular characteristics of Illicium verum extractives to activate acquired immune response.

    Science.gov (United States)

    Peng, Wanxi; Lin, Zhi; Wang, Lansheng; Chang, Junbo; Gu, Fangliang; Zhu, Xiangwei

    2016-05-01

    Illicium verum, whose extractives can activate the demic acquired immune response, is an expensive medicinal plant. However, the rich extractives in I. verum biomass were seriously wasted for the inefficient extraction and separation processes. In order to further utilize the biomedical resources for the good acquired immune response, the four extractives were obtained by SJYB extraction, and then the immunology moleculars of SJYB extractives were identified and analyzed by GC-MS. The result showed that the first-stage extractives contained 108 components including anethole (40.27%), 4-methoxy-benzaldehyde (4.25%), etc.; the second-stage extractives had 5 components including anethole (84.82%), 2-hydroxy-2-(4-methoxy-phenyl)-n-methyl-acetamide (7.11%), etc.; the third-stage extractives contained one component namely anethole (100%); and the fourth-stage extractives contained 5 components including cyclohexyl-benzene (64.64%), 1-(1-methylethenyl)-3-(1-methylethyl)-benzene (17.17%), etc. The SJYB extractives of I. verum biomass had a main retention time between 10 and 20 min what's more, the SJYB extractives contained many biomedical moleculars, such as anethole, eucalyptol, [1S-(1α,4aα,10aβ)]-1,2,3,4,4a,9,10,10a-octahydro-1,4a-dimethyl-7-(1-methylethyl)-1-phenanthrenecarboxylic acid, stigmast-4-en-3-one, γ-sitosterol, and so on. So the functional analytical results suggested that the SJYB extractives of I. verum had a function in activating the acquired immune response and a huge potential in biomedicine. PMID:27081359

  4. 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.

  5. Comparison of Automatic Classifiers’ Performances using Word-based Feature Extraction Techniques in an E-government setting

    OpenAIRE

    Marin Rodenas, Alfonso

    2011-01-01

    Nowadays email is commonly used by citizens to establish communication with their government. On the received emails, governments deal with some common queries and subjects which some handling officers have to manually answer. Automatic email classification of the incoming emails allows to increase the communication efficiency by decreasing the delay between the query and its response. This thesis takes part within the IMAIL project, which aims to provide an automatic answering solution to th...

  6. The study of automatic brain extraction of basal ganglia based on atlas of Talairach in 18F-FDG PET images

    International Nuclear Information System (INIS)

    Objective: To establish a method which can extract functional areas of the brain basal ganglia automatically. Methods: 18F-fluorodeoxyglucose (FDG) PET images were spatial normalized to Talairach atlas space through two steps, image registration and image deformation. The functional areas were extracted from three dimension PET images based on the coordinate obtained from atlas; caudate and putamen were extracted and rendered, the grey value of the area was normalized by whole brain. Results: The normal ratio of left caudate head, body and tail were 1.02 ± 0.04, 0.92 ± 0.07 and 0.71 ± 0.03, the right were 0.98 ± 0.03, 0.87 ± 0.04 and 0.71 ± 0.01 respectively. The normal ratio of left and right putamen were 1.20 ± 0.06 and 1.20 ± 0.04. The mean grey value between left and right basal ganglia had no significant difference (P>0.05). Conclusion: The automatic functional area extracting method based on atlas of Talairach is feasible. (authors)

  7. 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/......., organism, tissue and disease terms. The evaluators in the BioCreative V Interactive Annotation Task found the system to be intuitive, useful, well documented and sufficiently accurate to be helpful in spotting relevant text passages and extracting organism and environment terms. Comparison of fully manual...

  8. Molecularly Imprinted Solid-Phase Extraction and Liquid Chromatography for Biological Samples

    OpenAIRE

    Möller, Kristina

    2006-01-01

    This thesis focuses on the use of molecularly imprinted polymers as selective sorbents for solid-phase extraction (MISPE). The MISPE methods developed were mainly intended for use with biological samples, such as human urine and blood plasma. These body fluids are complex samples, which often need an effective clean-up step before analysis to reduce the levels of possible interfering substances from the matrix, especially if the analytes are present in trace amounts. Solid-phase extraction (S...

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

    OpenAIRE

    Shah Parantu K; Wattarujeekrit Tuangthong; Collier Nigel

    2004-01-01

    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 sen...

  10. Automatic spectrophotometric method involving liquid-liquid extraction for the determination of europium in the presence of other lanthanides, yttrium and scandium

    International Nuclear Information System (INIS)

    A liquid-liquid extraction step has been incorporated into an automatic method for determination of europium in the presence of other lanthanides, yttrium and scandium. Europium(III) is selectively reduced on a Jones reductor and the europium(II) reacted with molybdophosphoric acid to produce a molybdenum blue which is extracted into isoamyl alcohol for spectrophotometric determination. Incorporation of the extraction step increases the sensitivity of the method by a factor of 5 enabling from 2 to 50 μg of europium per ml of aqueous sample solution to be determined but reduces the sampling rate from 20 to 10 samples per hour. The method has been applied to the determination of europium in lanthanide oxides and in the minerals bastnasite and monazite following a lanthanide group separation. (orig.)

  11. Methods to extract information on the atomic and molecular states from scientific abstracts

    International Nuclear Information System (INIS)

    We propose a new application of information technology to recognize and extract expressions of atomic and molecular states from electrical forms of scientific abstracts. Present results will help scientists to understand atomic states as well as the physics discussed in the articles. Combining with the internet search engines, it will make one possible to collect not only atomic and molecular data but broader scientific information over a wide range of research fields. (author)

  12. 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.

  13. 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. PMID:21809445

  14. Molecular diversity of riverine alkaline-extractable sediment organic matter and its linkages with spectral indicators and molecular size distributions.

    Science.gov (United States)

    He, Wei; Chen, Meilian; Park, Jae-Eun; Hur, Jin

    2016-09-01

    Few studies have been conducted to examine the spatial heterogeneity of riverine sediment organic matter (SOM) at the molecular level. The present study explored the chemical and molecular heterogeneity of alkaline-extractable SOM from riverine sediments via multiple analytical tools including molecular composition, absorption and fluorescence spectra, and molecular size distributions. The riverine SOM revealed complex and diverse characteristics, exhibiting a great number of non-redundant formulas and high spatial variations. The molecular diversity was more pronounced for the sediments affected by a higher degree of anthropogenic activities. Unlike the cases of aquatic dissolved organic matter, highly-unsaturated structures with oxygen (HUSO) of SOM were more associated with the spectral and size features of humic-like (or terrestrial) substances than aromatic molecules were, cautioning the interpretation of the SOM molecules responsible for apparent indicators. Noting that a higher detection rate (DR) produces fewer common molecules, the common molecules of 23 different SOMs were determined at a reasonable DR value of 0.35, which accounted for a small portion (5.8%) of all detected molecules. They were mainly CHO compounds (>98%), which positively correlated with spectral indicators of biological production. Despite the low abundance, however, the ratios of aromatic to aliphatic substances could be indexed to classify the common molecules into several geochemical molecular groups with different degrees of the associations with the apparent spectral and size indicators. PMID:27192357

  15. Automatic extraction of corpus callosum from midsagittal head MR image and examination of Alzheimer-type dementia objective diagnostic system in feature analysis

    International Nuclear Information System (INIS)

    We studied the objective diagnosis of Alzheimer-type dementia based on changes in the corpus callosum. We examined midsagittal head MR images of 40 Alzheimer-type dementia patients (15 men and 25 women; mean age, 75.4±5.5 years) and 31 healthy elderly persons (10 men and 21 women; mean age, 73.4±7.5 years), 71 subjects altogether. First, the corpus callosum was automatically extracted from midsagittal head MR images. Next, Alzheimer-type dementia was compared with the healthy elderly individuals using the features of shape factor and six features of Co-occurrence Matrix from the corpus callosum. Automatic extraction of the corpus callosum succeeded in 64 of 71 individuals, for an extraction rate of 90.1%. A statistically significant difference was found in 7 of the 9 features between Alzheimer-type dementia patients and the healthy elderly adults. Discriminant analysis using the 7 features demonstrated a sensitivity rate of 82.4%, specificity of 89.3%, and overall accuracy of 85.5%. These results indicated the possibility of an objective diagnostic system for Alzheimer-type dementia using feature analysis based on change in the corpus callosum. (author)

  16. 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 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...... 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 of...

  17. 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...

  18. 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. PMID:26256920

  19. Development of automatic extraction of the corpus callosum from magnetic resonance imaging of the head and examination of the early dementia objective diagnostic technique in feature analysis

    International Nuclear Information System (INIS)

    We examined the objective diagnosis of dementia based on changes in the corpus callosum. We examined midsagittal head MR images of 17 early dementia patients (2 men and 15 women; mean age, 77.2±3.3 years) and 18 healthy elderly controls (2 men and 16 women; mean age, 73.8±6.5 years), 35 subjects altogether. First, the corpus callosum was automatically extracted from the MR images. Next, early dementia was compared with the healthy elderly individuals using 5 features of the straight-line methods, 5 features of the Run-Length Matrix, and 6 features of the Co-occurrence Matrix from the corpus callosum. Automatic extraction of the corpus callosum showed an accuracy rate of 84.1±3.7%. A statistically significant difference was found in 6 of the 16 features between early dementia patients and healthy elderly controls. Discriminant analysis using the 6 features demonstrated a sensitivity of 88.2% and specificity of 77.8%, with an overall accuracy of 82.9%. These results indicate that feature analysis based on changes in the corpus callosum can be used as an objective diagnostic technique for early dementia. (author)

  20. On-line dynamic fractionation and automatic determination of inorganic phosphorus in environmental solid substrates exploiting sequential injection microcolumn extraction and flow injection analysis

    International Nuclear Information System (INIS)

    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 partitioning of inorganic phosphorus in agricultural soils. The on-line fractionation method capitalises on the accurate metering and sequential exposure of the various extractants to the solid sample by application of programmable flow as precisely coordinated by a syringe pump. Three different soil phase associations for phosphorus, that is, exchangeable, Al- and Fe-bound, and Ca-bound fractions, were elucidated by accommodation in the flow manifold of the three steps of the Hieltjes-Lijklema (HL) scheme involving the use of 1.0 M NH4Cl, 0.1 M NaOH and 0.5 M HCl, respectively, as sequential leaching reagents. The precise timing and versatility of SI for tailoring various operational extraction modes were utilized for investigating the extractability and the extent of phosphorus re-distribution for variable partitioning times. Automatic spectrophotometric determination of soluble reactive phosphorus in soil extracts was performed by a flow injection (FI) analyser based on the Molybdenum Blue (MB) chemistry. The 3σ detection limit was 0.02 mg P L-1 while the linear dynamic range extended up to 20 mg P L-1 regardless of the extracting media. Despite the variable chemical composition of the HL extracts, a single FI set-up was assembled with no need for either manifold re-configuration or modification of chemical composition of reagents. The mobilization of trace elements, such as Cd, often present in grazed pastures as a result of the application of phosphate fertilizers, was also explored in the HL fractions by electrothermal atomic absorption spectrometry

  1. A nanoscale study of charge extraction in organic solar cells: the impact of interfacial molecular configurations

    Science.gov (United States)

    Tang, Fu-Ching; Wu, Fu-Chiao; Yen, Chia-Te; Chang, Jay; Chou, Wei-Yang; Gilbert Chang, Shih-Hui; Cheng, Horng-Long

    2014-11-01

    In the optimization of organic solar cells (OSCs), a key problem lies in the maximization of charge carriers from the active layer to the electrodes. Hence, this study focused on the interfacial molecular configurations in efficient OSC charge extraction by theoretical investigations and experiments, including small molecule-based bilayer-heterojunction (sm-BLHJ) and polymer-based bulk-heterojunction (p-BHJ) OSCs. We first examined a well-defined sm-BLHJ model system of OSC composed of p-type pentacene, an n-type perylene derivative, and a nanogroove-structured poly(3,4-ethylenedioxythiophene) (NS-PEDOT) hole extraction layer. The OSC with NS-PEDOT shows a 230% increment in the short circuit current density compared with that of the conventional planar PEDOT layer. Our theoretical calculations indicated that small variations in the microscopic intermolecular interaction among these interfacial configurations could induce significant differences in charge extraction efficiency. Experimentally, different interfacial configurations were generated between the photo-active layer and the nanostructured charge extraction layer with periodic nanogroove structures. In addition to pentacene, poly(3-hexylthiophene), the most commonly used electron-donor material system in p-BHJ OSCs was also explored in terms of its possible use as a photo-active layer. Local conductive atomic force microscopy was used to measure the nanoscale charge extraction efficiency at different locations within the nanogroove, thus highlighting the importance of interfacial molecular configurations in efficient charge extraction. This study enriches understanding regarding the optimization of the photovoltaic properties of several types of OSCs by conducting appropriate interfacial engineering based on organic/polymer molecular orientations. The ultimate power conversion efficiency beyond at least 15% is highly expected when the best state-of-the-art p-BHJ OSCs are combined with present arguments

  2. 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.

  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

    Recently a novel approach to perform sequential extractions (SE) of elements in solid samples was developed by this group, based upon the use of a sequential injection (SI) system incorporating a specially designed extraction microcolumn. Entailing a number of distinct advantages as compared to c...... CRM483 soil which exhibits inhomogeneity in the particle size distribution....

  4. 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

  5. Extraction Kinetics and Molecular Size Fractionation of Humic Substances From Two Brazilian Soils

    OpenAIRE

    Dick Deborah Pinheiro; Burba Peter

    1999-01-01

    In the present study, the extraction behaviour of humic substances (HS) from an Oxisol and a Mollisol from South Brazil, by using 0.1 and 0.5 mol L-1 NaOH and 0.15 mol L-1 neutral pyrophosphate solutions, respectively, was systematically studied. The kinetics and efficiency of HS extraction were evaluated by means of UV/Vis spectroscopy. The isolated humic acids (HA) and fulvic acids (FA) were size-classified by multistage ultrafiltration (six fractions) in the molecular weight range of 1 to ...

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

    OpenAIRE

    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, Nu...

  7. Automatic extraction of the cingulum bundle in diffusion tensor tract-specific analysis. Feasibility study in Parkinson's disease with and without dementia

    International Nuclear Information System (INIS)

    Tract-specific analysis (TSA) measures diffusion parameters along a specific fiber that has been extracted by fiber tracking using manual regions of interest (ROIs), but TSA is limited by its requirement for manual operation, poor reproducibility, and high time consumption. We aimed to develop a fully automated extraction method for the cingulum bundle (CB) and to apply the method to TSA in neurobehavioral disorders such as Parkinson's disease (PD). We introduce the voxel classification (VC) and auto diffusion tensor fiber-tracking (AFT) methods of extraction. The VC method directly extracts the CB, skipping the fiber-tracking step, whereas the AFT method uses fiber tracking from automatically selected ROIs. We compared the results of VC and AFT to those obtained by manual diffusion tensor fiber tracking (MFT) performed by 3 operators. We quantified the Jaccard similarity index among the 3 methods in data from 20 subjects (10 normal controls [NC] and 10 patients with Parkinson's disease dementia [PDD]). We used all 3 extraction methods (VC, AFT, and MFT) to calculate the fractional anisotropy (FA) values of the anterior and posterior CB for 15 NC subjects, 15 with PD, and 15 with PDD. The Jaccard index between results of AFT and MFT, 0.72, was similar to the inter-operator Jaccard index of MFT. However, the Jaccard indices between VC and MFT and between VC and AFT were lower. Consequently, the VC method classified among 3 different groups (NC, PD, and PDD), whereas the others classified only 2 different groups (NC, PD or PDD). For TSA in Parkinson's disease, the VC method can be more useful than the AFT and MFT methods for extracting the CB. In addition, the results of patient data analysis suggest that a reduction of FA in the posterior CB may represent a useful biological index for monitoring PD and PDD. (author)

  8. Structuring and extracting knowledge for the support of hypothesis generation in molecular biology

    OpenAIRE

    van Hage Willem; Katrenko Sophia; Meij Edgar; Schuemie Martijn; Gibson Andrew P; Marshall M Scott; Roos Marco; Krommydas Konstantinos; Adriaans Pieter W

    2009-01-01

    Abstract Background Hypothesis generation in molecular and cellular biology is an empirical process in which knowledge derived from prior experiments is distilled into a comprehensible model. The requirement of automated support is exemplified by the difficulty of considering all relevant facts that are contained in the millions of documents available from PubMed. Semantic Web provides tools for sharing prior knowledge, while information retrieval and information extraction techniques enable ...

  9. Extraction from Natural Planktonic Microorganisms of DNA Suitable for Molecular Biological Studies

    OpenAIRE

    Jed A. Fuhrman; Comeau, Dorothy E.; Hagström, Åke; Chan, Amy M.

    1988-01-01

    We developed a simple technique for the high-yield extraction of purified DNA from mixed populations of natural planktonic marine microbes (primarily bacteria). This is a necessary step for several molecular biological approaches to the study of microbial communities in nature. The microorganisms from near-shore marine and brackish water samples, ranging in volume from 8 to 40 liters, were collected on 0.22-μm-pore-size fluorocarbon-based filters, after prefiltration through glass fiber filte...

  10. Automatic Extraction of Appendix from Ultrasonography with Self-Organizing Map and Shape-Brightness Pattern Learning

    Science.gov (United States)

    Kim, Kwang Baek; Song, Doo Heon; Park, Hyun Jun

    2016-01-01

    Accurate diagnosis of acute appendicitis is a difficult problem in practice especially when the patient is too young or women in pregnancy. In this paper, we propose a fully automatic appendix extractor from ultrasonography by applying a series of image processing algorithms and an unsupervised neural learning algorithm, self-organizing map. From the suggestions of clinical practitioners, we define four shape patterns of appendix and self-organizing map learns those patterns in pixel clustering phase. In the experiment designed to test the performance for those four frequently found shape patterns, our method is successful in 3 types (1 failure out of 45 cases) but leaves a question for one shape pattern (80% correct).

  11. Application of a molecularly imprinted polymer for the extraction of kukoamine a from potato peels.

    Science.gov (United States)

    Piletska, Elena V; Burns, Rosemary; Terry, Leon A; Piletsky, Sergey A

    2012-01-11

    A molecularly imprinted polymer (MIP) for the purification of N(1),N(12)-bis(dihydrocaffeoyl)spermine (kukoamine A) was computationally designed and tested. The properties of the polymer were characterized. The protocol of the solid phase extraction (SPE) of kukoamine A from potato peels was optimized. A HPLC-MS method for the quantification of kukoamine A was developed and used for all optimization studies. The capacity of the MIP in relation to kukoamine A from the potato peels extract was estimated at 54 mg/g of the polymer. The kukoamine A purified from potato extract using MIP was exceptionally pure (≈ 90%). Although the corresponding blank polymer was less selective than the MIP for the extraction of kukoamine A from the potato extract, it was shown that the blank polymer could be effectively used for the purification of the crude synthetic kukoamine (polymer capacity = 80 mg of kukoamine A/g of the adsorbent, kukoamine A purity ≈ 86%). Therefore, selective adsorbents could be computationally designed for other plant products, allowing their purification in quantities that would be sufficient for more detailed studies and potential practical applications. PMID:22142260

  12. Rapid, potentially automatable, method extract biomarkers for HPLC/ESI/MS/MS to detect and identify BW agents

    Energy Technology Data Exchange (ETDEWEB)

    White, D.C. [Univ. of Tennessee, Knoxville, TN (United States). Center for Environmental Biotechnology]|[Oak Ridge National Lab., TN (United States). Environmental Science Div.; Burkhalter, R.S.; Smith, C. [Univ. of Tennessee, Knoxville, TN (United States). Center for Environmental Biotechnology; Whitaker, K.W. [Microbial Insights, Inc., Rockford, TN (United States)

    1997-12-31

    The program proposes to concentrate on the rapid recovery of signature biomarkers based on automated high-pressure, high-temperature solvent extraction (ASE) and/or supercritical fluid extraction (SFE) to produce lipids, nucleic acids and proteins sequentially concentrated and purified in minutes with yields especially from microeukaryotes, Gram-positive bacteria and spores. Lipids are extracted in higher proportions greater than classical one-phase, room temperature solvent extraction without major changes in lipid composition. High performance liquid chromatography (HPLC) with or without derivatization, electrospray ionization (ESI) and highly specific detection by mass spectrometry (MS) particularly with (MS){sup n} provides the detection, identification and because the signature lipid biomarkers are both phenotypic as well as genotypic biomarkers, insights into potential infectivity of BW agents. Feasibility has been demonstrated with detection, identification, and determination of infectious potential of Cryptosporidium parvum at the sensitivity of a single oocyst (which is unculturable in vitro) and accurate identification and prediction, pathogenicity, and drug-resistance of Mycobacteria spp.

  13. Development of andrographolide molecularly imprinted polymer for solid-phase extraction

    Science.gov (United States)

    Yin, Xiaoying; Liu, Qingshan; Jiang, Yifan; Luo, Yongming

    2011-06-01

    A method employing molecularly imprinted polymer (MIP) as selective sorbent for solid-phase extraction (SPE) to pretreat samples was developed. The polymers were prepared by precipitation polymerization with andrographolide as template molecule. The structure of MIP was characterized and its static adsorption capacity was measured by the Scatchard equation. In comparison with C 18-SPE and non-imprinted polymer (NIP) SPE column, MIP-SPE column displays high selectivity and good affinity for andrographolide and dehydroandrographolide for extract of herb Andrographis paniculata ( Burm.f.) Nees (APN). MIP-SPE column capacity was 11.9 ± 0.6 μmol/g and 12.1 ± 0.5 μmol/g for andrographolide and dehydroandrographolide, respectively and was 2-3 times higher than that of other two columns. The precision and accuracy of the method developed were satisfactory with recoveries between 96.4% and 103.8% (RSD 3.1-4.3%, n = 5) and 96.0% and 104.2% (RSD 2.9-3.7%, n = 5) for andrographolide and dehydroandrographolide, respectively. Various real samples were employed to confirm the feasibility of method. This developed method demonstrates the potential of molecularly imprinted solid phase extraction for rapid, selective, and effective sample pretreatment.

  14. 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.

  15. Determination of cyproheptadine in feeds using molecularly imprinted solid-phase extraction coupled with HPLC.

    Science.gov (United States)

    Yang, Jianwen; Wang, Zongnan; Zhou, Tong; Song, Xuqin; Liu, Qingyong; Zhang, Yuman; He, Limin

    2015-05-15

    A novel method was developed for the determination of cyproheptadine in feeds using molecularly imprinted solid-phase extraction coupled with high-performance liquid chromatography. The polymers were prepared using cyproheptadine as a template molecule, methacrylic acid as a functional monomer, ethylene glycol dimethacrylate as a cross-linking agent, and dichloromethane as a solvent by bulk polymerization. Under the optimum solid-phase extraction conditions, the molecular imprinting cartridge can selectively extract and enrich cyproheptadine from a variety of feeds. Mean recoveries of cyproheptadine from four kinds of feeds spiked at 0.1, 1.0 and 10mgkg(-1) ranged from 85.5% to 96.2%, with intra-day and inter-day relative standard deviation less than 10%. The calibration curve of cyproheptadine was good linear relationship (r>0.9993) within the range of 0.1-50μgmL(-1). The limit of detection (LOD) and the limit of quantification (LOQ) were 0.04 and 0.1mgkg(-1), respectively. PMID:25855316

  16. A molecular imprint-coated stirrer bar for selective extraction of caffeine, theobromine and theophylline

    International Nuclear Information System (INIS)

    We have prepared a novel caffeine imprinted polymer on a stir bar that can be used for selective extraction of caffeine, theobromine and theophylline from beverages. The polymerization time and quantities of reagents (template, cross-linker, porogenic solvent) were optimized. The morphology of the molecularly imprinted polymer-coating was studied by scanning electron microscopy and Fourier transform IR spectroscopy. A rapid and sensitive method was worked out for the extraction of caffeine, theobromine and theophylline from beverages by using the molecularly imprinted stir bar followed by HPLC analysis. The effects of extraction solvent, stirring speed, desorption solvent, adsorption and desorption time were optimized. The method displays a linear response in the 5–150 μg L−1 caffeine concentration range, with a correlation coefficient of >0.9904. The recoveries for three analytes in tea, carbonated and functional beverages were 91–108 %, 90–110 % and 93–109 %, with relative standard deviations ranging from 3.6–5.7 %, 3.5–7.9 % and 3.2–7.9 %, respectively. (author)

  17. Automatic Extraction and Recognition of Nmnbers in Topographic Maps%地形图数字注记的自动提取与识别

    Institute of Scientific and Technical Information of China (English)

    徐战武; 张涛; 刘肖琳

    2001-01-01

    地形图的自动扫描矢量化是GIS领域亟待解决的一个重要难题。地形图中包含了大量的字体丰富的数字注记,用以表示地物地貌的属性等特征,正确提取并识别这些数字是图纸处理中的重要组成部分。本文分析了现有的提取方法的不足,提出了一种新的数字注记自动提取与识别算法,首先根据先验的尺寸大小确定候选数字,再采用OCON结构的BP神经网络识别出真正的数字,然后利用近邻关系提取出扩展数字。实验表明,该算法是快速、高效、可靠的。%Automatic vectorization of scanned topographic maps is an important and difficult problem that needs to be solved urgently. Atopographic map includes plenty of numbers with various fonts which indicate properties and other features of general configuration. Extracting and recognizing these numbers correctly is an important part in map disposal. Many present methods of extraction are analyzed on their disadvantages and a new extraction and recognition algorithm of numbers is presented in this paper. The algorithm first fixes on candidates according to transcendental sizes, and then recognizes real numbers with BP neural network of OCON structure. At last, it extracts extended numbers using relation of neighborhood. Experiments have proved it is fast, efficient and reliable.

  18. 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. PMID:26883005

  19. Automatic bone segmentation and bone-cartilage interface extraction for the shoulder joint from magnetic resonance images

    International Nuclear Information System (INIS)

    We present a statistical shape model approach for automated segmentation of the proximal humerus and scapula with subsequent bone-cartilage interface (BCI) extraction from 3D magnetic resonance (MR) images of the shoulder region. Manual and automated bone segmentations from shoulder MR examinations from 25 healthy subjects acquired using steady-state free precession sequences were compared with the Dice similarity coefficient (DSC). The mean DSC scores between the manual and automated segmentations of the humerus and scapula bone volumes surrounding the BCI region were 0.926  ±  0.050 and 0.837  ±  0.059, respectively. The mean DSC values obtained for BCI extraction were 0.806  ±  0.133 for the humerus and 0.795  ±  0.117 for the scapula. The current model-based approach successfully provided automated bone segmentation and BCI extraction from MR images of the shoulder. In future work, this framework appears to provide a promising avenue for automated segmentation and quantitative analysis of cartilage in the glenohumeral joint. (paper)

  20. Magnetic molecular imprint-based extraction of sulfonylurea herbicides and their determination by capillary liquid chromatography

    International Nuclear Information System (INIS)

    We have developed a simple method for the extraction of sulfonylurea herbicides (SUHs) from environmental water samples. It is based on a magnetic molecular imprint (MMIP) as a sorbent. The MMIP was prepared using metsulfuron-methyl as the template molecule, methacrylic acid as the functional monomer, trimethylolpropane trimethacrylate as the cross-linking agent, and magnetite as the magnetic component. Extraction can be carried out by blending and stirring water sample, extraction solvent and MMIP. Once the extraction is completed, the MMIP containing the SUHs can be separated from the sample matrix with a magnet. The SUHs desorbed from the polymers were then quantified by capillary liquid chromatography with diode array detection. The limits of quantification are in the range of 0.08 to 0.1 ng mL-1. Repeatabilities of peak areas and retention times range from 2.9 % to 4.0 % and from 0.1 % to 0.3 %, respectively. The method was successfully applied to the determination of the SUHs bensulfuron-methyl, metsulfuronmethyl, pyrazosulfuron-methyl, thifensulfuron-methyl, and triasulfuron in waste water samples. Recoveries range from 94.3 % to 102.3 %. (author)

  1. Determination of theophylline in serum by molecularly imprinted solid-phase extraction with pulsed elution.

    Science.gov (United States)

    Mullett, W M; Lai, E P

    1998-09-01

    The technique of molecular imprinting is used to produce an extensively cross-linked poly(methacrylic acid-co-ethylene dimethacrylate) material that contains theophylline as a print molecule. After Soxhlet extraction of the theophylline, binding sites are formed in the polymer with complementary size, shape, and positioning of chemical functionalities. The molecularly imprinted polymer's (MIP) high theophylline selectivity, chemical stability, and physically robust nature make it an ideal stationary-phase material in columns for HPLC separation of theophylline from other structurally related drug compounds. Mobile-phase tests confirm that a retention mechanism typical of normal-phase chromatography governs the separation, and selectivity of the MIP column can be controlled by a combination of the mobile phase and the sample solvent. Under optimal conditions, the MIP column functions like a solid-phase sorbent for theophylline extraction. Rapid elution of the bound theophylline can be accomplished in a pulsed format through injection of 20 μL of a solvent that has the proper polarity and protic nature to disrupt the electrostatic interactions and hydrogen bonding between theophylline and binding sites. A concentration detection limit of 120 ng/mL is obtained using direct UV absorption detection at 270 nm, which corresponds to a mass detection limit of 2.4 ng. This new technique, molecularly imprinted solid-phase extraction with pulsed elution (MISPE-PE), permits on-line preconcentration of theophylline from a large volume of dilute sample solution. Using a sample volume of 300 μL, a 40 ng/mL standard solution produces a detectable peak signal. Application of MISPE-PE in serum analysis further demonstrates the high capability of the MIP column to selectively isolate theophylline from other matrix components for fast, accurate determination. PMID:21644709

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

    Science.gov (United States)

    Grazzini, Jacopo; Dillard, Scott; Soille, Pierre

    2010-10-01

    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.

  3. 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.

  4. 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.

  5. 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.

  6. 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

  7. Molecular detection and extraction of pyrene in plasma and tissues of Sprague-Dawley rats.

    Science.gov (United States)

    Bao, C; Dong, X; Tao, J; Lu, J; Luo, T; Liu, J

    2016-01-01

    In this paper, an efficient method for determination of total pyrene concentration in the biological samples including plasma, liver, spleen, lung and kidney of Sprague-Dawley rats were investigated and established using steady-state fluorescence method. Equilibrium dialysis method was applied to determine plasma protein binding rate of pyrene. The results illustrated that the protein binding rate depends on the concentration of pyrene in plasma. Extraction of pyrene in plasma was studied by using biomedical nanopartical which was prepared from synthesized associating polymer poly(ethylene glycol) end-capped by hexadecane. The Critical Micelle Concentration (CMC) of the polymeric micelle in aqueous solution was determined to equal 0.0063 mg/mL using 1-pyrenemethanol as a fluorescent probe. The distribution of free pyrene and pyrene loaded nanoparticals in blood were determined. The results showed that over 95% of the free pyrene was distributed into the erythrocyte, and the pyrene-loaded nanoparticles were less distributed in to the erythrocyte than free pyrene, but it was higher than 60%. This study provides an efficient method to detect pyrene in different tissues as well as an extraction method at the molecular level, which might contribute to the development of modern molecular diagnosis and identification in vivo. PMID:27064868

  8. Molecularly imprinted polymers as the extracted sorbents of clenbuterol ahead of liquid chromatographic determination*

    Science.gov (United States)

    Lay, Sovichea; Yu, Hai-ning; Hu, Bao-xiang; Shen, Sheng-rong

    2016-01-01

    A pre-treatment methodology for clenbuterol hydrochloride (CLEN) isolation and enrichment in a complex matrix environment was developed through exploiting molecularly imprinted polymers (MIPs). CLEN-imprinted polymers were synthesized by the combined use of ally-β-cyclodextrin (ally-β-CD) and methacrylic acid (MAA), allyl-β-CD and acrylonitrile (AN), and allyl-β-CD and methyl methacrylate (MMA) as the binary functional monomers. MAA-linked allyl-β-CD MIPs (M-MAA) were characterized by Fourier transform-infrared (FT-IR) spectroscopy and a scanning electron microscope (SEM). Based upon the results, M-MAA polymers generally proved to be an excellent selective extraction compared to its references: AN-linked allyl-β-CD MIPs (M-AN) and MMA-linked allyl-β-CD MIPs (M-MMA). M-MAA polymers were eventually chosen to run through a molecularly imprinted solid-phase extraction (MISPE) micro-column to enrich CLEN residues spiked in pig livers. A high recovery was achieved, ranging from 91.03% to 96.76% with relative standard deviation (RSD) ≤4.45%. PMID:27256680

  9. An in vivo molecular response analysis of colorectal cancer treated with Astragalus membranaceus extract.

    Science.gov (United States)

    Tseng, Ailun; Yang, Chih-Hsueh; Chen, Chih-Hao; Chen, Chang-Han; Hsu, Shih-Lan; Lee, Mei-Hsien; Lee, Hoong-Chien; Su, Li-Jen

    2016-02-01

    The fact that many chemotherapeutic drugs cause chemoresistance and side effects during the course of colorectal cancer treatment necessitates development of novel cytotoxic agents aiming to attenuate new molecular targets. Here, we show that Astragalus membranaceus (Fischer) Bge. var. mongolicus (Bge.) Hsiao (AM), a traditional Chinese medicine, can inhibit tumor growth in vivo and elucidate the underlying molecular mechanisms. The antitumor effect of AM was assessed on the subcutaneous tumors of human colorectal cancer cell line HCT116 grafted into nude mice. The mice were treated with either water or 500 mg/kg AM once per day, before being sacrificed for extraction of tumors, which were then subjected to microarray expression profiling. The gene expression of the extraction was then profiled using microarray analysis. The identified genes differentially expressed between treated mice and controls reveal that administration of AM suppresses chromosome organization, histone modification, and regulation of macromolecule metabolic process. A separate analysis focused on differentially expressed microRNAs revealing involvement of macromolecule metabolism, and intracellular transport, as well as several cancer signaling pathways. For validation, the input of the identified genes to The Library of Integrated Network-based Cellular Signatures led to many chemopreventive agents of natural origin that produce similar gene expression profiles to that of AM. The demonstrated effectiveness of AM suggests a potential therapeutic drug for colorectal cancer. PMID:26719057

  10. Molecularly imprinted polymers as the extracted sorbents of clenbuterol ahead of liquid chromatographic determination.

    Science.gov (United States)

    Lay, Sovichea; Yu, Hai-Ning; Hu, Bao-Xiang; Shen, Sheng-Rong

    2016-06-01

    A pre-treatment methodology for clenbuterol hydrochloride (CLEN) isolation and enrichment in a complex matrix environment was developed through exploiting molecularly imprinted polymers (MIPs). CLEN-imprinted polymers were synthesized by the combined use of ally-β-cyclodextrin (ally-β-CD) and methacrylic acid (MAA), allyl-β-CD and acrylonitrile (AN), and allyl-β-CD and methyl methacrylate (MMA) as the binary functional monomers. MAA-linked allyl-β-CD MIPs (M-MAA) were characterized by Fourier transform-infrared (FT-IR) spectroscopy and a scanning electron microscope (SEM). Based upon the results, M-MAA polymers generally proved to be an excellent selective extraction compared to its references: AN-linked allyl-β-CD MIPs (M-AN) and MMA-linked allyl-β-CD MIPs (M-MMA). M-MAA polymers were eventually chosen to run through a molecularly imprinted solid-phase extraction (MISPE) micro-column to enrich CLEN residues spiked in pig livers. A high recovery was achieved, ranging from 91.03% to 96.76% with relative standard deviation (RSD) ≤4.45%. PMID:27256680

  11. 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.

  12. Antibacterial activity of leaf extract of Delonix elata and molecular docking studies of Luteolin

    Directory of Open Access Journals (Sweden)

    Pradeepa K

    2012-08-01

    Full Text Available  In vitro antibacterial activity of leaf extract of Delonix elata was screened against both gram negative and gram positive bacteria. The methanol extract of leaf showed significant antibacterial activity against Klebsiella pneumonia (18.40 ± 0.80 and Bacillus subtilis (17.60 ± 0.55 with minimal inhibitory concentration of 1mg ml-1 and exhibited less bactericidal activity against P. vulgaris (9.83±0.31.  In silico docking  of Luteolin, a bioactive  compound  from leaf extract of D. elata  with  a  key  enzyme  of bacterial Glucosamine-6-phosphate synthase, showed significant inhibition with minimum docking energy -10.12 kJ mol-1, binding energy -10.07 kJ mol-1 and inhibition constant 4.14e-008. The molecular docking study was comparatively evaluated with the standard drug ciprofloxacin with an inhibition constant of was 4.2e-007. This investigation supports the medicinal claim of             D. elata.

  13. Extraction-spectrophotometric determination of cadmium(II) by high molecular weight amine - application to industrial effluents

    International Nuclear Information System (INIS)

    An investigation of the complex formation between Cadmium (II) and Potassium iodide in Sulphuric acid solution has been carried out and its extractability by high molecular weight tertiary amine (HMWA) in organic solvent was examined. The yellow colored complex of Cd(II)-I/sub 2/ is quantitatively extractable into organic phase containing tribenzyle amine. On the basis of this extractability a method has been developed for the spectrophotometer determination of Cadmium in the presence of many other interfering radicals. The extractability of the Potassium iodide complex by HMWA suggests that the colored species is anionic. (author)

  14. 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. PMID:26851451

  15. 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.

  16. Ball milling improves extractability and affects molecular properties of psyllium (Plantago ovata Forsk) seed husk arabinoxylan.

    Science.gov (United States)

    Van Craeyveld, Valerie; Delcour, Jan A; Courtin, Christophe M

    2008-12-10

    Psyllium (Plantago ovata Forsk) seed husk (PSH) is very rich in arabinoxylan (AX). However, its high gelling capacity and the complex nature of the AX make it difficult to process. In this study, ball milling was investigated as a tool for enhancing PSH AX water extractability and molecular mass (MM). A 48 h laboratory-scale ball mill treatment under standardized optimal conditions reduced the PSH average particle size from 161 microm for the untreated sample to 6 microm. Concurrently, it increased the water-extractable AX (WE-AX) level from 13 (untreated PSH) to 90% of the total PSH AX. While the WE-AX of the untreated PSH had a peak MM of 216 kDa and an arabinose to xylose (A/X) ratio of 0.20, WE-AX fragments from ball mill-pretreated PSH had a peak MM of 22 kDa and an A/X ratio of 0.31. Ball milling further drastically reduced the intrinsic viscosity of PSH extracts and their water-holding capacity. Prolonged treatment brought almost all AX (98%) in solution and yielded WE-AX fragments with an even higher A/X ratio (0.42) and a lower peak MM (11 kDa). While impact and jet milling of PSH equally led to significant reductions in particle size, these technologies only marginally affected the water extractability of PSH AX. This implies that ball milling affects PSH particles and their constituent molecules differently than impact and jet milling. PMID:19007123

  17. 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.

  18. Etna_NETVIS: A dedicated tool for automatically pre-processing high frequency data useful to extract geometrical parameters and track the evolution of the lava field

    Science.gov (United States)

    Marsella, Maria; Junior Valentino D'Aranno, Peppe; De Bonis, Roberto; Nardinocchi, Carla; Scifoni, Silvia; Scutti, Marianna; Sonnessa, Alberico; Wahbeh, Wissam; Biale, Emilio; Coltelli, Mauro; Pecora, Emilio; Prestifilippo, Michele; Proietti, Cristina

    2016-04-01

    In volcanic areas, where it could be difficult to gain access to the most critical zones for carrying out direct surveys, digital photogrammetry techniques are rarely experimented, although in many cases they proved to have remarkable potentialities, as the possibility to follow the evolution of volcanic (fracturing, vent positions, lava fields, lava front positions) and deformation processes (inflation/deflation and instability phenomena induced by volcanic activity). These results can be obtained, in the framework of standard surveillance activities, by acquiring multi-temporal datasets including Digital Orthophotos (DO) and Digital Elevation Models (DEM) to be used for implementing a quantitative and comparative analysis. The frequency of the surveys can be intensified during emergency phases to implement a quasi real-time monitoring for supporting civil protection actions. The high level of accuracy and the short time required for image processing make digital photogrammetry a suitable tool for controlling the evolution of volcanic processes which are usually characterized by large and rapid mass displacements. In order to optimize and extend the existing permanent ground NEtwork of Thermal and VIsible Sensors located on Mt. Etna (Etna_NETVIS) and to improve the observation of the most active areas, an approach for monitoring surface sin-eruptive processes was implemented. A dedicated tool for automatically pre-processing high frequency data, useful to extract geometrical parameters as well as to track the evolution of the lava field, was developed and tested both in simulated and real scenarios. The tool allows to extract a coherent multi-temporal dataset of orthophotos useful to evaluate active flow area and to estimate effusion rates. Furthermore, Etna_NETVIS data were used to downscale the information derived from satellite data and/or to integrate the satellite datasets in case of incomplete coverage or missing acquisitions. This work was developed in the

  19. 高校学生信息自动提取与分析系统研究%Research and analysis of college students information automatic extraction

    Institute of Scientific and Technical Information of China (English)

    聂明辉

    2013-01-01

    Digital campus construction to the third stage, started system integration and large-scale data sharing. Through the mutual sharing of data platform, data extraction and clean-up technologies, particularly get the information we need, but also enables us to understand and evaluate students more comprehensive and objective in the university campus life, learning situation. This paper is based on ODI technology, MapReduce technology and data warehouse technology as the foundation, proposed and constructed a university student in school, life information automatic extraction and analysis system model, for the university informatization environment more intelligent management students provides a feasible technical scheme.%高校数字化校园建设到第三阶段,开始了大规模的系统整合以及数据共享。通过互通共享的数据平台,利用数据抽取和清理技术,有所侧重的获取我们需要的信息,也使我们能够更全面更客观的了解和评价学生在大学校园内的生活、学习情况。本文就此以ODI技术、MapReduce技术以及数据仓库技术为基础,提出并构筑了一套高校学生在校学习、生活信息自动提取与分析系统模型,为信息化大环境下高校更加智慧的管理学生提供了一种可行的技术方案。

  20. 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.

  1. 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

  2. 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.

  3. Separation of phenolic acids from natural plant extracts using molecularly imprinted anion-exchange polymer confined ionic liquids.

    Science.gov (United States)

    Bi, Wentao; Tian, Minglei; Row, Kyung Ho

    2012-04-01

    Polymer-confined ionic liquids were used for the separation of phenolic acids from natural plant extract by utilizing an anion-exchange mechanism. They were synthesized using molecular imprinting technique to reduce non-directional ion-ion interactions during anion-exchange and other interactions with interference substances that could decrease selectivity. A suitable sorbent for phenolic acid separation could be identified based on the adsorption behaviors of phenolic acids on different polymer-confined ionic liquids. Thus, the developed ionic liquid-based molecularly imprinted anion-exchange polymer (IMAP) achieved high recovery rates by solid-phase extraction of phenolic acids from Salicornia herbacea L. extract: 90.1% for protocatechuic acid, 95.5% for ferulic acid and 96.6% for caffeic acid. Moreover, the phenolic acids were separable from each other by repeated solid phase extraction cycles. The proposed method could be used to separate other phenolic acids or organic acids from complex samples. PMID:21903215

  4. 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). PMID:23290360

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

    International Nuclear Information System (INIS)

    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: ► Up to thirteen extraction methods were evaluated with three building materials.

  6. 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

  7. 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. PMID:24331004

  8. 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.

  9. Optimized extraction and molecular characterization of polysaccharides from Sophora alopecuroides L. seeds.

    Science.gov (United States)

    Guo, Rui; Cao, Nannan; Wu, Yan; Wu, Jinhong

    2016-01-01

    Optimized extraction of crude polysaccharides from Sophora alopecuroides L. seeds (CSAP) was firstly investigated, and the results were extraction time 4.15 h, extraction temperature 70.68°C and water/seed ratio 50.99:1 ml/g. At this proximal point, highest yield (10.88%) and relative viscosity (1.2952) were obtained for CSAP, which contained 78.40% sugar, 6.08% protein, 9.71% ash, 7.16% moisture and 1.88% uronic acid. Neutral fractions of F15, F25, F35 and F60 were further obtained via stepwise alcohol precipitation. Results of monosaccharide composition indicated that CSAP and its neutral fractions mainly consisted of mannose and galactose (79.45-97.52%) with M/G ratios of 0.94-1.48, typical for galactomannans, which were demonstrated by FT-IR. Weight-average molecular weight, radius of gyration and hydrodynamic radius were in the same order (F15>F25>F35>F60), whereas the highest intrinsic viscosity was observed for F25. Multiple analyses, including Mark-Houwink-Sakurada exponent (0.48-0.80), persistence length (1.45-3.93 nm), conformation zoning (random coil) and power-law exponent (b>1), showed flexible coils for all neutral fractions. Concerning viscometry, there were no aggregates (K″ 0.60) or coil overlaps ("master curve") of F25 in dilute solutions. Relatively weak surface activity of F25 was probably related to its particular chemical structure and proteinaceous moieties closely conjoined. PMID:26449532

  10. A molecularly imprinted polymer for the selective solid-phase extraction of dimethomorph from ginseng samples.

    Science.gov (United States)

    Xu, Xuanwei; Liang, Shuang; Meng, Xinxin; Zhang, Min; Chen, Ying; Zhao, Dan; Li, Yueru

    2015-04-15

    A molecularly imprinted polymer (MIP) was synthesized and evaluated to selectively extract dimethomorph from ginseng samples. Dimethomorph molecularly imprinted polymers with template to monomer molar ratios were contrived and developed via precipitation polymerization employing methacrylic acid as functional monomer, ethylene dimethacrylate as cross-linker and butanone:N-heptane (7:3, v:v)as porogen. The LOD (limit of detection) of this method was 0.002 mg kg(-1), and the LOQ (limit of quantification) was 0.005 mg kg(-1). The different spiked level of ginseng was 0.1 mg kg(-1), 1.0 mg kg(-1), 5.0 mg kg(-1), and the average recovery of dimethomrph was 89.2-91.6%. Under the optimized condition, good linearity was obtained from 0.01 to 5 mg kg(-1) (r(2) ≥ 0.9997) with the relative standard deviations of less than 3.20%. This proposed MISPE-GC procedure eliminated the effect of template leakage on quantitative analysis and could be applied to direct determination of dimethomrph in ginseng samples. PMID:25795323

  11. Molecular Characterization Of Hair Cuticle And Its Extracted Proteins In Seven Mammalian Species

    Directory of Open Access Journals (Sweden)

    S. K. Areida, M. F. Ismail, E. K. Abdel Hady, and A. O. Osman

    2006-06-01

    Full Text Available Hair is an of the epidermis in mammals and consists of two large groups of human hair proteins. One is hard -keratins and the other is matrix proteins. The present investigation aimed to compare the ultrastructural of the hair scale using the scanning electron microscope, and the proteins and amino acids content of the keratin in seven mammalian species. The values of the hair thickness, x/y feret and hair pattern of the species in the present study confirm the presence of species-specific characteristics and ultra structural variation. The situation in man differs from the wild mammals due to damage of hair cuticle caused by mechanical abuse, exposure to ultraviolet radiation and chemical over processing. The maximum amount of extracted proteins from hair keratin was analyzed by SDS-PAGE. The electrophoretic patterns showed an overall degree of similarity. However, differences exist between species in the intensity of stain. Quantitatively, the electrophoretic patterns scanned and analyzed using gel protein analyzer. The results showed no difference between the molecular mass of some species, but different in molecular mass distribution. Amino acid composition of keratin of mammalian hair species of the present study showed some variation, especially for methionine, isoleucine, lysine and arginine. The other amino acids studied are significantly present in most hair. One of the later amino acid is cysteine. Cysteine is a very important due to the presence of disulfate cross-links.

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

    International Nuclear Information System (INIS)

    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. (paper)

  13. Liquid/liquid metal extraction: Phase diagram topology resulting from molecular interactions between extractant, ion, oil and water

    International Nuclear Information System (INIS)

    We consider the class of surfactants called 'extractants' since they specifically interact with some cations and are used in liquid-liquid separation processes. We review here features of water-poor reverse micelles in water/oil/extractant systems as determined by combined structural studies including small angle scattering techniques on absolute scale. Origins of instabilities, liquid-liquid separation as well as emulsification failure are detected. Phase diagrams contain the same multi-phase domains as classical microemulsions, but special unusual features appear due to the high spontaneous curvature directed towards the polar cores of aggregates as well as rigidity of the film made by extracting molecules. (authors)

  14. Liquid/liquid metal extraction: Phase diagram topology resulting from molecular interactions between extractant, ion, oil and water

    Science.gov (United States)

    Bauer, C.; Bauduin, P.; Dufrêche, J. F.; Zemb, T.; Diat, O.

    2012-11-01

    We consider the class of surfactants called "extractants" since they specifically interact with some cations and are used in liquid-liquid separation processes. We review here features of water-poor reverse micelles in water/oil/ extractant systems as determined by combined structural studies including small angle scattering techniques on absolute scale. Origins of instabilities, liquid-liquid separation as well as emulsification failure are detected. Phase diagrams contain the same multi-phase domains as classical microemulsions, but special unusual features appear due to the high spontaneous curvature directed towards the polar cores of aggregates as well as rigidity of the film made by extracting molecules.

  15. FieldChopper, a new tool for automatic model generation and virtual screening based on molecular fields.

    Science.gov (United States)

    Kalliokoski, Tuomo; Ronkko, Toni; Poso, Antti

    2008-06-01

    Algorithms were developed for ligand-based virtual screening of molecular databases. FieldChopper (FC) is based on the discretization of the electrostatic and van der Waals field into three classes. A model is built from a set of superimposed active molecules. The similarity of the compounds in the database to the model is then calculated using matrices that define scores for comparing field values of different categories. The method was validated using 12 publicly available data sets by comparing the method to the electrostatic similarity comparison program EON. The results suggest that FC is competitive with more complex descriptors and could be used as a molecular sieve in virtual screening experiments when multiple active ligands are known. PMID:18489083

  16. 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.

  17. Automatic selection of the left ventricular sampling region by nuclear angiocardiography and extraction of the ejection fraction as compared with the three-region-method by hand

    International Nuclear Information System (INIS)

    A program for automatic determination of the left ventricle contour and for automatic calculation of the ejection fraction is presented. The results are comparable to those of the tedious manual evaluation procedure. Preconditions are: A suitable statistics of counting rates and a correct projection of the left ventricle without superposition of the left atrium or the right ventricle. (WU)

  18. Automatic knowledge extraction from EHRs

    OpenAIRE

    Vasiljeva, Ieva; Arandelovic, Ognjen

    2016-01-01

    Increasing efforts in the collection, standardization, and maintenance of large scale longitudinal elec- tronic health care records (EHRs) across the world provide a promising source of real world medical data with the potential of providing major novel insights of benefit both to specific individuals in the context of personalized medicine, as well as on the level of population-wide health care and policy. The present paper builds upon the existing and intensifying efforts at using machine l...

  19. Contribution of molecular modeling and of structure-activity relations to the liquid-liquid extraction. Application to the case of U(VI) extraction by monoamides

    International Nuclear Information System (INIS)

    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

  20. 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

  1. Molecularly imprinted solid-phase extraction of glutathione from urine samples

    Energy Technology Data Exchange (ETDEWEB)

    Song, Renyuan, E-mail: songrenyuan0726@163.com; Hu, Xiaoling; Guan, Ping; Li, Ji; Zhao, Na; Wang, Qiaoli

    2014-11-01

    Molecularly imprinted polymer (MIP) particles for glutathione were synthesized through iniferter-controlled living radical precipitation polymerization (IRPP) under ultraviolet radiation at ambient temperature. Static adsorption, solid-phase extraction, and high-performance liquid chromatography were carried out to evaluate the adsorption properties and selective recognition characteristics of the polymers for glutathione and its structural analogs. The obtained IRPP-MIP particles exhibited a regularly spherical shape, rapid binding kinetics, high imprinting factor, and high selectivity compared with the MIP particles prepared using traditional free-radical precipitation polymerization. The selective separation and enrichment of glutathione from the mixture of glycyl-glycine and glutathione disulfide could be achieved on the IRPP-MIP cartridge. The recoveries of glutathione, glycyl-glycine, and glutathione disulfide were 95.6% ± 3.65%, 29.5% ± 1.26%, and 49.9% ± 1.71%, respectively. The detection limit (S/N = 3) of glutathione was 0.5 mg·L{sup −1}. The relative standard deviations (RSDs) for 10 replicate detections of 50 mg·L{sup −1} of glutathione were 5.76%, and the linear range of the calibration curve was 0.5 mg·L{sup −1} to 200 mg·L{sup −1} under optimized conditions. The proposed approach was successfully applied to determine glutathione in spiked human urine samples with recoveries of 90.24% to 96.20% and RSDs of 0.48% to 5.67%. - Highlights: • Imprinted polymer particles were prepared by IRPP at ambient temperature. • High imprinting factor, high selectivity, and rapid binding kinetics were achieved. • Selective solid-phase extraction of glutathione from human urine samples.

  2. 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

  3. Investigation of Molecular Marker Lipids in Alpine Ice Cores Via Stir Bar Sorptive Extraction

    Science.gov (United States)

    Makou, M. C.; Eglinton, T. I.; Thompson, L. G.; Hughen, K. A.

    2005-12-01

    Recently developed analytical techniques were employed to identify and quantify organic molecular markers trapped in high-altitude ice. While various compounds represent potentially useful proxies for biomass burning, vegetation type, atmospheric circulation, and anthropogenic activity, prior attempts to measure organic compounds in ice cores have typically required large volumes of sample material that are incompatible with generation of high-resolution paleoclimate records. We employed stir bar sorptive extraction (SBSE) and thermal desorption (TD), coupled with gas chromatography/time-of-flight mass spectrometry (GC/TOF-MS), to examine the organic content of small quantities (≤ 30 ml) of ice. To test the utility of the approach, post-industrial ice core samples from the Huascarán and Sajama sites (Andes), the Dasuopu and Puruogangri sites (Tibetan Plateau), and Mt. Kilimanjaro (east Africa) were tested. n-Alkanes, n-alkanoic acids, n-alkyl amides and nitriles, polycyclic aromatic hydrocarbons (PAHs), and various diterpenoids were identified in this suite of cores. These marker compounds suggest inputs from biomass burning, fresh vascular plant material, and anthropogenic activities such as fossil fuel combustion. Differences in distributions of the alkyl amide and nitrile homologues between the different sites suggest a predominantly local or regional supply of organic matter. Pre-industrial samples from the Sajama and Puruogangri ice cores were also analyzed in order to assess the character of biomarker assemblages in the absence of anthropogenic contributions and investigate changes in inputs over time. PAHs and diterpenoids, which may result from biomass burning and were observed in the modern Sajama samples, occurred in two Holocene Sajama samples, but not in a last glacial sample. Enhanced inputs of terrestrial vegetation combustion biomarkers were consistent with periods of enhanced aridity in both cores. This study demonstrates the utility of SBSE, TD

  4. Solid phase extraction of penicillins from milk by using sacrificial silica beads as a support for a molecular imprint

    International Nuclear Information System (INIS)

    We have prepared molecularly imprinted beads with molecular recognition capability for target molecules containing the penicillanic acid substructure. They were prepared by (a) grafting mesoporous silica beads with 6-aminopenicillanic acid as the mimic template, (b) filling the pores with a polymerized mixture of methacrylic acid and trimethylolpropane trimethacrylate, and (c) removing the silica support with ammonium fluoride. The resulting imprinted beads showed good molecular recognition capability for various penicillanic species, while antibiotics such as cephalosporins or chloramphenicol were poorly recognized. The imprinted beads were used to extract penicillin V, nafcillin, oxacillin, cloxacillin and dicloxacillin from skimmed and deproteinized milk in the concentration range of 5–100 μg·L−1. The extracts were then analyzed by micellar electrokinetic chromatography by applying reverse polarity staking as an in-capillary preconcentration step, and this resulted in a fast and affordable method within the MRL levels, characterized by minimal pretreatment steps and recoveries of 64–90 %. (author)

  5. Cellular biopolymers and molecular structure of a secondary pulp and paper mill sludge verified by spectroscopy and chemical extraction techniques.

    Science.gov (United States)

    Edalatmanesh, Maryam; Sain, Mohini; Liss, Steven N

    2010-01-01

    For proper treatment, recycling, or disposal of the pulp and paper mill secondary sludge qualitative and quantitative determination of its characteristics are necessary. Chemical extraction, quantitative characterization, and spectroscopic experiments have been performed to determine the molecular composition and chemical functionality of a pulp and paper mill secondary sludge. In order to extract the low-molecular-weight substances, soxhlet extraction with polar and non-polar solvents was performed where most of the target substances (17±1.3%.) were extracted after 2 hours. Over time, this extraction followed a first-order kinetics. Fiber analyses have shown 12±3% lignin, 28±3% cellulose, and 12±4% hemicelluloses content. The ash content was about 17±0.5%. In this work, 7 and 16% intra- and extracellular polymeric substances, respectively, were extracted from the secondary sludge. EPS and mixture of intra- and extracellular biopolymers have shown similar chemical functionalities. These analyses confirmed that the paper secondary sludge consisted mainly of wood fiber, i.e. lignocellulosic substances, along with proteins and polysaccharides originated from microorganisms. PMID:21123914

  6. Synthesis of a molecularly imprinted sorbent for selective solid-phase extraction of β-N-methylamino-L-alanine.

    Science.gov (United States)

    Svoboda, Pavel; Combes, Audrey; Petit, Julia; Nováková, Lucie; Pichon, Valérie

    2015-11-01

    The aim of the work was to synthesize a molecularly imprinted material for the selective solid-phase extraction (SPE) of β-N-methylamino-L-alanine (L-2-amino-3-methylpropionic acid; BMAA) from cyanobacterial extracts. BMAA and its structural analogs that can be used as template are small, polar and hydrophilic molecules. These molecules are poorly soluble in organic solvents that are commonly used for the synthesis of acrylic-based polymers. Therefore, a sol gel approach was chosen to carry out the synthesis and the resulting sorbents were evaluated with different extraction procedures in order to determine their ability to selectively retain BMAA. The presence of imprinted cavities in the sorbent was demonstrated by comparing elution profiles obtained by using molecularly imprinted silica (MIS) and non-imprinted silica (NIS) as a control. The molecularly imprinted solid-phase extraction (MISPE) procedure was first developed in a pure medium (acetonitrile) and further optimized for the treatment of cyanobacterial samples. It was characterized by high elution recoveries (89% and 77% respectively in pure and in real media).The repeatability of the extraction procedure in pure medium, in real medium and the reproducibility of MIS synthesis all expressed as RSD values of extraction recovery of BMAA were equal to 3%, 12% and 5%, respectively. A MIS capacity of 0.34 µmol/g was measured. The matrix effects, which affected the quantification of BMAA when employing a mixed mode sorbent, were completely removed by adding a clean-up step of the mixed-mode sorbent extract on the MIS. PMID:26452922

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

    International Nuclear Information System (INIS)

    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.

  8. 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.

  9. Inter-watershed and Its Automatic Extraction Based on DEMs%域间流域及自动提取方法研究

    Institute of Scientific and Technical Information of China (English)

    孙建伟; 汤国安

    2013-01-01

    目前,基于DEM及常规GIS软件进行的流域自动分割方法,往往忽视了一般流域与域间流域的差异性,并且未在属性上区分二者。本文强调流域划分必须充分,明确域间流域的概念与基本特征(包括域间流域的数量与面积、空间分布及空间形态特征)。鉴此,本文提出了基于DEM的域间流域自动提取方法,并以陕北黄土高原丘陵沟壑地区为实证。结果显示:通过对汇流阈值、地形特征、数据边界效应等因素的影响分析,可实现对域间流域的快速准确提取。另外,本文还对此分析了域间流域与一般流域在水文、空间形态及空间分布方面的特征差异。%Watershed delineation based on DEMs in the GIS environment is a fundamental work for hydrological analysis. But the feature difference between normal and inter-watershed watershed has long been ignored. This text believes that existence of inter-watershed must be taken into account during watershed delineation and analy-sis. In this paper, an overall explanation of basic concepts and characteristics of inter-watershed is presented, and a method of extracting inter-watershed automatically based on DEMs is introduced. Experimental results in the Loess Plateau region show that inter-watershed could be extracted accurately and quickly after a comprehensive consideration of water accumulation threshold, terrain feature and the boundary of data. Generally speaking, flat topography may lead to the wrong position of outlets of watersheds, which can be corrected with help of rivers’ DLG data. And if boundary of the data is not the dividing crest, it’s difficult to determine whether a watershed whose dividing line consists of data’s boundary is inter-watershed or not. Comparison of inter-watershed and normal watershed in terms of spatial form, spatial distribution and hydrological characteristics based on experi-mental results show that inter-watershed performs

  10. The effects of Bombyx mori silk strain and extraction time on the molecular and biological characteristics of sericin.

    Science.gov (United States)

    Siritientong, Tippawan; Bonani, Walter; Motta, Antonella; Migliaresi, Claudio; Aramwit, Pornanong

    2016-01-01

    Sericin was extracted from three strains of Thai Bombyx mori silk cocoons (white shell Chul1/1, greenish shell Chul3/2, and yellow shell Chul4/2) by a high-pressure and high-temperature technique. The characteristics of sericin extracted from different fractions (15, 45, and 60 min extraction process) were compared. No differences in amino acid composition were observed among the three fractions. For all silk strains, sericin extracted from a 15-min process presented the highest molecular weight. The biological potential of the different sericin samples as a bioadditive for 3T3 fibroblast cells was assessed. When comparing sericin extracted from three silk strains, sericin fractions extracted from Chul4/2 improved cell proliferation, while sericin from Chul 1/1 activated Type I collagen production to the highest extent. This study allows the natural variability of sericin obtained from different sources and extraction conditions to be addressed and provides clues for the selection of sericin sources. PMID:26399155

  11. 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.

  12. ANNUAL REPORT-AUTOMATIC INDEXING AND ABSTRACTING.

    Science.gov (United States)

    Lockheed Missiles and Space Co., Palo Alto, CA. Electronic Sciences Lab.

    THE INVESTIGATION IS CONCERNED WITH THE DEVELOPMENT OF AUTOMATIC INDEXING, ABSTRACTING, AND EXTRACTING SYSTEMS. BASIC INVESTIGATIONS IN ENGLISH MORPHOLOGY, PHONETICS, AND SYNTAX ARE PURSUED AS NECESSARY MEANS TO THIS END. IN THE FIRST SECTION THE THEORY AND DESIGN OF THE "SENTENCE DICTIONARY" EXPERIMENT IN AUTOMATIC EXTRACTION IS OUTLINED. SOME OF…

  13. Selective extraction of derivates of p-hydroxy-benzoic acid from plant material by using a molecularly imprinted polymer.

    Science.gov (United States)

    Karasová, Gabriela; Lehotay, Jozef; Sádecká, Jana; Skacáni, Ivan; Lachová, Miroslava

    2005-12-01

    Selective SPE of derivates of p-hydroxybenzoic acid (pHBA) from plant extract of Melissa officinalis is presented using a molecularly imprinted polymer (MIP) made with protocatechuic acid (PA) as template molecule. MIP was prepared with acrylamide as functional monomer, ethylene glycol dimethacrylate as crosslinking monomer and ACN as porogen. MIP was evaluated towards six phenolic acids: PA, gallic acid, pHBA, vanillic acid (VA), gentisic acid (GeA) and syringic acid (SyrA), and then steps of molecularly imprinted SPE (MISPE) procedure were optimized. The best specific binding capacity of MIP was obtained for PA in ACN (34.7 microg/g of MIP). Other tested acids were also bound on MIP if they were dissolved in this solvent. ACN was chosen as solvent for sample application. M. officinalis was extracted into methanol/water (4:1, v/v), the extract was then evaporated to dryness and dissolved in ACN before application on MIP. Water and ACN were used as washing solvents and elution of benzoic acids was performed by means of a mixture methanol/acetic acid (9:1, v/v). pHBA, GA, PA and VA were extracted with recoveries of 56.3-82.1% using this MISPE method. GeA was not determined in plant extract. PMID:16405176

  14. 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

  15. DNA Extraction from Bronchial Aspirates for Molecular Cytology: Which Method to Take?

    OpenAIRE

    Grote, Hans Jürgen; Schmiemann, Viola; Sarbia, Mario; Böcking, Alfred

    2003-01-01

    Objective: To date, there are only few systematic reports on the quality of DNA extracted from routine diagnostic cytologic specimens. It was the aim of the present study to evaluate the ability of 50% ethanol/2% carbowax (Saccomanno fixative) to preserve bronchial secretions with high quality genomic DNA as well as to compare different DNA extraction methods. Methods: DNA was extracted from 45 bronchial aspirates by four different extraction protocols. Beside DNA yield, DNA quality with rega...

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

    OpenAIRE

    Pinto S.M.; Fernandes-Matioli F.M.C.; Schlenz E.

    2000-01-01

    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 in...

  17. 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.

  18. Molecular alterations of tropoelastin and proteoglycans induced by tobacco smoke extracts and ultraviolet A in cultured skin fibroblasts

    International Nuclear Information System (INIS)

    Functional integrity of normal skin is dependent on the balance between the biosynthesis and degradation of extracellular matrix, primarily composed of collagen, elastin and proteoglycans. In our previous studies, we found that tobacco smoke extracts decreased expressions of type I and III procollagen and induced matrix metalloproteinase-1 (MMP-1) and MMP-3 in the cultured skin fibroblasts. We here further investigated the effects of tobacco smoke extracts or ultraviolet A (UVA) treatments on the expression of tropoelastin (soluble elastin protein), and versican and decorin (proteoglycans) in cultured skin fibroblasts. The mRNA of tropoelastin increased by tobacco smoke extracts or UVA irradiation. Versican was markedly shown to decrease after these treatments by using western blotting and the mRNA of versican V0 also significantly decreased. UVA treatment did not show remarkable change in decorin protein, but resulted in marked decrease of decorin D1 mRNA. In contrast to UVA irradiation, the treatments of tobacco smoke extracts resulted in significant increase in decorin, while mRNA of decorin D1 decreased as compared to the control. MMP-7 increased after the treatment of tobacco smoke extracts or UVA. These results indicated that common molecular features might underlie the skin premature aging induced by tobacco smoke extracts and UVA, including abnormal regulation of extracellular matrix deposition through elevated MMPs, reduced collagen production, abnormal tropoelastin accumulation, and altered proteoglycans. (author)

  19. Intramembranous Bone Healing Process Subsequent to Tooth Extraction in Mice: Micro-Computed Tomography, Histomorphometric and Molecular Characterization

    OpenAIRE

    Vieira, Andreia Espindola; Repeke, Carlos Eduardo; Ferreira Junior, Samuel de Barros; Colavite, Priscila Maria; Biguetti, Claudia Cristina; de 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 t...

  20. Removal and destruction of endocrine disrupting contaminants by adsorption with molecularly imprinted polymers followed by simultaneous extraction and phototreatment

    Energy Technology Data Exchange (ETDEWEB)

    Fernandez-Alvarez, Paula [Department of Biotechnology, Lund University, P.O. Box 124, 22100 Lund (Sweden); University of Santiago de Compostela, Department of Chemical Engineering, Instituto de Investigaciones Tecnologicas, C/Constantino Candeira, s/n. E-15782 Santiago de Compostela (Spain); Le Noir, Mathieu [Department of Biotechnology, Lund University, P.O. Box 124, 22100 Lund (Sweden); Guieysse, Benoit [Department of Biotechnology, Lund University, P.O. Box 124, 22100 Lund (Sweden); School of Civil and Environmental Engineering, Nanyang Technological University, Block N1, Nanyang Avenue, Singapore 639798 (Singapore)], E-mail: bjguieysse@ntu.edu.sg

    2009-04-30

    This study presents a method to regenerate molecularly imprinted polymers (MIPs) used for the selective removal of endocrine disrupting compounds from aqueous effluents. Regeneration was based on solvent extraction under UV irradiation to regenerate the polymer and the solvent while destroying the contaminants. Acetone was selected as the best solvent for irradiation of estrone (E1), 17{beta}-estradiol (E2) and ethinylestradiol (EE2) using either UVC (254 nm) or UV-vis. A MIP synthesized with E2 as template was then tested for the extraction of this compound from a 2 {mu}g/L loaded aqueous solution. E2 was recovered by 73 {+-} 11% and 46 {+-} 13% from the MIPs and a non-imprinted control polymer synthesized under the same conditions, respectively, after a single step elution with acetone. The irradiated polymers and acetone were reused for an additional extraction-regeneration cycle and showed no capacity decrease.

  1. RNA Polymerase II Second Largest Subunit Molecular Identification of Boletus griseipurpureus Corner From Thailand and Antibacterial Activity of Basidiocarp Extracts

    Science.gov (United States)

    Aung-aud-chariya, Amornrat; Bangrak, Phuwadol; Lumyong, Saisamorn; Phupong, Worrapong; Aggangan, Nelly Siababa; Kamlangdee, Niyom

    2015-01-01

    Background: Boletus griseipurpureus Corner, an edible mushroom, is a putative ectomycorrhizal fungus. Currently, the taxonomic boundary of this mushroom is unclear and its bitter taste makes it interesting for evaluating its antibacterial properties. Objectives: The purpose of this study was to identify the genetic variation of this mushroom and also to evaluate any antibacterial activities. Materials and Methods: Basidiocarps were collected from 2 north-eastern provinces, Roi Et and Ubon Ratchathani, and from 2 southern provinces, Songkhla and Surat Thani, in Thailand. Genomic DNA was extracted and molecular structure was examined using the RNA polymerase II (RPB2) analysis. Antibacterial activities of basidiocarp extracts were conducted with Escherichia coli ATCC 25922, Staphylococcus aureus ATCC 29523 and methicillin-resistant Staphylococcus aureus (MRSA) 189 using the agar-well diffusion method. Results: All the samples collected for this study constituted a monophyletic clade, which was closely related with the Boletus group of polypore fungi. For the antibacterial study, it was found that the crude methanol extract of basidiomes inhibited the growth of all bacteria in vitro more than the crude ethyl acetate extract. Conclusions: Basidomes collected from four locations in Thailand had low genetic variation and their extracts inhibited the growth of all tested bacteria. The health benefits of this edible species should be evaluated further. PMID:25834720

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

    OpenAIRE

    Pawar, Harshal A.; Lalitha, K. G.

    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...

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

    OpenAIRE

    Gea Guerriero; Lauralie Mangeot-Peter; Jean-Francois Hausman; Sylvain Legay

    2016-01-01

    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 ...

  5. Molecular Threading: Mechanical Extraction, Stretching and Placement of DNA Molecules from a Liquid-Air Interface

    OpenAIRE

    Payne, Andrew C.; Andregg, Michael; Kemmish, Kent; Hamalainen, Mark; Bowell, Charlotte; Bleloch, Andrew; Klejwa, Nathan; Lehrach, Wolfgang; Schatz, Ken; Stark, Heather; Marblestone, Adam; Church, George; Own, Christopher S.; Andregg, William

    2013-01-01

    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 depos...

  6. 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...

  7. 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.

  8. 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.

  9. Evaluation of molecular chaperons Hsp72 and neuropeptide Y as characteristic markers of adaptogenic activity of plant extracts.

    Science.gov (United States)

    Asea, Alexzander; Kaur, Punit; Panossian, Alexander; Wikman, Karl Georg

    2013-11-15

    We have previously demonstrated that ADAPT-232, a fixed combination of adaptogenic substances derived from Eleutherococcus senticosus root extract, Schisandra chinensis berry extract, Rhodiola rosea root extract stimulated the expression and release of neuropeptide Y (NPY) and molecular chaperone Hsp72 from isolated human neurolgia cells. Both of these mediators of stress response are known to play an important role in regulation of neuroendocrine system and immune response. We further demonstrated that ADAPT-232 induced release of Hsp70 is mediated by NPY, suggesting an existence of NPY-mediated pathway of activation of Hsp72 release into the blood circulation system. The objective of this study was to determine whether this pathway is common for adaptogens and whether NPY and/or Hsp72 can be considered as necessary specific biomarkers for adaptogenic activity. The release of NPY and Hsp72 from neuroglia cells in response to treatment with various plant extracts (n=23) including selected validated adaptogens, partly validated adaptogens, claimed but negligibly validated adaptogens and some other plant extracts affecting neuroendocrine and immune systems but never considered as adaptogens was measured using high throughput ELISA techniques. We demonstrated that adaptogens, e.g. R. rosea, S. chinensis and E. senticosus stimulate both NPY and Hsp70 release from neuroblastoma cells, while tonics and stimulants have no significant effect on NPY in this in vitro test. In the groups of partly validated adaptogens the effect of Panax ginseng and Withania somnifera was not statistically significant both on NPY and Hsp70 release, while the activating effect of Bryonia alba and Rhaponticum cartamoides was significant only on Hsp70. In contrast, all tested non-adaptogens, such as antiinflammatoty plant extracts Matricaria recutita, Pelargonium sidoides, Hedera helix and Vitis vinifera significantly inhibit Hsp70 release and have no influence on NPY release from neuroblastoma

  10. A simple and cost-effective method of DNA extraction from small formalin-fixed paraffin-embedded tissue for molecular oncologic testing

    OpenAIRE

    Snow, Anthony N; Stence, Aaron A; Pruessner, Jonathan A; Bossler, Aaron D.; Ma, Deqin

    2014-01-01

    Background Extraction of DNA from formalin-fixed, paraffin-embedded (FFPE) tissue is a critical step in molecular oncologic testing. As molecular oncology testing becomes more important for prognostic and therapeutic decision making and tissue specimens become smaller due to earlier detection of suspicious lesions and the use of fine needle aspiration methods for tissue collection, it becomes more challenging for the typical molecular pathology laboratory to obtain reliable test results. We d...

  11. 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.

  12. 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. PMID:26776046

  13. Analysis of ketamine and norketamine in urine by automatic solid-phase extraction (SPE) and positive ion chemical ionization-gas chromatography-mass spectrometry (PCI-GC-MS).

    Science.gov (United States)

    Kim, Eun-mi; Lee, Ju-seon; Choi, Sang-kil; Lim, Mi-ae; Chung, Hee-sun

    2008-01-30

    Ketamine (KT) is widely abused for hallucination and also misused as a "date-rape" drug in recent years. An analytical method using positive ion chemical ionization-gas chromatography-mass spectrometry (PCI-GC-MS) with an automatic solid-phase extraction (SPE) apparatus was studied for the determination of KT and its major metabolite, norketamine (NK), in urine. Six ketamine suspected urine samples were provided by the police. For the research of KT metabolism, KT was administered to SD rats by i.p. at a single dose of 5, 10 and 20mg/kg, respectively, and urine samples were collected 24, 48 and 72 h after administration. For the detection of KT and NK, urine samples were extracted on an automatic SPE apparatus (RapidTrace, Zymark) with mixed mode type cartridge, Drug-Clean (200 mg, Alltech). The identification of KT and NK was by PCI-GC-MS. m/z238 (M+1), 220 for KT, m/z 224 (M+1), 207 for NK and m/z307 (M+1) for Cocaine-D(3) as internal standard were extracted from the full-scan mass spectrum and the underlined ions were used for quantitation. Extracted calibration curves were linear from 50 to 1000 ng/mL for KT and NK with correlation coefficients exceeding 0.99. The limit of detection (LOD) was 25 ng/mL for KT and NK. The limit of quantitation (LOQ) was 50 ng/mL for KT and NK. The recoveries of KT and NK at three different concentrations (86, 430 and 860 ng/mL) were 53.1 to 79.7% and 45.7 to 83.0%, respectively. The intra- and inter-day run precisions (CV) for KT and NK were less than 15.0%, and the accuracies (bias) for KT and NK were also less than 15% at the three different concentration levels (86, 430 and 860 ng/mL). The analytical method was also applied to real six KT suspected urine specimens and KT administered rat urines, and the concentrations of KT and NK were determined. Dehydronorketamine (DHNK) was also confirmed in these urine samples, however the concentration of DHNK was not calculated. SPE is simple, and needs less organic solvent than liquid

  14. AUTOMATIC WEB SCRAPPING USING VISUAL SELECTORS

    Directory of Open Access Journals (Sweden)

    Rashmi Bhosale

    2015-12-01

    Full Text Available The amount of information that is currently vailable on the net grows at a very fast pace, thus web can be considered as the largest knowledge repository ever developed and made available to the public. A web data extraction system is a system that extracts data from web pages automatically. Web data analysis applications such as extracting mutual funds information from a website, extracting opening and closing price of stock daily from a web page and so on involves web data extraction.Early techniques were construcingt wrapper to visit those sites and collect data which is time consuming. Thus a technique called as Automatic Web Scrapping Using Visual Selectors(AWSUVS is proposed. For selected data sections AWSUVS discovers extraction pattern automatically. AWSUVS uses visual cues to identify data records while ignoring noise items such as advertises and navigation bars.

  15. 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.

  16. Comparison of extractable soil carbon and dissolved organic carbon by their molecular characteristics

    Czech Academy of Sciences Publication Activity Database

    Šestauberová, Martina; Novák, František

    2011-01-01

    Roč. 59, č. 6 (2011), 337-342. ISSN 1211-8516 Grant ostatní: Evropská unie(XE) 100018967 Cíl 3 - ČR-Sasko Institutional research plan: CEZ:AV0Z60660521 Keywords : DOC * humic substances * molecular weight Subject RIV: EH - Ecology, Behaviour

  17. Molecular and cellular targets affected by green tea extracts in vascular cells

    Science.gov (United States)

    Consumption of green or black tea has been associated with a lower risk for the development of cardiovascular diseases, but despite many studies, a firm connection has not been delineated. Several molecular and cellular mechanisms may play a role in the preventive activity of tea. As reviewed here, ...

  18. Fast HPLC-MS/MS Method for Determining Penicillin Antibiotics in Infant Formulas Using Molecularly Imprinted Solid-Phase Extraction

    Directory of Open Access Journals (Sweden)

    Mónica Díaz-Bao

    2015-01-01

    Full Text Available The dairy cattle may suffer from different infections relatively often, but the inflammation of the mammary gland is very important to the farmer. These infections are frequently treated with penicillin antimicrobial drugs. However, their use may result in the presence of residues in animal products, such as milk powder and/or infant formulas, and it represents a potential risk for consumers. To monitor this, the EU has defined safe maximum residue limits (MRLs through Commission Regulation (EU number 37/2010. Although LC-MS is a trustful option for confirmation and quantification of antibiotics, the analysis of real samples with complex matrices frequently implies previous clean-up steps. In this work, precipitation polymerization has been used and different molecularly imprinted polymer (MIP sorbents were tested and optimized for the fast and simultaneous solid-phase extraction (MISPE of eight common penicillins (ampicillin, amoxicillin, oxacillin, penicillin G, penicillin V, cloxacillin, dicloxacillin, and nafcillin. The extracts were analyzed using liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS and the applicability of these polymers as sorbents for the extraction of penicillins at MRL levels in milk powder (infant formulas was proved. The limits of detection and quantification were below the legal tolerances, except for LOQ for oxacillin and cloxacillin.

  19. Fast HPLC-MS/MS Method for Determining Penicillin Antibiotics in Infant Formulas Using Molecularly Imprinted Solid-Phase Extraction.

    Science.gov (United States)

    Díaz-Bao, Mónica; Barreiro, Rocío; Miranda, José Manuel; Cepeda, Alberto; Regal, Patricia

    2015-01-01

    The dairy cattle may suffer from different infections relatively often, but the inflammation of the mammary gland is very important to the farmer. These infections are frequently treated with penicillin antimicrobial drugs. However, their use may result in the presence of residues in animal products, such as milk powder and/or infant formulas, and it represents a potential risk for consumers. To monitor this, the EU has defined safe maximum residue limits (MRLs) through Commission Regulation (EU) number 37/2010. Although LC-MS is a trustful option for confirmation and quantification of antibiotics, the analysis of real samples with complex matrices frequently implies previous clean-up steps. In this work, precipitation polymerization has been used and different molecularly imprinted polymer (MIP) sorbents were tested and optimized for the fast and simultaneous solid-phase extraction (MISPE) of eight common penicillins (ampicillin, amoxicillin, oxacillin, penicillin G, penicillin V, cloxacillin, dicloxacillin, and nafcillin). The extracts were analyzed using liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS) and the applicability of these polymers as sorbents for the extraction of penicillins at MRL levels in milk powder (infant formulas) was proved. The limits of detection and quantification were below the legal tolerances, except for LOQ for oxacillin and cloxacillin. PMID:25785233

  20. 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. PMID:26492562

  1. Comparative study of two extraction methods for enteric virus recovery from sewage sludge by molecular methods

    Directory of Open Access Journals (Sweden)

    AD Schlindwein

    2009-07-01

    Full Text Available The aim of this study was to compare two nucleic acid extraction methods for the recovery of enteric viruses from activated sludge. Test samples were inoculated with human adenovirus (AdV, hepatitis A virus (HAV, poliovirus (PV and rotavirus (RV and were then processed by an adsorption-elution-precipitation method. Two extraction methods were used: an organic solvent-based method and a silica method. The organic-based method was able to recoup 20% of the AdV, 90% of the RV and 100% of both the PV and HAV from seeded samples. The silica method was able to recoup 1.8% of the AdV and 90% of the RV. These results indicate that the organic-based method is more suitable for detecting viruses in sewage sludge.

  2. Molecular design of Calix[4]arene derivatives for uranyl ion extraction from aqueous media

    International Nuclear Information System (INIS)

    Uranyl ion extraction is an important part of nuclear waste reprocessing. Use of organic ligands having chelating property with uranyl ions is a promising tool in this area, because of the possibility to improve the selectivity and the affinity of the ligands towards uranyl ions. In this study, Calix[4]arene derivatives containing B, Al, C, Si, N, P, O and S elements in bridging positions were designed and their chelating energetics with uranyl cation are calculated by means of DFT methods.

  3. Solvent extraction of scandium from malonic acid with high molecular-weight amines.

    Science.gov (United States)

    Dalvi, M B; Khopkar, S M

    1979-09-01

    Scandium is quantitatively extracted with 4% Amberlite LA-1 or Amberlite LA-2 in xylene at pH 2.5-5.5 from 0.1M malonic acid. Scandium is stripped from the organic phase with 0.5M hydrochloric acid and determined spectrophotometrically at 525 nm, as its complex with Alizarin Red S. Primene JM-T, tri-iso-octylamine, tributylamine and tribenzylamine have also been studied as extractants, but found to be unsatisfactory for various reasons. Xylene, toluene, benzene, chloroform, carbon tetrachloride, hexane, cyclohexane and kerosene have been studied as diluents. Xylene is found to be the most efficient. Scandium can be separated from most metals by selective extraction, and from gallium, thallium(III), bismuth, antimony(III), chromium(III), copper(II), iron(III), uranium(VI), cerium, zirconium, indium, thorium and titanium by selective stripping, in some cases combined with use of suitable complexing media to retain the other metals in the organic phase. PMID:18962534

  4. Solvent extraction of scandium from malonic acid with high molecular-weight amines

    International Nuclear Information System (INIS)

    Scandium is quantitatively extracted with 4% Amberlite LA-1 or Amberlite LA-2 in xylene at pH 2.5 to 5.5 from 0.1 M malonic acid. Scandium is stripped from the organic phase with 0.5 M hydrochloric acid and determined spectrophotometrically at 525 nm, as its complex with Alizarin Red S. Primene JM-T, tri-iso-octylamine, tributylamine and tribenzylamine have also been studied as extractants, but found to be unsatisfactory for various reasons. Xylene, toluene, benzene, chloroform, carbon tetrachloride, hexane, cyclohexane and kerosene have been studied as diluents. Xylene is found to be the most efficient. Scandium can be separated from most metals by selective extraction, and from gallium, thallium(III), bismuth, antimony(III), chromium(III), copper(II), iron(III), uranium(VI), cerium, zirconium, indium, thorium and titanium by selective stripping, in some cases combined with use of suitable complexing media to retain the other metals in the organic phase. (author)

  5. Molecularly imprinted coated graphene oxide solid-phase extraction monolithic capillary column for selective extraction and sensitive determination of phloxine B in coffee bean

    International Nuclear Information System (INIS)

    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−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−1 (r = 0.9995) with the detection limit (S/N = 3) of 0.075 ng mL−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

  6. 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.

  7. 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.

  8. Automated Extraction Improves Multiplex Molecular Detection of Infection in Septic Patients

    OpenAIRE

    Regueiro, Benito J.; Varela-Ledo, Eduardo; Martinez-Lamas, Lucia; Rodriguez-Calviño, Javier; Aguilera, Antonio; Santos, Antonio; Gomez-Tato, Antonio; Alvarez-Escudero, Julian

    2010-01-01

    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 Mgrade (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 ...

  9. Aqueous two phase extraction of proteins: From molecular understanding to process development

    OpenAIRE

    Oelmeier, Stefan A

    2012-01-01

    A high throughput screening method was implemented and applied to an industrial separation task. Previously reported correlations between protein descriptors and distribution were evaluated. A new approach to screen ATPS for their industrial application was devised and put to use for the selection of ATPSs used in centrifugal partitioning chromatography. A new modeling approach based on molecular dynamics was set up. This approach was validated using single PEG molecules in solution.

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

    International Nuclear Information System (INIS)

    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.

  11. 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...... electrothermal atomic absorption spectrometry....

  12. A simple and cost-effective method of DNA extraction from small formalin-fixed paraffin-embedded tissue for molecular oncologic testing

    Science.gov (United States)

    2014-01-01

    Background Extraction of DNA from formalin-fixed, paraffin-embedded (FFPE) tissue is a critical step in molecular oncologic testing. As molecular oncology testing becomes more important for prognostic and therapeutic decision making and tissue specimens become smaller due to earlier detection of suspicious lesions and the use of fine needle aspiration methods for tissue collection, it becomes more challenging for the typical molecular pathology laboratory to obtain reliable test results. We developed a DNA extraction method to obtain sufficient quantity and high quality genomic DNA from limited FFPE tissue for molecular oncology testing using a combination of H&E stained slides, a matrix capture method and the Qiagen DNA column. Methods Three DNA extraction methods were compared: our standard procedure of manually scraping tissue from unstained slides followed by DNA extraction using the QIAamp FFPE column (Qiagen, Valencia, CA), a glue capture method (Pinpoint Solution, Zymo Research Corp, Inc) on H&E stained slides followed by DNA extraction using either the QIAamp column or the column included with the Pinpoint kit (Zymo Research). The DNA extraction protocol was optimized. Statistical analysis was performed using the paired two-sample student’s t-test. Results The combination of the matrix capture method with the QIAamp column gave an equivalent amount of DNA as our standard extraction method using the unstained slides and a 4.6-fold higher DNA yield than using the Zymo column included in the Pinpoint Slide Solution kit. Several molecular tests were performed and DNA purified using the new method gave the same results as for the previous methods. Conclusions Using H&E stained slides allows visual confirmation of tumor cells during microdissection. The Pinpoint solution made removal of specific tissue from the slides easier and reduced the risk of contamination and tissue loss. This DNA extraction method is simple, cost-effective, and blends with our current

  13. Abbreviation definition identification based on automatic precision estimates

    OpenAIRE

    Kim Won; Comeau Donald C; Sohn Sunghwan; Wilbur W John

    2008-01-01

    Abstract Background The rapid growth of biomedical literature presents challenges for automatic text processing, and one of the challenges is abbreviation identification. The presence of unrecognized abbreviations in text hinders indexing algorithms and adversely affects information retrieval and extraction. Automatic abbreviation definition identification can help resolve these issues. However, abbreviations and their definitions identified by an automatic process are of uncertain validity. ...

  14. 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 (gluten index (r=0.959(∗∗)), and gliadin/glutenin ratio (r=-0.952(∗∗)), while peak II influenced inversely as expected. Peak I exhibited positive statistical significance with 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(∗∗)). PMID:27211654

  15. Analysis of testosterone in human urine using molecularly imprinted solid-phase extraction and corona discharge ion mobility spectrometry.

    Science.gov (United States)

    Mirmahdieh, Shiva; Mardihallaj, Azam; Hashemian, Zahra; Razavizadeh, Jalal; Ghaziaskar, Hassan; Khayamian, Taghi

    2011-01-01

    Analysis of testosterone was accomplished using corona discharge ion mobility spectrometry. Molecular imprinted polymer was used for the extraction and pre-concentration of testosterone. Analytical parameters including precision, dynamic range and detection limit were obtained. The linear dynamic range was from 10 to 250 ng/mL and the limit of detection was 0.9 ng/mL. The proposed method was used for analysis of testosterone in urine samples. A urine sample from a 3-year-old girl was used as the blank. The RSD was below 10%. The obtained results from the method were also compared with the standard method for analysis of testosterone using SPE-HPLC analysis. The results demonstrate the accuracy of the method. PMID:21171183

  16. 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

  17. 分子印迹固相萃取技术研究新进展%New Advance of Studies on Molecularly Imprinted Solid-phase Extraction

    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

    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.%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.

  18. 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.

  19. Sensitive, automatic method for the determination of diazepam and its five metabolites in human oral fluid by online solid-phase extraction and liquid chromatography with tandem mass spectrometry.

    Science.gov (United States)

    Jiang, Fengli; Rao, Yulan; Wang, Rong; Johansen, Sys Stybe; Ni, Chunfang; Liang, Chen; Zheng, Shuiqing; Ye, Haiying; Zhang, Yurong

    2016-05-01

    A novel and simple online solid-phase extraction liquid chromatography-tandem mass spectrometry method was developed and validated for the simultaneous determination of diazepam and its five metabolites including nordazepam, oxazepam, temazepam, oxazepam glucuronide, and temazepam glucuronide in human oral fluid. Human oral fluid was obtained using the Salivette(®) collection device, and 100 μL of oral fluid samples were loaded onto HySphere Resin GP cartridge for extraction. Analytes were separated on a Waters Xterra C18 column and quantified by liquid chromatography with tandem mass spectrometry using the multiple reaction monitoring mode. The whole procedure was automatic, and the total run time was 21 min. The limit of detection was in the range of 0.05-0.1 ng/mL for all analytes. The linearity ranged from 0.25 to 250 ng/mL for oxazepam, and 0.1 to 100 ng/mL for the other five analytes. Intraday and interday precision for all analytes was 0.6-12.8 and 1.0-9.2%, respectively. Accuracy ranged from 95.6 to 114.7%. Method recoveries were in the range of 65.1-80.8%. This method was fully automated, simple, and sensitive. Authentic oral fluid samples collected from two volunteers after consuming a single oral dose of 10 mg diazepam were analyzed to demonstrate the applicability of this method. PMID:27005561

  20. 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.

  1. Molecularly imprinted polymers combination with deep eutectic solvents for solid-phase extraction of caffeic acid from hawthorn.

    Science.gov (United States)

    Li, Guizhen; Tang, Weiyang; Cao, Weimin; Wang, Qian; Zhu, Tao

    2015-08-01

    Molecularly imprinted polymers (MIPs) with caffeic acid as template and non-imprinted polymers (NIPs) materials were prepared in the same procedure. Field emission scanning electron microscopy (FE-SEM) and adsorption capacity test were used to evaluate characteristic of the new materials. MIPs, NIPs and C18 were used for rapid purification of caffeic acid from hawthorn with solid-phase extraction ( SPE) , and extract yields of caffeic acid with the proposed materials were 3.46 µg/g, 1.01 µg/g and 1.17 µg/g, respectively. To optimize the MIPs-SPE procedures, different kinds of elution solutions were studied. Deep eutectic solvents (DESs) were prepared by choline chloride (ChCl)-glycerol (1/2, n/n) and choline chloride-urea (1/ 2, n/n). Methanol was mixed with the two kinds of DESs (glycerol-based DESs, urea-based DESs) in different ratios (0.5:1, 1:1, 2:1, 3:1, 4:1, 5:1, v/v), and they were used to investigated as elution solutions in the above MIPs-SPE procedures. The results showed that MIPs were potential SPE materials, and methanol/ glycerol-based DESs (3 :1, v/v) had the best elution capability with the recovery of 82.32%. PMID:26749853

  2. Improving Molecular Detection of Fungal DNA in Formalin-Fixed Paraffin-Embedded Tissues: Comparison of Five Tissue DNA Extraction Methods Using Panfungal PCR▿

    OpenAIRE

    Muñoz-Cadavid, C.; Rudd, S.; Zaki, S. R.; Patel, M.; Moser, S A; Brandt, M E; Gómez, B. L.

    2010-01-01

    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 ...

  3. 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.

  4. 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. PMID:26953839

  5. 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.

  6. 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

    International Nuclear Information System (INIS)

    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%. -- Graphical abstract: This is the SEM photograph of molecularly imprinted polymer microspheres (MIPMs). MIPMs were prepared by suspension polymerization and used as selective sorbents for the solid-phase extraction of gonyautoxins 2,3. An off-line MISPE method followed by high-performance liquid chromatography with fluorescence detection for the analysis of gonyautoxins 2,3 was established. The extract samples from Alexandrium tamarense were analyzed by molecularly imprinted solid-phase extraction. Highlights: •The molecularly imprinted polymer microspheres (MIPMs) for GTX2,3 were prepared. •The characteristics and regeneration property of MIPMs were studied. •An off-line method using MIPMs as solid-phase extraction (SPE) sorbents was developed. •GTX2,3 from Alexandrium tamarense extract was successfully isolated by MIPMs-SPE. -- MIPMs for GTX2,3 were

  7. Analysis of Benzo[a]pyrene in Vegetable Oils Using Molecularly Imprinted Solid Phase Extraction (MISPE) Coupled with Enzyme-Linked Immunosorbent Assay (ELISA)

    OpenAIRE

    Michael Pschenitza; Rudolf Hackenberg; Reinhard Niessner; Dietmar Knopp

    2014-01-01

    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 ...

  8. Molecular marker study of extractable organic matter in aerosols from urban areas of China

    Science.gov (United States)

    Simoneit, Bernd R. T.; Sheng, Guoying; Chen, Xiaojing; Fu, Jiamo; Zhang, Jian; Xu, Yuping

    The solvent-extractable compounds (lipids) of aerosol samples, which were collected from a western suburb of Beijing, in the city of Guiyang and on the outskirts of Guangzhou, P.R. China, using a standard high volume air sampler, were investigated to determine the distributions of homologous compounds and biomarkers. These preliminary results show that all samples contain aliphatic hydrocarbons including n-alkanes, steranes and triterpanes, derived from both biogenic sources (vascular plant wax input) and fossil fuel contamination (coal, crude oil, etc.). Polynuclear aromatic hydrocarbons, which are considered to be combustion products from fossil fuels such as petroleum and, especially in this case, coal burning, are also widely distributed in all samples. Oxygenated compounds (e.g. alkanoic acids, alkanones and alkanols) are present as major fractions and are derived from mainly natural sources. Furthermore, some compositional differences are observed for the organic compounds in samples from different heights above ground. This is interpreted to be due to dilution at higher levels of locally generated aerosol with upper air aerosol transported over longer distances.

  9. High-capacity magnetic hollow porous molecularly imprinted polymers for specific extraction of protocatechuic acid.

    Science.gov (United States)

    Li, Hui; Hu, Xin; Zhang, Yuping; Shi, Shuyun; Jiang, Xinyu; Chen, Xiaoqin

    2015-07-24

    Magnetic hollow porous molecularly imprinted polymers (HPMIPs) with high binding capacity, fast mass transfer, and easy magnetic separation have been fabricated for the first time. In this method, HPMIPs was firstly synthesized using protocatechuic acid (PCA) as template, 4-vinylpyridine (4-VP) as functional monomer, glycidilmethacrylate (GMA) as co-monomer, and MCM-48 as sacrificial support. After that, epoxide ring of GMA was opened for chemisorbing Fe3O4 nanoparticles to prepare magnetic HPMIPs. The results of characterization indicated that magnetic HPMIPs exhibited large surface area (548m(2)/g) with hollow porous structure and magnetic sensitivity (magnetic saturation at 2.9emu/g). The following adsorption characteristics investigation exhibited surprisingly higher adsorption capacity (37.7mg/g), and faster kinetic binding (25min) than any previously reported PCA imprinted MIPs by traditional or surface imprinting technology. The equilibrium data fitted well to Langmuir equation and the adsorption process could be described by pseudo-second order model. The selective recognition experiments also demonstrated the high selectivity of magnetic HPMIPs towards PCA over analogues. The results of the real sample analysis confirmed the superiority of the proposed magnetic HPMIPs for selective and efficient enrichment of trace PCA from complex matrices. PMID:26044378

  10. Molecular dynamics studies on the adaptability of an ionic liquid in the extraction of solid nanoparticles.

    Science.gov (United States)

    Frost, Denzil S; Machas, Michael; Dai, Lenore L

    2012-10-01

    Recently, a number of publications have suggested that ionic liquids (ILs) can absorb solid particles. This development may have implications in fields like oil sand processing, oil spill beach cleanup, and water treatment. In this Article, we provide a computational investigation of this phenomenon via molecular dynamics simulations. Two particle surface chemistries were investigated: (1) hydrocarbon-saturated and (2) silanol-saturated, representing hydrophobic and hydrophilic particles, respectively. Employing 1-butyl-3-methylimidazolium hexafluorophosphate ([BMIM][PF(6)]) as a model IL, these nanoparticles were allowed to equilibrate at the IL/water and IL/hexane interfaces to observe the interfacial self-assembled structures. At the IL/water interface, the hydrocarbon-based nanoparticles were nearly completely absorbed by the IL, while the silica nanoparticles maintained equal volume in both phases. At the IL/hexane interface, the hydrocarbon nanoparticles maintained minimal interactions with the IL, whereas the silica nanoparticles were nearly completely absorbed by it. Studies of these two types of nanoparticles immersed in the bulk IL indicate that the surface chemistry has a great effect on the corresponding IL liquid structure. These effects include layering of the ions, hydrogen bonding, and irreversible absorption of some ions to the silica nanoparticle surface. We quantify these effects with respect to each nanoparticle. The results suggest that ILs likely exhibit this absorption capability because they can form solvation layers with reduced dynamics around the nanoparticles. PMID:22950605

  11. Molecular and Biochemical Effects of a Kola Nut Extract on Androgen Receptor-Mediated Pathways

    International Nuclear Information System (INIS)

    The low incidence of prostate cancer in Asians has been attributed to chemo preventative properties of certain chemicals found in their diet. This study characterized the androgenic and chemo preventative properties of the Jamaican bush tea Bizzy using androgen receptor positive and negative cell lines. Exposure of prostate cells to Biz-2 resulted in a growth inhibition (GI50) of 15 ppm in LNCaP cells and 3.6 ppm in DU145 cells. Biz-2 elicited a 2-fold increase in the mRNA of the anti-apoptotic gene Bcl2, with a 10-fold increase in that of the pro apoptotic gene Bax. We observed a 2.4- to 7.5-fold change in apoptotic cells in both cell lines. Biz-2 at 10 ppm elicited a time- and dose-dependent stimulation of both the protein and mRNA levels of several androgen-regulated genes. Biz-2 caused a 36% decrease in PSA secretion and a significant increase in PSA mRNA. The relative binding affinity (IC50) of Biz-2 for AR was 2- to 5-fold lower than that of the synthetic androgen R1881. Biz-2 was found to be a specific ligand for the AR in that the natural ligand, DHT, and the anti-androgen, flutamide, displaced Biz-2 bound to AR and inhibited Biz-2-induced transcription and PSA secretion. This study provided evidence that Biz-2 extract possesses the ability to modulate prostate cancer cell biology in an AR-dependent manner.

  12. Molecular and Biochemical Effects of a Kola Nut Extract on Androgen Receptor-Mediated Pathways

    Directory of Open Access Journals (Sweden)

    Rajasree Solipuram

    2009-01-01

    Full Text Available The low incidence of prostate cancer in Asians has been attributed to chemopreventative properties of certain chemicals found in their diet. This study characterized the androgenic and chemopreventative properties of the Jamaican bush tea “Bizzy,” using androgen receptor positive and negative cell lines. Exposure of prostate cells to Biz-2 resulted in a growth inhibition (GI50 of 15 ppm in LNCaP cells and 3.6 ppm in DU145 cells. Biz-2 elicited a 2-fold increase in the mRNA of the anti-apoptotic gene Bcl2, with a 10-fold increase in that of the proapoptotic gene Bax. We observed a 2.4- to 7.5-fold change in apoptotic cells in both cell lines. Biz-2 at 10 ppm elicited a time- and dose-dependent stimulation of both the protein and mRNA levels of several androgen-regulated genes. Biz-2 caused a 36% decrease in PSA secretion and a significant increase in PSA mRNA. The relative binding affinity (IC50 of Biz-2 for AR was 2- to 5-fold lower than that of the synthetic androgen R1881. Biz-2 was found to be a specific ligand for the AR in that the natural ligand, DHT, and the anti-androgen, flutamide, displaced Biz-2 bound to AR and inhibited Biz-2-induced transcription and PSA secretion. This study provided evidence that Biz-2 extract possesses the ability to modulate prostate cancer cell biology in an AR-dependent manner.

  13. 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

  14. 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...

  15. Research on Automatic Extraction of Web Sentiment Words%网络情感词自动识别方法研究

    Institute of Scientific and Technical Information of China (English)

    张清亮; 徐健

    2011-01-01

    To improve the efficiency of extracting sentiment words and building sentiment lexicon, the authors propose a method to extract a set of basic sentiment words, and then to calculate both the PMI - IR value between candidate word and the positive basic sentiment word set and the PMI - IR value between candidate words and the negative basic sentiment word set, to judge the orientation of a candidate word. Taking account of frequency, orientation, intensity and definiteness of words, computers are able to finish most of the work. It improves the efficiency and reduces cost of building sentiment lexicon. Experiment is processed on the dataset constituted with 71 061 reviews from 360buy and 1 736 reviews from Joyo. With the dataset, the method achieves a recall rate of 76. 36% , a precision of 76.94% ,and the precision of sentiment orientation is 62.70%.%针对情感词识别及情感词库构建效率不高的问题,提出一种自动提取基准情感词集的方法,从词频、词的领域性情感倾向和词的情感强度三方面进行基准词筛选,再凭借目标词与正、负基准词集的不同语义相似度进行情感词的识别和情感倾向的判断,使机器能够自动完成大部分工作,提高效率,降低构建不同领域情感词库的成本。以京东商城71061条评论和卓越网1736条评论为数据集进行实验,获得的召回率为76.36%,准确率为76.94%,情感倾向判断的准确率为62.70%。

  16. Synthesis and evaluation of dummy molecularly imprinted microspheres for the specific solid-phase extraction of six anthraquinones from slimming tea.

    Science.gov (United States)

    Wu, Xingqiang; Liang, Shuxuan; Ge, Xusheng; Lv, Yunkai; Sun, Hanwen

    2015-05-01

    Dummy molecularly imprinted microspheres with danthron as template were synthesized and their performance was evaluated. Accelerated solvent extraction can rapidly and effectively remove template molecules from the microspheres. The microspheres were applied as a specific sorbent for solid-phase extraction of six anthraquinones from slimming tea, showing excellent affinity and high selectivity to danthron and the target analytes. The molecular recognition mechanisms were discussed by the experimental validation with IR spectroscopy. The sample was treated using accelerated solvent extraction followed by dummy molecularly imprinted microspheres solid-phase extraction. Under the optimized ultra high performance liquid chromatographic conditions, the six target analytes can be baseline separated in 8 min, and good linearity was obtained in a range of 0.1-40 μg/mL with the correlation coefficient (r(2)) of ≥0.9998. The method limit of quantification was in a range of 1-2 mg/kg, it can ensure analysis of anthraquinones at mg/kg level. The intra- and interday precision (RSD, n = 6) for the analysis of the six analytes in a slimming tea was less than 4.5 and 5.4%, respectively. The developed method can be applied for the selective extraction, effective separation, and rapid determination of six anthraquinones in slimming tea. PMID:25677958

  17. Kavain, the Major Constituent of the Anxiolytic Kava Extract, Potentiates GABAA Receptors: Functional Characteristics and Molecular Mechanism

    Science.gov (United States)

    Chua, Han Chow; Christensen, Emilie T. H.; Hoestgaard-Jensen, Kirsten; Hartiadi, Leonny Y.; Ramzan, Iqbal; Jensen, Anders A.; Absalom, Nathan L.; Chebib, Mary

    2016-01-01

    Extracts of the pepper plant kava (Piper methysticum) are effective in alleviating anxiety in clinical trials. Despite the long-standing therapeutic interest in kava, the molecular target(s) of the pharmacologically active constituents, kavalactones have not been established. γ-Aminobutyric acid type A receptors (GABAARs) are assumed to be the in vivo molecular target of kavalactones based on data from binding assays, but evidence in support of a direct interaction between kavalactones and GABAARs is scarce and equivocal. In this study, we characterised the functional properties of the major anxiolytic kavalactone, kavain at human recombinant α1β2, β2γ2L, αxβ2γ2L (x = 1, 2, 3 and 5), α1βxγ2L (x = 1, 2 and 3) and α4β2δ GABAARs expressed in Xenopus oocytes using the two-electrode voltage clamp technique. We found that kavain positively modulated all receptors regardless of the subunit composition, but the degree of enhancement was greater at α4β2δ than at α1β2γ2L GABAARs. The modulatory effect of kavain was unaffected by flumazenil, indicating that kavain did not enhance GABAARs via the classical benzodiazepine binding site. The β3N265M point mutation which has been previously shown to profoundly decrease anaesthetic sensitivity, also diminished kavain-mediated potentiation. To our knowledge, this study is the first report of the functional characteristics of a single kavalactone at distinct GABAAR subtypes, and presents the first experimental evidence in support of a direct interaction between a kavalactone and GABAARs. PMID:27332705

  18. 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. PMID:20953778

  19. 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. PMID:26531856

  20. 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. PMID:27295964

  1. Synthesis and characterization of molecularly imprinted polymer nanoparticles for coenzyme Q10 dispersive micro solid phase extraction.

    Science.gov (United States)

    Contin, Mario; Bonelli, Pablo; Lucangioli, Silvia; Cukierman, Ana; Tripodi, Valeria

    2016-07-22

    Molecularly imprinted polymer nanoparticles (MIPNPs) with the ability to recognize coenzyme Q10 (CoQ10) were synthesised in order to be employed as sorbent in a dispersive micro-solid phase extraction (DMSPE) for the determination of CoQ10 in a liver extract. CoQ10 is a redox-active, lipophilic substance integrated in the mitochondrial respiratory chain which acts as an electron carrier, shuttling electrons from complex I (NADH-ubiquinone oxidoreductase) and II (succinate-ubiquinone oxidoreductase) to complex III (ubiquinol-cytochrome c reductase), for the production of cellular energy. The MIPNPs were synthesised by precipitation polymerization using coenzyme Q0 as the dummy template, methacrylic acid as the functional monomer, an acetonitrile: water mixture as the porogen, ethylene glycol dimethacrylate as the crosslinker and potassium persulfate as initiator. The nanoparticles were characterized by microscopy, capillary electrophoresis, dynamic light scattering, N2 adsorption-desorption isotherms, and infrared spectroscopy. The MIPNPs demonstrated the presence of selective cavities complementary to the quinone nucleus of CoQ10, leading to a specific recognition of CoQ10 compared with related compounds. In the liver extract the relative CoQ10 peak area (CoQ10 area/total peak area) increased from 4.6% to 25.4% after the DMSPE procedure. The recovery percentage of CoQ10 from the liver matrix was between 70.5% and 83.7% quantified against CoQ10 standard processed under the same conditions. The DMSPE procedure allows the elution of almost all the CoQ10 retained (99.4%) in a small volume (200μL), allowing the sample to be concentrated 2.5 times (LOD: 1.1μgg(-1) and LOQ: 3.7μgg(-1) of tissue). The resulted clean up of the sample, the improvement in peak shape and baseline and the reduction of interferences, evidence that the MIPNPs could potentially be applied as sorbent in a DMSPE with satisfactory results and with a minimum amount of sorbent (1mg). PMID:27317007

  2. A New Color Facial Identification Feature Extraction Method' and Automatic Identification%一种改进的彩色人脸鉴别特征抽取方法及自动识别

    Institute of Scientific and Technical Information of China (English)

    高燕; 明曙军; 刘永俊

    2011-01-01

    Currently face recognition has made some success, algorithms are constantly being improved. According to the common needs of the average sample solution in traditional linear analysis methods, this paper proposes the face recognition based on intermediate samples. This method can remove the influence of average samples to interference samples. Combined with the color of face recognition, the paper proposes color facial identification feature extraction and automatic identification based on the middle samples. Finally, extensive experiments performed on the international and universal AR standard color face database verify the effectiveness of the proposed method.%针对传统的线性分析方法中都需要的平均样本的共性,提出了基于中间样本的人脸识别.这种方法有效去除了干扰样本对平均样本的影响,并结合彩色人脸识别,提出了基于中间样本的彩色人脸鉴别特征抽取及自动识别方法.最后,在国际通用的AR标准彩色人脸库中进行了大量实验,验证了算法的有效性.

  3. Semi-Technical Cryogenic Molecular Sieve Bed for the Tritium Extraction System of the Test Blanket Module for ITER

    International Nuclear Information System (INIS)

    The tritium extraction from the ITER Helium Cooled Pebble Bed (HCPB) Test Blanket Module purge gas is proposed to be performed in a two steps process: trapping water in a cryogenic Cold Trap, and adsorption of hydrogen isotopes (H2, HT, T2) as well as impurities (N2, O2) in a Cryogenic Molecular Sieve Bed (CMSB) at 77K. A CMSB in a semi-technical scale (one-sixth of the flow rate of the ITER-HCPB) was design and constructed at the Forschungszentrum Karlsruhe. The full capacity of CMSB filled with 20 kg of MS-5A was calculated based on adsorption isotherm data to be 9.4 mol of H2 at partial pressure 120 Pa. The breakthrough tests at flow rates up to 2 Nm3h-1 of He with 110 Pa of H2 conformed with good agreement the adsorption capacity of the CMSB. The mass-transfer zone was found to be relatively narrow (12.5 % of the MS Bed height) allowing to scale up the CMSB to ITER flow rates

  4. Probing the molecular forces involved in binding of selected volatile flavour compounds to salt-extracted pea proteins.

    Science.gov (United States)

    Wang, Kun; Arntfield, Susan D

    2016-11-15

    Molecular interactions between heterologous classes of flavour compounds with salt-extracted pea protein isolates (PPIs) were determined using various bond disrupting agents followed by GC/MS analysis. Flavour bound by proteins decreased in the order: dibutyl disulfide>octanal>hexyl acetate>2-octanone=benzaldehyde. Benzaldehyde, 2-octanone and hexyl acetate interacted non-covalently with PPIs, whereas octanal bound PPIs via covalent and non-covalent forces. Dibutyl disulfide reacted with PPIs covalently, as its retention was not diminished by urea and guanidine hydrochloride. Using propylene glycol, H-bonding and ionic interactions were implicated for hexyl acetate, benzaldehyde, and 2-octanone. A protein-destabilising salt (Cl3CCOONa) reduced bindings for 2-octanone, hexyl acetate, and benzaldehyde; however, retention for octanal and dibutyl disulfide increased. Conversely, a protein-stabilising salt (Na2SO4) enhanced retention for benzaldehyde, 2-octanone, hexyl acetate and octanal. Formation of a volatile flavour by-product, 1-butanethiol, from dibutyl disulfide when PPIs were treated with dithiothreitol indicated occurrence of sulfhydryl-disulfide interchange reactions. PMID:27283627

  5. Molecularly imprinted polymers for extraction of malachite green from fish samples prior to its determination by HPLC

    International Nuclear Information System (INIS)

    Molecularly imprinted polymer (MIP) particles for malachite green (MG) were prepared by emulsion polymerization using methacrylic acid as the functional monomer, ethylene glycol dimethacrylate as the cross-linker, and a combination of Span-80 and Tween-80 as an emulsifier. The MIP particles were characterized by SEM micrographs and FT-IR spectra. Their binding capacity for MG was evaluated based on kinetic and isothermal adsorption experiments and compared to non-imprinted polymer particles. Analytical figures of merit include an adsorption equilibrium time of 15 min, an adsorption capacity of 1.9 mg∙g-1 in acetonitrile-water (20:80), and an imprinting factor of 1.85. The MIP particles were successfully applied to the extraction of MG from fish samples spiked with MG and the other interfering substances prior to its determination of MG by HPLC. Spiked samples gave recoveries of MG that ranged from 86 to 104 %, much higher than that of the other interfering substance. (author)

  6. Determination of aminoglycosides in honey by capillary electrophoresis tandem mass spectrometry and extraction with molecularly imprinted polymers.

    Science.gov (United States)

    Moreno-González, David; Lara, Francisco J; Jurgovská, Nikola; Gámiz-Gracia, Laura; García-Campaña, Ana M

    2015-09-01

    A new analytical method based on capillary zone electrophoresis-tandem mass spectrometry is proposed and validated for the identification and simultaneous quantification of nine aminoglycosides in honey samples. Detection using an ion trap mass analyzer operating in the multiple reaction monitoring mode was used. Different parameters were optimized in order to obtain an adequate separation combined with the highest sensitivity. In order to achieve high selectivity in the sample treatment, a commercially-available molecularly imprinted polymer has been used for the solid phase extraction of the analytes. Under optimum conditions, recoveries for fortified samples ranged from 88.2 to 99.8%, with relative standard deviations lower than 8%. The limits of detection ranged from 0.4 to 28.5 μg kg(-1). Furthermore, the decision limit and the detection capability were evaluated, ranging from 3.5 to 60.5 μg kg(-1) and from 6.0 to 103.1 μg kg(-1), respectively, demonstrating the sensitivity and applicability of this fast and simple method. PMID:26388393

  7. A fully integrated paperfluidic molecular diagnostic chip for the extraction, amplification, and detection of nucleic acids from clinical samples.

    Science.gov (United States)

    Rodriguez, Natalia M; Wong, Winnie S; Liu, Lena; Dewar, Rajan; Klapperich, Catherine M

    2016-02-21

    Paper diagnostics have successfully been employed to detect the presence of antigens or small molecules in clinical samples through immunoassays; however, the detection of many disease targets relies on the much higher sensitivity and specificity achieved via nucleic acid amplification tests (NAAT). The steps involved in NAAT have recently begun to be explored in paper matrices, and our group, among others, has reported on paper-based extraction, amplification, and detection of DNA and RNA targets. Here, we integrate these paper-based NAAT steps into a single paperfluidic chip in a modular, foldable system that allows for fully integrated fluidic handling from sample to result. We showcase the functionality of the chip by combining nucleic acid isolation, isothermal amplification, and lateral flow detection of human papillomavirus (HPV) 16 DNA directly from crude cervical specimens in less than 1 hour for rapid, early detection of cervical cancer. The chip is made entirely of paper and adhesive sheets, making it low-cost, portable, and disposable, and offering the potential for a point-of-care molecular diagnostic platform even in remote and resource-limited settings. PMID:26785636

  8. 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

    2016-01-01

    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. PMID:27453278

  9. Development of magnetic molecularly imprinted polymers for selective extraction: determination of citrinin in rice samples by liquid chromatography with UV diode array detection.

    Science.gov (United States)

    Urraca, Javier L; Huertas-Pérez, José F; Cazorla, Guillermo Aragoneses; Gracia-Mora, Jesus; García-Campaña, Ana M; Moreno-Bondi, María Cruz

    2016-04-01

    In this work, we report the synthesis of novel magnetic molecularly imprinted polymers (m-MIPs) and their application to the selective extraction of the mycotoxin citrinin (CIT) from food samples. The polymers were prepared by surface imprinting of Fe3O4 nanoparticles, using 2-naphtholic acid (2-NA) as template molecule, N-3,5-bis(trifluoromethyl)phenyl-N'-4-vinylphenyl urea and methacrylamide as functional monomers and ethyleneglycol dimethacrylate as cross-linker. The resulting material was characterized by transmission electron microscopy (TEM), and X-ray diffraction (XRD) and Fourier transform infrared spectroscopies (FT-IR). The polymers were used to develop a solid-phase extraction method (m-MISPE) for the selective recovery of CIT from rice extracts prior to its determination by HPLC with UV diode array detection. The method involves ultrasound-assisted extraction of the mycotoxin from rice samples with (7:3, v/v) methanol/water, followed by sample cleanup and preconcentration with m-MIP. The extraction (washing and elution) conditions were optimized and their optimal values found to provide CIT recoveries of 94-98 % with relative standard deviations (RSD) less than 3.4 % (n = 3) for preconcentrated sample extracts (5 mL) fortified with the analyte at concentrations over the range 25-100 μg kg(-1). Based on the results, the application of the m-MIPs facilitates the accurate and efficient determination of CIT in rice extracts. Graphical Abstract Novel magnetic molecularly imprinted polymers (m-MIPs) for citrinin (CIT) have been obtained and applied to the selective extraction of the mycotoxin from rice samples. PMID:26873195

  10. Molecularly imprinted polymer for selective extraction of malachite green from seawater and seafood coupled with high-performance liquid chromatographic determination

    International Nuclear Information System (INIS)

    Highlights: ► The malachite green molecularly imprinted polymer (MG-MIP) was prepared. ► The characteristics and regeneration property of MIP were studied. ► An off-line method for MG was developed using MIP as solid-phase extraction. ► The MG concentrations from seawater and seafood samples were determined. - Abstract: In this paper, a highly selective sample cleanup procedure combining molecular imprinting technique (MIT) and solid-phase extraction (SPE) was developed for the isolation of malachite green in seawater and seafood samples. The molecularly imprinted polymer (MIP) was prepared using malachite green as the template molecule, methacrylic acid as the functional monomer and ethylene glycol dimethacrylate as the cross-linking monomer. The imprinted polymer and non-imprinted polymer were characterized by scanning electron microscope and static adsorption experiments. The MIP showed a high adsorption capacity and was used as selective sorbent for the SPE of malachite green. An off-line molecularly imprinted solid-phase extraction (MISPE) method followed by high-performance liquid chromatography with diodearray detection for the analysis of malachite green in seawater and seafood samples was also established. Finally, five samples were determined. The results showed that malachite green concentration in one seawater sample was at 1.30 μg L−1 and the RSD (n = 3) was 4.15%.

  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. Text-mining and information-retrieval services for molecular biology

    OpenAIRE

    Krallinger, Martin; Valencia, Alfonso

    2005-01-01

    Text-mining in molecular biology - defined as the automatic extraction of information about genes, proteins and their functional relationships from text documents - has emerged as a hybrid discipline on the edges of the fields of information science, bioinformatics and computational linguistics. A range of text-mining applications have been developed recently that will improve access to knowledge for biologists and database annotators.

  13. Introducing meta-services for biomedical information extraction

    OpenAIRE

    Leitner, Florian; Krallinger, Martin; Johnson, Calvin A.; Saetre, Rune; Yoshida, Kazuhiro; Chen, Yan Hua; Kim, Sun; Shin, Soo-Yong; Zhang, Byoung-Tak; Baumgartner, William A.; Hunter, Lawrence; Haddow, Barry; Rodriguez-Penagos, Carlos; Matthews, Michael; Wang, Xinglong

    2008-01-01

    We introduce the first meta-service for information extraction in molecular biology, the BioCreative MetaServer (BCMS; http://bcms.bioinfo.cnio.es/). This prototype platform is a joint effort of 13 research groups and provides automatically generated annotations for PubMed/Medline abstracts. Annotation types cover gene names, gene IDs, species, and protein-protein interactions. The annotations are distributed by the meta-server in both human and machine readable formats (HTML/XML). This servi...

  14. 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

  15. 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%. PMID:23974168

  16. Analysis of permethrin isomers in composite diet samples by molecularly imprinted solid-phase extraction and isotope dilution gas chromatography-ion trap mass spectrometry.

    Science.gov (United States)

    Vonderheide, Anne P; Boyd, Brian; Ryberg, Anna; Yilmaz, Ecevit; Hieber, Thomas E; Kauffman, Peter E; Garris, Sherry T; Morgan, Jeffrey N

    2009-05-29

    Determination of an individual's aggregate dietary ingestion of pesticides entails analysis of a difficult sample matrix. Permethrin-specific molecularly imprinted polymer (MIP) solid-phase extraction cartridges were developed for use as a sample preparation technique for a composite food matrix. Vortexing with acetonitrile and centrifugation were found to provide optimal extraction of the permethrin isomers from the composite foods. The acetonitrile (with 1% acetic acid) was mostly evaporated and the analytes reconstituted in 90:10 water/acetonitrile in preparation for molecularly imprinted solid-phase extraction. Permethrin elution was accomplished with acetonitrile and sample extracts were analyzed by isotope dilution gas chromatography-ion trap mass spectrometry. Quantitation of product ions provided definitive identification of the pesticide isomers. The final method parameters were tested with fortified composite food samples of varying fat content (1%, 5%, and 10%) and recoveries ranged from 99.3% to 126%. Vegetable samples with incurred pesticide levels were also analyzed with the given method and recoveries were acceptable (81.0-95.7%). Method detection limits were demonstrated in the low ppb range. Finally, the applicability of the MIP stationary phase to extract other pyrethroids, specifically cyfluthrin and cypermethrin, was also investigated. PMID:19393156

  17. Automated metadata extraction

    OpenAIRE

    Migletz, James J.

    2008-01-01

    Metadata is data that describes data. There are many computer forensic uses of metadata and being able to extract metadata automatically provides positive forensic implications. This thesis presents a new technique for batch processing disk images and automatically extracting metadata from files and file contents. The technique is embodied in a program called fiwalk that has a plug-in architecture allowing new metadata extractors to be readily incorporated. Output from fiwalk can be provided ...

  18. 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

  19. 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.

  20. Automatic emotional expression analysis from eye area

    Science.gov (United States)

    Akkoç, Betül; Arslan, Ahmet

    2015-02-01

    Eyes play an important role in expressing emotions in nonverbal communication. In the present study, emotional expression classification was performed based on the features that were automatically extracted from the eye area. Fırst, the face area and the eye area were automatically extracted from the captured image. Afterwards, the parameters to be used for the analysis through discrete wavelet transformation were obtained from the eye area. Using these parameters, emotional expression analysis was performed through artificial intelligence techniques. As the result of the experimental studies, 6 universal emotions consisting of expressions of happiness, sadness, surprise, disgust, anger and fear were classified at a success rate of 84% using artificial neural networks.

  1. Effect of gamma-irradiation on rice seed DNA. Pt. 1. Yield and molecular size of DNA extracted from irradiated rice seeds

    International Nuclear Information System (INIS)

    The effect of gamma-irradiation on the DNA of hulled rice seeds was investigated. The cetyltrimethylammonium bromide (CTAB) method was preferred for the extraction of DNA from rice seeds because of its high quality and good yield. The yield of DNA that was determined by gel electrophoresis, decreased as the irradiation dose increased from 1 kGy. DNA extracted from rice seeds irradiated with a 30 kGy dose showed a molecular size of less than 20 kb, while that from unirradiated rice showed more than 100 kb in electrophoretic profiles. It can be assumed that the decrease in yield was mainly induced by the crosslinking between protein and DNA, and the reduction in molecular size was induced by double-strand breaks. (J.P.N.)

  2. 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

    2015-01-01

    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. PMID:26638894

  3. 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.

  4. 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...

  5. Development of a group selective molecularly imprinted polymers based solid phase extraction of malachite green from fish water and fish feed samples

    Energy Technology Data Exchange (ETDEWEB)

    Li Yahui; Yang Tao; Qi Xiaoling; Qiao Yuwei [College of Chemistry, Sichuan University, Wangjiang Road 29, Chengdu 610064 (China); Deng Anping [College of Chemistry, Sichuan University, Wangjiang Road 29, Chengdu 610064 (China)], E-mail: denganping6119@yahoo.com.cn

    2008-08-29

    A group selective molecularly imprinted solid phase extraction (MISPE) for malachite green (MG) from fish water and fish feed samples was developed. Using MG as template molecule, methacrylic acid as functional monomer, ethylene glycoldimethacrylate as linking agent and bulk polymerization as synthetic method, the molecularly imprinted polymers (MIPs) were synthesized and characterized with rebinding experiment. The Scatchard polt's analysis revealed that the template-polymer system showed the two-site binding behavior with dissociation constants of 0.3194 {mu}mol L{sup -1} and 15.70 {mu}mol L{sup -1}, respectively. MG and two structurally related compounds, leucomalachite green (LMG) and crystal violet (CV) were employed for selectivity test. The MIPs exhibited the highest selective rebinding to MG, but also displayed 83.0% and 87.5% of cross-reactivity with LMG and CV, demonstrating that MIPs could be used as group recognition sorbents in solid phase extraction. The extraction conditions of MISPE column for MG were optimized. Tap water samples spiked with MG at concentration of 0.5-10 ng mL{sup -1} were extracted by MISPE column and analyzed by high performance liquid chromatography. The recoveries of MISPE column for MG extraction were found to be 76.8-93.7% with the relative standard deviations of 2.12-10.09%, indicating the feasibility of the prepared MIPs for MG extraction. No detectable MG was observed in one fish farming water sample and two fish feed samples; while the MG concentrations in two pet fishpond water samples were found at 1.50 ng mL{sup -1} and 0.67 ng mL{sup -1}, respectively.

  6. Molecular and supramolecular speciations of solvent extraction systems based on malonamide and/or dialkyl-phosphoric acids for An(III)/Ln(III)

    International Nuclear Information System (INIS)

    The solvent extraction system used in the DIAMEX-SANEX process, developed for the actinide(III)/lanthanide(III) separation, is based on the use of mixtures of the malonamide DMDOHEMA and a dialkyl-phosphoric acid (HDEHP or HDHP), in hydrogenated tetra-propylene. The complexity of these systems urges on a novel approach to improve the conventional methods (thermodynamics, solvent extraction) which hardly explain the macroscopic behaviors observed (3. phase, over-stoichiometry). This approach combines studies on both supramolecular (VPO, SANS, SAXS) and molecular (liquid-liquid extraction, ESI-MS, IR, EXAFS) speciations of single extractant systems (DMDOHEMA or HDHP in in n-dodecane) and their mixture. In spite of safety constraints due to the handling of radio-material, they were used in the studies as much as possible, like for SAXS measurements on americium-containing samples, a worldwide first-time. In each of the investigated systems, actinides(III) and lanthanides(III) are extracted to the organic phase in polar cores of reversed micelles, the inner and outer-sphere compositions of which are proposed. Thus, the 4f and 5f cations are extracted by reversed micelles such as [(DMDOHEMA)2M(NO3)3]inn (DMDOHEMA)x(HNO3)z(H2O)w]out and M(DHP)3(HDHP)y-3(H2O)w with y = 3 to 6, for the single extractant systems. In the case of the two extractants system, the less concentrated one acts like a co-surfactant regarding the mixed aggregate formation [(DMDOHEMA)2M(NO3)3-v(DHP)v]inn [(DMDOFIEMA)x(HDHP)y(HNO3)z(H2O)w]out. (author)

  7. Preparation of ellagic acid molecularly imprinted polymeric microspheres based on distillation-precipitation polymerization for the efficient purification of a crude extract.

    Science.gov (United States)

    Zhang, Hua; Zhao, Shangge; Zhang, Lu; Han, Bo; Yao, Xincheng; Chen, Wen; Hu, Yanli

    2016-08-01

    Molecularly imprinted polymeric microspheres with a high recognition ability toward the template molecule, ellagic acid, were synthesized based on distillation-precipitation polymerization. The as-obtained polymers were characterized by scanning electron microscopy, infrared spectroscopy, and thermogravimetric analysis. Static, dynamic, and selective binding tests were adopted to study the binding properties and the molecular recognition ability of the prepared polymers for ellagic acid. The results indicated that the maximum static adsorption capacity of the prepared polymers toward ellagic acid was 37.07 mg/g and the adsorption equilibrium time was about 100 min when the concentration of ellagic acid was 40 mg/mL. Molecularly imprinted polymeric microspheres were also highly selective toward ellagic acid compared with its analogue quercetin. It was found that the content of ellagic acid in the pomegranate peel extract was enhanced from 23 to 86% after such molecularly imprinted solid-phase extraction process. This work provides an efficient way for effective separation and enrichment of ellagic acid from complex matrix, which is especially valuable in industrial production. PMID:27311588

  8. Automatic generation of a view to geographical database

    OpenAIRE

    Dunkars, Mats

    2001-01-01

    This thesis concerns object oriented modelling and automatic generalisation of geographic information. The focus however is not on traditional paper maps, but on screen maps that are automatically generated from a geographical database. Object oriented modelling is used to design screen maps that are equipped with methods that automatically extracts information from a geographical database, generalises the information and displays it on a screen. The thesis consists of three parts: a theoreti...

  9. Chelating resin immobilizing carboxymethylated polyethyleneimine for selective solid-phase extraction of trace elements: Effect of the molecular weight of polyethyleneimine and its carboxymethylation rate.

    Science.gov (United States)

    Kagaya, Shigehiro; Kajiwara, Takehiro; Gemmei-Ide, Makoto; Kamichatani, Waka; Inoue, Yoshinori

    2016-01-15

    The effect of the molecular weight of polyethyleneimine (PEI), defined as a compound having two or more ethyleneamine units, and of its carboxymethylation rate (CM/N), represented by the ratio of ion-exchange capacity to the amount of N on the resin, on the selective solid-phase extraction ability of the chelating resin immobilizing carboxymethylated (CM) PEI was investigated. The chelating resins (24 types) were prepared by immobilization of diethylenetriamine, triethylenetetramine, tetraethylenepentamine, pentaethylenehexamine, PEI300 (MW=ca. 300), and PEI600 (MW=ca. 600) on methacrylate resins, followed by carboxymethylation with various amounts of sodium monochloroacetate. When resins with approximately the same CM/N ratio (0.242-0.271) were used, the recovery of Cd, Co, Cu, Fe, Ni, Pb, Ti, Zn, and alkaline earth elements increased with increasing the molecular weight of PEIs under acidic and weakly acidic conditions; however, the extraction behavior of Mo and V was only slightly affected. This was probably due to the increase in N content of the resin, resulting in an increase in carboxylic acid groups; the difference in the molecular weight of PEIs immobilized on the resin exerts an insignificant influence on the selective extraction ability. The CM/N ratio considerably affected the extraction behavior for various elements. Under acidic and neutral conditions, the recovery of Cd, Co, Cu, Fe, Ni, Pb, Ti, and Zn increased with increasing CM/N values. However, under these conditions, the recovery of alkaline earth elements was considerably low when a resin with low CM/N ratio was used. This is presumably attributed to the different stability constants of the complexes of these elements with aminocarboxylic acids and amines, and to the electrostatic repulsion between the elements and the protonated amino groups in the CM-PEI. The recovery of Mo and V decreased or varied with increasing CM/N values, suggesting that the extraction of these elements occurred mainly

  10. 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.

  11. 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. PMID:27566346

  12. Automatic Discovery of Word Semantic Relations

    OpenAIRE

    Dias, Gael; Moraliyski, Rumen; Cordeiro, Joao; Doucet, Antoine; Ahonen-Myka, Helena

    2010-01-01

    In this paper, we propose an unsupervised methodology to automatically discover pairs of semantically related words by highlighting their local environment and evaluating their semantic similarity in local and global semantic spaces. This proposal di®ers from previous research as it tries to take the best of two different methodologies i.e. semantic space models and information extraction models. It can be applied to extract close semantic relations, it limits the search space and...

  13. Automatic Multilevel Medical Image Annotation and Retrieval

    OpenAIRE

    Mueen, A.; Zainuddin, R.; Baba, M. Sapiyan

    2007-01-01

    Image retrieval at the semantic level mostly depends on image annotation or image classification. Image annotation performance largely depends on three issues: (1) automatic image feature extraction; (2) a semantic image concept modeling; (3) algorithm for semantic image annotation. To address first issue, multilevel features are extracted to construct the feature vector, which represents the contents of the image. To address second issue, domain-dependent concept hierarchy is constructed for...

  14. Extraction of uranium (VI) and plutonium(IV) with some high molecular weight aliphatic monoamides from nitric acid medium

    International Nuclear Information System (INIS)

    The extraction behavior of U(VI) and Pu(IV) with dioctyloctanamide (DOOA), dioctylethylhexanamide (DOEHA) and diisobutylethylhexanamide (DIBEHA) was investigated from nitric acid medium. With DOOA, U(VI) extraction is higher than that for Pu(IV) upto 5M HNO3 and the trend is reversed at higher acid concentrations. Extraction yield of U(VI) is higher than that for Pu(IV) in the case of DOEHA and DIBEHA. DIBEHA extraction of Pu(IV) is found to be very small. The lower value of the distribution ratio for Pu(IV) with branched amides was attributed to steric reasons. The possibility of using these amides for separation of U(VI) and Pu(IV) without valency adjustment was explored. Both U(VI) and Pu(IV) are extracted as their disolvates by DOOA and DOEHA. (author) 12 refs.; 5 figs.; 2 tabs

  15. Automatic transcription of polyphonic singing

    OpenAIRE

    Paščinski, Uroš

    2015-01-01

    In this work we focus on automatic transcription of polyphonic singing. In particular we do the multiple fundamental frequency (F0) estimation. From the terrain recordings a test set of Slovenian folk songs with polyphonic singing is extracted and manually transcribed. On the test set we try the general algorithm for multiple F0 detection. An interactive visualization of the main parts of the algorithm is made to analyse how it works and try to detect possible issues. As the data set is ne...

  16. Event extraction for DNA methylation

    OpenAIRE

    Ohta Tomoko; Pyysalo Sampo; Miwa Makoto; Tsujii Jun’ichi

    2011-01-01

    Abstract Background We consider the task of automatically extracting DNA methylation events from the biomedical domain literature. DNA methylation is a key mechanism of epigenetic control of gene expression and implicated in many cancers, but there has been little study of automatic information extraction for DNA methylation. Results We present an annotation scheme for DNA methylation following the representation of the BioNLP shared task on event extraction, select a set of 200 abstracts inc...

  17. 基于语序位置特征的汉英术语对自动抽取研究%Research on automatic Chinese-English term extraction based on order and position feature of words

    Institute of Scientific and Technical Information of China (English)

    张莉; 刘昱显

    2015-01-01

    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-step strategy about extracting bilingual terms by integrating the order and position feature information of words in phrase-basedmachine translation.The experimental corpus we used is the journals in CSSCI from the year of 1 998 to 2012,mainly including the titles and abstracts in Chinese and English.In our experiment,37206 complete English titles and abstracts of many papers are launched including a total of 1.63 million words in Chinese and 1 910000 words in English.The algorithm improves accuracy rate of term alignment especially in the case of lower probability of terms translation while

  18. Simple, quantitative method for low molecular weight dissolved organic matter extracted from natural waters based upon high performance counter-current chromatography.

    Science.gov (United States)

    Rojas, Alfonso; Sandron, Sara; Wilson, Richard; Davies, Noel W; Haddad, Paul R; Shellie, Robert A; Nesterenko, Pavel N; Paull, Brett

    2016-02-25

    A simple, high-performance counter-current chromatography method with sequential UV absorbance (254 nm) and evaporative light scattering detection (ELSD) was developed for the quantification of pre-extracted low molecular weight dissolved organic matter (DOM) extracted from natural waters. The method requires solid-phase extraction (SPE) extraction of only small volumes of water samples, here using poly(styrenedivinylbenzene)-based extraction cartridges (Varian PPL). The extracted and concentrated DOM was quantified using reversed-phase high-performance counter-current chromatography (HPCCC), with a water/methanol (5:5) mobile phase and hexane/ethyl acetate (3:7) stationary phase. The critical chromatographic parameters were optimised, applying a revolution speed of 1900 rpm and a flow-rate of 1 mL min(-1). Under these conditions, 50 μL of extracted DOM solution could be injected and quantified using calibration against a reference natural dissolved material (Suwannee River), based upon UV absorbance at 254 nm and ELSD detection. Both detection methods provided excellent linearity (R(2) > 0.995) for DOM across the concentration ranges of interest, with limits of detection of 4 μg ml(-1) and 7 μg ml(-1) for ELSD and UV absorbance, respectively. The method was validated for peak area precision (95% recovery). The developed method was applied to the determination of the concentration of DOM in seawater, based upon initial sample volumes as small as 20 mL. PMID:26851093

  19. Automatic thematic mapping in the EROS program

    Science.gov (United States)

    Edson, D. T.

    1972-01-01

    A specified approach to the automatic extraction and catographic presentation of thematic data contained in multispectral photographic images is presented. Experimental efforts were directed toward the mapping of open waters, snow and ice, infrared reflective vegetation, and massed works of man. The system must also be able to process data from a wide variety of sources.

  20. 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...

  1. Preparation of High Purity, High Molecular-Weight Chitin from Ionic Liquids for Use as an Adsorbate for the Extraction of Uranium from Seawater

    International Nuclear Information System (INIS)

    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 deg 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 resulting

  2. Application of cytoplasmic Ca2+ fluorescence imaging techniques to study the molecular mechanisms of exercise-induced fatigue eliminated by Chinese medicine ginseng extract

    Science.gov (United States)

    Liu, Yi; Zhao, Yanping; Zhang, Heming; Liu, Songhao

    2009-11-01

    The exercise-induced fatigue eliminated by Chinese medicine offers advantages including good efficiency and smaller side-effects, however, the exact mechanisms have not been classified. A lot of literatures indicated the cytosolic free Ca2+ concentrations of skeletal muscle cells increased significantly during exercise-induced fatigue. This study is aimed to establish a rat skeletal muscle cell model of exercise-induced fatigue. We applied cytoplasmic Ca2+ fluorescence imaging techniques to study the molecular mechanisms of exercise-induced fatigue eliminated by Chinese medicine ginseng extract. In our research, the muscle tissues from the newborn 3 days rats were taken out and digested into cells. The cells were randomly divided into the ginseng extract group and the control group. The cells from the two groups were cultured in the medium respectively added 2mg/ml ginseng extract and 2mg/ml D-hanks solution. After differentiating into myotubes, the two groups of cells treated with a fluorescent probe Fluo-3 AM were put on the confocal microscope and the fluorescence intensity of cells pre- and post- stimulation with dexamethasone were detected. It was found that cytoplasmic Ca2+ concentrations of the two groups of cells both increased post-stimulation, however, the increasing amplitude of fluorescence intensity of the ginseng extract group was significantly lower than that of the control group. In conclusion, stimulating the cells with dexamethasone is a kind of workable cell models of exercise-induced fatigue, and the molecular mechanisms of exercise-induced fatigue eliminated by ginseng extract may be connected to regulatating cytosolic free Ca2+ concentrations.

  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. Automatic input rectification

    OpenAIRE

    Long, Fan; Ganesh, Vijay; Carbin, Michael James; Sidiroglou, Stelios; Rinard, Martin

    2012-01-01

    We present a novel technique, automatic input rectification, and a prototype implementation, SOAP. SOAP learns a set of constraints characterizing typical inputs that an application is highly likely to process correctly. When given an atypical input that does not satisfy these constraints, SOAP automatically rectifies the input (i.e., changes the input so that it satisfies the learned constraints). The goal is to automatically convert potentially dangerous inputs into typical inputs that the ...

  5. 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.

  6. Molecularly imprinted solid phase extraction using stable isotope labeled compounds as template and liquid chromatography-mass spectrometry for trace analysis of bisphenol A in water sample

    International Nuclear Information System (INIS)

    We have developed a molecularly imprinted polymer (MIP) using a stable isotope labeled compound as the template molecule and called it the ''isotope molecularly imprinted polymer'' (IMIP). In this study, bisphenol A (BPA) was used as the model compound. None imprinted polymer (NIP), MIP, dummy molecularly imprinted polymer (DMIP) and IMIP were prepared by the suspension polymerization method using without template, BPA, 4-tert-butylphenol (BP) and bisphenol A-d16 (BPA-d16), respectively. The polymers were subjected to molecularly imprinted solid phase extraction (MI-SPE), and the extracted samples were subjected to liquid chromatography-mass spectrometry (LC-MS). Although the leakage of BPA-d16 from the IMIP was observed and that of BPA was not observed. The selectivity factors of MIP and IMIP for BPA were 4.45 and 4.43, respectively. Therefore, IMIP had the same molecular recognition ability as MIP. When MI-SPE with IMIP was used and followed by LC-MS in the analysis of river water sample, the detection limit of BPA was 1 ppt with high sensitivity. Moreover, the average recovery was higher than 99.8% (R.S.D.: 3.7%) by using bisphenol A-13C12 (BPA-13C12) as the surrogate standard. In addition, the IMIP were employed in MI-SPE of BPA in river water sample by LC-MS. The concentration of BPA in the river water sample was determined to be 32 pg ml-1. We confirmed that it was possible to measure trace amounts of a target analyte by MI-SPE using IMIP

  7. Molecularly imprinted solid-phase extraction for the determination of ten macrolide drugs residues in animal muscles by liquid chromatography-tandem mass spectrometry.

    Science.gov (United States)

    Song, Xuqin; Zhou, Tong; Liu, Qingying; Zhang, Meiyu; Meng, Chenying; Li, Jiufeng; He, Limin

    2016-10-01

    A simple and sensitive method based on molecularly imprinted solid-phase extraction coupled with liquid chromatography-tandem mass spectrometry was developed for the determination of the residues of ten macrolide drugs in swine, cattle and chicken muscles samples. The molecularly imprinted polymers (MIPs) were synthesized using tylosin as a template and methacrylic acid as a functional monomer. Samples were extracted with sodium borate buffer solution and ethyl acetate, and purified by the MIP cartridge. The results showed that the cartridge exhibited good recognition performance for macrolides, and better purification effect than the traditional solid-phase extraction cartridges. Recoveries of analytes at three spiking levels 1, 5 and 20μgkg(-1) ranged from 60.7% to 100.3% with the relative standard deviations less than 14%. The limits of detection of the method were between 0.1 and 0.4μgkg(-1). The method is useful for the routine monitoring of the residues of macrolide drugs in animal muscles. PMID:27132837

  8. Molecularly Imprinted Dispersive Solid-Phase Extraction for the Determination of Triazine Herbicides in Grape Seeds by High-Performance Liquid Chromatography.

    Science.gov (United States)

    Li, Xinpei; Wang, Yuanpeng; Sun, Qun; Xu, Bo; Yang, Zhaoqing; Wang, Xinghua

    2016-05-01

    Molecular imprinting technique, regarded as one of the current state-of-the-art researches, was incorporated with the simple dispersive solid-phase extraction (MI-DSPE) in this work for the extraction of triazine herbicides in grape seeds. The atrazine molecularly imprinted polymers (MIPs) were successfully prepared and characterized by scanning electron microscopy and Fourier transform infrared spectroscopy. The imprinting particles were used as the adsorbent in DSPE. Thus, a simple, rapid and selective method based on MIPs coupled with DSPE was established for the simultaneous cleaning-up and quantitative extraction of four triazine herbicides in grape seeds. The experiment parameters, including type of washing solvents, washing time and type of eluting solvents, were investigated and optimized. The performance of the present method was validated by high-performance liquid chromatography. Good linear responses were obtained in concentration range of 0.010-5.0 µg g(-1)with correlation coefficients (r(2)) higher than 0.9993. The recoveries at two spiked levels (1.0 and 2.0 µg g(-1)) were between 81.2 and 113.0% with relative deviations ranging from 1.2 to 10.7%. The limits of detection were ranged between 0.006 and 0.013 µg g(-1), which were lower than the values required by European regulations. PMID:27013667

  9. Evaluation of two molecularly imprinted polymers for the solid-phase extraction of natural, synthetic and mycoestrogens from environmental water samples before liquid chromatography with mass spectrometry.

    Science.gov (United States)

    González-Sálamo, Javier; Socas-Rodríguez, Bárbara; Hernández-Borges, Javier; Del Mar Afonso, María; Rodríguez-Delgado, Miguel Ángel

    2015-08-01

    In this work, we have compared the selectivity of two commercial molecularly imprinted polymers (AFFINIMIP®SPE Estrogens and AFFINIMIP®SPE Zearalenone) for the extraction of 12 estrogenic compounds of interest (i.e. 17α-estradiol, 17β-estradiol, estrone, hexestrol, 17α-ethynylestradiol, diethylstibestrol, dienestrol, zearalenone, α-zearalanol, β-zearalanol, α-zearalenol and β-zearalenol) from different water samples. High-performance liquid chromatography coupled with ion trap mass spectrometry with electrospray ionization was used for their determination. Results showed that although both molecularly imprinted polymeric cartridges were specifically designed for different groups of analytes (natural estrogens like estradiol in the first case and zearalenone derivatives in the second) they nearly have the same extraction performance (with recovery values in the range 65-101%) for the same analytes in Milli-Q water because of the cross-reactivity of the polymer. However, when more complex water samples were analyzed, it was clear that the behavior was different and that the AFFINIMIP®SPE Estrogens showed less cross-reactivity than the other cartridge. Validation of the proposed methodology with both cartridges revealed that the extraction was reproducible and that the final limits of detection of the proposed method were in the low ng/L range. PMID:26012850

  10. 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%. PMID:27442150

  11. 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.

  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 4 × 10 -9 g mL -1 to 5 × 10 -7 g mL -1, and the detection limit was 8.2 × 10 -10 g mL -1 (3 σ). The relative standard deviation was 3.92% ( n = 7) for 1 × 10 -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. Effects of Decontamination, DNA Extraction, and Amplification Procedures on the Molecular Diagnosis of Mycobacterium ulcerans Disease (Buruli Ulcer)

    OpenAIRE

    Affolabi, D.; Sanoussi, N.; Vandelannoote, K.; Odoun, M.; Faihun, F.; Sopoh, G.; Anagonou, S; Portaels, F.; Eddyani, M.

    2012-01-01

    We compared two DNA extraction methods (a semiautomated method using a Maxwell kit and a modified Boom method) and three amplification procedures (a single-step PCR, a nested PCR, and a real-time quantitative PCR) on 74 surgical tissue specimens from patients with clinically suspected Buruli ulcer. All of these procedures were compared before and after decontamination. We observed that, among the procedures tested, real-time PCR after the modified Boom extraction method or a single-run PCR as...

  14. 牛肉大理石花纹图像特征信息提取及自动分级方法%Method of information extraction of marbling image characteristic and automatic classification for beef

    Institute of Scientific and Technical Information of China (English)

    周彤; 彭彦昆

    2013-01-01

    Beef marbling is one of the most important indexes to assess beef quality. The grade of beef marbling is a measure of the fat distribution density in the rib-eye region. However, quality grades of beef in most of the beef slaughtering houses and enterprises depends on trainees using their visual senses or comparing to the standard sample cards in China. This manual grading method demands not only great labor but also lacks objectivity and accuracy. The objective of this research was to investigate an optimal method for grading the beef marbling based on computer vision and image processing technologies to meet the requirement of the meat industry. A practical algorithm that can be used in a beef marbling grading system is proposed in this research. The beef sample images were collected by a machine vision image acquisition system. The system consisted of an image acquisition device, computer, and image processing algorithm equipped into the self developed system software. The images of the beef samples in an aluminum plate were captured by CCD. 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

  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.

    2010-01-01

    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. PMID:20392915

  16. 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.

    Science.gov (United States)

    Manzo, Valentina; Ulisse, Karla; Rodríguez, Inés; Pereira, Eduardo; Richter, Pablo

    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(-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(-1) and between 1.4 and 3.3 μg L(-1) in the influent and effluent, respectively. PMID:26343435

  17. 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

  18. Electro-deposited poly-luminol molecularly imprinted polymer coating on carboxyl graphene for stir bar sorptive extraction of estrogens in milk.

    Science.gov (United States)

    Liu, Haibo; Qiao, Li; Gan, Ning; Lin, Saichai; Cao, Yuting; Hu, Futao; Wang, Jiayu; Chen, Yinji

    2016-08-01

    Electrochemical polymerization of luminol molecularly imprinted polymer on carboxyl graphene (MIP/CG) was developed as stir bar sorptive extraction (SBSE) coating for selective pre-concentration and specific recognition of bisphenol A (BPA), hexoestrol and diethylstilbestrol in milk samples. Luminol was employed as monomer and BPA as the template to prepare MIP under 0-0.6V electro-polymerization. Carboxyl graphene was modified on pencil lead as the substrate to increase extraction capacity. The preparation and extraction conditions affecting the extraction efficiency were optimized. Under the optimized conditions, a good linearity of three estrogens was obtained in the range of 4-1000ngmL(-1). The average recoveries at the three spiked levels of the three estrogens ranged from 83.4% to 96.3% with the relative standard deviations (RSD)≤7.1%. The limits of detection were in the range of 0.36-1.09ngmL(-1). The developed method with low cost, high selectivity and good reproducibility can be potentially applied for determining trace estrogens in complex food samples. PMID:27249165

  19. Molecular dynamics simulations of hydrophobous ions at the liquid-liquid interfaces: case of dicarbollide anions as synergy agents and of ionic liquids as extracting medium

    International Nuclear Information System (INIS)

    Based on molecular dynamics simulations, we first describe the distribution of dicarbollide salts (CCD-, Mn+) in concentrated monophasic solutions (water, chloroform, octanol, nitrobenzene) and in the corresponding biphasic 'oil' - water solutions. We point to the importance of surface activity of the CCD-s and of their self-aggregation in water, with marked counterions effects, and we explain the synergistic effect of CCD-s in the Eu3+ extraction by BTP ligands. In the second part of the thesis we report exploratory simulations on the extraction of Sr2+ by 18-crown-6 to an hydrophobic ionic liquid ([BMI][PF6]), focusing on the liquid - liquid interface. Analogies and differences with a classical aqueous interface are outlined. (author)

  20. Molecular preservation by extraction and fixation, mPREF: a method for small molecule biomarker analysis and histology on exactly the same tissue

    Directory of Open Access Journals (Sweden)

    Shuster Jeffrey R

    2011-12-01

    Full Text Available Abstract Background Histopathology is the standard method for cancer diagnosis and grading to assess aggressiveness in clinical biopsies. Molecular biomarkers have also been described that are associated with cancer aggressiveness, however, the portion of tissue analyzed is often processed in a manner that is destructive to the tissue. We present here a new method for performing analysis of small molecule biomarkers and histology in exactly the same biopsy tissue. Methods Prostate needle biopsies were taken from surgical prostatectomy specimens and first fixed, each in a separate vial, in 2.5 ml of 80% methanol:water. The biopsies were fixed for 24 hrs at room temperature and then removed and post-processed using a non-formalin-based fixative (UMFIX, embedded, and analyzed by hematoxylin and eosin (H&E and by immunohistochemical (IHC staining. The retained alcohol pre-fixative was analyzed for small molecule biomarkers by mass spectrometry. Results H&E analysis was successful following the pre-fixation in 80% methanol. The presence or absence of tumor could be readily determined for all 96 biopsies analyzed. A subset of biopsy sections was analyzed by IHC, and cancerous and non-cancerous regions could be readily visualized by PIN4 staining. To demonstrate the suitability for analysis of small molecule biomarkers, 28 of the alcohol extracts were analyzed using a mass spectrometry-based metabolomics platform. All extracts tested yielded successful metabolite profiles. 260 named biochemical compounds were detected in the alcohol extracts. A comparison of the relative levels of compounds in cancer containing vs. non-cancer containing biopsies showed differences for 83 of the compounds. A comparison of the results with prior published reports showed good agreement between the current method and prior reported biomarker discovery methods that involve tissue destructive methods. Conclusions The Molecular Preservation by Extraction and Fixation (m

  1. 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.

  2. Molecularly imprinted polymer for caffeic acid by precipitation polymerization and its application to extraction of caffeic acid and chlorogenic acid from Eucommia ulmodies leaves.

    Science.gov (United States)

    Miura, Chitose; Matsunaga, Hisami; Haginaka, Jun

    2016-08-01

    Molecularly imprinted polymers (MIPs) for caffeic acid (CA) were prepared using 4-vinylpyridine and methacrylamide (MAM) as functional monomers, divinylbenzene as a crosslinker and acetonitrile-toluene (3:1, v/v) as a porogen by precipitation polymerization. The use of MAM as the co-monomer resulted in the formation of microsphere MIPs and non-imprinted polymers (NIPs) with ca. 3- and 5-μm particle diameters, respectively. Binding experiments and Scatchard analyses revealed that the binding capacity and affinity of the MIP to CA are higher than those of the NIP. The retention and molecular-recognition properties of the prepared MIPs were evaluated using water-acetonitrile and sodium phosphate buffer-acetonitrile as mobile phases in hydrophilic interaction chromatography (HILIC) and reversed-phase chromatography, respectively. In HILIC mode, the MIP showed higher molecular-recognition ability for CA than in reversed-phase mode. In addition to shape recognition, hydrophilic interactions seem to work for the recognition of CA on the MIP in HILIC mode, while hydrogen bonding and hydrophobic interactions seem to work for the recognition of CA in reversed-phase mode. The MIP had a specific molecular-recognition ability for CA in HILIC mode, while other structurally related compounds, such as chlorogenic acid (CGA), gallic acid, protocatechuic acid and vanillic acid, could not be recognized by the MIP. Furthermore, the MIP was successfully applied for extraction of CA and CGA in the leaves of Eucommia ulmodies in HILIC mode. PMID:26776340

  3. 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. PMID:26774955

  4. Automatic Parameterization of Force Fields for Liquids by Simplex Optimization

    CERN Document Server

    Faller, R; Biermann, O; Müller-Plathe, F; Faller, Roland; Schmitz, Heiko; Biermann, Oliver; Müller-Plathe, Florian

    1999-01-01

    We demonstrate an automatic method of force field development for molecular simulations. Parameter tuning is taken as an optimization problem in many dimensions. The parameters are automatically adapted to reproduce known experimental data such as the density and the heat of vaporization. Our method is more systematic than guessing parameters and, at the same time saves human labour in parameterization. It was successfully applied to several molecular liquids: As a test, force fields for 2-methylpentane, tetrahydrofurane, cyclohexene and cyclohexane were developed.

  5. Molecularly imprinted polymers applied to the clean-up of zearalenone and alpha-zearalenol from cereal and swine feed sample extracts.

    Science.gov (United States)

    Urraca, Javier L; Marazuela, María Dolores; Moreno-Bondi, María C

    2006-08-01

    A molecularly imprinted polymer prepared using 1-allylpiperazine (1-ALPP) as the functional monomer, trimethyltrimethacrylate (TRIM) as the crosslinker and the zearalenone (ZON)-mimicking template cyclododecanyl-2,4-dihydroxybenzoate (CDHB) has been applied to the clean-up and preconcentration of this mycotoxin (zearalenone) and a related metabolite, alpha-zearalenol (alpha-ZOL), from cereal and swine feed sample extracts. The extraction of ZON and alpha-ZOL from the food samples was accomplished using pressurized liquid extraction (PLE) with MeOH/ACN (50:50, v/v) as the extraction solvent, at 50 degrees C and 1500 psi. The extracted samples were cleaned up and preconcentrated through the MIP cartridge and analyzed using HPLC with fluorescence detection (lambda (exc)=271/ lambda (em)=452 nm). The stationary phase was a polar endcapped C18 column, and ACN/MeOH/water 10/55/35 (v/v/v, 15 mM ammonium acetate) at a flow rate of 1.0 mL min(-1) was used as the mobile phase. The method was applied to the analysis of ZON and alpha-ZOL in wheat, corn, barley, rye, rice and swine feed samples fortified with 50, 100 and 400 ng g(-1) of both mycotoxins, and it gave recoveries of between 85 and 97% (RSD 2.1-6.7%, n=3) and 87-97% (RSD 2.3-5.6%, n=3) for alpha-ZOL and ZON, respectively. The method was validated using a corn reference material for ZON. PMID:16628404

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

    OpenAIRE

    M.A. Martinello; Pramparo, M.

    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...

  7. Analysis of benzo[a]pyrene in vegetable oils using molecularly imprinted solid phase extraction (MISPE) coupled with enzyme-linked immunosorbent assay (ELISA).

    Science.gov (United States)

    Pschenitza, Michael; Hackenberg, Rudolf; Niessner, Reinhard; Knopp, Dietmar

    2014-01-01

    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. PMID:24887045

  8. 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.

  9. 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. PMID:27378249

  10. WEB CONTENT EXTRACTION USING HYBRID APPROACH

    OpenAIRE

    K. Nethra; Anitha, J; Thilagavathi, G

    2014-01-01

    The World Wide Web has rich source of voluminous and heterogeneous information which continues to expand in size and complexity. Many Web pages are unstructured and semi-structured, so it consists of noisy information like advertisement, links, headers, footers etc. This noisy information makes extraction of Web content tedious. Many techniques that were proposed for Web content extraction are based on automatic extraction and hand crafted rule generation. Automatic extraction technique is do...

  11. 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

    International Nuclear Information System (INIS)

    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−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−1 and between 1.4 and 3.3 μg L−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 properties

  12. 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

  13. 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.

  14. 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.

  15. 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, Keyller Bastos; Figueiredo, Eduardo Costa

    2016-04-15

    A new restricted access molecularly imprinted polymer coated with bovine serum albumin (RAMIP-BSA) was synthesized, characterized and used for direct analysis of ivermectin from bovine meat samples, in a two-dimensional liquid chromatography system with UV detection. Ivermectin, 4-vynilpiridine and ethylene glycol dimethacrylate were employed as template, functional monomer and cross-linker, respectively. A BSA layer was cross-linked around the polymer, resulting in a biocompatible chemical barrier able to eliminate about 100% of protein from the samples. Ivermectin was extracted from the minced meat samples through a solvent extraction using methanol:water (70:30, v:v), and the extracts were directly injected into the two-dimensional liquid chromatography system, without any other treatment. Samples, fortified with ivermectin from 50 to 500 μg kg(-1), were used to build the analytical calibration curve (r=0.996). The limit of quantification was 50 μg kg(-1). Precision and accuracy presented variation coefficients, as well as relative errors lower than 17.0% and within -18.5% and 22.0%, respectively. PMID:26616918

  16. Simultaneous extraction from clinical biopsies of high-molecular-weight DNA and RNA: comparative characterization by biotinylated and 32P-labeled probes on Southern and Northern blots

    International Nuclear Information System (INIS)

    A method for efficient simultaneous extraction of high-molecular-weight DNA and RNA from solid mammalian tissues including clinical biopsies is described. It is based on the disruption and subsequent melting of deep frozen tissue in the presence of frozen phenol and nucleic acid extraction buffer; this allows for simultaneous disruption of tissue and inactivation of nucleases. The yield is about 0.7-5.8 mg of DNA and 0.5-8.1 mg of total RNA/g of tissue depending upon the tissue type; this is higher than the yield of other methods tested. Analysis of total RNA by denaturing gel electrophoresis, and of DNA and poly(A)+ RNA by Southern and Northern blot hybridization using 32P and biotinylated probes, indicated that c-Ha-ras gene and its transcripts were undegraded. Biotinylated and 32P probes had approximately the same sensitivity in detecting nucleic acids on Southern and Northern blots. This extraction procedure is simple and, when used with biotinylated probes, is rapid, inexpensive, and nonhazardous. The methodology can be modified for use with other clinical samples and cells grown in culture

  17. 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.

  18. Automatic Implantable Cardiac Defibrillator

    Medline Plus

    Full Text Available Automatic Implantable Cardiac Defibrillator February 19, 2009 Halifax Health Medical Center, Daytona Beach, FL Welcome to Halifax Health Daytona Beach, Florida. Over the next hour you' ...

  19. Automatic Payroll Deposit System.

    Science.gov (United States)

    Davidson, D. B.

    1979-01-01

    The Automatic Payroll Deposit System in Yakima, Washington's Public School District No. 7, directly transmits each employee's salary amount for each pay period to a bank or other financial institution. (Author/MLF)

  20. Molecularly imprinted polymer for chlorogenic acid by modified precipitation polymerization and its application to extraction of chlorogenic acid from Eucommia ulmodies leaves.

    Science.gov (United States)

    Miura, Chitose; Li, Hui; Matsunaga, Hisami; Haginaka, Jun

    2015-10-10

    Molecularly imprinted polymers (MIPs) for chlorogenic acid (CGA) were prepared by modified precipitation polymerization using methacrylic acid as a functional monomer, divinylbenzene as a crosslinker and methanol or dimethylsulfoxide as a co-solvent. The prepared MIPs were microspheres with a narrow particle size distribution. Binding experiments and Scatchard analyses revealed that two classes of binding sites, high and low affinity sites, were formed on the MIP. The retention and molecular-recognition properties of the prepared MIP were evaluated using a mixture of water and acetonitrile as a mobile phase in hydrophilic interaction chromatography. With an increase of acetonitrile content, the retention factor of CGA was increased on the MIP. In addition to shape recognition, hydrophilic interactions seem to work for the recognition of CGA on the MIP. The MIP had a specific molecular-recognition ability for CGA, while other related compounds, such as caffeic acid, gallic acid, protocatechuic acid and vanillic acid, could not be recognized by the MIP. Furthermore, the MIP for CGA was successfully applied for extraction of CGA in the leaves of Eucommia ulmodies. PMID:26037163

  1. 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.

  2. Prevention Effects and Possible Molecular Mechanism of Mulberry Leaf Extract and its Formulation on Rats with Insulin-Insensitivity.

    Science.gov (United States)

    Liu, Yan; Li, Xuemei; Xie, Chen; Luo, Xiuzhen; Bao, Yonggang; Wu, Bin; Hu, Yuchi; Zhong, Zhong; Liu, Chang; Li, MinJie

    2016-01-01

    For centuries, mulberry leaf has been used in traditional Chinese medicine for the treatment of diabetes. This study aims to test the prevention effects of a proprietary mulberry leaf extract (MLE) and a formula consisting of MLE, fenugreek seed extract, and cinnamon cassia extract (MLEF) on insulin resistance development in animals. MLE was refined to contain 5% 1-deoxynojirimycin by weight. MLEF was formulated by mixing MLE with cinnamon cassia extract and fenugreek seed extract at a 6:5:3 ratio (by weight). First, the acute toxicity effects of MLE on ICR mice were examined at 5 g/kg BW dose. Second, two groups of normal rats were administrated with water or 150 mg/kg BW MLE per day for 29 days to evaluate MLE's effect on normal animals. Third, to examine the effects of MLE and MLEF on model animals, sixty SD rats were divided into five groups, namely, (1) normal, (2) model, (3) high-dose MLE (75 mg/kg BW) treatment; (4) low-dose MLE (15 mg/kg BW) treatment; and (5) MLEF (35 mg/kg BW) treatment. On the second week, rats in groups (2)-(5) were switched to high-energy diet for three weeks. Afterward, the rats were injected (ip) with a single dose of 105 mg/kg BW alloxan. After four more days, fasting blood glucose, post-prandial blood glucose, serum insulin, cholesterol, and triglyceride levels were measured. Last, liver lysates from animals were screened with 650 antibodies for changes in the expression or phosphorylation levels of signaling proteins. The results were further validated by Western blot analysis. We found that the maximum tolerance dose of MLE was greater than 5 g/kg in mice. The MLE at a 150 mg/kg BW dose showed no effect on fast blood glucose levels in normal rats. The MLE at a 75 mg/kg BW dose and MLEF at a 35 mg/kg BW dose, significantly (p rats with impaired glucose and lipid metabolism. In total, 34 proteins with significant changes in expression and phosphorylation levels were identified. The changes of JNK, IRS1, and PDK1 were confirmed by

  3. Automatic Arabic Text Classification

    OpenAIRE

    Al-harbi, S; Almuhareb, A.; Al-Thubaity , A; Khorsheed, M. S.; Al-Rajeh, A.

    2008-01-01

    Automated document classification is an important text mining task especially with the rapid growth of the number of online documents present in Arabic language. Text classification aims to automatically assign the text to a predefined category based on linguistic features. Such a process has different useful applications including, but not restricted to, e-mail spam detection, web page content filtering, and automatic message routing. This paper presents the results of experiments on documen...

  4. Magnetic molecularly imprinted polymer for the selective extraction of sildenafil, vardenafil and their analogs from herbal medicines.

    Science.gov (United States)

    Chen, Fang-Fang; Xie, Xiao-Yu; Shi, Yan-Ping

    2013-10-15

    The successfully developed magnetic molecularly imprinted polymers (MMIPs) toward six synthetic phosphodiesterase type-5 (PDE-5) inhibitors were described. Sildenafil was used as template for the preparation of MMIPs using superparamagnetic core-shell nanoparticle as supporter. The obtained MMIPs were characterized using transmission electron microscope, Fourier transform infrared, X-ray diffraction, and vibrating sample magnetometer. High performance liquid chromatography (HPLC) with diode array detector (DAD) was used for the analysis of target analytes. The application of MMIPs as selective sorbent in the cleanup of herbal medicine samples prior to HPLC offered simple sample preparation. The adsorption capacity and selectivity of prepared MMIPs and magnetic non-molecularly imprinted polymers were investigated. The binding isotherms were obtained for sildenafil and fitted by Freundlich isotherm model. Structurally similar compound of sildenafil and a reference compound protocatechuic acid were used for investing the selective recognition of MMIPs. PMID:24054622

  5. Preparation of molecularly imprinted solid-phase microextraction fiber for the selective removal and extraction of the antiviral drug abacavir in environmental and biological matrices.

    Science.gov (United States)

    Terzopoulou, Zoi; Papageorgiou, Myrsini; Kyzas, George Z; Bikiaris, Dimitrios N; Lambropoulou, Dimitra A

    2016-03-24

    In the present study, a molecularly imprinted solid-phase microextraction fiber (MIP-SPMEf) was synthesized and applied for the selective removal and extraction of the antiviral drug, abacavir (ABA). Morphology and structure characterization of fibers were performed by scanning electron microscopy and Fourier transform infrared spectra, respectively. The effects on the adsorption behavior of the process parameters were studied and the equilibrium data were fitted by the Langmuir, Freundlich and Langmuir-Freundlich models. The maximum adsorption capability (Qmax) was determined by Langmuir- Freundlich model and was 149 mg/g for MIP-SPMEf. In the next step, SPME methodology followed by liquid desorption and liquid chromatography with mass spectrometry (LC/MS) has been developed and evaluated for the determination of the target compound in environmental and biological matrices (surface waters, wastewaters and urine). Parameters that could influence SPME efficiency were investigated. Then, optimization of stirring speed, extraction time and salt content was carried out by using a central composite design (CCD) and response surface methodology (RSM). A quadratic model between dependent and independent variables was built. Under the optimum conditions (extraction time 40 min, stirring rate 650 rpm and salt content 0.3% NaCl w/v) the validated method presented a high sensitivity and selectivity with LODs and LOQs in the range of 10.1-13.6 and 33.3-43.9 ng/L, respectively. The developed method was successfully applied to the analysis of ABA in real samples. The percentage extraction efficiency ranged from 88 to 99% revealing good accuracy and absence of matrix effects. PMID:26944990

  6. Cyto•IQ: an adaptive cytometer for extracting the noisy dynamics of molecular interactions in live cells

    Science.gov (United States)

    Ball, David A.; Moody, Stephen E.; Peccoud, Jean

    2010-02-01

    We have developed a fundamentally new type of cytometer to track the statistics of dynamic molecular interactions in hundreds of individual live cells within a single experiment. This entirely new high-throughput experimental system, which we have named Cyto•IQ, reports statistical, rather than image-based data for a large cellular population. Like a flow cytometer, Cyto•IQ rapidly measures several fluorescent probes in a large population of cells to yield a reduced statistical model that is matched to the experimental goals set by the user. However, Cyto•IQ moves beyond flow cytometry by tracking multiple probes in individual cells over time. Using adaptive learning algorithms, we process data in real time to maximize the convergence of the statistical model parameter estimators. Software controlling Cyto•IQ integrates existing open source applications to interface hardware components, process images, and adapt the data acquisition strategy based on previously acquired data. These innovations allow the study of larger populations of cells, and molecular interactions with more complex dynamics, than is possible with traditional microscope-based approaches. Cyto•IQ supports research to characterize the noisy dynamics of molecular interactions controlling biological processes.

  7. Biomimetic polymers in analytical chemistry. Part 1: preparation and applications of MIP (Molecularly Imprinted Polymers) in extraction and separation techniques

    International Nuclear Information System (INIS)

    MIPs are synthetic polymers that are used as biomimetic materials simulating the mechanism verified in natural entities such as antibodies and enzymes. Although MIPs have been successfully used as an outstanding tool for enhancing the selectivity or different analytical approaches, such as separation science and electrochemical and optical sensors, several parameters must be optimized during their synthesis. Therefore, the state-of-the-art of MIP production as well as the different polymerization methods are discussed. The potential selectivity of MIPs in the extraction and separation techniques focusing mainly on environmental, clinical and pharmaceutical samples as applications for analytical purposes is presented. (author)

  8. Determination of boron in waters and in water extracts from wastes by molecular and atomic absorption spectrometry following preliminary boron separation by extraction of its complex with 2-ethylhexane-1,3-diol

    International Nuclear Information System (INIS)

    Two methods for boron determination were developed and tested. The analysis is based on boron separation and preconcentration by extraction from an acid aqueous solution into a chloroform solution of 2-ethylhexane-1,3-diol followed by reextraction into aqueous sodium hydroxide, and subsequent molecular absorption spectroscopic determination with curcumine at 543 nm or atomic absorption spectroscopic determination at 249.8 nm in a nitrous oxide-acetylene flame. The limits of determination (3s criterion) for the two methods are 0.002 and 0.1 mg/l, respectively. The methods were compared with the conventional procedure based on the use of azomethine-H. While the sensitivities of the methods are comparable (the limit of determination for the azomethine-H method is 0.02 mg/l), the proposed methods exhibit a better reliability and are widely applicable to the determination of total boron in all types of water and water extracts. (author) 3 tabs., 37 refs

  9. Using Protege for Automatic Ontology Instantiation

    OpenAIRE

    Alani, Harith; Kim, Sanghee; Millard, David E.; Weal, Mark J.; Hall, Wendy; Lewis, Paul H.; Shadbolt, Nigel

    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.

  10. Direct detection of circulating free DNA extracted from serum samples of breast cancer using locked nucleic acid molecular beacon.

    Science.gov (United States)

    Gui, Zhen; Wang, Quanbo; Li, Jinchang; Zhu, Mingchen; Yu, Lili; Xun, Tang; Yan, Feng; Ju, Huangxian

    2016-07-01

    As an emerging noninvasive blood biomarker, circulating free DNA (cfDNA) can be utilized to assess diagnosis, progression and evaluate prognosis of cancer. However, cfDNAs are not "naked", they can be part of complexes, or are bound to the surface of the cells via proteins, which make the detection more challenging. Here, a simple method for the detection of Ubiquitin-like with PHD and ring finger domains 1 (UHRF1) DNA exacted from serum of breast cancer (BC) has been developed using a novel locked nucleic acid molecular beacon (LNA-MB). In order to enhance the stability and detection efficiency of the probe in biofluids, we design a shared-stem molecular beacon containing a 27-mer loop and a 4-mer stem with DNA/LNA alternating bases. The fluorescence is released in the presence of target. The detection procedure is simple and can be completed within 1h. This method shows a sensitive response to UHRF1 DNA with a dynamic range of 3 orders of magnitude. The limit of detection is 11nM (S/N=3) with excellent selectivity. It can discriminate UHRF1 DNA from three-base mismatched DNA with a high specificity. More importantly, this method can distinguish the expression of serum UHRF1 DNA among 5 breast cancer patients and 5 healthy controls. The mentioned superiority may suggest that this assay can be served as a promising noninvasive detection tool for early BC diagnosis and monitoring. PMID:27154709

  11. 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.

  12. Towards an automatic coronary artery segmentation algorithm.

    Science.gov (United States)

    Fallavollita, Pascal; Cheriet, Farida

    2006-01-01

    A method is presented that aims at minimizing image processing time during X-ray fluoroscopy interventions. First, an automatic frame extraction algorithm is proposed in order to extract relevant image frames with respect to their cardiac phase (systole or diastole). Secondly, a 4-step filter is suggested in order to enhance vessel contours. The reciprocal of the enhanced image is used as an alternative speed function to initialize the fast marching method. The complete algorithm was tested on eight clinical angiographic data sets and comparisons with two other vessel enhancement filters (Lorenz and Frangi) are made for the centerline extraction procedure. In order to assess the suitability of our filter the extracted centerline coordinates are compared with the manually traced axis. PMID:17946540

  13. Mutual binary separations of cadmium(II), indium(III) and thallium(III) as chlorides by their extraction in high molecular weight amines

    International Nuclear Information System (INIS)

    The extraction of cadmium(II), indium(III) and thallium(III) with high molecular weight amines have been studied from aqueous hydrochloric acid solutions. Primene JM-T, Amberlite LA-1, Alamine 336 and Aliquat 336 were chosen for the study as representatives of various types of amines. These were all practical grade materials and were used without further purification. sup(115m)Cd, sup(114m)In and 114In and 204Tl radioisotopes were used as tracers. Equal volumes of the organic amine solution (0.1M) and the labelled aqueous metal ion solution (2.5x10-4M) were mixed and shaken on a mechanical shaker. Each experiment was run in duplicate and the average values are reported. All the extraction studies were done at room temperature, 25+-3 deg C. Using the data mutual binary separations of these elements with high separation coefficients are proposed. Various variables like type of amine, amine concentration and organic diluent were explored to propose the best conditions of separations. (T.G.)

  14. Efficient determination of protocatechuic acid in fruit juices by selective and rapid magnetic molecular imprinted solid phase extraction coupled with HPLC.

    Science.gov (United States)

    Xie, Lianwu; Guo, Junfang; Zhang, Yuping; Shi, Shuyun

    2014-08-13

    Magnetic molecular imprinted polymers (MMIPs) have been prepared as solid phase material to selectively extract protocatechuic acid (PCA) from fruit juices with high capacity and fast binding kinetics. The resulting MMIPs were characterized by TEM, FT-IR, TGA, and VSM. The adsorption process between PCA and MMIPs followed Langumuir adsorption isotherm with maximum adsorption capacity at 7.5 mg/g and pseudo-second-order reaction kinetics with fast binding kinetics (equilibrium time at 40 min). In addition, the prepared MMIPs showed rapid magnetic separation (10 s) and reusability (retained 94.9% after six cycles). Subsequently, MMIPs were successfully applied for selective enrichment and determination of PCA from fruit juices (0.45 μg/mL in grape juice but not detected in apple juice, pineapple juice, orange juice, and peach juice) with satisfactory recoveries (92-107%). The results indicated that synthesized MMIPs can be used for efficient and selective extraction of PCA from complex matrices. PMID:25075753

  15. Determination of Phenolic Compounds in Environmental Water by HPLC Combination with On-Line Solid-Phase Extraction Using Molecularly Imprinted Polymers.

    Science.gov (United States)

    Qiu, Xiu-Zhen; Liang, Yong; Guo, Hui-Shi; Wang, Xiao-Bing; Lin, Chuang-Xin

    2015-12-01

    A novel molecularly imprinted polymer (MIP) was synthesized using halloysite nanotubes (HNT) as matrix, β-cyclodextrin (β-CD) and methyl propyl acid (MAA) as functional monomers, and 2,4,6-TCP as template molecule by graft copolymerization. Infrared spectroscopy and transmission electron microscopy (TEM) were used to characterize the as-synthesized imprinted polymer. The selective recognizability of the MIP towards four phenolic analogs were determined and the recognition coefficients for 2,4,6-TCP, 2,6-DCP, 4-CP and phenol were found to be 2.17, 1.85, 2.02 and 1.36, respectively. Using as the packing material of solid-phase extraction, the imprinted polymer has been applied to on-line extraction of the four phenolic compounds in environmental water. The corresponding analytical methods to determine these four phenolic compounds have been developed. Good linear relationships were obtained over the range of 0.05-5.0 mg x L(-1). The average recoveries for spiked samples were in the range of 74.8-97.2%, and the detection limits for 2,4,6-TCP, 2,6-DCP, p-chlorophenol, phenol were 0.19, 0.20, 0.75, 0.73 mg x L(-1), respectively. The method is rapid, accurate and high selectivity. It was feasible for the determination of trace level phenolic compounds in environmental samples. PMID:26682381

  16. A newly developed molecularly imprinted polymer on the surface of TiO2 for selective extraction of triazine herbicides residues in maize, water, and soil.

    Science.gov (United States)

    Geng, Hao Ran; Miao, Shan Shan; Jin, She Feng; Yang, Hong

    2015-11-01

    A new surface molecularly imprinted polymer (MIP) based on nano-TiO2 was developed using propazine (Pro) as a template molecule, ethyleneglycol dimethacrylate (EGDMA) as a crosslinker, methacrylic acid (MAA) as a functional monomer, and 2,2'-azobis (isobutyronitrile) (AIBN) as an initiator. Structures of the newly synthesized surface MIPs were characterized by Fourier transmission infrared spectrometry (FT-IR), scanning electron microscope (SEM), transmission electron microscope (TEM), and X-ray diffraction (XRD). The MIP had a good adsorption capacity and high recognition selectivity to propazine. Meanwhile, it exhibited a cross-selectivity for simazine (Sim) and atrazine (Atr). The MIPs were used as a solid phase extraction (SPE) material. Concomitant extraction, purification, and determination of three pesticides (Pro, Sim, and Atr) residues in water, soil, and maize plant and grain samples were performed by MIP-SPE coupled with high performance liquid chromatography (HPLC). The highly selective separation and enrichment of Pro, Atr, and Sim from the complex environmental media can be achieved. Thus, the newly developed technique provides an analytical platform to quantify the trace amount of Pro, Sim, and Atr residues in multi environmental media and food source. PMID:26410737

  17. Porous membrane-protected molecularly imprinted polymer micro-solid-phase extraction for analysis of urinary cocaine and its metabolites using liquid chromatography - Tandem mass spectrometry.

    Science.gov (United States)

    Sánchez-González, Juan; Tabernero, María Jesús; Bermejo, Ana María; Bermejo-Barrera, Pilar; Moreda-Piñeiro, Antonio

    2015-10-22

    Porous membrane-protected micro-solid phase extraction (μ-SPE) using a molecularly imprinted polymer (MIP) as an adsorbent has been proposed as an integrated extraction-cleanup procedure for isolating cocaine (COC) and its metabolites [benzoylecgonine (BZE), ecgonine methyl ester (EME), and cocaethylene (CE)] from human urine. MIP beads have been synthesized using COC as a template molecule, ethylene dimethacrylate (EDMA) as a functional monomer, divinylbenzene (DVB) as a cross-linker, and 2,2'-azobisisobutyronitrile (AIBN) as an initiator. High performance liquid chromatography - tandem mass spectrometry (HPLC-MS/MS) has been used for quantifying the analytes after MIP-μ-SPE. Variables such as urine pH, adsorption temperature and time, mechanical (orbital-horizontal) stirring; and composition of the eluting solution and eluting time, were evaluated. The proposed method was shown to be precise and accurate [relative standard deviations (RSDs) of intra- and inter-day tests ranging from 3 to 8% and from 2 to 10%, respectively]; and analytical recoveries in the range of 89-100%). In addition, excellent accuracy was also verified after analyzing a FDT +25% control material for BZE. The detection limits were in the range of 0.16-1.7 ng L(-1), low enough for confirmative conclusions regarding cocaine abuse. The method was finally applied for screening/quantifying cocaine and metabolites in urine samples from poly-drug abusers. PMID:26526910

  18. Comparative Molecular Dynamics Study on Tri-n-butyl Phosphate in Organic and Aqueous Environments and Its Relevance to Nuclear Extraction Processes.

    Science.gov (United States)

    Mu, Junju; Motokawa, Ryuhei; Williams, Christopher D; Akutsu, Kazuhiro; Nishitsuji, Shotaro; Masters, Andrew J

    2016-06-16

    A refined model for tri-n-butyl phosphate (TBP), which uses a new set of partial charges generated from our ab initio density functional theory calculations, has been proposed in this study. Molecular dynamics simulations are conducted to determine the thermodynamic properties, transport properties, and the microscopic structures of liquid TBP, TBP/water mixtures, and TBP/n-alkane mixtures. These results are compared with those obtained from four other TBP models, previously described in the literature. We conclude that our refined TBP model appears to be the only TBP model from this set that, with reasonable accuracy, can simultaneously predict the properties of TBP in bulk TBP, in organic diluents, and in aqueous solution. The other models only work well for two of the three systems mentioned above. This new TBP model is thus appropriate for the simulation of liquid-liquid extraction systems in the nuclear extraction process, where one needs to simultaneously model TBP in both aqueous and organic phases. It is also promising for the investigation of the microscopic structure of the organic phase in these processes and for the characterization of third-phase formation, where TBP again interacts simultaneously with both polar and nonpolar molecules. Because the proposed TBP model uses OPLS-2005 Lennard-Jones parameters, it may be used with confidence to model mixtures of TBP with other species whose parameters are given by the OPLS-2005 force field. PMID:27192017

  19. Magnetic molecularly imprinted polymer nanoparticles for the solid-phase extraction of paracetamole from plasma samples, followed its determination by HPLC

    International Nuclear Information System (INIS)

    We are presenting magnetic molecularly imprinted polymer nanoparticles (m-MIPs) for solid-phase extraction and sample clean-up of paracetamole. The m-MIPs were prepared from magnetite (Fe3O4) as the magnetic component, paracetamole as the template, methacrylic acid as a functional monomer, and 2-(methacrylamido) ethyl methacrylate as a cross-linker. The m-MIPs were then characterized by transmission electron microscopy, FT-IR spectroscopy, X-ray diffraction and vibrating sample magnetometry. The m-MIPs were applied to the extraction of paracetamole from human blood plasma samples. Following its elution from the column loaded with the m-MIPs with an acetonitrile-buffer (9:1) mixture, it was submitted to HPLC analysis. Paracetamole can be quantified by this method in the 1 μg L−1 to 300 μg L−1 concentration range. The limit of detection and limit of quantification in plasma samples are 0.17 and 0.4 μg L−1. The preconcentration factor of the m-MIPs is 40. The HPLC method shows good precision (4.5 % at 50 μg L−1 levels) and recoveries (between 83 and 91 %) from spiked plasma samples. (author)

  20. Molecular Characterization and Tandem Mass Spectrometry of the Lectin Extracted from the Seeds of Dioclea sclerocarpa Ducke

    Directory of Open Access Journals (Sweden)

    Kyria Santiago do Nascimento

    2011-10-01

    Full Text Available Lectin from the seeds of Dioclea sclerocarpa (DSL was purified in a single step by affinity chromatography on a Sephadex G-50 column. The primary sequence, as determined by tandem mass spectrometry, revealed a protein with 237 amino acids and 81% of identity with ConA. DSL has a molecular mass of 25,606 Da. The β and γ chains weigh 12,873 Da and 12,752 Da, respectively. DSL hemagglutinated rabbit erythrocytes (both native and treated with proteolytic enzymes, showing stability even after one hour of exposure to a specific pH range. The hemagglutinating activity of DSL was optimal between pH 6.0 and 8.0, but was inhibited after incubation with D-galactose and D-glucose. The pure protein possesses a molecular mass of 25 kDa by SDS-PAGE and 25,606 Da by mass spectrometry. The secondary structure content was estimated using the software SELCON3. The results indicate that b-sheet secondary structures are predominant in DSL (approximately 42.3% antiparallel b-sheet and 6.7% parallel b-sheet. In addition to the b-sheet, the predicted secondary structure of DSL features 4.1% a-helices, 15.8% turns and 31.3% other contributions. Upon thermal denaturation, evaluated by measuring changes in ellipticity at 218 nm induced by a temperature increase from 20 °C to 98 °C, DSL displayed cooperative sigmoidal behavior with transition midpoint at 84 °C and permitted the observation of two-state model (native and denatured.

  1. Automatic Program Development

    DEFF Research Database (Denmark)

    Automatic Program Development is a tribute to Robert Paige (1947-1999), our accomplished and respected colleague, and moreover our good friend, whose untimely passing was a loss to our academic and research community. We have collected the revised, updated versions of the papers published in his...... honor in the Higher-Order and Symbolic Computation Journal in the years 2003 and 2005. Among them there are two papers by Bob: (i) a retrospective view of his research lines, and (ii) a proposal for future studies in the area of the automatic program derivation. The book also includes some papers by...... members of the IFIP Working Group 2.1 of which Bob was an active member. All papers are related to some of the research interests of Bob and, in particular, to the transformational development of programs and their algorithmic derivation from formal specifications. Automatic Program Development offers a...

  2. Molecularly imprinted layer-coated silica nanoparticles for selective solid-phase extraction of bisphenol A from chemical cleansing and cosmetics samples

    International Nuclear Information System (INIS)

    Highly selective molecularly imprinted layer-coated silica nanoparticles for bisphenol A (BPA) were synthesized by molecular imprinting technique with a sol-gel process on the supporter of silica nanoparticles. The BPA-imprinted silica nanoparticles were characterized by fourier transform infrared spectrometer, transmission electron microscope, dynamic adsorption and static adsorption tests. The equilibrium association constant, Ka, and the apparent maximum number of binding sites, Qmax, were estimated to be 1.25 x 105 mL μmol-1 and 16.4 μmol g-1, respectively. The BPA-imprinted silica nanoparticles solid-phase extraction (SPE) column had higher selectivity for BPA than the commercial C18-SPE column. The results of the study indicated that the prepared BPA-imprinted silica nanoparticles exhibited high adsorption capacity and selectivity, and offered a fast kinetics for the rebinding of BPA. The BPA-imprinted silica nanoparticles were successfully used in SPE to selectively enrich and determine BPA from shampoo, bath lotion and cosmetic cream samples.

  3. Molecularly imprinted layer-coated silica nanoparticles for selective solid-phase extraction of bisphenol A from chemical cleansing and cosmetics samples

    Energy Technology Data Exchange (ETDEWEB)

    Zhu Rong; Zhao Wenhui; Zhai Meijuan; Wei Fangdi; Cai Zheng; Sheng Na [School of Pharmacy, Nanjing Medical University, Hanzhong Road 140, Nanjing, Jiangsu 210029 (China); Hu Qin, E-mail: huqin@njmu.edu.cn [School of Pharmacy, Nanjing Medical University, Hanzhong Road 140, Nanjing, Jiangsu 210029 (China)

    2010-01-25

    Highly selective molecularly imprinted layer-coated silica nanoparticles for bisphenol A (BPA) were synthesized by molecular imprinting technique with a sol-gel process on the supporter of silica nanoparticles. The BPA-imprinted silica nanoparticles were characterized by fourier transform infrared spectrometer, transmission electron microscope, dynamic adsorption and static adsorption tests. The equilibrium association constant, K{sub a}, and the apparent maximum number of binding sites, Q{sub max}, were estimated to be 1.25 x 10{sup 5} mL {mu}mol{sup -1} and 16.4 {mu}mol g{sup -1}, respectively. The BPA-imprinted silica nanoparticles solid-phase extraction (SPE) column had higher selectivity for BPA than the commercial C18-SPE column. The results of the study indicated that the prepared BPA-imprinted silica nanoparticles exhibited high adsorption capacity and selectivity, and offered a fast kinetics for the rebinding of BPA. The BPA-imprinted silica nanoparticles were successfully used in SPE to selectively enrich and determine BPA from shampoo, bath lotion and cosmetic cream samples.

  4. Characterization of particle morphology of biochanin A molecularly imprinted polymers and their properties as a potential sorbent for solid-phase extraction

    Energy Technology Data Exchange (ETDEWEB)

    Chrzanowska, Anna M.; Poliwoda, Anna, E-mail: Anna.Poliwoda@uni.opole.pl; Wieczorek, Piotr P.

    2015-04-01

    Molecularly imprinted polymers (MIPs) with biochanin A as a template were obtained using a bulk polymerization with non-covalent imprinting approach. The polymers were prepared in acetonitrile as porogen, using ethylene glycol dimethacrylate (EDMA) as cross-linking agent. The synthesis, with an application of 1′,1′-azobis(cyclohexanecarbonitrile) (ACHN) as an initiator, has been performed thermally. During the synthesis process the effect of different functional monomers such as methacrylic acid (MAA), acrylamide (AA) and 4-vinylpyridine (4-VP) was investigated. The application of nitrogen sorption porosimetry, scanning electron microscopy (SEM), and Fourier transform infrared spectroscopy (FTIR) permitted the characterization and evaluation of synthesized polymers. The adsorption capacity of obtained MIPs was checked by using the binding testing. All synthesized polymers were evaluated as solid-phase extraction (SPE) sorbents for isolation and preconcentration of biochanin A and its analogues, daidzein and genistein. The MIPs exhibited higher affinity for biochanin A over competitive compounds. - Highlights: • The molecularly imprinted polymers with biochanin A as a template were synthesized. • The surface of synthesized monoliths was formed mainly from mesopores (73–77%). • Biochanin A was effectively concentrated in each of the synthesized polymers (recovery > 89.8%). • The results show potential ability of synthesized MIPs in analysis of phytoestrogens in real samples.

  5. Fingerprint Feature Extraction Algorithm

    OpenAIRE

    Mehala. G

    2014-01-01

    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 extractin...

  6. Automatic utilities auditing

    Energy Technology Data Exchange (ETDEWEB)

    Smith, Colin Boughton [Energy Metering Technology (United Kingdom)

    2000-08-01

    At present, energy audits represent only snapshot situations of the flow of energy. The normal pattern of energy audits as seen through the eyes of an experienced energy auditor is described. A brief history of energy auditing is given. It is claimed that the future of energy auditing lies in automatic meter reading with expert data analysis providing continuous automatic auditing thereby reducing the skill element. Ultimately, it will be feasible to carry out auditing at intervals of say 30 minutes rather than five years.

  7. Automatic Camera Control

    DEFF Research Database (Denmark)

    Burelli, Paolo; Preuss, Mike

    2014-01-01

    Automatically generating computer animations is a challenging and complex problem with applications in games and film production. In this paper, we investigate howto translate a shot list for a virtual scene into a series of virtual camera configurations — i.e automatically controlling the virtual...... camera. We approach this problem by modelling it as a dynamic multi-objective optimisation problem and show how this metaphor allows a much richer expressiveness than a classical single objective approach. Finally, we showcase the application of a multi-objective evolutionary algorithm to generate a shot...

  8. Automatic text summarization

    CERN Document Server

    Torres Moreno, Juan Manuel

    2014-01-01

    This new textbook examines the motivations and the different algorithms for automatic document summarization (ADS). We performed a recent state of the art. The book shows the main problems of ADS, difficulties and the solutions provided by the community. It presents recent advances in ADS, as well as current applications and trends. The approaches are statistical, linguistic and symbolic. Several exemples are included in order to clarify the theoretical concepts.  The books currently available in the area of Automatic Document Summarization are not recent. Powerful algorithms have been develop

  9. Novel sponge-like molecularly imprinted mesoporous silica material for selective isolation of bisphenol A and its analogues from sediment extracts

    Energy Technology Data Exchange (ETDEWEB)

    Yang, Jiajia [Key Laboratory of Separation Sciences for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023 (China); University of Chinese Academy of Sciences, Beijing 100049 (China); Li, Yun; Wang, Jincheng [Key Laboratory of Separation Sciences for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023 (China); Sun, Xiaoli [Key Laboratory of Separation Sciences for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023 (China); University of Chinese Academy of Sciences, Beijing 100049 (China); Shah, Syed Mazhar [Key Laboratory of Separation Sciences for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023 (China); Cao, Rong [Key Laboratory of Separation Sciences for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023 (China); University of Chinese Academy of Sciences, Beijing 100049 (China); Chen, Jiping, E-mail: chenjp@dicp.ac.cn [Key Laboratory of Separation Sciences for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023 (China)

    2015-01-01

    Highlights: • Novel sponge-like molecularly imprinted mesoporous silica was synthesized. • Extraordinarily large specific surface area and highly interconnected 3-D porous network. • High specific adsorption capacity and fast adsorption kinetics for BPA. • Good class-selectivity and clean-up effect for bisphenols in sediment under SPE mode. • Good recoveries and sensitivity for bisphenols using the MISMS–SPE coupled with HPLC–DAD method. - Abstract: Bisphenol A (BPA) imprinted sponge mesoporous silica was synthesized using a combination of semi-covalent molecular imprinting and simple self-assembly process. The molecularly imprinted sponge mesoporous silica (MISMS) material obtained was characterized by FT-IR, scanning electron microscopy, transmission electron microscopy, and nitrogen adsorption–desorption measurements. The results show that the MISMS possessed a large specific surface area (850.55 m{sup 2} g{sup −1}) and a highly interconnected 3-D porous network. As a result, the MISMS demonstrated a superior specific adsorption capacity of 169.22 μmol g{sup −1} and fast adsorption kinetics (reaching equilibrium within 3 min) for BPA. Good class selectivity for BPA and its analogues (bisphenol F, bisphenol B, bisphenol E and bisphenol AF) was also demonstrated by the sorption experiment. The MISMS as solid-phase extraction (SPE) material was then evaluated for isolation and clean-up of these bisphenols (BPs) from sediment samples. An accurate and sensitive analytical method based on the MISMS–SPE coupled with HPLC–DAD has been successfully established for simultaneous determination of five BPs in river sediments with detection limits of 0.43–0.71 ng g{sup −1} dry weight (dw). The recoveries of BPs for lyophilizated sediment samples at two spiking levels (50 and 500 ng g{sup −1} dw for each BP) were in the range of 75.5–105.5% with RSD values below 7.5%.

  10. Novel sponge-like molecularly imprinted mesoporous silica material for selective isolation of bisphenol A and its analogues from sediment extracts

    International Nuclear Information System (INIS)

    Highlights: • Novel sponge-like molecularly imprinted mesoporous silica was synthesized. • Extraordinarily large specific surface area and highly interconnected 3-D porous network. • High specific adsorption capacity and fast adsorption kinetics for BPA. • Good class-selectivity and clean-up effect for bisphenols in sediment under SPE mode. • Good recoveries and sensitivity for bisphenols using the MISMS–SPE coupled with HPLC–DAD method. - Abstract: Bisphenol A (BPA) imprinted sponge mesoporous silica was synthesized using a combination of semi-covalent molecular imprinting and simple self-assembly process. The molecularly imprinted sponge mesoporous silica (MISMS) material obtained was characterized by FT-IR, scanning electron microscopy, transmission electron microscopy, and nitrogen adsorption–desorption measurements. The results show that the MISMS possessed a large specific surface area (850.55 m2 g−1) and a highly interconnected 3-D porous network. As a result, the MISMS demonstrated a superior specific adsorption capacity of 169.22 μmol g−1 and fast adsorption kinetics (reaching equilibrium within 3 min) for BPA. Good class selectivity for BPA and its analogues (bisphenol F, bisphenol B, bisphenol E and bisphenol AF) was also demonstrated by the sorption experiment. The MISMS as solid-phase extraction (SPE) material was then evaluated for isolation and clean-up of these bisphenols (BPs) from sediment samples. An accurate and sensitive analytical method based on the MISMS–SPE coupled with HPLC–DAD has been successfully established for simultaneous determination of five BPs in river sediments with detection limits of 0.43–0.71 ng g−1 dry weight (dw). The recoveries of BPs for lyophilizated sediment samples at two spiking levels (50 and 500 ng g−1 dw for each BP) were in the range of 75.5–105.5% with RSD values below 7.5%

  11. Aloe vera non-decolorized whole leaf extract-induced large intestinal tumors in F344 rats share similar molecular pathways with human sporadic colorectal tumors.

    Science.gov (United States)

    Pandiri, Arun R; Sills, Robert C; Hoenerhoff, Mark J; Peddada, Shyamal D; Ton, Thai-Vu T; Hong, Hue-Hua L; Flake, Gordon P; Malarkey, David E; Olson, Greg R; Pogribny, Igor P; Walker, Nigel J; Boudreau, Mary D

    2011-12-01

    Aloe vera is one of the most commonly used botanicals for various prophylactic and therapeutic purposes. Recently, NTP/NCTR has demonstrated a dose-dependent increase in large intestinal tumors in F344 rats chronically exposed to Aloe barbadensis Miller (Aloe vera) non-decolorized whole leaf extract (AVNWLE) in drinking water. The morphological and molecular pathways of AVNWLE-induced large intestinal tumors in the F344 rats were compared to human colorectal cancer (hCRC) literature. Defined histological criteria were used to compare AVNWLE-induced large intestinal tumors with hCRC. The commonly mutated genes (Kras, Ctnnb1, and Tp53) and altered signaling pathways (MAPK, WNT, and TGF-β) important in hCRC were evaluated within AVNWLE-induced large intestinal tumors. Histological evaluation of the large intestinal tumors indicated eight of twelve adenomas (Ads) and four of twelve carcinomas (Cas). Mutation analysis of eight Ads and four Cas identified point mutations in exons 1 and 2 of the Kras gene (two of eight Ads, two of four Cas), and in exon 2 of the Ctnnb1 gene (three of eight Ads, one of four Cas). No Tp53 (exons 5-8) mutations were found in Ads or Cas. Molecular pathways important in hCRC such as MAPK, WNT, and TGF-β signaling were also altered in AVNWLE-induced Ads and Cas. In conclusion, the AVNWLE-induced large intestinal tumors in F344 rats share several similarities with hCRC at the morphological and molecular levels. PMID:21937742

  12. Bone Samples Extracted from Embalmed Subjects Are Not Appropriate for the Assessment of Bone Quality at the Molecular Level Using Raman Spectroscopy.

    Science.gov (United States)

    Pascart, Tristan; Cortet, Bernard; Olejnik, Cecile; Paccou, Julien; Migaud, Henri; Cotten, Anne; Delannoy, Yann; During, Alexandrine; Hardouin, Pierre; Penel, Guillaume; Falgayrac, Guillaume

    2016-03-01

    Bone samples extracted from embalmed cadavers are commonly used as controls in the study of bone. The effects of embalmment on the molecular composition of bone are unknown. The objective of this study was to determine the effect of embalmment on the molecular composition and structure of bone, as evaluated by Raman spectroscopy. Bone samples of femoral heads from five embalmed donors and five fresh-frozen donors were compared using Raman microspectroscopy with DuoScan technology. Physicochemical parameters simultaneously describing the organic and mineral phases of bone were compared using the Mann-Whitney U test. Partial least squares discriminant analysis (PLS-DA) was used to determine specific Raman spectral features of each group. Study of the mineral phase showed a 15% reduction of the mineral-to-matrix ratio (p < 0.001), an 8% decrease of type B carbonate substitution (p < 0.001), and a 2% increase in crystallinity (p < 0.001) in the embalmed donors group compared to those of the fresh donors group. Regarding the organic phase of bone, the hydroxyproline-to-proline ratio was increased by 18% in the embalmed group (p < 0.001), with no variation in both the relative proteoglycan content (GAG/CH3) (p = 0.08) and collagen maturity (p = 0.57). PLS-DA showed that the embalmed group was characterized mainly by peaks assigned to hydroxyproline, lipids, and collagen. Embalmment induces significant modifications of the molecular composition of bone. Bone samples from embalmed subjects should be avoided as controls for Raman spectroscopy studies. Preservation procedures performed prior to bone sampling should be reported in studies using human cadaver samples. PMID:26824493

  13. First results of dose to patient in CT extracted with an automatic registration system; Primeros resultados de dosis a paciente en TC extraidas con un sistema automatico de registro

    Energy Technology Data Exchange (ETDEWEB)

    Minambres Moro, A.; Fernandez Leton, P.; Garcia Ruiz-Zorilla, J.; Perez Moreno, J. M.; Zucca Aparicio, D.

    2013-07-01

    Radiation protection of the patient in computed tomography (CT) is a priority for several reasons: the dose received during a scan is relatively high, is the diagnostic mode with greater contribution to dose to patient collective and the frequency of completion of TC is increasing rapidly the past few years. On the other hand, are currently beginning to commercially offer automated registration of dose to patient receiving dosimetric parameters of all scans performed on the equipment connected to the system. In this communication the first results are presented from two TC connected to an automatic system of this kind recently installed at our Center. (Author)

  14. Bioanalytics of mycotoxins and development of dedicated analyte-selective molecularly imprinted materials for solid-phase extraction

    International Nuclear Information System (INIS)

    Mycotoxins are secondary metabolites produced by several fungal species, growing on agricultural products during cultivation, harvest, transport or storage. Ochratoxin A (OTA) is a mycotoxin of great natural abundance and can be found in various plant products. Due to its frequent occurrence and toxic properties many countries have set up tolerance levels for OTA. Thus, the need for sensitive analytical and in particular selective sample preparation methods for analyte enrichment and removal of interfering matrix compounds is obvious. Molecular imprinting generates polymeric matrices that can selectively recognize and bind target molecules. It was previously demonstrated that molecularly imprinted polymers (MIPs) can be employed in sample preparation. MIPs capable of recognizing OTA have been prepared using an analyte mimic approach. Crucial to the success was the introduction of a novel class of quinuclidine-derived functional monomers which utilize ionic binding increments and hydrophobic interactions for selective recognition of the target analyte and its mimics. Since optimization of SPE procedures demonstrated the convenient use of several solvent systems, the developed MIPs represents an enrichment for the field of mycotoxin analysis. Zeranol has been widely adopted as a growth stimulant for cattle and other animals due to its anabolic and estrogenic properties. Application of zeranol has been banned in the European Union since 1985. Researchers, however, found that the illegal administration of this anabolic agent may not be the only source of zeranol residues in biologically relevant matrices. Previously, it was demonstrated that zeranol was also formed in vivo from the mycotoxins zearalenone (ZON) and α-zearalenol that are carried over from mycotoxin contaminated feed into the animal body. A fast, robust and sensitive LC-MS method for the determination for these compounds in urine and tissue samples has been developed. Crucial for the achievement of low

  15. Synthesis and characterization of core–shell magnetic molecularly imprinted polymer nanoparticles for selective extraction of tizanidine in human plasma

    Indian Academy of Sciences (India)

    GOLALEH SHEYKHAGHAEI; MOAYAD HOSSAINI SADR; SALAH KHANAHMADZADEH

    2016-06-01

    In this study, simple, effective and general processes were used for the synthesis of a new nanomolecularly imprinted polymers (MIPs) layer on magnetic Fe3O4 nanoparticles (NPs) with uniform core–shell structure by combining surface imprinting and nanotechniques. The first step for the synthesis of magnetic NPs was co-precipitation of Fe$^{2+}$ and Fe$^{3+}$ in an ammonia solution. Then, an SiO$_2$ shell was coated on the magnetic core with the Stöber method. Subsequently, the C$=$C groups were grafted onto the silica-modified Fe$_3$O$_4$ surface by 3-(trimethoxysilyl) propyl methacrylate. Finally, MIPs films were formed on the surface of Fe$_3$O$_4$@SiO$_2$ by the copolymerization of C$=$C end groups with methacrylic acid (functional monomer), ethylene glycol dimethacrylate (crosslinker),2,2-azobisisobutyronitrile (initiator) and tizanidine (template molecule). The products were characterized using techniques that included Fourier transform infrared (FT-IR) spectroscopy, X-ray diffraction (XRD), thermogravimetric analysis (TGA), scanning electron microscopy (SEM), UV spectrophotometry, transmission electron microscopy (TEM) and vibrating sample magnetometer (VSM). Measurement of tizanidine through use of the core–shell magnetic molecularly imprinted polymers nanoparticles (MMIPs-NPs) in human plasma samples compared to the paracetamol showed that the synthesized nanosized MMIP for tizanidine has acted selectively.

  16. Ranking XPaths for extracting search result records

    OpenAIRE

    Trieschnigg, Dolf; Tjin-Kam-Jet, Kien; Hiemstra, Djoerd

    2012-01-01

    Extracting search result records (SRRs) from webpages is useful for building an aggregated search engine which combines search results from a variety of search engines. Most automatic approaches to search result extraction are not portable: the complete process has to be rerun on a new search result page. In this paper we describe an algorithm to automatically determine XPath expressions to extract SRRs from webpages. Based on a single search result page, an XPath expression is determined whi...

  17. Molecular mechanisms of apoptosis induced by Scorpio water extract in human hepatoma HepG2 cells

    Institute of Scientific and Technical Information of China (English)

    Kang-Beom Kwon; Eun-Kyung Kim; Jung-Gook Lim; Eun-Sil Jeong; Byung-Cheul Shin; Young-Se Jeon; Kang-San Kim; Eun-A Seo; Do-Gon Ryu

    2005-01-01

    AIM: To clarify the mechanism underlying the anti-mutagenic and anti-cancer activities of Scorpio water extract (SWE).METHODS: Human hepatoma HepG2 cells were incubated with various concentrations of SWE. After 24-h incubation,cytotoxicity and apoptosis evaluations were determined by MTT and DNA fragmentation assay, respectively. After treatment with SWE, mitochondrial membrane potential(MMP) was determined by measuring the retention of the dye 3,3'-dihexyloxacarbocyanine (DiOC6(3)) and the protein expression including cytochrome C and poly-(ADPribose) polymerase (PARP)were measured by Western blotting. Caspase-3 and -9 enzyme activities were measured using specific fluorescence dyes such as Ac-DEVD-AFC and Ac-LEHD-AFC.RESULTS: We found that treatment with SWE induced apoptosis as confirmed by discontinuous DNA fragmentation in cultured human hepatoma HepG2 cells. Our investigation also showed that SWE-induced apoptosis of HepG2 cells were associated with intracellular events including disruption of MMP, increased translocation of cytochrome C from mitochondria to cytosol, activation of caspase-3,and PARP. Pre-treatment of N-acetyl-Asp-Glu-Val-Asp-CHO(Ac-DEVD-CHO), a caspase-3 specific inhibitor, or cydosporin A (CsA), an inhibitor of MMP disruption, completely abolished SWE-induced DNA fragmentation.CONCLUSION: These results suggest that SWE possibly causes mitochondrial damage, leading to cytochrome C release into cytosol and activation of caspases resulting in PARP cleavage and execution of apoptotic cell death in HepG2 cells. These results further suggest that Scorpio may be a valuable agent of therapeutic intervention of human hepatomas.

  18. Automatic Dance Lesson Generation

    Science.gov (United States)

    Yang, Yang; Leung, H.; Yue, Lihua; Deng, LiQun

    2012-01-01

    In this paper, an automatic lesson generation system is presented which is suitable in a learning-by-mimicking scenario where the learning objects can be represented as multiattribute time series data. The dance is used as an example in this paper to illustrate the idea. Given a dance motion sequence as the input, the proposed lesson generation…

  19. Automatic Complexity Analysis

    DEFF Research Database (Denmark)

    Rosendahl, Mads

    1989-01-01

    One way to analyse programs is to to derive expressions for their computational behaviour. A time bound function (or worst-case complexity) gives an upper bound for the computation time as a function of the size of input. We describe a system to derive such time bounds automatically using abstract...

  20. 影像与LiDAR数据信息融合复杂场景下的道路自动提取%Automatic Road Extraction in Complex Scenes Based on Information Fusion from LiDAR Data and Remote Sensing Imagery

    Institute of Scientific and Technical Information of China (English)

    李怡静; 胡翔云; 张剑清; 江万寿; 张永军

    2012-01-01

    Automatic road extraction from remote sensing images in urban area has been a very challenging task due to the complexity of the scene, especially in the occluded or shadowed areas. An integrated method to fuse LiDAR data and high resolution imagery for automatic extraction of road centrelines is proposed. Firstly, theLiDAR point cloud is filtered to get the ground points whose intensity data is used to detect initial road centrelines and key points of the roads. A road model is then built on the intensity and dispersion of the ground points as well as spectral information obtained from the high resolution image. Based on the model, the dynamic programming algorithm is applied to find the optimal road centrelines linking the key points which are selected by evaluation. The experimental results indicate its effectiveness in automatic road extraction in urban and complex scenes.%城区的道路自动提取受场景复杂度的影响一直是极具挑战的任务,尤其是阴影和遮挡较严重地区的道路提取难度较大。结合LiDAR数据和高分辨率遥感影像,提出一种自动道路提取方法。该方法首先对滤波后的点云强度信息获取初始道路中线及道路关键点;将地面点云强度、离散度及高分辨率遥感影像光谱数据多重信息融合建立道路模型,并以优化后的道路关键点作为种子点利用动态规划计算模型最优解,进一步提取道路网。试验表明,该方法在城市复杂场景下的自动提取主要道路是有效的。