WorldWideScience

Sample records for barcode scanning system

  1. System Design Considerations In Bar-Code Laser Scanning

    Science.gov (United States)

    Barkan, Eric; Swartz, Jerome

    1984-08-01

    The unified transfer function approach to the design of laser barcode scanner signal acquisition hardware is considered. The treatment of seemingly disparate system areas such as the optical train, the scanning spot, the electrical filter circuits, the effects of noise, and printing errors is presented using linear systems theory. Such important issues as determination of depth of modulation, filter specification, tolerancing of optical components, and optimi-zation of system performance in the presence of noise are discussed. The concept of effective spot size to allow for impact of optical system and analog processing circuitry upon depth of modulation is introduced. Considerations are limited primarily to Gaussian spot profiles, but also apply to more general cases. Attention is paid to realistic bar-code symbol models and to implications with respect to printing tolerances.

  2. Scanning-time evaluation of Digimarc Barcode

    Science.gov (United States)

    Gerlach, Rebecca; Pinard, Dan; Weaver, Matt; Alattar, Adnan

    2015-03-01

    This paper presents a speed comparison between the use of Digimarc® Barcodes and the Universal Product Code (UPC) for customer checkout at point of sale (POS). The recently introduced Digimarc Barcode promises to increase the speed of scanning packaged goods at POS. When this increase is exploited by workforce optimization systems, the retail industry could potentially save billions of dollars. The Digimarc Barcode is based on Digimarc's watermarking technology, and it is imperceptible, very robust, and does not require any special ink, material, or printing processes. Using an image-based scanner, a checker can quickly scan consumer packaged goods (CPG) embedded with the Digimarc Barcode without the need to reorient the packages with respect to the scanner. Faster scanning of packages saves money and enhances customer satisfaction. It reduces the length of the queues at checkout, reduces the cost of cashier labor, and makes self-checkout more convenient. This paper quantifies the increase in POS scanning rates resulting from the use of the Digimarc Barcode versus the traditional UPC. It explains the testing methodology, describes the experimental setup, and analyzes the obtained results. It concludes that the Digimarc Barcode increases number of items per minute (IPM) scanned at least 50% over traditional UPC.

  3. Speckle revisited: analysis of speckle noise in bar-code scanning systems

    Science.gov (United States)

    Marom, Emanuel; Kresic-Juric, Sasa; Bergstein, Leonard

    2001-06-01

    Laser beams used for bar-code scanning exhibit speckle noise generated by the roughness of the surface on which bar-codes are printed. Statistical properties of a photodetector signal that integrates a time-varying speckle pattern falling on its aperture are analyzed in detail. We derive simple closed form expressions for the auto-correlation function and power spectral density of the detector current for general form scanning beams with arbitrary field distributions. Theoretical calculations are illustrated by numerical simulations.

  4. Research on Barcode Image Binarization in Barcode Positioning System

    Directory of Open Access Journals (Sweden)

    Dongli Li

    2012-09-01

    Full Text Available Aiming at the disadvantages of the traditional positioning technology, barcode positioning system is introduced in this paper. Based on Otsu method, a novel barcode image binarization is put forward by comparing varieties of image binarization methods domestically and abroad. Moreover, we have a systematic research on histogram and binarization mechanism, and also give the calculation of histogram and derive a formula of Otsu method. Finally, the histogram and binarization of one-dimensional barcode image are realized with the specific examples. After experiments for scanned barcode image, the result has demonstrated effectiveness of the method.

  5. Insect Barcode Information System

    OpenAIRE

    Pratheepa, Maria; Jalali, Sushil Kumar; Arokiaraj, Robinson Silvester; Venkatesan, Thiruvengadam; Nagesh, Mandadi; Panda, Madhusmita; Pattar, Sharath

    2014-01-01

    Insect Barcode Information System called as Insect Barcode Informática (IBIn) is an online database resource developed by the National Bureau of Agriculturally Important Insects, Bangalore. This database provides acquisition, storage, analysis and publication of DNA barcode records of agriculturally important insects, for researchers specifically in India and other countries. It bridges a gap in bioinformatics by integrating molecular, morphological and distribution details of agriculturally ...

  6. Insect Barcode Information System

    Science.gov (United States)

    Pratheepa, Maria; Jalali, Sushil Kumar; Arokiaraj, Robinson Silvester; Venkatesan, Thiruvengadam; Nagesh, Mandadi; Panda, Madhusmita; Pattar, Sharath

    2014-01-01

    Insect Barcode Information System called as Insect Barcode Informática (IBIn) is an online database resource developed by the National Bureau of Agriculturally Important Insects, Bangalore. This database provides acquisition, storage, analysis and publication of DNA barcode records of agriculturally important insects, for researchers specifically in India and other countries. It bridges a gap in bioinformatics by integrating molecular, morphological and distribution details of agriculturally important insects. IBIn was developed using PHP/My SQL by using relational database management concept. This database is based on the client– server architecture, where many clients can access data simultaneously. IBIn is freely available on-line and is user-friendly. IBIn allows the registered users to input new information, search and view information related to DNA barcode of agriculturally important insects.This paper provides a current status of insect barcode in India and brief introduction about the database IBIn. Availability http://www.nabg-nbaii.res.in/barcode PMID:24616562

  7. Speckle Noise in Bar-Code Scanning Systems -Power Spectral Density and SNR

    Science.gov (United States)

    Marom, Emanuel; KrěIć-Juri, SǎA.; Bergstein, Leonard

    2003-01-01

    Laser-based flying-spot scanners are strongly affected by speckle that is intrinsic to coherent illumination of diffusing targets. In such systems information is usually extracted by processing the derivative of a photodetector signal that results from collecting over the detector's aperture the scattered light of a laser beam scanning a bar code. Because the scattered light exhibits a time-varying speckle pattern, the signal is corrupted by speckle noise. In this paper we investigate the power spectral density and total noise power of such signals. We also analyze the influence of speckle noise on edge detection and derive estimates for a signal-to-noise ratio when a laser beam scans different sequences of edges. The theory is illustrated by applying the results to Gaussian scanning beams for which we derive closed form expressions.

  8. Hypermarket Competition and the Diffusion of Retail Checkout Barcode Scanning

    OpenAIRE

    Beck, Jonathan; Grajek, Michal; Wey, Christian

    2005-01-01

    This paper presents a set of panel data to study the diffusion of retail checkout barcode scanning in ten European countries over the period 1981-1996. Estimates from a standard diffusion model suggest that countries differ most in the long-run diffusion level of barcode scanning and less in timing or diffusion speed. We present evidence that the emergence of hypermarkets raises competitive intensity and use hypermarket data, among other variables, in a pooled estimation. Results suggest that...

  9. ISBN and QR Barcode Scanning Mobile App for Libraries

    OpenAIRE

    Graham McCarthy; Sally Wilson

    2011-01-01

    This article outlines the development of a mobile application for the Ryerson University Library. The application provides for ISBN barcode scanning that results in a lookup of library copies and services for the book scanned, as well as QR code scanning. Two versions of the application were developed, one for iOS and one for Android. The article includes some details on the free packages used for barcode scanning functionality. Source code for the Ryerson iOS and Android applications are fre...

  10. Usability of a barcode scanning system as a means of data entry on a PDA for self-report health outcome questionnaires: a pilot study in individuals over 60 years of age

    Directory of Open Access Journals (Sweden)

    Jacobs Karen

    2006-12-01

    Full Text Available Abstract Background Throughout the medical and paramedical professions, self-report health status questionnaires are used to gather patient-reported outcome measures. The objective of this pilot study was to evaluate in individuals over 60 years of age the usability of a PDA-based barcode scanning system with a text-to-speech synthesizer to collect data electronically from self-report health outcome questionnaires. Methods Usability of the system was tested on a sample of 24 community-living older adults (7 men, 17 women ranging in age from 63 to 93 years. After receiving a brief demonstration on the use of the barcode scanner, participants were randomly assigned to complete two sets of 16 questions using the bar code wand scanner for one set and a pen for the other. Usability was assessed using directed interviews with a usability questionnaire and performance-based metrics (task times, errors, sources of errors. Results Overall, participants found barcode scanning easy to learn, easy to use, and pleasant. Participants were marginally faster in completing the 16 survey questions when using pen entry (20/24 participants. The mean response time with the barcode scanner was 31 seconds longer than traditional pen entry for a subset of 16 questions (p = 0.001. The responsiveness of the scanning system, expressed as first scan success rate, was less than perfect, with approximately one-third of first scans requiring a rescan to successfully capture the data entry. The responsiveness of the system can be explained by a combination of factors such as the location of the scanning errors, the type of barcode used as an answer field in the paper version, and the optical characteristics of the barcode scanner. Conclusion The results presented in this study offer insights regarding the feasibility, usability and effectiveness of using a barcode scanner with older adults as an electronic data entry method on a PDA. While participants in this study found

  11. Research on Barcode Image Binarization in Barcode Positioning System

    OpenAIRE

    Dongli Li; Weijun Zhang

    2012-01-01

    Aiming at the disadvantages of the traditional positioning technology, barcode positioning system is introduced in this paper. Based on Otsu method, a novel barcode image binarization is put forward by comparing varieties of image binarization methods domestically and abroad. Moreover, we have a systematic research on histogram and binarization mechanism, and also give the calculation of histogram and derive a formula of Otsu method. Finally, the histogram and binarization of one-dimensional ...

  12. ISBN and QR Barcode Scanning Mobile App for Libraries

    Directory of Open Access Journals (Sweden)

    Graham McCarthy

    2011-04-01

    Full Text Available This article outlines the development of a mobile application for the Ryerson University Library. The application provides for ISBN barcode scanning that results in a lookup of library copies and services for the book scanned, as well as QR code scanning. Two versions of the application were developed, one for iOS and one for Android. The article includes some details on the free packages used for barcode scanning functionality. Source code for the Ryerson iOS and Android applications are freely available, and instructions are provided on customizing the Ryerson application for use in other library environments. Some statistics on the number of downloads of the Ryerson mobile app by users are included.

  13. Effects Of Substrate Scattering On Bar-Code Scanning Signals

    Science.gov (United States)

    Barkan, Eric; Sklar, David

    1983-04-01

    When a beam of light strikes a piece of paper or similar substrate, a portion of its energy penetrates into the bulk and, due to multiple scattering, may re-emerge at some distance from the point of entry. We refer to this phenomenon as substrate scattering. In this paper we describe a general model for scattering substrates and, using linear systems theory, we investigate its implications for bar-code scanning. We show that the effects of substrate scattering can be represented as a modified reflectance distribution associated with the original printed reflectance pattern. This effective distribution is shown to be independent of the details of scanning system configuration. We show that under a broad range of conditions substrate scattering will decrease modulation and will cause scanners to overestimate barwidths. A specific diffusion model of the scattering process is developed, providing a family of functions which can be used in empirical studies. We conclude that the scattering distributions will not even be approximately Gaussian. Experimental results are presented which are consistent with this conclusion and inconsistent with a Gaussian model. Further experimental results are presented which show that, for typical substrates, depth of modulation may be decreased by 20 percent or more and perceived bar-width increases will be on the order of one mil.

  14. Usability of a barcode scanning system as a means of data entry on a PDA for self-report health outcome questionnaires: a pilot study in individuals over 60 years of age

    OpenAIRE

    Jacobs Karen; Boissy Patrick; Roy Serge H

    2006-01-01

    Abstract Background Throughout the medical and paramedical professions, self-report health status questionnaires are used to gather patient-reported outcome measures. The objective of this pilot study was to evaluate in individuals over 60 years of age the usability of a PDA-based barcode scanning system with a text-to-speech synthesizer to collect data electronically from self-report health outcome questionnaires. Methods Usability of the system was tested on a sample of 24 community-living ...

  15. Diffraction analysis of beams for barcode scanning

    Science.gov (United States)

    Eastman, Jay M.; Quinn, Anna M.

    1991-02-01

    Laser based bar code scanners utilize large f/# beams to attain a large depth of focus. The intensity cross-section of the laser beam is generally not uniform but is frequently approximated by a Gaussian intensity profile. In the case of laser diodes the beam cross-section is a two dimensional distribution. It is well known that the focusing properties of large f/# Gaussian beams differ from the predictions of ray tracing techniques. Consequently analytic modeling of laser based bar code scanning systems requires techniques based on diffraction rather than on ray tracing in order to obtain agreement between theory and practice. The line spread function of the focused laser beam is generally the parameter of interest due to the one-dimensional nature of the bar code symbol. Some bar code scanners utilize an anamorphic optical system to produce a beam that that maintains an elliptical cross-section over an extended depth of focus. This elliptical beam shape is used to average over voids and other printing defects that occur in real world symbols. Since the scanner must operate over the maximum possible depth of field the beam emergent from the scanner must be analyzed in both its near field and far field regions in order to properly model the performance of the scanner.

  16. A Concealed Barcode Identification System Using Terahertz Time-domain Spectroscopy

    Science.gov (United States)

    Guan, Yu; Yamamoto, Manabu; Kitazawa, Toshiyuki; Tripathi, Saroj R.; Takeya, Kei; Kawase, Kodo

    2015-03-01

    We present a concealed terahertz barcode/chipless tag to achieve remote identification through an obstructing material using terahertz radiation. We show scanned terahertz reflection spectral images of barcodes concealed by a thick obstacle. A concealed and double- side printed terahertz barcode structure is proposed, and we demonstrate that our design has better performance in definition than a single-side printed barcode using terahertz time-domain spectroscopy. This technique combines the benefits of a chipless tag to read encoded information covered by an optically opaque material with low cost and a simple fabrication process. Simulations are also described, along with an explanation of the principle of the terahertz barcode identification system.

  17. 2D Barcode Ticketing System

    OpenAIRE

    Salguero Piñeyro, Alejandro Raul

    2011-01-01

    The aim of this project is to generate a tool for companies who needs to control the attendance to their events. This could be done using an automated system composed by a web server, which will contain the events manager, connected to a database where the attendance data will be stored. The people interested in assisting at the events, will be provided with a unique two-dimensional barcode with which they will be able to authenticate themselves at the entrance of the event. To do this, Andro...

  18. Bar-code automated waste tracking system

    International Nuclear Information System (INIS)

    The Bar-Code Automated Waste Tracking System was designed to be a site-Specific program with a general purpose application for transportability to other facilities. The system is user-friendly, totally automated, and incorporates the use of a drive-up window that is close to the areas dealing in container preparation, delivery, pickup, and disposal. The system features ''stop-and-go'' operation rather than a long, tedious, error-prone manual entry. The system is designed for automation but allows operators to concentrate on proper handling of waste while maintaining manual entry of data as a backup. A large wall plaque filled with bar-code labels is used to input specific details about any movement of waste

  19. Bar-code automated waste tracking system

    Energy Technology Data Exchange (ETDEWEB)

    Hull, T.E.

    1994-10-01

    The Bar-Code Automated Waste Tracking System was designed to be a site-Specific program with a general purpose application for transportability to other facilities. The system is user-friendly, totally automated, and incorporates the use of a drive-up window that is close to the areas dealing in container preparation, delivery, pickup, and disposal. The system features ``stop-and-go`` operation rather than a long, tedious, error-prone manual entry. The system is designed for automation but allows operators to concentrate on proper handling of waste while maintaining manual entry of data as a backup. A large wall plaque filled with bar-code labels is used to input specific details about any movement of waste.

  20. A laboratory information management system for DNA barcoding workflows

    NARCIS (Netherlands)

    Vu, D.; Eberhardt, U.; Szöke, S.; Groenewald, M.; Robert, V.

    2012-01-01

    This paper presents a laboratory information management system for DNA sequences (LIMS) created and based on the needs of a DNA barcoding project at the CBS-KNAW Fungal Biodiversity Centre (Utrecht, the Netherlands). DNA barcoding is a global initiative for species identification through simple DNA

  1. Comparative study of Barcode, QR-code and RFID System

    Directory of Open Access Journals (Sweden)

    Trupti Lotlikar

    2013-09-01

    Full Text Available Wireless sensors are standard measurement tools equipped with transmitters to convert signals from process control instruments into a radio transmission. The radio signal is interpreted by a receiver which then converts the wireless signal to a specific, desired output, such as an analog current or data analysis via computer software. The paper gives a brief on wireless sensors and their types like Barcode, QR code, RFID along with their characteristics and working components. The Barcode is an optical machine-readable representation of data relating to the object to which it is attached. On the other hand the Radio-frequency identification (RFID is the use of a wireless non-contact system that uses radio-frequency electromagnetic fields to transfer data from a tag attached to an object, for the purposes of automatic identification and tracking. Quick response (QR codes are a very convenient way to display a small bit of information that is easily scanned and processed typically by mobile devices allowing physical items to almost become interactive, by providing information that is easily scanned like a website URL. Finally this paper will compare all the three technologies on various grounds like durability, cost, information capacity, read range etc. to determine best out of it.

  2. Barcode Payment System in Trusted Mobile Devices

    Directory of Open Access Journals (Sweden)

    Vibha Kaw Raina

    2012-11-01

    Full Text Available Mobile payment is an application of mobile commerce which facilitates mobile commerce transactions by providing the mobile customer with a convenient means to pay. Many mobile payment methods have been proposed and implemented like user friendly, customer centric, merchant centric where security concerns are highly addressed. This paper proposes a mobile payment model with barcodes for mobile users to improve mobile user experience in mobile payment. Unlike other existing mobile payment systems, the proposed payment solution provides distinct advantages to support buy-and-sale products and services based on 2D Barcodes. The aim of this work is to integrate a model of payment with the financial services, including payment and banking ones, based on two primary capabilities: the use of computational resources of a trusted mobile device and the establishment of a user controlled channel with the customer’s bank. The proposed architecture is characterized bank-centric, since the bank acts consultatively, informatively and protectively for the end user and it offers flexibility, adaptability and continuous extendibility to open technologies.

  3. Fused number representation systems and their barcode applications

    Science.gov (United States)

    Agaian, Sarkis

    2010-01-01

    In this paper we focus on: a) enhancing the performance of existing barcode systems and b) building a barcode system for mobile applications. First we introduce a new concept of generating a parametric number representation system by fusing a number of representation systems that use multiplication, addition, and other operations. Second we show how one can generate a secure, reliable, and high capacity color barcode by using the fused system. The representation, symbols, and colors may be used as encryption keys that can be encoded into barcodes, thus eliminating the direct dependence on cryptographic techniques. To supply an extra layer of security, the fused system also allows one to encrypt given data using different types of encryption methods. In addition, this fused system can be used to improve image processing applications and cryptography.

  4. Integrating bar-code devices with computerized MC and A systems

    International Nuclear Information System (INIS)

    Over the past seven years, Los Alamos National Laboratory developed several generations of computerized nuclear materials control and accountability (MC and A) systems for tracking and reporting the storage, movement, and management of nuclear materials at domestic and international facilities. During the same period, Oak Ridge National Laboratory was involved with automated data acquisition (ADA) equipment, including installation of numerous bar-code scanning stations at various facilities to serve as input devices to computerized systems. Bar-code readers, as well as other ADA devices, reduce input errors, provide faster input, and allow the capture of data in remote areas where workstations do not exist. Los Alamos National Laboratory and Oak Ridge National Laboratory teamed together to implement the integration of bar-code hardware technology with computerized MC and A systems. With the expertise of both sites, the two technologies were successfully merged with little difficulty. Bar-code input is now available with several functions of the MC and A systems: material movements within material balance areas (MBAs), material movements between MBAs, and physical inventory verification. This paper describes the various components required for the integration of these MC and A systems with the installed bar-code reader devices and the future directions for these technologies

  5. Usability of a barcode scanning system as a means of data entry on a PDA for self-report health outcome questionnaires

    DEFF Research Database (Denmark)

    Boissy, Patrice; Jacobs, Karen; Roy, Serge H

    2006-01-01

    with a text-to-speech synthesizer to collect data electronically from self-report health outcome questionnaires. METHODS: Usability of the system was tested on a sample of 24 community-living older adults (7 men, 17 women) ranging in age from 63 to 93 years. After receiving a brief demonstration on the use...

  6. Automatic Identification And Data Collection Via Barcode Laser Scanning.

    Science.gov (United States)

    Jacobeus, Michel

    1986-07-01

    How to earn over 100 million a year by investing 40 million ? No this is not the latest Wall Street "tip" but the costsavings obtained by the U.S. Department of Defense. 2 % savings on annual turnover claim supermarkets ! Millions of Dollars saved report automotive companies ! These are not daydreams, but tangible results measured by users after implemen-ting Automatic Identification and Data Collection systems, based on bar codes. To paraphrase the famous sentence "I think, thus I am", with AI/ADC systems "You knonw, thus you are". Indeed, in today's world, an immediate, accurate and precise information is a vital management need for companies growth and survival. AI/ADC techniques fullfill these objectives by supplying automatically and without any delay nor alteration the right information.

  7. Application bar-code system for solid radioactive waste management

    International Nuclear Information System (INIS)

    Solid radioactive wastes are generated from the post-irradiated fuel examination facility, the irradiated material examination facility, the research reactor, and the laboratories at KAERI. A bar-code system for a solid radioactive waste management of a research organization became necessary while developing the RAWMIS(Radioactive Waste Management Integration System) which it can generate personal history management for efficient management of a waste, documents, all kinds of statistics. This paper introduces an input and output application program design to do to database with data in the results and a stream process of a treatment that analyzed the waste occurrence present situation and data by bar-code system

  8. A laboratory information management system for DNA barcoding workflows.

    Science.gov (United States)

    Vu, Thuy Duong; Eberhardt, Ursula; Szöke, Szániszló; Groenewald, Marizeth; Robert, Vincent

    2012-07-01

    This paper presents a laboratory information management system for DNA sequences (LIMS) created and based on the needs of a DNA barcoding project at the CBS-KNAW Fungal Biodiversity Centre (Utrecht, the Netherlands). DNA barcoding is a global initiative for species identification through simple DNA sequence markers. We aim at generating barcode data for all strains (or specimens) included in the collection (currently ca. 80 k). The LIMS has been developed to better manage large amounts of sequence data and to keep track of the whole experimental procedure. The system has allowed us to classify strains more efficiently as the quality of sequence data has improved, and as a result, up-to-date taxonomic names have been given to strains and more accurate correlation analyses have been carried out. PMID:22344310

  9. A laboratory information management system for DNA barcoding workflows.

    Science.gov (United States)

    Vu, Thuy Duong; Eberhardt, Ursula; Szöke, Szániszló; Groenewald, Marizeth; Robert, Vincent

    2012-07-01

    This paper presents a laboratory information management system for DNA sequences (LIMS) created and based on the needs of a DNA barcoding project at the CBS-KNAW Fungal Biodiversity Centre (Utrecht, the Netherlands). DNA barcoding is a global initiative for species identification through simple DNA sequence markers. We aim at generating barcode data for all strains (or specimens) included in the collection (currently ca. 80 k). The LIMS has been developed to better manage large amounts of sequence data and to keep track of the whole experimental procedure. The system has allowed us to classify strains more efficiently as the quality of sequence data has improved, and as a result, up-to-date taxonomic names have been given to strains and more accurate correlation analyses have been carried out.

  10. Barcode Payment System in Trusted Mobile Devices

    OpenAIRE

    Vibha Kaw Raina

    2012-01-01

    Mobile payment is an application of mobile commerce which facilitates mobile commerce transactions by providing the mobile customer with a convenient means to pay. Many mobile payment methods have been proposed and implemented like user friendly, customer centric, merchant centric where security concerns are highly addressed. This paper proposes a mobile payment model with barcodes for mobile users to improve mobile user experience in mobile payment. Unlike other existing mobile payment syste...

  11. Vision-Based Localization and Scanning of 1D UPC and EAN Barcodes with Relaxed Pitch, Roll, and Yaw Camera Alignment Constraints

    Directory of Open Access Journals (Sweden)

    Vladimir Kulyukin

    2014-09-01

    Full Text Available Two algorithms are presented for vision-based localization of 1D UPC and EAN barcodes with relaxed pitch, roll, and yaw camera alignment constraints. The first algorithm localizes barcodes in images by computing dominant orientations of gradients (DOGs of image segments and grouping smaller segments with similar DOGs into larger connected components. Connected components that pass given morphological criteria are marked as potential barcodes. The second algorithm localizes barcodes by growing edge alignment trees (EATs on binary images with detected edges. EATs of certain sizes mark regions as potential barcodes. The algorithms are implemented in a distributed, cloud-based system. The system’s front end is a smartphone application that runs on Android smartphones with Android 4.2 or higher. The system’s back end is deployed on a five node Linux cluster where images are processed. Both algorithms were evaluated on a corpus of 7,545 images extracted from 506 videos of bags, bottles, boxes, and cans in a supermarket. All videos were recorded with an Android 4.2 Google Galaxy Nexus smartphone. The DOG algorithm was experimentally found to outperform the EAT algorithm and was subsequently coupled to our in-place scanner for 1D UPC and EAN barcodes. The scanner receives from the DOG algorithm the rectangular planar dimensions of a connected component and the component’s dominant gradient orientation angle referred to as the skew angle. The scanner draws several scanlines at that skew angle within the component to recognize the barcode in place without any rotations. The scanner coupled to the localizer was tested on the same corpus of 7,545 images. Laboratory experiments indicate that the system can localize and scan barcodes of any orientation in the yaw plane, of up to 73.28 degrees in the pitch plane, and of up to 55.5 degrees in the roll plane. The videos have been made public for all interested research communities to replicate our findings

  12. Development of barcode system for internal dose monitoring

    International Nuclear Information System (INIS)

    In Tarapur Atomic Power Station unit-3 and 4, which is 540 MWe pressurized heavy water reactor, tritium is produced in primary heat transport system and moderator system. Tritium is a major contributor to the internal dose. Internal dose contributes about 30% of the collective dose. Internal dose monitoring and its control are important to control the collective dose. Estimation of internal dose is done by analysis of bioassay samples of radiation workers. In a month, about 7000 bioassay samples are analysed for the internal dose assessment during normal operation, and about 12000 during the biennial shut down of the reactor. To enhance the sample preparation and counting performance, minimize the entry errors and reduce the processing time, barcode based label generation system was developed for the internal dose monitoring. This paper discusses about the use of barcode system in the internal dose monitoring at TAPS 3 and 4. (author)

  13. Security Issues for 2D Barcodes Ticketing Systems

    Directory of Open Access Journals (Sweden)

    Cristian Toma

    2011-03-01

    Full Text Available The paper presents a solution for endcoding/decoding access to the subway public transportation systems. First part of the paper is dedicated through section one and two to the most used 2D barcodes used in the market – QR and DataMatrix. The sample for DataMatrix is author propietary and the QR sample is from the QR standard [2]. The section three presents MMS and Digital Rights Management topics used for issuing the 2D barcodes tickets. The second part of the paper, starting with section four shows the architecture of Subway Ticketing Systems and the proposed procedure for the ticket issuing. The conclusions identify trends of the security topics in the public transportation systems.

  14. Cellular barcoding tool for clonal analysis in the hematopoietic system.

    Science.gov (United States)

    Gerrits, Alice; Dykstra, Brad; Kalmykowa, Olga J; Klauke, Karin; Verovskaya, Evgenia; Broekhuis, Mathilde J C; de Haan, Gerald; Bystrykh, Leonid V

    2010-04-01

    Clonal analysis is important for many areas of hematopoietic stem cell research, including in vitro cell expansion, gene therapy, and cancer progression and treatment. A common approach to measure clonality of retrovirally transduced cells is to perform integration site analysis using Southern blotting or polymerase chain reaction-based methods. Although these methods are useful in principle, they generally provide a low-resolution, biased, and incomplete assessment of clonality. To overcome those limitations, we labeled retroviral vectors with random sequence tags or "barcodes." On integration, each vector introduces a unique, identifiable, and heritable mark into the host cell genome, allowing the clonal progeny of each cell to be tracked over time. By coupling the barcoding method to a sequencing-based detection system, we could identify major and minor clones in 2 distinct cell culture systems in vitro and in a long-term transplantation setting. In addition, we demonstrate how clonal analysis can be complemented with transgene expression and integration site analysis. This cellular barcoding tool permits a simple, sensitive assessment of clonality and holds great promise for future gene therapy protocols in humans, and any other applications when clonal tracking is important.

  15. A high-density ternary barcode detection system employing a stable fixed-period delay method

    Science.gov (United States)

    Wakaumi, Hiroo

    2011-09-01

    A fixed-period delay method is proposed to increase the detection range and detection stability of a ternary barcode detection system. The system combines an envelope differential detection technique containing nonlinear filtering and a fixed-period delay to detect the barcode over a longer range and at higher scanning speeds while being simple and capable of handling a large amount of information. The system was demonstrated with its miniaturized circuit, and it was established that the detection range of the system for a minimum bar width W = 0.25 mm was 1.8 times that of the conventional count-latch envelope differential technique because of the stable delay achieved by a shift register and the noise suppression by a nonlinear filter. In addition, the system operated at a maximum scanning speed of 8.3 times that of conventional charge-coupled device cameras under the practical detection range for W = 0.3 mm. This system is expected to facilitate the real-time identification of goods on production lines and in automated warehouses.

  16. Scanning micro-mirrors: from bar-code scanning to spectroscopy

    Science.gov (United States)

    Zimmer, F.; Grueger, H.; Heberer, A.; Sandner, T.; Wolter, A.; Schenk, H.

    2005-08-01

    Micro Opto Electro Mechanical Systems (MOEMS) reach more and more importance in technical applications. They are smaller than conventional devices, less expensive when fabricated in higher numbers and offer new options concerning reliability and measuring methods. Resonant movable micro-mirrors produced as single crystalline chips with CMOS-compatible technologies provide a broad field of applications. In this paper, we will present different micro-mirrors, which are developed by the Fraunhofer IPMS in Dresden, Germany. They have different layouts and are thus suitable for several applications. Fabricated 1D-mirrors with mechanical angles of +/- 16° can be used for laser deflection in bar-code-scanners, 2D-mirrors with different sizes and frequencies are suitable for imaging, displaying etc. Furthermore processes to apply diffractive structures on the micro-mirror surface were developed, showing an increased efficiency in the first diffraction order. Thus a micro-spectrometer has been built up, working in a wavelength range of 900-2500 nm. Due to the Czerny-Turner set-up, only one fast single InGaAs-photodiode is required.

  17. Nurses' Attitudes Toward the Use of the Bar-coding Medication Administration System

    NARCIS (Netherlands)

    S.D. Marini; A. Hasman; H.A.S. Huijer; H. Dimassi

    2010-01-01

    This study determines nurses' attitudes toward bar-coding medication administration system use. Some of the factors underlying the successful use of bar-coding medication administration systems that are viewed as a connotative indicator of users' attitudes were used to gather data that describe the

  18. Barcode Server: A Visualization-Based Genome Analysis System

    Science.gov (United States)

    Mao, Fenglou; Olman, Victor; Wang, Yan; Xu, Ying

    2013-01-01

    We have previously developed a computational method for representing a genome as a barcode image, which makes various genomic features visually apparent. We have demonstrated that this visual capability has made some challenging genome analysis problems relatively easy to solve. We have applied this capability to a number of challenging problems, including (a) identification of horizontally transferred genes, (b) identification of genomic islands with special properties and (c) binning of metagenomic sequences, and achieved highly encouraging results. These application results inspired us to develop this barcode-based genome analysis server for public service, which supports the following capabilities: (a) calculation of the k-mer based barcode image for a provided DNA sequence; (b) detection of sequence fragments in a given genome with distinct barcodes from those of the majority of the genome, (c) clustering of provided DNA sequences into groups having similar barcodes; and (d) homology-based search using Blast against a genome database for any selected genomic regions deemed to have interesting barcodes. The barcode server provides a job management capability, allowing processing of a large number of analysis jobs for barcode-based comparative genome analyses. The barcode server is accessible at http://csbl1.bmb.uga.edu/Barcode. PMID:23457606

  19. Barcode server: a visualization-based genome analysis system.

    Directory of Open Access Journals (Sweden)

    Fenglou Mao

    Full Text Available We have previously developed a computational method for representing a genome as a barcode image, which makes various genomic features visually apparent. We have demonstrated that this visual capability has made some challenging genome analysis problems relatively easy to solve. We have applied this capability to a number of challenging problems, including (a identification of horizontally transferred genes, (b identification of genomic islands with special properties and (c binning of metagenomic sequences, and achieved highly encouraging results. These application results inspired us to develop this barcode-based genome analysis server for public service, which supports the following capabilities: (a calculation of the k-mer based barcode image for a provided DNA sequence; (b detection of sequence fragments in a given genome with distinct barcodes from those of the majority of the genome, (c clustering of provided DNA sequences into groups having similar barcodes; and (d homology-based search using Blast against a genome database for any selected genomic regions deemed to have interesting barcodes. The barcode server provides a job management capability, allowing processing of a large number of analysis jobs for barcode-based comparative genome analyses. The barcode server is accessible at http://csbl1.bmb.uga.edu/Barcode.

  20. Barcode server: a visualization-based genome analysis system.

    Science.gov (United States)

    Mao, Fenglou; Olman, Victor; Wang, Yan; Xu, Ying

    2013-01-01

    We have previously developed a computational method for representing a genome as a barcode image, which makes various genomic features visually apparent. We have demonstrated that this visual capability has made some challenging genome analysis problems relatively easy to solve. We have applied this capability to a number of challenging problems, including (a) identification of horizontally transferred genes, (b) identification of genomic islands with special properties and (c) binning of metagenomic sequences, and achieved highly encouraging results. These application results inspired us to develop this barcode-based genome analysis server for public service, which supports the following capabilities: (a) calculation of the k-mer based barcode image for a provided DNA sequence; (b) detection of sequence fragments in a given genome with distinct barcodes from those of the majority of the genome, (c) clustering of provided DNA sequences into groups having similar barcodes; and (d) homology-based search using Blast against a genome database for any selected genomic regions deemed to have interesting barcodes. The barcode server provides a job management capability, allowing processing of a large number of analysis jobs for barcode-based comparative genome analyses. The barcode server is accessible at http://csbl1.bmb.uga.edu/Barcode. PMID:23457606

  1. Barcode based localization system in indoor environment

    OpenAIRE

    Ľubica Ilkovičová; Ján Erdélyi; Alojz Kopáčik

    2014-01-01

    Nowadays, in the era of intelligent buildings, there is a need to create indoornavigation systems, what is steadily a challenge. QR (Quick Response) codesprovide accurate localization also in indoor environment, where other navigationtechniques (e.g. GPS) are not available. The paper deals with the issues of posi-tioning using QR codes, solved at the Department of Surveying, Faculty of CivilEngineering SUT in Bratislava. Operating principle of QR codes, description ofthe application for posit...

  2. A bar-code reader for an alpha-beta automatic counting system - FAG

    International Nuclear Information System (INIS)

    A bar-code laser system for sample number reading was integrated into the FAG Alpha-Beta automatic counting system. The sample identification by means of an attached bar-code label enables unmistakable and reliable attribution of results to the counted sample. Installation of the bar-code reader system required several modifications: Mechanical changes in the automatic sample changer, design and production of new sample holders, modification of the sample planchettes, changes in the electronic system, update of the operating software of the system (authors)

  3. Barcode based localization system in indoor environment

    Directory of Open Access Journals (Sweden)

    Ľubica Ilkovičová

    2014-12-01

    Full Text Available Nowadays, in the era of intelligent buildings, there is a need to create indoornavigation systems, what is steadily a challenge. QR (Quick Response codesprovide accurate localization also in indoor environment, where other navigationtechniques (e.g. GPS are not available. The paper deals with the issues of posi-tioning using QR codes, solved at the Department of Surveying, Faculty of CivilEngineering SUT in Bratislava. Operating principle of QR codes, description ofthe application for positioning in indoor environment based on OS Android forsmartphones are described.

  4. Unicolor woven barcode; Unicolor nuno barcode

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2000-03-01

    Development was made on a woven barcode system of single and inconspicuous color of thermal light emission infrared ray detecting system. This is a new barcode system to detect characteristic infrared ray of 4.5 {mu}m from polyacrylonitrile fiber constituting the barcode when it is heated to 70 degrees C. Codes can normally be read in 0.7 second. Differing from transparent barcode made with fluorescent color, the new barcode can be made into a thread, which resulted in realizing a woven barcode. This woven barcode could be applied in different and new ways utilizing its inconspicuousness, in addition to applicability to simplification of control in uniform rental and linen supply operations subject to repeated washing. (translated by NEDO)

  5. High-speed two-dimensional bar-code detection system with time-sharing laser light emission method

    Science.gov (United States)

    Wakaumi, Hiroo; Nagasawa, Chikao

    2000-12-01

    A novel twodimensional bar-code detection system with time-sharing light emission laser diodes is proposed. A bias current allowing the laser diode to improve the light output rise time is optimized to slightly below the threshold of the diode, so that channel cross-talk among three-layer bar-code signals caused by the bias light can be kept small and a high-speed pulse modulation drive operation can be achieved. A prototype system for a three-layer bar code has achieved an effective scanning speed two and nine tenths times that of conventional scanners. It is estimated from the detection range that the number of time-sharing light emission laser diodes can be increased to at least four, when the current detection amplifier with a bandwidth of 6.4 MHz is used.

  6. Mobile documentation: optimizing technology to do more with less. How the University of Missouri Health System adapted its barcode-scanning system for mobile bedside documentation to enhance the quality and safety of patient care.

    Science.gov (United States)

    Prestigiacomo, Jennifer

    2012-12-01

    When the University of Missouri Health System sought to optimize its bedside documentation work-flows, it chose to enhance its current medication administration devices to allow mobile point-of-care documentation, an innovation that has led to a dramatic advance in speed to documentation of patient data, ultimately improving patient care.

  7. Comparative study of Barcode, QR-code and RFID System

    OpenAIRE

    Trupti Lotlikar; Rohan Kankapurkar; Anand Parekar; Akshay Mohite

    2013-01-01

    Wireless sensors are standard measurement tools equipped with transmitters to convert signals from process control instruments into a radio transmission. The radio signal is interpreted by a receiver which then converts the wireless signal to a specific, desired output, such as an analog current or data analysis via computer software. The paper gives a brief on wireless sensors and their types like Barcode, QR code, RFID along with their characteristics and working components. The Barcode is ...

  8. Genetic patterns in European geometrid moths revealed by the Barcode Index Number (BIN system.

    Directory of Open Access Journals (Sweden)

    Axel Hausmann

    Full Text Available BACKGROUND: The geometrid moths of Europe are one of the best investigated insect groups in traditional taxonomy making them an ideal model group to test the accuracy of the Barcode Index Number (BIN system of BOLD (Barcode of Life Datasystems, a method that supports automated, rapid species delineation and identification. METHODOLOGY/PRINCIPAL FINDINGS: This study provides a DNA barcode library for 219 of the 249 European geometrid moth species (88% in five selected subfamilies. The data set includes COI sequences for 2130 specimens. Most species (93% were found to possess diagnostic barcode sequences at the European level while only three species pairs (3% were genetically indistinguishable in areas of sympatry. As a consequence, 97% of the European species we examined were unequivocally discriminated by barcodes within their natural areas of distribution. We found a 1:1 correspondence between BINs and traditionally recognized species for 67% of these species. Another 17% of the species (15 pairs, three triads shared BINs, while specimens from the remaining species (18% were divided among two or more BINs. Five of these species are mixtures, both sharing and splitting BINs. For 82% of the species with two or more BINs, the genetic splits involved allopatric populations, many of which have previously been hypothesized to represent distinct species or subspecies. CONCLUSIONS/SIGNIFICANCE: This study confirms the effectiveness of DNA barcoding as a tool for species identification and illustrates the potential of the BIN system to characterize formal genetic units independently of an existing classification. This suggests the system can be used to efficiently assess the biodiversity of large, poorly known assemblages of organisms. For the moths examined in this study, cases of discordance between traditionally recognized species and BINs arose from several causes including overlooked species, synonymy, and cases where DNA barcodes revealed

  9. Application of Evolutionary Encryption 2D Barcode Generation Technology in Agricultural Product Quality and Safety Traceability System

    Institute of Scientific and Technical Information of China (English)

    Xiaojun; ZHONG; Zhijie; LAI; Yan; CHEN; Jianxin; QIAN; Xiaocong; HONG; Caiyi; LI

    2014-01-01

    Two-dimensional(2D) barcode technology is an electronic tagging technology based on combination of computer and optical technology. It is an important way of information collection and input. 2D barcode technology has been widely used in various fields of logistics,production automation,and e-commerce,but it also has brought about a series of safety problems. Based on evolutionary encryption technology,this paper improved algorithm of traditional 2D barcode generation,to improve forgery- proof performance of 2D barcode. This algorithm is applied to agricultural products quality and safety traceability system and the results show that it is effective.

  10. Pitfalls of establishing DNA barcoding systems in protists: the cryptophyceae as a test case.

    Directory of Open Access Journals (Sweden)

    Kerstin Hoef-Emden

    Full Text Available A DNA barcode is a preferrably short and highly variable region of DNA supposed to facilitate a rapid identification of species. In many protistan lineages, a lack of species-specific morphological characters hampers an identification of species by light or electron microscopy, and difficulties to perform mating experiments in laboratory cultures also do not allow for an identification of biological species. Thus, testing candidate barcode markers as well as establishment of accurately working species identification systems are more challenging than in multicellular organisms. In cryptic species complexes the performance of a potential barcode marker can not be monitored using morphological characters as a feedback, but an inappropriate choice of DNA region may result in artifactual species trees for several reasons. Therefore a priori knowledge of the systematics of a group is required. In addition to identification of known species, methods for an automatic delimitation of species with DNA barcodes have been proposed. The Cryptophyceae provide a mixture of systematically well characterized as well as badly characterized groups and are used in this study to test the suitability of some of the methods for protists. As species identification method the performance of blast in searches against badly to well-sampled reference databases has been tested with COI-5P and 5'-partial LSU rDNA (domains A to D of the nuclear LSU rRNA gene. In addition the performance of two different methods for automatic species delimitation, fixed thresholds of genetic divergence and the general mixed Yule-coalescent model (GMYC, have been examined. The study demonstrates some pitfalls of barcoding methods that have to be taken care of. Also a best-practice approach towards establishing a DNA barcode system in protists is proposed.

  11. Developing an Environmental Scanning System.

    Science.gov (United States)

    Morrison, James L.

    A step-by-step approach is provided for developing an environmental scanning system for colleges and universities to assist them in planning for the future. The objectives of such a system are to detect social, scientific, economic, technical, and political interactions important to the organization; define potential threats and opportunities from…

  12. Scanning Terahertz Heterodyne Imaging Systems

    Science.gov (United States)

    Siegel, Peter; Dengler, Robert

    2007-01-01

    Scanning terahertz heterodyne imaging systems are now at an early stage of development. In a basic scanning terahertz heterodyne imaging system, (see Figure 1) two far-infrared lasers generate beams denoted the local-oscillator (LO) and signal that differ in frequency by an amount, denoted the intermediate frequency (IF), chosen to suit the application. The LO beam is sent directly to a mixer as one of two inputs. The signal beam is focused to a spot on or in the specimen. After transmission through or reflection from the specimen, the beams are focused to a spot on a terahertz mixer, which extracts the IF outputs. The specimen is mounted on a translation stage, by means of which the focal spot is scanned across the specimen to build up an image.

  13. Scan mirrors relay for high resolution laser scanning systems

    Science.gov (United States)

    Kessler, David

    2014-09-01

    Two dimensional beam deflection is often required in medical laser scanning systems such as OCT or confocal microscopy. Commonly two linear galvo mirrors are used for performance in terms of their large apertures and scan angles. The galvo mirrors are placed at the vicinity of entrance pupil of the scan lens with a "displacement distance" separating them. This distance limits the scan fields and/or reduces the effective aperture of the scan lens. Another option is to use a beam or pupil relay, and image one galvo mirror onto the other. However, beam (or pupil) relays are notoriously complicated, expensive and can add significant aberrations. This paper discusses a simple, all reflective, diffraction limited, color corrected, beam relay, capable of large scan angles and large deflecting mirrors. The design is based on a unique combination of an Offner configuration with a Schmidt aspheric corrector. The design is highly corrected up to large scan mirrors and large scan angles down to milliwaves of aberrations. It allows significantly larger scan field and or scan lenses with higher numerical aperture as compared with scanners using galvos separated by the displacement distance. While this relay is of exceptionally high performance, it has one element located where the beam is focused which may present a problem for high power lasers. Thus modifications of the above design are introduced where the beam is focused in mid air thus making it usable for high power systems such including laser marking and fabrication systems.

  14. Genetic barcodes

    Science.gov (United States)

    Weier, Heinz -Ulrich G

    2015-08-04

    Herein are described multicolor FISH probe sets termed "genetic barcodes" targeting several cancer or disease-related loci to assess gene rearrangements and copy number changes in tumor cells. Two, three or more different fluorophores are used to detect the genetic barcode sections thus permitting unique labeling and multilocus analysis in individual cell nuclei. Gene specific barcodes can be generated and combined to provide both numerical and structural genetic information for these and other pertinent disease associated genes.

  15. The optical system design and application of micro 2D barcode

    Science.gov (United States)

    Zhu, Yi-jia; Li, Liang-liang; Qian, Cheng; Liang, Zhong-cheng

    2010-11-01

    We show an optical system of micro visual tag which is based on the principle of microscope and the property of QR Code. Unlike current optical tag, such as barcodes, must be read within a short rang and occupy valuable physical space on products, the new tags can be shrunk to several millimeters and captured from a distance of over 0.5 meters. We design the transmitter according to the parameters of camera lens. We also take the detection range and apertures into account, meanwhile conduct simulations and experiments. The result shows that: the tag can be captured from a long distance, and the amplified image is able to accurately be decoded.

  16. Developing Mobile BIM/2D Barcode-Based Automated Facility Management System

    Directory of Open Access Journals (Sweden)

    Yu-Cheng Lin

    2014-01-01

    Full Text Available Facility management (FM has become an important topic in research on the operation and maintenance phase. Managing the work of FM effectively is extremely difficult owing to the variety of environments. One of the difficulties is the performance of two-dimensional (2D graphics when depicting facilities. Building information modeling (BIM uses precise geometry and relevant data to support the facilities depicted in three-dimensional (3D object-oriented computer-aided design (CAD. This paper proposes a new and practical methodology with application to FM that uses an integrated 2D barcode and the BIM approach. Using 2D barcode and BIM technologies, this study proposes a mobile automated BIM-based facility management (BIMFM system for FM staff in the operation and maintenance phase. The mobile automated BIMFM system is then applied in a selected case study of a commercial building project in Taiwan to verify the proposed methodology and demonstrate its effectiveness in FM practice. The combined results demonstrate that a BIMFM-like system can be an effective mobile automated FM tool. The advantage of the mobile automated BIMFM system lies not only in improving FM work efficiency for the FM staff but also in facilitating FM updates and transfers in the BIM environment.

  17. Use of bar-code technology in MC and A system

    International Nuclear Information System (INIS)

    Full text: Significant problem during the treatment of nuclear materials is the usage of reliable, rapid, integrate automated systems of nuclear material control and account to reduce the dose loading of personnel. One of the directions to solve the indicated problems is the usage of bar-code technology. Such integrated system should include protection of materials, measuring of materials, and record of materials and drawing up of an inventory list. It is especially important for the enterprises, in which the enriched uranium and other nuclear materials, under IAEA warranties, are utilized. According to US assistance program in the field of MC and A, NSC KIPT has been received indispensable equipment and software, including equipment of nondestructive analysis and automated inventory material accounting system (AIMAS), which was intended for modernizing of nuclear material account system in NSC KIPT. The purpose of operations was estimation of generalized procedures on both MC and A and nondestructive analysis, and updating them so that they might obey the specific conditions of the Enterprise and demands of the Ukraine Regulatory Administration. In NSC KIPT, which is the largest nuclear and physics research center in Ukraine, the measures on enactment of bar-code technology for nuclear materials control and account with the usage of equipment and software of US leading firms (Intermec, Prodigy Max, Tharo Systems, Inc) have been conducting since 1999. During the introduction of this technology, the software on nuclear material control and account (AIMAS data base) has been installed on NSC KIPT computers. The structure of the NSC KIPT's facility has been determined according to demands of the State and IAEA demands. The items of information on the structure of the Facility, and data, which was verified and prepared for input, on nuclear material for each key measuring point of inventory quantity of the material have been set into nuclear material control and

  18. An Integrated RFID and Barcode Tagged Item Inventory System for Deployment at New Brunswick Laboratory

    Energy Technology Data Exchange (ETDEWEB)

    Younkin, James R [ORNL; Kuhn, Michael J [ORNL; Gradle, Colleen [New Brunswick Laboratory, Argonne, IL; Preston, Lynne [U.S. Department of Energy, Office of Health, Safety and Security; Thomas, Brigham B. [ORNL; Laymance, Leesa K [ORNL; Kuziel, Ron [DOE SC - Chicago Office

    2012-01-01

    New Brunswick Laboratory (NBL) has a numerous inventory containing thousands of plutonium and uranium certified reference materials. The current manual inventory process is well established but is a lengthy process which requires significant oversight and double checking to ensure correctness. Oak Ridge National Laboratory has worked with NBL to develop and deploy a new inventory system which utilizes handheld computers with barcode scanners and radio frequency identification (RFID) readers termed the Tagged Item Inventory System (TIIS). Certified reference materials are identified by labels which incorporate RFID tags and barcodes. The label printing process and RFID tag association process are integrated into the main desktop software application. Software on the handheld computers syncs with software on designated desktop machines and the NBL inventory database to provide a seamless inventory process. This process includes: 1) identifying items to be inventoried, 2) downloading the current inventory information to the handheld computer, 3) using the handheld to read item and location labels, and 4) syncing the handheld computer with a designated desktop machine to analyze the results, print reports, etc. The security of this inventory software has been a major concern. Designated roles linked to authenticated logins are used to control access to the desktop software while password protection and badge verification are used to control access to the handheld computers. The overall system design and deployment at NBL will be presented. The performance of the system will also be discussed with respect to a small piece of the overall inventory. Future work includes performing a full inventory at NBL with the Tagged Item Inventory System and comparing performance, cost, and radiation exposures to the current manual inventory process.

  19. QR Codes in the Library: "It's Not Your Mother's Barcode!"

    Science.gov (United States)

    Dobbs, Cheri

    2011-01-01

    Barcode scanning has become more than just fun. Now libraries and businesses are leveraging barcode technology as an innovative tool to market their products and ideas. Developed and popularized in Japan, these Quick Response (QR) or two-dimensional barcodes allow marketers to provide interactive content in an otherwise static environment. In this…

  20. A DNA-based registry for all animal species: the barcode index number (BIN system.

    Directory of Open Access Journals (Sweden)

    Sujeevan Ratnasingham

    Full Text Available Because many animal species are undescribed, and because the identification of known species is often difficult, interim taxonomic nomenclature has often been used in biodiversity analysis. By assigning individuals to presumptive species, called operational taxonomic units (OTUs, these systems speed investigations into the patterning of biodiversity and enable studies that would otherwise be impossible. Although OTUs have conventionally been separated through their morphological divergence, DNA-based delineations are not only feasible, but have important advantages. OTU designation can be automated, data can be readily archived, and results can be easily compared among investigations. This study exploits these attributes to develop a persistent, species-level taxonomic registry for the animal kingdom based on the analysis of patterns of nucleotide variation in the barcode region of the cytochrome c oxidase I (COI gene. It begins by examining the correspondence between groups of specimens identified to a species through prior taxonomic work and those inferred from the analysis of COI sequence variation using one new (RESL and four established (ABGD, CROP, GMYC, jMOTU algorithms. It subsequently describes the implementation, and structural attributes of the Barcode Index Number (BIN system. Aside from a pragmatic role in biodiversity assessments, BINs will aid revisionary taxonomy by flagging possible cases of synonymy, and by collating geographical information, descriptive metadata, and images for specimens that are likely to belong to the same species, even if it is undescribed. More than 274,000 BIN web pages are now available, creating a biodiversity resource that is positioned for rapid growth.

  1. Barcode uses and abuses

    Energy Technology Data Exchange (ETDEWEB)

    KEENEN,MARTHA JANE; NUSBAUM,ANNA W.

    2000-05-18

    Barcodes are something that everybody sees every day; so common as to be taken for granted and normally unnoticed. Readable, no one reads them. They are used to allow machines to identify a wide variety of non-electronic, real life objects. Barcode is one of the earliest types of what is now called ``Automatic Identification and Data Capture'' (AIDC), meaning ``data was transmitted into whatever system by something other than typing or hand-writing.'' There are 18 technologies, broken down into six categories--biometrics, electromagnetic, magnetic, optical, Smart Cards, Touch--included in the AIDC concept. Many are used jointly with or as adjuncts to a basic barcode system of some type. All are based on assignment of a unique identifier to the object, usually a number. The uniqueness presumption makes barcode systems very applicable and appropriate to the nuclear information management venue as they inherently comply with the Nuclear Quality Assurance (NQA-1) requirements. Barcode systems belong to the optical category of AIDC. It is very old in usage as these technologies go, having first been patented in 1949. It astonished me, in researching this paper, to find that there are over 250 types of barcode (symbologies), each with its own specialized attributes, though only a few dozen are in active use. The initial uses were in the early 1950s and diversity of use is ever increasing as people find new ways to make this versatile old technology work. To what else could it be applied, in the future? This paper attempts to answer this.

  2. Development of a DNA barcoding system for seagrasses: successful but not simple.

    Directory of Open Access Journals (Sweden)

    Christina Lucas

    Full Text Available Seagrasses, a unique group of submerged flowering plants, profoundly influence the physical, chemical and biological environments of coastal waters through their high primary productivity and nutrient recycling ability. They provide habitat for aquatic life, alter water flow, stabilize the ground and mitigate the impact of nutrient pollution. at the coast region. Although on a global scale seagrasses represent less than 0.1% of the angiosperm taxa, the taxonomical ambiguity in delineating seagrass species is high. Thus, the taxonomy of several genera is unsolved. While seagrasses are capable of performing both, sexual and asexual reproduction, vegetative reproduction is common and sexual progenies are always short lived and epimeral in nature. This makes species differentiation often difficult, especially for non-taxonomists since the flower as a distinct morphological trait is missing. Our goal is to develop a DNA barcoding system assisting also non-taxonomists to identify regional seagrass species. The results will be corroborated by publicly available sequence data. The main focus is on the 14 described seagrass species of India, supplemented with seagrasses from temperate regions. According to the recommendations of the Consortium for the Barcoding of Life (CBOL rbcL and matK were used in this study. After optimization of the DNA extraction method from preserved seagrass material, the respective sequences were amplified from all species analyzed. Tree- and character-based approaches demonstrate that the rbcL sequence fragment is capable of resolving up to family and genus level. Only matK sequences were reliable in resolving species and partially the ecotype level. Additionally, a plastidic gene spacer was included in the analysis to confirm the identification level. Although the analysis of these three loci solved several nodes, a few complexes remained unsolved, even when constructing a combined tree for all three loci. Our approaches

  3. 基于CC2430的无线条码数据采集器的设计%Design of wireless barcode data gathering system based on CC2430

    Institute of Scientific and Technical Information of China (English)

    齐华; 王秋娟; 刘军

    2011-01-01

    介绍了一种利用CC2430实现条码数据无线传输的数据采集系统.该系统利用嵌入式技术、无线通信技术、条码识别技术,以微处理器MCF5249、ZigBee无线传输模块、条码扫描引擎EM3000为核心,解决了以往仓库管理中手工录入信息效率低下的问题,实现了对信息的自动采集、实时传输及分析管理,并具有一体性、机动性、体积小的特点.%This paper introduces a wireless barcode data gathering system which uses CC2430 chip to transmit the barcode information. Design of the system is based on embedded technology, wireless communication technology and barcode recognition technology. The system mainly consists of micro processer unit MCF5249, ZigBee modules and 1D/2D CMOS scan engine EM3000.The traditional low efficiency methods of warehouse management are changed by the system. Information can be recognized,gathered and real-time transmitted by the system. The system is characterized by integration, mobility and small size.

  4. Use of bar-code technology in MC and A system

    International Nuclear Information System (INIS)

    Full text: Significant problem during the treatment with nuclear materials is the usage of reliable, rapid, integrant automated systems of nuclear material control and account. Thus the dose loading of attending technical personnel is essentially reduced. One of the directions of the solution of the indicated problems is the usage of bar-code technology. Such integrated system should include protection of materials, measuring of materials, and record of materials and drawing up of an inventory list. Especially it is important for the enterprises, on which the enriched uranium and other nuclear materials, which are under IAEA warranties, are utilized. According to US assistance program in the field of MC and A, NSC KIPT has been received indispensable equipment and software, including equipment of nondestructive analysis and automated inventory material accounting system (AIMAS), which was intended for modernizing of nuclear material account system in NSC KIPT. The purpose of operations was estimation of generalized procedures on both MC and A and nondestructive analysis, and updating them so that they might obey the specific conditions of the Enterprise and demands of the Ukraine Regulatory Administration. In NSC KIPT, which is the largest nuclear and physics research center in Ukraine, the measures on enactment of bar-code technology for nuclear materials control and account with the usage of equipment and software of US leading firms (Intermec, Prodigy Max, Tharo Systems, Inc) have been conducting since 1999. During the introduction of this technology, it has been installed the software on nuclear material control and account (AIMAS data base), which was intended for this activities, on NSC KIPT computers. The structure of the NSC KIPT's facility has been determined according to demands of the State and IAEA demands. The key measuring points of inventory quantity has been determined in nuclear material balance zone and the concrete computers, on which is kept

  5. Challenges implementing bar-coded medication administration in the emergency room in comparison to medical surgical units.

    Science.gov (United States)

    Glover, Nancy

    2013-03-01

    Bar-coded medication administration has been successfully implemented and utilized to decrease medication errors at a number of hospitals in recent years. The purpose of this article was to discuss the varying success in utilization of bar-coded medication administration on medical-surgical units and in the emergency department. Utilization reports were analyzed to better understand the challenges between the units. Many factors negatively impacted utilization in the emergency department, including the inability to use bar-coded medication administration for verbal orders or to document medications distributed by the prescribing providers, unique aspects of emergency department nursing workflow, additional steps to chart when using bar-coded medication administration, and alert fatigue. Hardware problems affected all users. Bar-coded medication administration in its current form is more suitable for use on medical-surgical floors than in the emergency department. New solutions should be developed for bar-coded medication administration in the emergency department, keeping in mind requirements to chart medications when there is no order in the system, document medications distributed by prescribing providers, adapt to unpredictable nursing workflow, minimize steps to chart with bar-coded medication administration, limit alerts to those that are clinically meaningful, and choose reliable hardware with adequate bar-code scanning capability. PMID:23321481

  6. Establishing and evaluating bar-code technology in blood sampling system: a model based on human centered human-centered design method

    OpenAIRE

    Chou, Shin-Shang; Yan, Hsiu-Fang; Huang, Hsiu-Ya; Tseng, Kuan-Jui; Kuo, Shu-Chen

    2012-01-01

    This study intended to use a human-centered design study method to develop a bar-code technology in blood sampling process. By using the multilevel analysis to gather the information, the bar-code technology has been constructed to identify the patient’s identification, simplify the work process, and prevent medical error rates. A Technology Acceptance Model questionnaire was developed to assess the effectiveness of system and the data of patient’s identification and sample errors were collec...

  7. Camera Systems Rapidly Scan Large Structures

    Science.gov (United States)

    2013-01-01

    Needing a method to quickly scan large structures like an aircraft wing, Langley Research Center developed the line scanning thermography (LST) system. LST works in tandem with a moving infrared camera to capture how a material responds to changes in temperature. Princeton Junction, New Jersey-based MISTRAS Group Inc. now licenses the technology and uses it in power stations and industrial plants.

  8. Noncontact dimensional measurement system using holographic scanning

    Science.gov (United States)

    Sagan, Stephen F.; Rosso, Robert S.; Rowe, David M.

    1997-07-01

    Holographic scanning systems have been used for years in point-of-sale bar code scanners and other low resolution applications. These simple scanning systems could not successfully provide the accuracy and precision required to measure, inspect and control the production of today's high tech optical fibers, medical extrusions and electrical cables. A new class of instruments for the precision measurement of industrial processes has been created by the development of systems with a unique combination of holographic optical elements that can compensate for the wavelength drift in laser diodes, the application of proprietary post-processing algorithms, and the advancements in replication methods to fabricate low cost holographic scanning discs. These systems have improved upon the performance of traditional polygon mirror scanners. This paper presents the optical configuration and design features that have been incorporated into a holographic scanning inspection system that provides higher productivity, increased product quality and lower production costs for many manufacturers.

  9. Scanning tunneling microscope assembly, reactor, and system

    Science.gov (United States)

    Tao, Feng; Salmeron, Miquel; Somorjai, Gabor A

    2014-11-18

    An embodiment of a scanning tunneling microscope (STM) reactor includes a pressure vessel, an STM assembly, and three spring coupling objects. The pressure vessel includes a sealable port, an interior, and an exterior. An embodiment of an STM system includes a vacuum chamber, an STM reactor, and three springs. The three springs couple the STM reactor to the vacuum chamber and are operable to suspend the scanning tunneling microscope reactor within the interior of the vacuum chamber during operation of the STM reactor. An embodiment of an STM assembly includes a coarse displacement arrangement, a piezoelectric fine displacement scanning tube coupled to the coarse displacement arrangement, and a receiver. The piezoelectric fine displacement scanning tube is coupled to the coarse displacement arrangement. The receiver is coupled to the piezoelectric scanning tube and is operable to receive a tip holder, and the tip holder is operable to receive a tip.

  10. Choosing and Using a Plant DNA Barcode

    OpenAIRE

    Hollingsworth, Peter M.; Graham, Sean W.; Little, Damon P.

    2011-01-01

    The main aim of DNA barcoding is to establish a shared community resource of DNA sequences that can be used for organismal identification and taxonomic clarification. This approach was successfully pioneered in animals using a portion of the cytochrome oxidase 1 (CO1) mitochondrial gene. In plants, establishing a standardized DNA barcoding system has been more challenging. In this paper, we review the process of selecting and refining a plant barcode; evaluate the factors which influence the ...

  11. Barcoding poplars (Populus L. from western China.

    Directory of Open Access Journals (Sweden)

    Jianju Feng

    Full Text Available BACKGROUND: Populus is an ecologically and economically important genus of trees, but distinguishing between wild species is relatively difficult due to extensive interspecific hybridization and introgression, and the high level of intraspecific morphological variation. The DNA barcoding approach is a potential solution to this problem. METHODOLOGY/PRINCIPAL FINDINGS: Here, we tested the discrimination power of five chloroplast barcodes and one nuclear barcode (ITS among 95 trees that represent 21 Populus species from western China. Among all single barcode candidates, the discrimination power is highest for the nuclear ITS, progressively lower for chloroplast barcodes matK (M, trnG-psbK (G and psbK-psbI (P, and trnH-psbA (H and rbcL (R; the discrimination efficiency of the nuclear ITS (I is also higher than any two-, three-, or even the five-locus combination of chloroplast barcodes. Among the five combinations of a single chloroplast barcode plus the nuclear ITS, H+I and P+I differentiated the highest and lowest portion of species, respectively. The highest discrimination rate for the barcodes or barcode combinations examined here is 55.0% (H+I, and usually discrimination failures occurred among species from sympatric or parapatric areas. CONCLUSIONS/SIGNIFICANCE: In this case study, we showed that when discriminating Populus species from western China, the nuclear ITS region represents a more promising barcode than any maternally inherited chloroplast region or combination of chloroplast regions. Meanwhile, combining the ITS region with chloroplast regions may improve the barcoding success rate and assist in detecting recent interspecific hybridizations. Failure to discriminate among several groups of Populus species from sympatric or parapatric areas may have been the result of incomplete lineage sorting, frequent interspecific hybridizations and introgressions. We agree with a previous proposal for constructing a tiered barcoding system in

  12. Utility of GenBank and the Barcode of Life Data Systems (BOLD) for the identification of forensically important Diptera from Belgium and France

    Science.gov (United States)

    Sonet, Gontran; Jordaens, Kurt; Braet, Yves; Bourguignon, Luc; Dupont, Eréna; Backeljau, Thierry; De Meyer, Marc; Desmyter, Stijn

    2013-01-01

    Abstract Fly larvae living on dead corpses can be used to estimate post-mortem intervals. The identification of these flies is decisive in forensic casework and can be facilitated by using DNA barcodes provided that a representative and comprehensive reference library of DNA barcodes is available. We constructed a local (Belgium and France) reference library of 85 sequences of the COI DNA barcode fragment (mitochondrial cytochrome c oxidase subunit I gene), from 16 fly species of forensic interest (Calliphoridae, Muscidae, Fanniidae). This library was then used to evaluate the ability of two public libraries (GenBank and the Barcode of Life Data Systems – BOLD) to identify specimens from Belgian and French forensic cases. The public libraries indeed allow a correct identification of most specimens. Yet, some of the identifications remain ambiguous and some forensically important fly species are not, or insufficiently, represented in the reference libraries. Several search options offered by GenBank and BOLD can be used to further improve the identifications obtained from both libraries using DNA barcodes. PMID:24453564

  13. Neutron scanning system for nondestructive testing

    International Nuclear Information System (INIS)

    Presented are the methods of nondestructive testing, based on neutron passing, outlet from the reactor, through the samples. Considered are possibilities of the neutron-spectrometric method of nondestructive sample analysis. Given is a description of half-automatic neutron scanning system, presupposed for investigation of nonirradiated, as well as irradiated samples. Described are the assemblies of the scanning device, mechanical relative aperture selector and crystalline monochromator for the purposes of nondestructive testing by the neutron-spectrometric method within 0.01-50 eV neutron energy range. The scanning device makes it possible to investigate a sample 1200 mm long and up to 15 mm in diameter with longitudinal transmission step of 0.5 mm and 0.1 mm accuracy of the transverse device. The equipment neutron spectra, measured by division chamber on the mechanical selector and the scaning results on the crystalline monochromator are given for illustrating the device operation

  14. CS-Studio Scan System Parallelization

    Energy Technology Data Exchange (ETDEWEB)

    Kasemir, Kay [ORNL; Pearson, Matthew R [ORNL

    2015-01-01

    For several years, the Control System Studio (CS-Studio) Scan System has successfully automated the operation of beam lines at the Oak Ridge National Laboratory (ORNL) High Flux Isotope Reactor (HFIR) and Spallation Neutron Source (SNS). As it is applied to additional beam lines, we need to support simultaneous adjustments of temperatures or motor positions. While this can be implemented via virtual motors or similar logic inside the Experimental Physics and Industrial Control System (EPICS) Input/Output Controllers (IOCs), doing so requires a priori knowledge of experimenters requirements. By adding support for the parallel control of multiple process variables (PVs) to the Scan System, we can better support ad hoc automation of experiments that benefit from such simultaneous PV adjustments.

  15. Improving Environmental Scanning Systems Using Bayesian Networks

    OpenAIRE

    Simon Welter; Jörg H. Mayer; Reiner Quick

    2013-01-01

    As companies’ environment is becoming increasingly volatile, scanning systems gain in importance. We propose a hybrid process model for such systems' information gathering and interpretation tasks that combines quantitative information derived from regression analyses and qualitative knowledge from expert interviews. For the latter, we apply Bayesian networks. We derive the need for such a hybrid process model from a literature review. We lay out our model to find a suitable set of business e...

  16. A Secure Contactless Cross-bank ATM System Based on Two-dimension Barcodes%一种基于二维码的安全非接触式跨行取款系统

    Institute of Scientific and Technical Information of China (English)

    孙权

    2015-01-01

    This paper presents a secure contactless cross-bank ATM system based on two-dimension barcodes and smartphone in order to resolve business limitation and security problem of traditional ATM system. In the system a unique two-dimension barcodes is generated for each ATM transaction, displayed on ATM screen and then scanned and identifi ed by smartphone APP through camera, so that the user can choose a bankcard account, input withdrawal amount and transaction password on the smartphone. All transaction data, including barcodes, bankcard account, withdrawal amount and transaction password, are encrypted and transmitted to the bank system andfi nally the ATM is ordered to spit out the money if the transaction data are verifi ed by the bank system.%本发明提出了一种安全的基于二维码的非接触式取款系统,在取款机器为每次取款操作生成一个唯一的二维码并显示在屏幕,用户在移动设备上选择取款的账户并输入密码,用摄像头扫描取款机屏幕上出现的二维码,通过移动设备将账户、密码、二维码等信息发送至用户账户发行方后台系统验证通过后取款机器即可吐钞完成取款,从而解决传统取款业务系统中持卡人必须提供实体卡片并在取款机上输入密码的业务限制和以及由此带来的安全问题,为持卡人提供一种安全、方便的取款方式.

  17. Decoding of PDF417 barcode in Identity Authentication Based on LabVIEW

    Directory of Open Access Journals (Sweden)

    Qian Song

    2013-06-01

    Full Text Available Two dimensional barcode had widely applied in identity authentication. In this paper, the symbol structure of PDF417 barcode was introduced, and the image processing methods used in PDF417 barcode recognition were researched. A quick and effective method to calculate the width of the unit module in PDF417 barcode was proposed, and a recognition and decoding system of PDF417 barcode based on software development platform of the LabVIEW virtual instrument was designed and implemented. The system could process and analyze the images containing PDF417 barcode collected by camera in real time, and achieve the fast and omnibearing decoding of the barcode.

  18. Barcode scanner for ring dosemeters

    International Nuclear Information System (INIS)

    A barcode scanner for circular bar codes was developed as an additional module for a dosimeter-reader manufactured in the USA. The new scanner had to fulfill all existing interface specifications (power supply, serial interface) to be integrated seamlessly into the existing instrument. The size of the barcode reader had to be compact enough to fit into the instrument without the need for additional external components. The barcode scanner has been realized using image processing technology. The system is designed in a way to fulfill all the functions of the 'old' laser barcode scanner (decoding of linear codes) plus the additional function of decoding circular barcodes in parallel. The system consists of CCD (charge coupled device) camera, infrared illumination, image processing hardware (frame grabber) and computer. The computer runs an image processing software developed in C. The result of the development effort is a fully functional prototype that is to be adapted for serial production (with minor modifications) by the US-manufacturer. (author)

  19. Influence of scanning strategies on the accuracy of digital intraoral scanning systems.

    Science.gov (United States)

    Ender, A; Mehl, A

    2013-01-01

    The digital intraoral impression is a central part in today's CAD/CAM dentistry. With its possibilities, new treatment options for the patient is provided and the prosthetic workflow is accelerated. Nowadays, the major issue with intraoral scanning systems is to gain more accuracy especially for larger scan areas and to simplify clinical handling for the dentist. The aim of this study was to investigate different scanning strategies regardingtheir accuracy with full arch scans in an in-vitro study design. A reference master model was used for the digital impressions with the Lava COS, the Cerec Bluecam and a powderfree intraoral scanning system, Cadent iTero. The trueness and precision of each scanning protocol was measured. Lava COS provides the a trueness of 45.8 microm with the scanning protocol recommended from the manufacturer. A different scanning protocol shows significantly lower accuracy (trueness +/- 90.2 microm). Cerec Bluecam also benefits from an optimal scanning protocol with a trueness of +/- 23.3 microm compared to +/- 52.5 microm with a standard protocol. The powderfree impression system Cadent iTero shows also a high accurate full-arch scan with a trueness of +/- 35.0 microm and a precision of +/- 30.9 microm. With the current intraoral scanning systems, full arch dental impressions are possible with a high accuracy, if adequate scan strategies are used. The powderfree scanning system provides the same level of accuracy compared to scanning systems with surface pretreatment. PMID:23641661

  20. Influence of scanning strategies on the accuracy of digital intraoral scanning systems.

    Science.gov (United States)

    Ender, A; Mehl, A

    2013-01-01

    The digital intraoral impression is a central part in today's CAD/CAM dentistry. With its possibilities, new treatment options for the patient is provided and the prosthetic workflow is accelerated. Nowadays, the major issue with intraoral scanning systems is to gain more accuracy especially for larger scan areas and to simplify clinical handling for the dentist. The aim of this study was to investigate different scanning strategies regardingtheir accuracy with full arch scans in an in-vitro study design. A reference master model was used for the digital impressions with the Lava COS, the Cerec Bluecam and a powderfree intraoral scanning system, Cadent iTero. The trueness and precision of each scanning protocol was measured. Lava COS provides the a trueness of 45.8 microm with the scanning protocol recommended from the manufacturer. A different scanning protocol shows significantly lower accuracy (trueness +/- 90.2 microm). Cerec Bluecam also benefits from an optimal scanning protocol with a trueness of +/- 23.3 microm compared to +/- 52.5 microm with a standard protocol. The powderfree impression system Cadent iTero shows also a high accurate full-arch scan with a trueness of +/- 35.0 microm and a precision of +/- 30.9 microm. With the current intraoral scanning systems, full arch dental impressions are possible with a high accuracy, if adequate scan strategies are used. The powderfree scanning system provides the same level of accuracy compared to scanning systems with surface pretreatment.

  1. Design of a Thin-Film Infrared Barcode on a Flexible Substrate

    Energy Technology Data Exchange (ETDEWEB)

    Dale Kotter; Brian Monicelli; Glenn Boreman

    2004-02-01

    We report the design, fabrication and characterization of an infrared barcode. This barcode is composed of a bilayer of titanium and amorphous silicon on a flexible Kapton substrate. Information encoded in the barcode shows high contrast when viewed with an infrared imaging system in the 8 to 12 m spectral region. The barcode information is concealed under visible viewing conditions, i.e., the barcode appears as an untreated, uniform metal sheet to a detector of visible radiation (400 to 700nm).

  2. Designs for Environmental Scanning Systems: Tests of a Contingency Theory

    OpenAIRE

    Masoud Yasai-Ardekani; Paul C. Nystrom

    1996-01-01

    This study compared the relationships between organizational context and the designs of environmental scanning systems for organizational with effective and ineffective scanning systems. The study analyzed data from over 100 North American business organizations. Results indicate that organizations with effective scanning systems tend to align their scanning designs with the requirements of their context. On the other hand, the results show that organizations with ineffective scanning systems...

  3. SBVLC:Secure Barcode-based Visible Light Communication for Smartphones

    OpenAIRE

    Zhang, Bingsheng; Ren, Kui; Xing, Guoliang; Fu, Xinwen; Wang, Cong

    2016-01-01

    2D barcodes have enjoyed a significant penetration rate in mobile applications. This is largely due to the extremely low barrier to adoption – almost every camera-enabled smartphone can scan 2D barcodes. As an alternative to NFC technology, 2D barcodes have been increasingly used for security-sensitive mobile applications including mobile payments and personal identification. However, the security of barcode-based communication in mobile applications has not been systematically studied. Due t...

  4. Development of an automatic pipeline scanning system

    Energy Technology Data Exchange (ETDEWEB)

    Kim, Jae H.; Lee, Jae C.; Moon, Soon S.; Eom, Heung S.; Choi, Yu R

    1999-11-01

    Pressure pipe inspection in nuclear power plants is one of the mandatory regulation items. Comparing to manual ultrasonic inspection, automatic inspection has the benefits of more accurate and reliable inspection results and reduction of radiation disposal. final object of this project is to develop an automatic pipeline inspection system of pressure pipe welds in nuclear power plants. We developed a pipeline scanning robot with four magnetic wheels and 2-axis manipulator for controlling ultrasonic transducers, and developed the robot control computer which controls the robot to navigate along inspection path exactly. We expect our system can contribute to reduction of inspection time, performance enhancement, and effective management of inspection results. The system developed by this project can be practically used for inspection works after field tests. (author)

  5. Scanning systems for particle cancer therapy

    Energy Technology Data Exchange (ETDEWEB)

    Trbojevic, Dejan

    2015-08-04

    A particle beam to treat malignant tissue is delivered to a patient by a gantry. The gantry includes a plurality of small magnets sequentially arranged along a beam tube to transfer the particle beam with strong focusing and a small dispersion function, whereby a beam size is very small, allowing for the small magnet size. Magnets arranged along the beam tube uses combined function magnets where the magnetic field is a combination of a bending dipole field with a focusing or defocusing quadrupole field. A triplet set of combined function magnets defines the beam size at the patient. A scanning system of magnets arranged along the beam tube after the bending system delivers the particle beam in a direction normal to the patient, to minimize healthy skin and tissue exposure to the particle beam.

  6. An automated scanning ion microbeam system

    Science.gov (United States)

    Requicha Ferreira, L. F.; Calvert, J. M.

    A standard Russian quadruplet lens system providing a microbeam on a 6 MV Van de Graaff accelerator has been fitted with an automated scanner. Samples housed in a special target chamber can be positioned accurately in two dimensions with respect to the beam. This is achieved by stepping motors. Two pairs of deflection coils provide electromagnetic deflection of the beam in two dimensions and the combination of electrical deflection of the beam and mechanical displacement of the sample permits scanning over a sample area of 10 mm × 10 mm. A staircase current waveform is provided to the coils and data accumulated at each step is routed appropriately to addresses in a large multichannel analyser (computer). The target chamber accommodates particle and X-ray detectors. The electronic operation is controlled by a microprocessor. The requirements of a complete scan are entered through the keyboard and the complete operation including writing of spectral data onto magnetic tape follows automatically. The arrangement has been used to study details of the oxidation behaviour of iron-chromium alloys as part of a larger programme of oxidation studies centred round the 18O(p, α) 15N reaction.

  7. An automated scanning ion microbeam system

    International Nuclear Information System (INIS)

    A standard Russian quadruplet lens system providing a microbeam on a 6 MV Van de Graaff accelerator has been fitted with an automated scanner. Samples housed in a special target chamber can be positioned accurately in two dimensions with respect to the beam. This is achieved by stepping motors. Two pairs of deflection coils provide electromagnetic deflection of the beam in two dimensions and the combination of electrical deflection of the beam and mechanical displacement of the sample permits scanning over a sample area of 10 mm x 10 mm. A staircase current waveform is provided to the coils and data accumulated at each step is routed appropriately to addresses in a large multichannel analyser (computer). The target chamber accommodates particle and X-ray detectors. The electronic operation is controlled by a microprocessor. The requirements of a complete scan are entered through the keyboard and the complete operation including writing of spectral data onto magnetic tape follows automatically. The arrangement has been used to study details of the oxidation behaviour of iron-chromium alloys as part of a larger programme of oxidation studies centred round the 18O (p,α)15 N reaction. (orig.)

  8. Pointed science scan platforms. [for remote directional satellite instrumentation systems

    Science.gov (United States)

    Ward, R. S.

    1978-01-01

    Two examples of science scan platform mechanization concepts are presented to familiarize the reader with today's planetary scan platform technology. The first example is the Voyager scan platform, which will demonstrate the traditional approach to scan pointing from planetary vehicles. Although this conventional approach may be familiar to many, the control law implemented in the scan positioning loop is a new and interesting one. It is called 'Zero Crosser + Terminal Control'. The other example marks the beginning of a new generation of planetary scan pointing systems. It is the Galileo scan platform which will be inertially stabilized and decoupled from spacecraft motion.

  9. Bar-code technology applied to drug-use evaluation.

    Science.gov (United States)

    Zarowitz, B J; Petitta, A; Mlynarek, M; Touchette, M; Peters, M; Long, P; Patel, R

    1993-05-01

    Bar-code technology was used to determine: (1) patterns in histamine H2-receptor antagonist use and (2) the occurrence of adverse drug effects and drug interactions associated with the use of these agents in critically ill patients. Patients at Henry Ford Hospital (Detroit) receiving histamine H2-receptor antagonists over a two-month period were evaluated. Clinical information was collected in the intensive care units by using a bar-code system. The data-capture menu was based on drug-use-evaluation criteria for H2-receptor antagonists. Data collected in the scanning wands were uploaded into a computer database and were analyzed at the end of the study. Data were collected for 207 patients. Cimetidine was the predominant H2-receptor antagonist used, and the predominant indication was stress-ulcer prophylaxis. Dosing trends followed accepted guidelines for cimetidine dosage adjustment in renal and hepatic failure. Two drug interactions and six adverse drug reactions occurred. Pharmacists made 92 recommendations to the medical staff regarding modification in therapy, involving 32% of the patients. Data collection required an average of 10 minutes per day each for three pharmacists. H2-receptor antagonist use patterns were evaluated in intensive care units through the application of bar-code technology. The speed and efficiency of this automated tool facilitated collection of a large amount of data. PMID:8099468

  10. Establishing and evaluating bar-code technology in blood sampling system: a model based on human centered human-centered design method.

    Science.gov (United States)

    Chou, Shin-Shang; Yan, Hsiu-Fang; Huang, Hsiu-Ya; Tseng, Kuan-Jui; Kuo, Shu-Chen

    2012-01-01

    This study intended to use a human-centered design study method to develop a bar-code technology in blood sampling process. By using the multilevel analysis to gather the information, the bar-code technology has been constructed to identify the patient's identification, simplify the work process, and prevent medical error rates. A Technology Acceptance Model questionnaire was developed to assess the effectiveness of system and the data of patient's identification and sample errors were collected daily. The average scores of 8 items users' perceived ease of use was 25.21(3.72), 9 items users' perceived usefulness was 28.53(5.00), and 14 items task-technology fit was 52.24(7.09), the rate of patient identification error and samples with order cancelled were down to zero, however, new errors were generated after the new system deployed; which were the position of barcode stickers on the sample tubes. Overall, more than half of nurses (62.5%) were willing to use the new system. PMID:24199057

  11. Recommendations for Using Barcode in Hospital Process

    Science.gov (United States)

    Hachesu, Peyman Rezaei; Zyaei, Leila; Hassankhani, Hadi

    2016-01-01

    Background: Lack of attention to the proper barcode using leads to lack of use or misuse in the hospitals. The present research aimed to investigate the requirements and barrier for using barcode technology and presenting suggestions to use it. Methods: The research is observational-descriptive. The data was collected using the designed checklist which its validity was assessed. This check list consists of two parts: “Requirements” and “barrier” of using the barcodes. Research community included 10 teaching hospitals and a class of 65 participants included people in the hospitals. The collected data was analyzed using descriptive statistics. Results: Required changes of workflow processes in the hospital and compliance them with the hospital policy are such requirements that had been infringed in the 90 % of hospitals. Prioritization of some hospital processes for barcoding, system integration with Hospital Information system (HIS), training of staff and budgeting are requirements for the successful implementation which had been infringed in the 80% of hospitals. Dissatisfaction with the quality of barcode labels and lacks of adequate scanners both whit the rate of 100 %, and the lack of understanding of the necessary requirements for implementation of barcodes as 80% were the most important barrier. Conclusion: Integrate bar code system with clinical workflow should be considered. Lack of knowledge and understanding toward the infrastructure, inadequate staff training and technologic problems are considered as the greatest barriers. PMID:27482137

  12. DNA mini-barcodes.

    Science.gov (United States)

    Hajibabaei, Mehrdad; McKenna, Charly

    2012-01-01

    Conventional DNA barcoding uses an approximately 650 bp DNA barcode of the mitochondrial gene COI for species identification in animal groups. Similar size fragments from chloroplast genes have been proposed as barcode markers for plants. While PCR amplification and sequencing of a 650 bp fragment is consistent in freshly collected and well-preserved specimens, it is difficult to obtain a full-length barcode in older museum specimens and samples which have been preserved in formalin or similar DNA-unfriendly preservatives. A comparable issue may prevent effective DNA-based authentication and testing in processed biological materials, such as food products, pharmaceuticals, and nutraceuticals. In these cases, shorter DNA sequences-mini-barcodes-have been robustly recovered and shown to be effective in identifying majority of specimens to a species level. Furthermore, short DNA regions can be utilized via high-throughput sequencing platforms providing an inexpensive and comprehensive means of large-scale species identification. These properties of mini-barcodes, coupled with the availability of standardized and universal primers make mini-barcodes a feasible option for DNA barcode analysis in museum samples and applied diagnostic and environmental biodiversity analysis.

  13. A diffraction-limited scanning system providing broad spectral range for laser scanning microscopy

    Science.gov (United States)

    Yu, Jiun-Yann; Liao, Chien-Sheng; Zhuo, Zong-Yan; Huang, Chen-Han; Chui, Hsiang-Chen; Chu, Shi-Wei

    2009-11-01

    Diversified research interests in scanning laser microscopy nowadays require broadband capability of the optical system. Although an all-mirror-based optical design with a suitable metallic coating is appropriate for broad-spectrum applications from ultraviolet to terahertz, most researchers prefer lens-based scanning systems despite the drawbacks of a limited spectral range, ghost reflection, and chromatic aberration. One of the main concerns is that the geometrical aberration induced by off-axis incidence on spherical mirrors significantly deteriorates image resolution. Here, we demonstrate a novel geometrical design of a spherical-mirror-based scanning system in which off-axis aberrations, both astigmatism and coma, are compensated to reach diffraction-limited performance. We have numerically simulated and experimentally verified that this scanning system meets the Marechà l condition and provides high Strehl ratio within a 3°×3° scanning area. Moreover, we demonstrate second-harmonic-generation imaging from starch with our new design. A greatly improved resolution compared to the conventional mirror-based system is confirmed. This scanning system will be ideal for high-resolution linear/nonlinear laser scanning microscopy, ophthalmoscopic applications, and precision fabrications.

  14. Millimeter Wave Synthetic Aperture Imaging System with a Unique Rotary Scanning System

    Science.gov (United States)

    Ghasr, M. T.; Case, J. T.; McClanahan, A. D.; Abou-Khousa, M.; Guinn, K.; Kharkovsky, S.; Zoughi, R.; Afaki-Beni, A.; DePaulis, F.; Pommerenke, D.

    2008-01-01

    This is the video that accompanies the "Millimeter Wave Synthetic Aperture Imaging System with a Unique Rotary Scanning System" presentation. It shows the operation of the scanning system, and reviews the results of the scanning of a sample.

  15. Observability of Parabolic Systems under Scanning Sensors

    OpenAIRE

    Khapalov, A. Y.

    1991-01-01

    This paper continues the investigations in SDS on observability issues motivated by environmental monitoring and related problems. Here the author introduces a specific class of scanning sensors that ensure solvability of the problem and can further lead to numerically robust techniques.

  16. Indium 111 WBC scan in local and systemic fungal infections

    International Nuclear Information System (INIS)

    We describe two patients-one with a systemic fungal infection and one with a localized form-who had strikingly abnormal indium 111 leukocyte (WBC) scans. The patient with systemic disease had an abnormal WBC scan before lesions became clinically apparent

  17. 基于条码扫描的便携式拿货提醒设备%Portable Equipment Which is Used for Goods Order Reminding is Based on Barcode Scanning

    Institute of Scientific and Technical Information of China (English)

    赖俊桦; 高维; 朱云来; 孟坚

    2015-01-01

    Barcode technology is mature in the market today, the use of barcode mobile devices also will be quite extensive. A por⁃table device for courier, with the main chip of STC89C52 Single Chip microcontroller, combined with the one-dimensional bar code scanning and GSM SMS module can be used for direct communication with buyers’couriers, it is easy and fast for notifica⁃tion buyers getting goods. The equipment achieves a good access to information, display and processing functions. The equipment includes the following four modules: one-dimensional bar code scanning recognition module, GSM communication module, the central control module and the information display and input module. The buyer’s telephone number stored in the one-dimension⁃al bar code, through the one-dimensional bar code scanning module identification information stored in the bar code, using serial to communicate with the main chip of STC89C52 Single Chip microcontroller, as the same time the information displayed on the LCD module. Internal telephone number will be transferred to the GSM SMS module for sending pre-set message content to buy⁃ers. Message content can be edited. In addition, the product can extract the last digit of the phone number issued to classify the goods.%现今市场条码技术已成熟,条码移动设备也随之快速发展并得到广泛运用。设计以STC89C52单片机作为主控芯片,结合一维条形码扫描和GSM短信发送模块的快递员便携式拿货提醒设备,可用于快递员与买家直接的交流,是一对多方便、快捷的通知买家拿货设备,很好的实现信息的获取、显示和处理等功能。该作品主要包括以下四个模块:一维条码扫描识别模块、GSM通信模块、中央控制模块和信息显示及输入模块。将买家的电话号码存储在一维条码中,通过一维条码扫描模块来识别条码中存储的信息,利用串口和中央主控52单片机进行通信,同时在

  18. Correcting scan-to-scan response variability for a radiochromic film-based reference dosimetry system

    International Nuclear Information System (INIS)

    Purpose: In radiochromic film dosimetry systems, measurements are usually obtained from film images acquired on a CCD-based flatbed scanner. The authors investigated factors affecting scan-to-scan response variability leading to increased dose measurement uncertainty. Methods: The authors used flatbed document scanners to repetitively scan EBT3 radiochromic films exposed to doses 0–1000 cGy, together with three neutral density filters and three blue optical filters. Scanning was performed under two conditions: scanner lid closed and scanner lid opened/closed between scans. The authors also placed a scanner in a cold room at 9 °C and later in a room at 22 °C and scanned EBT3 films to explore temperature effects. Finally, the authors investigated the effect of altering the distance between the film and the scanner’s light source. Results: Using a measurement protocol to isolate the contribution of the CCD and electronic circuitry of the scanners, the authors found that the standard deviation of response measurements for the EBT3 film model was about 0.17% for one scanner and 0.09% for the second. When the lid of the first scanner was opened and closed between scans, the average scan-to-scan difference of responses increased from 0.12% to 0.27%. Increasing the sample temperature during scanning changed the RGB response values by about −0.17, −0.14, and −0.05%/°C, respectively. Reducing the film-to-light source distance increased the RBG response values about 1.1, 1.3, and 1.4%/mm, respectively. The authors observed that films and film samples were often not flat with some areas up to 8 mm away from the scanner’s glass window. Conclusions: In the absence of measures to deal with the response irregularities, each factor the authors investigated could lead to dose uncertainty >2%. Those factors related to the film-to-light source distance could be particularly impactful since the authors observed many instances where the curl of film samples had the

  19. Determining Lineage Pathways from Cellular Barcoding Experiments

    Directory of Open Access Journals (Sweden)

    Leïla Perié

    2014-02-01

    Full Text Available Cellular barcoding and other single-cell lineage-tracing strategies form experimental methodologies for analysis of in vivo cell fate that have been instrumental in several significant recent discoveries. Due to the highly nonlinear nature of proliferation and differentiation, interrogation of the resulting data for evaluation of potential lineage pathways requires a new quantitative framework complete with appropriate statistical tests. Here, we develop such a framework, illustrating its utility by analyzing data from barcoded multipotent cells of the blood system. This application demonstrates that the data require additional paths beyond those found in the classical model, which leads us to propose that hematopoietic differentiation follows a loss of potential mechanism and to suggest further experiments to test this deduction. Our quantitative framework can evaluate the compatibility of lineage trees with barcoded data from any proliferating and differentiating cell system.

  20. Complementing morphological classification of Anguilliform leptocephali with DNA barcoding

    Directory of Open Access Journals (Sweden)

    Alessandra Anibaldi

    2015-10-01

    The highly consistent results obtained revealed a good performance of COI barcoding as a diagnostic method for the identification of these larvae, but the limited number of leptocephali species annotated in the reference databases for barcode (Barcode of Life Data Systems and GenBank allowed to validate only partially the morphological analysis. Moreover two species, Gnathophis mystax and Facciolella sp., showed unexpected outcomes. The data obtained in this work represent the first results of a wider project aimed at the creation of a new barcode database for the assessment of leptocephali diversity in the Mediterranean Sea (Barcoding of the Adriatic Leptocephali [BAL], contributing to the knowledge of these unusual larvae and of their adult forms.

  1. New superconducting cyclotron driven scanning proton therapy systems

    International Nuclear Information System (INIS)

    Since one and a half decades ACCEL is investing in development and engineering of state of the art particle-therapy systems. A new medical superconducting 250 MeV proton cyclotron with special focus on the present and future beam requirements of fast scanning treatment systems has been designed. The first new ACCEL medical proton cyclotron is under commissioning at PSI for their PROSCAN proton therapy facility having undergone successful factory tests especially of the closed loop cryomagnetic system. The second cyclotron is part of ACCEL's integrated proton therapy system for Europe's first clinical center, RPTC in Munich. The cyclotron, the energy selection system, the beamline as well as the four gantries and patient positioners have been installed. The scanning system and major parts of the control software have already been tested. We will report on the concept of ACCEL's superconducting cyclotron driven scanning proton therapy systems and the current status of the commissioning work at PSI and RPTC

  2. From Barcode to QR Code Applications

    Directory of Open Access Journals (Sweden)

    László Várallyai

    2012-12-01

    Full Text Available This paper shows the Zsohár Horticulture Company in Nagyrákos, how they want to change their barcode identification system to QR code. They cultivate herbaceous, perpetual decorational plants, rock-garden, flower-bed and swamp perpetuals, decorational grasses and spices. A part of the perpetuals are evergreens, but most of them has special organs - such as onions, thick-, bulbous roots, "winter-proof" buds - so they can survive winter. In the first part of the paper I introduce the different barcode standards, how can it be printed and how can it be read. In the second part of the paper I give details about the quick response code (QR code and the two-dimensional (2D barcode. Third part of this paper illustrates the QR code usability in agriculture focused on the gardening.

  3. Versatile continuous pH monitoring barcode system based in ionogels

    OpenAIRE

    Benito-Lopez, Fernando; Byrne, Robert; Diamond, Dermot

    2010-01-01

    The online monitoring of pH level in different environments like bio-engineering [1] and chemistry [2] is vital for the control and well behaviour of the whole industrial process. Still exist the demand of miniaturised, versatile and autonomous systems which do not require of sensor calibration, replacement and manual attention over a long operational interval. In this abstract we present an innovative miniaturisable system for continuously measurement of pH solutions and vapours streams duri...

  4. [SCAN system--semi-structured interview based on diagnostic criteria].

    Science.gov (United States)

    Adamowski, Tomasz; Kiejna, Andrzej; Hadryś, Tomasz

    2006-01-01

    This paper presents the main features of contemporary diagnostic systems which are implemented into the SCAN--modern and semi-structured diagnostic interview. The concepts of further development of the classifications, rationale for operationalized diagnostic criteria and for the divisional approach to mental diagnoses will be in focus. The structure and components of SCAN ver. 2.1 (WHO), i.e. Present State Examination--10th edition, Item Group Checklist, Clinical History Schedule, Glossary of Definitions and computer software with the diagnostic algorithm: I-Shell, as well as rules for a reliable use of diagnostic rating scales, will be discussed within the scope of this paper. The materials and training sets necessary for the learning of proper use of the SCAN, especially training sets for SCAN Training Centers and the Reference Manual--a form of guidebook for SCAN shall be introduced. Finally the paper will present evidence that SCAN is an instrument feasible in different cultural settings. Reliability and validity data of SCAN will also be dealt with indicating that SCAN could be widely used in research studies as well as in everyday clinical practice facilitating more detailed diagnostic approach to a patient.

  5. [SCAN system--semi-structured interview based on diagnostic criteria].

    Science.gov (United States)

    Adamowski, Tomasz; Kiejna, Andrzej; Hadryś, Tomasz

    2006-01-01

    This paper presents the main features of contemporary diagnostic systems which are implemented into the SCAN--modern and semi-structured diagnostic interview. The concepts of further development of the classifications, rationale for operationalized diagnostic criteria and for the divisional approach to mental diagnoses will be in focus. The structure and components of SCAN ver. 2.1 (WHO), i.e. Present State Examination--10th edition, Item Group Checklist, Clinical History Schedule, Glossary of Definitions and computer software with the diagnostic algorithm: I-Shell, as well as rules for a reliable use of diagnostic rating scales, will be discussed within the scope of this paper. The materials and training sets necessary for the learning of proper use of the SCAN, especially training sets for SCAN Training Centers and the Reference Manual--a form of guidebook for SCAN shall be introduced. Finally the paper will present evidence that SCAN is an instrument feasible in different cultural settings. Reliability and validity data of SCAN will also be dealt with indicating that SCAN could be widely used in research studies as well as in everyday clinical practice facilitating more detailed diagnostic approach to a patient. PMID:17068947

  6. A Multicounter System for Scanning Ultra-Low-Level Radiochromatograms

    DEFF Research Database (Denmark)

    Bøtter-Jensen, Lars; Hansen, Heinz Johs. Max; Theodorsson, P.

    1977-01-01

    A multicounter system consisting of an integrated array of flow counters for the scanning of ultra-low-level radioactivity on paper and thin-layer chromatograms was developed. Experience with routine measurements over a prolonged period has proved the advantages of this system over other systems...

  7. Chemical imaging of biological systems with the scanning electrochemical microscope.

    Science.gov (United States)

    Gyurcsányi, Róbert E; Jágerszki, Gyula; Kiss, Gergely; Tóth, Klára

    2004-06-01

    A brief overview on recent advances in the application of scanning electrochemical microscopy (SECM) to the investigation of biological systems is presented. Special emphasis is given to the mapping of local enzyme activity by SECM, which is exemplified by relevant original systems. PMID:15110274

  8. Real-time multi-barcode reader for industrial applications

    Science.gov (United States)

    Zafar, Iffat; Zakir, Usman; Edirisinghe, Eran A.

    2010-05-01

    The advances in automated production processes have resulted in the need for detecting, reading and decoding 2D datamatrix barcodes at very high speeds. This requires the correct combination of high speed optical devices that are capable of capturing high quality images and computer vision algorithms that can read and decode the barcodes accurately. Such barcode readers should also be capable of resolving fundamental imaging challenges arising from blurred barcode edges, reflections from possible polyethylene wrapping, poor and/or non-uniform illumination, fluctuations of focus, rotation and scale changes. Addressing the above challenges in this paper we propose the design and implementation of a high speed multi-barcode reader and provide test results from an industrial trial. To authors knowledge such a comprehensive system has not been proposed and fully investigated in existing literature. To reduce the reflections on the images caused due to polyethylene wrapping used in typical packaging, polarising filters have been used. The images captured using the optical system above will still include imperfections and variations due to scale, rotation, illumination etc. We use a number of novel image enhancement algorithms optimised for use with 2D datamatrix barcodes for image de-blurring, contrast point and self-shadow removal using an affine transform based approach and non-uniform illumination correction. The enhanced images are subsequently used for barcode detection and recognition. We provide experimental results from a factory trial of using the multi-barcode reader and evaluate the performance of each optical unit and computer vision algorithm used. The results indicate an overall accuracy of 99.6 % in barcode recognition at typical speeds of industrial conveyor systems.

  9. Comparative Geometrical Investigations of Hand-Held Scanning Systems

    Science.gov (United States)

    Kersten, T. P.; Przybilla, H.-J.; Lindstaedt, M.; Tschirschwitz, F.; Misgaiski-Hass, M.

    2016-06-01

    An increasing number of hand-held scanning systems by different manufacturers are becoming available on the market. However, their geometrical performance is little-known to many users. Therefore the Laboratory for Photogrammetry & Laser Scanning of the HafenCity University Hamburg has carried out geometrical accuracy tests with the following systems in co-operation with the Bochum University of Applied Sciences (Laboratory for Photogrammetry) as well as the Humboldt University in Berlin (Institute for Computer Science): DOTProduct DPI-7, Artec Spider, Mantis Vision F5 SR, Kinect v1 + v2, Structure Sensor and Google's Project Tango. In the framework of these comparative investigations geometrically stable reference bodies were used. The appropriate reference data were acquired by measurement with two structured light projection systems (AICON smartSCAN and GOM ATOS I 2M). The comprehensive test results of the different test scenarios are presented and critically discussed in this contribution.

  10. Imaging of magnetically recorded data using a novel scanning magnetic microscope

    Science.gov (United States)

    Prance, R. J.; Clark, T. D.; Prance, H.; Howells, G.

    1999-03-01

    In this paper we report new results obtained using a novel scanning magnetic microscope. In particular, we demonstrate the use of this system to reveal, in two dimensions and at high resolution, the information recorded on a standard ferric magnetic tape. Results are presented for an audio frequency signal, individual bits of data and a credit card `bar-code' pattern.

  11. Mathematical model for light scanning system based on circular laser

    Institute of Scientific and Technical Information of China (English)

    Peiquan Xu; Shun Yao; Fenggui Lu; Xinhua Tang; Wei Zhang

    2005-01-01

    A novel light scanning system based on circular laser trajectory for welding robot is developed. With the help of image processing technique, intelligent laser welding could be realized. According to laser triangulation algorithm and Scheimpflug condition, mathematical model for circular laser vision is built.This scanning system projects circular laser onto welded seams and recovers the depth of the welded seams,escapes from shortcomings of less information, explains ambiguity and single tracking direction inherent in "spot" or "line" type laser trajectory. Three-dimensional (3D) model for welded seams could be recognized after depth recovery. The imaging error is investigated also.

  12. Investigation of a scanned cylindrical ultrasound system for breast hyperthermia

    International Nuclear Information System (INIS)

    This paper investigates the feasibility of a scanned cylindrical ultrasound system for producing uniform heating from the central to the superficial portions of the breast or localized heating within the breast at a specific location. The proposed system consists of plane ultrasound transducer(s) mounted on a scanned cylindrical support. The breast was immersed in water and surrounded by this system during the treatment. The control parameters considered are the size of the transducer, the ultrasound frequency, the scan angle and the shifting distance between the axes of the breast and the system. Three-dimensional acoustical and thermal models were used to calculate the temperature distribution. Non-perfused phantom experiments were performed to verify the simulation results. Simulation results indicate that high frequency ultrasound could be used for the superficial heating, and the scan angle of the transducer could be varied to obtain an appropriate high temperature region to cover the desired treatment region. Low frequency ultrasound could be used for deep heating and the high temperature region could be moved by shifting the system. In addition, a combination of low and high frequency ultrasound could result in a portion treatment from the central to the superficial breast or an entire breast treatment. Good agreement was obtained between non-perfused experiments and simulation results. The findings of this study can be used to determine the effects of the control parameters of this system, as well as to select the optimal parameters for a specific treatment

  13. Integrated scanning Kelvin probe-scanning electrochemical microscope system: development and first applications.

    Science.gov (United States)

    Maljusch, Artjom; Schönberger, Bernd; Lindner, Armin; Stratmann, Martin; Rohwerder, Michael; Schuhmann, Wolfgang

    2011-08-01

    The integration of a scanning Kelvin probe (SKP) and a scanning electrochemical microscope (SECM) into a single SKP-SECM setup, the concept of the proposed system, its technical realization, and first applications are presented and discussed in detail. A preloaded piezo actuator placed in a grounded stainless steel case was used as the driving mechanism for oscillation of a Pt disk electrode as conventionally used in SECM when the system was operated in the SKP mode. Thus, the same tip is recording the contact potential difference (CPD) during SKP scanning and is used as a working electrode for SECM imaging in the redox-competition mode (RC-SECM). The detection of the local CPD is established by amplification of the displacement current at an ultralow noise operational amplifier and its compensation by application of a variable backing potential (V(b)) in the external circuit. The control of the tip-to-sample distance is performed by applying an additional alternating voltage with a much lower frequency than the oscillation frequency of the Kelvin probe. The main advantage of the SKP-SECM system is that it allows constant distance measurements of the CPD in air under ambient conditions and in the redox-competition mode of the SECM in the electrolyte of choice over the same sample area without replacement of the sample or exchange of the working electrode. The performance of the system was evaluated using a test sample made by sputtering thin Pt and W films on an oxidized silicon wafer. The obtained values of the CPD correlate well with known data, and the electrochemical activity for oxygen reduction is as expected higher over Pt than W. PMID:21675763

  14. Barcoded microchips for biomolecular assays.

    Science.gov (United States)

    Zhang, Yi; Sun, Jiashu; Zou, Yu; Chen, Wenwen; Zhang, Wei; Xi, Jianzhong Jeff; Jiang, Xingyu

    2015-01-20

    Multiplexed assay of analytes is of great importance for clinical diagnostics and other analytical applications. Barcode-based bioassays with the ability to encode and decode may realize this goal in a straightforward and consistent manner. We present here a microfluidic barcoded chip containing several sets of microchannels with different widths, imitating the commonly used barcode. A single barcoded microchip can carry out tens of individual protein/nucleic acid assays (encode) and immediately yield all assay results by a portable barcode reader or a smartphone (decode). The applicability of a barcoded microchip is demonstrated by human immunodeficiency virus (HIV) immunoassays for simultaneous detection of three targets (anti-gp41 antibody, anti-gp120 antibody, and anti-gp36 antibody) from six human serum samples. We can also determine seven pathogen-specific oligonucleotides by a single chip containing both positive and negative controls.

  15. DNA Barcoding Identifies Argentine Fishes from Marine and Brackish Waters

    Science.gov (United States)

    Mabragaña, Ezequiel; Díaz de Astarloa, Juan Martín; Hanner, Robert; Zhang, Junbin; González Castro, Mariano

    2011-01-01

    Background DNA barcoding has been advanced as a promising tool to aid species identification and discovery through the use of short, standardized gene targets. Despite extensive taxonomic studies, for a variety of reasons the identification of fishes can be problematic, even for experts. DNA barcoding is proving to be a useful tool in this context. However, its broad application is impeded by the need to construct a comprehensive reference sequence library for all fish species. Here, we make a regional contribution to this grand challenge by calibrating the species discrimination efficiency of barcoding among 125 Argentine fish species, representing nearly one third of the known fauna, and examine the utility of these data to address several key taxonomic uncertainties pertaining to species in this region. Methodology/Principal Findings Specimens were collected and morphologically identified during crusies conducted between 2005 and 2008. The standard BARCODE fragment of COI was amplified and bi-directionally sequenced from 577 specimens (mean of 5 specimens/species), and all specimens and sequence data were archived and interrogated using analytical tools available on the Barcode of Life Data System (BOLD; www.barcodinglife.org). Nearly all species exhibited discrete clusters of closely related haplogroups which permitted the discrimination of 95% of the species (i.e. 119/125) examined while cases of shared haplotypes were detected among just three species-pairs. Notably, barcoding aided the identification of a new species of skate, Dipturus argentinensis, permitted the recognition of Genypterus brasiliensis as a valid species and questions the generic assignment of Paralichthys isosceles. Conclusions/Significance This study constitutes a significant contribution to the global barcode reference sequence library for fishes and demonstrates the utility of barcoding for regional species identification. As an independent assessment of alpha taxonomy, barcodes provide

  16. DNA barcoding identifies Argentine fishes from marine and brackish waters.

    Directory of Open Access Journals (Sweden)

    Ezequiel Mabragaña

    Full Text Available BACKGROUND: DNA barcoding has been advanced as a promising tool to aid species identification and discovery through the use of short, standardized gene targets. Despite extensive taxonomic studies, for a variety of reasons the identification of fishes can be problematic, even for experts. DNA barcoding is proving to be a useful tool in this context. However, its broad application is impeded by the need to construct a comprehensive reference sequence library for all fish species. Here, we make a regional contribution to this grand challenge by calibrating the species discrimination efficiency of barcoding among 125 Argentine fish species, representing nearly one third of the known fauna, and examine the utility of these data to address several key taxonomic uncertainties pertaining to species in this region. METHODOLOGY/PRINCIPAL FINDINGS: Specimens were collected and morphologically identified during crusies conducted between 2005 and 2008. The standard BARCODE fragment of COI was amplified and bi-directionally sequenced from 577 specimens (mean of 5 specimens/species, and all specimens and sequence data were archived and interrogated using analytical tools available on the Barcode of Life Data System (BOLD; www.barcodinglife.org. Nearly all species exhibited discrete clusters of closely related haplogroups which permitted the discrimination of 95% of the species (i.e. 119/125 examined while cases of shared haplotypes were detected among just three species-pairs. Notably, barcoding aided the identification of a new species of skate, Dipturus argentinensis, permitted the recognition of Genypterus brasiliensis as a valid species and questions the generic assignment of Paralichthys isosceles. CONCLUSIONS/SIGNIFICANCE: This study constitutes a significant contribution to the global barcode reference sequence library for fishes and demonstrates the utility of barcoding for regional species identification. As an independent assessment of alpha

  17. Digital adaptive optics line-scanning confocal imaging system

    Science.gov (United States)

    Liu, Changgeng; Kim, Myung K.

    2015-11-01

    A digital adaptive optics line-scanning confocal imaging (DAOLCI) system is proposed by applying digital holographic adaptive optics to a digital form of line-scanning confocal imaging system. In DAOLCI, each line scan is recorded by a digital hologram, which allows access to the complex optical field from one slice of the sample through digital holography. This complex optical field contains both the information of one slice of the sample and the optical aberration of the system, thus allowing us to compensate for the effect of the optical aberration, which can be sensed by a complex guide star hologram. After numerical aberration compensation, the corrected optical fields of a sequence of line scans are stitched into the final corrected confocal image. In DAOLCI, a numerical slit is applied to realize the confocality at the sensor end. The width of this slit can be adjusted to control the image contrast and speckle noise for scattering samples. DAOLCI dispenses with the hardware pieces, such as Shack-Hartmann wavefront sensor and deformable mirror, and the closed-loop feedbacks adopted in the conventional adaptive optics confocal imaging system, thus reducing the optomechanical complexity and cost. Numerical simulations and proof-of-principle experiments are presented that demonstrate the feasibility of this idea.

  18. Optical System Design For High Speed Bar Code Scanning

    Science.gov (United States)

    Hellekson, Ronald; Reddersen, Brad; Campbell, Scott

    1987-04-01

    Spectra-Physics recently introduced the Model 750 SL scanner for use in the European point-of-sale market, to meet the European requirement for a scanner of less than 13 cm height. The model 750 SL uses a higher density computer designed scan pattern with a retrodirective collection system to scan and detect UPC, EAN, and JAN bar codes. The scanner "reads" these bar codes in such a way that the user need not precisely align the bar code symbol with respect to the window in the scanner even at package speeds up to 100 inches per second. By using a unique geometrical arrangement of mirrors, a polygonal mirror assembly, and a custom-designed plastic bifocal lens, a design was developed to meet these requirements. This paper describes the design of this new low cost scanner, the use of computer-aided design in the development of this scanner, and some observations on the future of bar code scanning.

  19. Wolbachia and DNA Barcoding Insects: Patterns, Potential, and Problems

    OpenAIRE

    M. Alex Smith; Claudia Bertrand; Kate Crosby; Eveleigh, Eldon S.; Jose Fernandez-Triana; Fisher, Brian L.; Jason Gibbs; Mehrdad Hajibabaei; Winnie Hallwachs; Katharine Hind; Jan Hrcek; Da-Wei Huang; Milan Janda; Janzen, Daniel H.; Yanwei Li

    2012-01-01

    Wolbachia is a genus of bacterial endosymbionts that impacts the breeding systems of their hosts. Wolbachia can confuse the patterns of mitochondrial variation, including DNA barcodes, because it influences the pathways through which mitochondria are inherited. We examined the extent to which these endosymbionts are detected in routine DNA barcoding, assessed their impact upon the insect sequence divergence and identification accuracy, and considered the variation present in Wolbachia COI. Us...

  20. SURVEY ON INFORMATION HIDING TECHNIQUES USING QR BARCODE

    Directory of Open Access Journals (Sweden)

    Manoj S. Rewatkar

    2014-05-01

    Full Text Available Nowadays, the information processing system plays crucial part in the internet. Online information security has become the top priority in all sectors. Failing to provide online information security may cause loss of critical information or someone may use or distribute such information for malicious purpose. Recently QR barcodes have been used as an effective way to securely share information. This paper presents the survey on information hiding techniques which can share high security information over network using QR barcode.

  1. Illumination Compensation for 2-D Barcode Recognition Basing Morphologic

    OpenAIRE

    Jian-Hua Li; Yi-Wen Wang; Yi Chen; Meng Zhang

    2013-01-01

    Improvement of image quality has been highly demanded in digital imaging systems. This study presents a novel illumination normalization approach for 2-D barcode recognition under varying lighting conditions. MMs (Morphological transformations) are employed to original images using big scale multiple SEs (structuring elements). Then we make use of entropy to fuse images. The performance of proposed methodology is illustrated through the processing of images with different kinds of 2-D barcode...

  2. Illumination Compensation for 2-D Barcode Recognition Basing Morphologic

    Directory of Open Access Journals (Sweden)

    Jian-Hua Li

    2013-04-01

    Full Text Available Improvement of image quality has been highly demanded in digital imaging systems. This study presents a novel illumination normalization approach for 2-D barcode recognition under varying lighting conditions. MMs (Morphological transformations are employed to original images using big scale multiple SEs (structuring elements. Then we make use of entropy to fuse images. The performance of proposed methodology is illustrated through the processing of images with different kinds of 2-D barcodes under different backgrounds. The experimental results show that this approach can process different kinds of 2-D barcodes under varying lighting conditions adaptively. Compared with other conventional methods, our proposed approach does a better job in processing 2-D barcode under non-uniform illumination.

  3. EM-Based joint symbol and blur estimation for 2D barcode

    OpenAIRE

    Dridi, Noura; Delignon, Yves; Sawaya, Wadih; Garnier, Christelle

    2011-01-01

    Decoding a severely blurred 2D barcode can be considered as a special case of blind image restoration issue. In this paper, we propose an appropriate system model which includes the original image with the particularities related to barcode, the blur and the observed image. We develop an unsupervised algorithm that jointly estimates the blur and detects the symbols using the maximum likelihood (ML) criterion. Besides, we show that when taking into account the spatial properties of the barcode...

  4. A scanned beam THz imaging system for medical applications

    Science.gov (United States)

    Taylor, Zachary D.; Li, Wenzao; Suen, Jon; Tewari, Priyamvada; Bennett, David; Bajwa, Neha; Brown, Elliott; Culjat, Martin; Grundfest, Warren; Singh, Rahul

    2011-10-01

    THz medical imaging has been a topic of increased interest recently due largely to improvements in source and detector technology and the identification of suitable applications. One aspect of THz medical imaging research not often adequately addressed is pixel acquisition rate and phenomenology. The majority of active THz imaging systems use translation stages to raster scan a sample beneath a fixed THz beam. While these techniques have produced high resolution images of characterization targets and animal models they do not scale well to human imaging where clinicians are unwilling to place patients on large translation stages. This paper presents a scanned beam THz imaging system that can acquire a 1 cm2 area with 1 mm2 pixels and a per-pixel SNR of 40 dB in less than 5 seconds. The system translates a focused THz beam across a stationary target using a spinning polygonal mirror and HDPE objective lens. The illumination is centered at 525 GHz with ~ 125 GHz of response normalized bandwidth and the component layout is designed to optically co-locate the stationary source and detector ensuring normal incidence across a 50 mm × 50 mm field of view at standoff of 190 mm. Component characterization and images of a test target are presented. These results are some of the first ever reported for a short standoff, high resolution, scanned beam THz imaging system and represent an important step forward for practical integration of THz medical imaging where fast image acquisition times and stationary targets (patients) are requisite.

  5. A Robotic System to Scan and Reproduce Object

    Directory of Open Access Journals (Sweden)

    Cesare Rossi

    2011-01-01

    Full Text Available An application of a robotic system integrated with a vision system is presented. The robot is a 3-axis revolute prototype, while the vision system essentially consists in a laser scanner made up of a camera and a linear laser projector. Both the robotic and the video system were designed and built at DIME (Department of Mechanical Engineering for Energetics, University of Naples Federico II. The presented application essentially consists of a laser scanner that is installed on the robot arm; the scanner scans a 3D surface, and the data are converted in a cloud of points in the robot’s workspace. Then, starting from those points, the end-effector trajectories adopted to replicate the scanned surface are calculated; so, the same robot, by using a tool, can reproduce the scanned object. The software was developed also at the DIME. The adopted tool was a high-speed drill, installed on the last link of the robot arm, with a spherical milling cutter in order to obtain enough accurate surfaces by the data represented by the cloud of points. An algorithm to interpolate the paths and to plan the trajectories was also developed and successfully tested.

  6. Optimum Combined Lenses for Confocal Biochip Scanning System

    Institute of Scientific and Technical Information of China (English)

    黄国亮; 程京; 周玉祥; 冯继宏; 刘诚迅; 金国藩; 邬敏贤; 严瑛白; 张腾飞; 李林

    2002-01-01

    Laboratory-on-a-chip technology has attracted wide interest in recent years, where the sample preparation, bio-chemical reaction, separation, detection and analysis are performed in a small biochip of the size of a fingernail. To obtain a high detection sensitivity of 1 fluors/μm2 (one fluorescence molecule per square micrometer) in biochip scanning systems, the scanning objective lens is required to have a high numerical aperture (>0.5), very small focal spot (3 mm). This study presents the design of optimum combined lenses including scanning objective and fluorescence focal lenses. The scanning objective had a high numerical aperture (NA) of 0.72, a very small focal spot of 1.67 μm, a long back focal length of 3.2 mm, and a high resolving power of 760 lines/mm. The fluorescence focal lenses had an NA of 0.3, a fluorescence focal spot of 16 μm, a long back focal length of 16.7 mm and a resolving power of 590 lines/mm. The phase aberrations of the combined lenses, including the aspherical aberration and the chromatic aberration corresponding to wavelengths of 532, 570, 635, and 670 nm, were well-corrected. The encircled energy diagram of the lenses was within the diffraction limit. The study also included the focal spot diagram, the optical path difference diagram, the transverse ray fan plot, and the modulation transfer function. A confocal biochip scanning system with designed combined lenses was developed and some experiments were conducted on a multi-channel biochip.

  7. Miniature image guided three-axis scanning and positioning system

    Science.gov (United States)

    Avirovik, Dragan; Dave, Digant; Priya, Shashank

    2012-04-01

    We have developed a high precision three axes scanning and positioning system for integration with Multifunctional Image Guided Surgical (MIGS) Platform. The stage integrates three main components: an optical coherence tomography (OCT) probe, laser scalpel and suction cup. The requirements for this stage were to provide scanning area of 400mm2, resolution of less than 10 microns and scanning velocity in the range of 10 - 40 mm/s. The stage was modeled using computer aided design software NX Unigraphics. In addition to the parameters mentioned above, additional boundary conditions for the stage were set as low volume and modularity. Optimized stage model was fabricated by using rapid prototyping technique that integrates low cost stepper motors, threaded rod drive train and a stepper motor controller. The EZ4axis stepper motor controller was able to provide 1/8th microstep resolution control over the motors, which met the criterion desired for the MIGS platform. Integration of computer controlled three-axis stage with MIGS platform provides the opportunity for conducting intricate surgical procedures using remote control or joystick. The device is image guided using the OCT probe and it is able to pin point any location requiring a laser scalpel incision. Due to the scanning capabilities, a high quality threedimensional image of the tissue topography is obtained which allows the surgeon to make a confident decision of where to apply the laser scalpel and make an incision.

  8. 77 FR 12764 - POSTNET Barcode Discontinuation

    Science.gov (United States)

    2012-03-02

    ... are as follows: * * * * * d. Barcoded Discount--Flats. The barcoded discount applies to BPM flats that... Barcoded Bound Printed Matter The barcode discount applies only to BPM flat-size pieces that bear an... mailing of 50 or more flat-size pieces or part of a presort price mailing of at least 300 BPM...

  9. A surface refractive index scanning system and method

    DEFF Research Database (Denmark)

    2015-01-01

    The invention relates to a surface refractive index scanning system for characterization of a sample. The system comprises a grating device for holding or receiving the sample, the device comprising at least a first grating region having a first grating width along a transverse direction, and a s......The invention relates to a surface refractive index scanning system for characterization of a sample. The system comprises a grating device for holding or receiving the sample, the device comprising at least a first grating region having a first grating width along a transverse direction...... at least a part of the grating device with light at an illumination wavelength band. Additionally, the system comprises an imaging system for imaging the emitted, transmitted or reflected light from the grating device. The imaging system comprises an optical element, such as a cylindrical lens or a bended......, and an imaging spectrometer comprising an entrance slit having a longitudinal direction oriented to coincide with the invariant direction of the optical element. The imaging spectrometer further comprises a 2-dimensional image sensor. The invention further relates to a method....

  10. Automation and workflow considerations for embedding Digimarc Barcodes at scale

    Science.gov (United States)

    Rodriguez, Tony; Haaga, Don; Calhoon, Sean

    2015-03-01

    The Digimarc® Barcode is a digital watermark applied to packages and variable data labels that carries GS1 standard GTIN-14 data traditionally carried by a 1-D barcode. The Digimarc Barcode can be read with smartphones and imaging-based barcode readers commonly used in grocery and retail environments. Using smartphones, consumers can engage with products and retailers can materially increase the speed of check-out, increasing store margins and providing a better experience for shoppers. Internal testing has shown an average of 53% increase in scanning throughput, enabling 100's of millions of dollars in cost savings [1] for retailers when deployed at scale. To get to scale, the process of embedding a digital watermark must be automated and integrated within existing workflows. Creating the tools and processes to do so represents a new challenge for the watermarking community. This paper presents a description and an analysis of the workflow implemented by Digimarc to deploy the Digimarc Barcode at scale. An overview of the tools created and lessons learned during the introduction of technology to the market are provided.

  11. Surface characterization of weathered wood using a laser scanning system

    International Nuclear Information System (INIS)

    Most of the existing methods to assess the effect of weathering on wood surfaces have some drawbacks that limit their use to specific tasks. The amount of surface erosion is often used as a measure for the weathering action. The application of a laser scanning system to reproduce surface profiles and to measure weathering erosion was tested on various samples and was found to be a very useful and superior alternative to existing methods. Further improvements of the system used can be made by refinements of the calibration procedures and by more comprehensive profile analyses. (author)

  12. A Spectral-Scanning Magnetic Resonance Imaging (MRI) Integrated System

    OpenAIRE

    Hassibi, Arjang; Babakhani, Aydin; Hajimiri, Ali

    2008-01-01

    An integrated spectral-scanning magnetic resonance imaging (MRI) technique is implemented in a 0.12μm SiGe BiCMOS process. This system is designed for small-scale MRI applications with non-uniform and low magnetic fields. The system is capable of generating customized magnetic resonance (MR) excitation signals, and also recovering the MR response using a coherent direct conversion receiver. The operation frequency is tunable from DC to 37MHz for wide-band MRI and up to...

  13. An integrated system for large scale scanning of nuclear emulsions

    International Nuclear Information System (INIS)

    The European Scanning System, developed to analyse nuclear emulsions at high speed, has been completed with the development of a high level software infrastructure to automate and support large-scale emulsion scanning. In one year, an average installation is capable of performing data-taking and online analysis on a total surface ranging from few m2 to tens of m2, acquiring many billions of tracks, corresponding to several TB. This paper focuses on the procedures that have been implemented and on their impact on physics measurements. The system proved robust, reliable, fault-tolerant and user-friendly, and seldom needs assistance. A dedicated relational Data Base system is the backbone of the whole infrastructure, storing data themselves and not only catalogues of data files, as in common practice, being a unique case in high-energy physics DAQ systems. The logical organisation of the system is described and a summary is given of the physics measurement that are readily available by automated processing

  14. Modelling the Clinical Risk: RFID vs Barcode

    OpenAIRE

    Lecce, Vincenzo Di; Calabrese, Marco; Quarto, Alessandro; Dario, Rita

    2010-01-01

    In this chapter the improvement resulted by RFID-based modelling for the clinical risk management has been discussed. The comparison between barcode-based healthcare systems and RFID technologies has shown the possibilities for a significant process reengineering which would represent an essential key to efficacy and efficiency increase in personalized healthcare services. In this view, the new model is centred around the idea of patient as an active element in the clinical process, thus over...

  15. DNA Barcoding of Marine Metazoa

    Science.gov (United States)

    Bucklin, Ann; Steinke, Dirk; Blanco-Bercial, Leocadio

    2011-01-01

    More than 230,000 known species representing 31 metazoan phyla populate the world's oceans. Perhaps another 1,000,000 or more species remain to be discovered. There is reason for concern that species extinctions may outpace discovery, especially in diverse and endangered marine habitats such as coral reefs. DNA barcodes (i.e., short DNA sequences for species recognition and discrimination) are useful tools to accelerate species-level analysis of marine biodiversity and to facilitate conservation efforts. This review focuses on the usual barcode region for metazoans: a ˜648 base-pair region of the mitochondrial cytochrome c oxidase subunit I (COI) gene. Barcodes have also been used for population genetic and phylogeographic analysis, identification of prey in gut contents, detection of invasive species, forensics, and seafood safety. More controversially, barcodes have been used to delimit species boundaries, reveal cryptic species, and discover new species. Emerging frontiers are the use of barcodes for rapid and increasingly automated biodiversity assessment by high-throughput sequencing, including environmental barcoding and the use of barcodes to detect species for which formal identification or scientific naming may never be possible.

  16. DNA barcode analysis of butterfly species from Pakistan points towards regional endemism

    Science.gov (United States)

    Ashfaq, Muhammad; Akhtar, Saleem; Khan, Arif M; Adamowicz, Sarah J; Hebert, Paul D N

    2013-01-01

    DNA barcodes were obtained for 81 butterfly species belonging to 52 genera from sites in north-central Pakistan to test the utility of barcoding for their identification and to gain a better understanding of regional barcode variation. These species represent 25% of the butterfly fauna of Pakistan and belong to five families, although the Nymphalidae were dominant, comprising 38% of the total specimens. Barcode analysis showed that maximum conspecific divergence was 1.6%, while there was 1.7–14.3% divergence from the nearest neighbour species. Barcode records for 55 species showed <2% sequence divergence to records in the Barcode of Life Data Systems (BOLD), but only 26 of these cases involved specimens from neighbouring India and Central Asia. Analysis revealed that most species showed little incremental sequence variation when specimens from other regions were considered, but a threefold increase was noted in a few cases. There was a clear gap between maximum intraspecific and minimum nearest neighbour distance for all 81 species. Neighbour-joining cluster analysis showed that members of each species formed a monophyletic cluster with strong bootstrap support. The barcode results revealed two provisional species that could not be clearly linked to known taxa, while 24 other species gained their first coverage. Future work should extend the barcode reference library to include all butterfly species from Pakistan as well as neighbouring countries to gain a better understanding of regional variation in barcode sequences in this topographically and climatically complex region. PMID:23789612

  17. Super-resolution for scanning light stimulation systems

    Science.gov (United States)

    Bitzer, L. A.; Neumann, K.; Benson, N.; Schmechel, R.

    2016-09-01

    Super-resolution (SR) is a technique used in digital image processing to overcome the resolution limitation of imaging systems. In this process, a single high resolution image is reconstructed from multiple low resolution images. SR is commonly used for CCD and CMOS (Complementary Metal-Oxide-Semiconductor) sensor images, as well as for medical applications, e.g., magnetic resonance imaging. Here, we demonstrate that super-resolution can be applied with scanning light stimulation (LS) systems, which are common to obtain space-resolved electro-optical parameters of a sample. For our purposes, the Projection Onto Convex Sets (POCS) was chosen and modified to suit the needs of LS systems. To demonstrate the SR adaption, an Optical Beam Induced Current (OBIC) LS system was used. The POCS algorithm was optimized by means of OBIC short circuit current measurements on a multicrystalline solar cell, resulting in a mean square error reduction of up to 61% and improved image quality.

  18. Minimum Detectable Activity for Tomographic Gamma Scanning System

    Energy Technology Data Exchange (ETDEWEB)

    Venkataraman, Ram [Canberra Industries (AREVA BDNM), Meriden, CT (United States); Smith, Susan [Canberra Industries (AREVA BDNM), Meriden, CT (United States); Kirkpatrick, J. M. [Canberra Industries (AREVA BDNM), Meriden, CT (United States); Croft, Stephen [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

    2015-01-01

    For any radiation measurement system, it is useful to explore and establish the detection limits and a minimum detectable activity (MDA) for the radionuclides of interest, even if the system is to be used at far higher values. The MDA serves as an important figure of merit, and often a system is optimized and configured so that it can meet the MDA requirements of a measurement campaign. The non-destructive assay (NDA) systems based on gamma ray analysis are no exception and well established conventions, such the Currie method, exist for estimating the detection limits and the MDA. However, the Tomographic Gamma Scanning (TGS) technique poses some challenges for the estimation of detection limits and MDAs. The TGS combines high resolution gamma ray spectrometry (HRGS) with low spatial resolution image reconstruction techniques. In non-imaging gamma ray based NDA techniques measured counts in a full energy peak can be used to estimate the activity of a radionuclide, independently of other counting trials. However, in the case of the TGS each “view” is a full spectral grab (each a counting trial), and each scan consists of 150 spectral grabs in the transmission and emission scans per vertical layer of the item. The set of views in a complete scan are then used to solve for the radionuclide activities on a voxel by voxel basis, over 16 layers of a 10x10 voxel grid. Thus, the raw count data are not independent trials any more, but rather constitute input to a matrix solution for the emission image values at the various locations inside the item volume used in the reconstruction. So, the validity of the methods used to estimate MDA for an imaging technique such as TGS warrant a close scrutiny, because the pair-counting concept of Currie is not directly applicable. One can also raise questions as to whether the TGS, along with other image reconstruction techniques which heavily intertwine data, is a suitable method if one expects to measure samples whose activities

  19. Advancing taxonomy and bioinventories with DNA barcodes

    Science.gov (United States)

    2016-01-01

    We use three examples—field and ecology-based inventories in Costa Rica and Papua New Guinea and a museum and taxonomic-based inventory of the moth family Geometridae—to demonstrate the use of DNA barcoding (a short sequence of the mitochondrial COI gene) in biodiversity inventories, from facilitating workflows of identification of freshly collected specimens from the field, to describing the overall diversity of megadiverse taxa from museum collections, and most importantly linking the fresh specimens, the general museum collections and historic type specimens. The process also flushes out unexpected sibling species hiding under long-applied scientific names, thereby clarifying and parsing previously mixed collateral data. The Barcode of Life Database has matured to an essential interactive platform for the multi-authored and multi-process collaboration. The BIN system of creating and tracking DNA sequence-based clusters as proxies for species has become a powerful way around some parts of the ‘taxonomic impediment’, especially in entomology, by providing fast but testable and tractable species hypotheses, tools for visualizing the distribution of those in time and space and an interim naming system for communication. This article is part of the themed issue ‘From DNA barcodes to biomes’. PMID:27481791

  20. Advancing taxonomy and bioinventories with DNA barcodes.

    Science.gov (United States)

    Miller, Scott E; Hausmann, Axel; Hallwachs, Winnie; Janzen, Daniel H

    2016-09-01

    We use three examples-field and ecology-based inventories in Costa Rica and Papua New Guinea and a museum and taxonomic-based inventory of the moth family Geometridae-to demonstrate the use of DNA barcoding (a short sequence of the mitochondrial COI gene) in biodiversity inventories, from facilitating workflows of identification of freshly collected specimens from the field, to describing the overall diversity of megadiverse taxa from museum collections, and most importantly linking the fresh specimens, the general museum collections and historic type specimens. The process also flushes out unexpected sibling species hiding under long-applied scientific names, thereby clarifying and parsing previously mixed collateral data. The Barcode of Life Database has matured to an essential interactive platform for the multi-authored and multi-process collaboration. The BIN system of creating and tracking DNA sequence-based clusters as proxies for species has become a powerful way around some parts of the 'taxonomic impediment', especially in entomology, by providing fast but testable and tractable species hypotheses, tools for visualizing the distribution of those in time and space and an interim naming system for communication.This article is part of the themed issue 'From DNA barcodes to biomes'. PMID:27481791

  1. Sample heating system for spin-polarized scanning electron microscopy.

    Science.gov (United States)

    Kohashi, Teruo; Motai, Kumi

    2013-08-01

    A sample-heating system for spin-polarized scanning electron microscopy (spin SEM) has been developed and used for microscopic magnetization analysis at temperatures up to 500°C. In this system, a compact ceramic heater and a preheating operation keep the ultra-high vacuum conditions while the sample is heated during spin SEM measurement. Moreover, the secondary-electron collector, which is arranged close to the sample, was modified so that it is not damaged at high temperatures. The system was used to heat a Co(1000) single-crystal sample from room temperature up to 500°C, and the magnetic-domain structures were observed. Changes of the domain structures were observed around 220 and 400°C, and these changes are considered to be due to phase transitions of this sample.

  2. Performance analysis on a new binary amplitude-based phase-only-encoded barcode

    Science.gov (United States)

    Wu, Xu; Hu, Jiasheng; Wu, Kenan; Lin, Yong

    2008-03-01

    In this paper, we propose a new encoding method to make a binary amplitude-based phase-only-encoded barcode in a security system based on the conventional random phase encoding technique. In this method, the values of the phase distribution in the system are quantified with a high phase level, and afterwards the result is encoded into a binary matrix based on the rule of decimal-binary conversion. The binary matrix is arranged specially and printed as the 2-D anti-counterfeit label which can be printed by standard halftoning technology and read by optical scanning device. It is obvious that the higher phase level could be chosen to obtain the better reconstruction image in the improved method and the fabrication is also very convenient. In additions, computer simulations and optical scanning experiments are illustrated in detail. The tolerance to data loss of the encoded barcode is also studied particularly. The results show that the presented encoding method has advantage of robustness and high security, and very convenient to be popularized in practice.

  3. Hyperspectral imaging system for disease scanning on banana plants

    Science.gov (United States)

    Ochoa, Daniel; Cevallos, Juan; Vargas, German; Criollo, Ronald; Romero, Dennis; Castro, Rodrigo; Bayona, Oswaldo

    2016-05-01

    Black Sigatoka (BS) is a banana plant disease caused by the fungus Mycosphaerella fijiensis. BS symptoms can be observed at late infection stages. By that time, BS has probably spread to other plants. In this paper, we present our current work on building an hyper-spectral (HS) imaging system aimed at in-vivo detection of BS pre-symptomatic responses in banana leaves. The proposed imaging system comprises a motorized stage, a high-sensitivity VIS-NIR camera and an optical spectrograph. To capture images of the banana leaf, the stage's speed and camera's frame rate must be computed to reduce motion blur and to obtain the same resolution along both spatial dimensions of the resulting HS cube. Our continuous leaf scanning approach allows imaging leaves of arbitrary length with minimum frame loss. Once the images are captured, a denoising step is performed to improve HS image quality and spectral profile extraction.

  4. Cooperative environment scans based on a multi-robot system.

    Science.gov (United States)

    Kwon, Ji-Wook

    2015-01-01

    This paper proposes a cooperative environment scan system (CESS) using multiple robots, where each robot has low-cost range finders and low processing power. To organize and maintain the CESS, a base robot monitors the positions of the child robots, controls them, and builds a map of the unknown environment, while the child robots with low performance range finders provide obstacle information. Even though each child robot provides approximated and limited information of the obstacles, CESS replaces the single LRF, which has a high cost, because much of the information is acquired and accumulated by a number of the child robots. Moreover, the proposed CESS extends the measurement boundaries and detects obstacles hidden behind others. To show the performance of the proposed system and compare this with the numerical models of the commercialized 2D and 3D laser scanners, simulation results are included. PMID:25789491

  5. Calibration technology in application of robot-laser scanning system

    Science.gov (United States)

    Ren, YongJie; Yin, ShiBin; Zhu, JiGui

    2012-11-01

    A system composed of laser sensor and 6-DOF industrial robot is proposed to obtain complete three-dimensional (3-D) information of the object surface. Suitable for the different combining ways of laser sensor and robot, a new method to calibrate the position and pose between sensor and robot is presented. By using a standard sphere with known radius as a reference tool, the rotation and translation matrices between the laser sensor and robot are computed, respectively in two steps, so that many unstable factors introduced in conventional optimization methods can be avoided. The experimental results show that the accuracy of the proposed calibration method can be achieved up to 0.062 mm. The calibration method is also implemented into the automated robot scanning system to reconstruct a car door panel.

  6. Mechatronic Scanning System with Integrated Micro Electro Mechanical System Position Sensors

    Science.gov (United States)

    Stavrov, Vladimir; Chakarov, Dimitar; Shulev, Assen; Tsveov, Mihail

    2016-06-01

    In this paper, a study of a mechatronic scanning system for application in the microbiology, microelectronics research, chemistry, etc. is presented. Integrated silicon micro electro mechanical system (MEMS) position sensor is used for monitoring the displacement of the scanning system. The utilized silicon MEMS sensors with sidewall embedded piezoresistors possess a number of key advantages such as high sensitivity, low noise and extremely low temperature dependence. Design of 2D scanning system with a travel range of 22 × 22 μm2 has been presented in present work. This system includes a Compliant Transmission Mechanism, (CTM) designed as a complex elastic mechanism, comprising four parallelograms. Computer aided desigh (CAD) model and finite element analysis (FEA) of the Compliant Transmission Mechanism mechanisms have been carried out. A prototype of the scanning system is fabricated, based on CAD model. An experimental set-up of an optical system and a correlation technique for digital image processing have been used for testing the scanning system prototype. Results of the experimental investigations of the prototyped scanning system are also presented.

  7. Mechatronic Scanning System with Integrated Micro Electro Mechanical System Position Sensors

    Directory of Open Access Journals (Sweden)

    Stavrov Vladimir

    2016-06-01

    Full Text Available In this paper, a study of a mechatronic scanning system for application in the microbiology, microelectronics research, chemistry, etc. is presented. Integrated silicon micro electro mechanical system (MEMS position sensor is used for monitoring the displacement of the scanning system. The utilized silicon MEMS sensors with sidewall embedded piezoresistors possess a number of key advantages such as high sensitivity, low noise and extremely low temperature dependence. Design of 2D scanning system with a travel range of 22 × 22 μm2 has been presented in present work. This system includes a Compliant Transmission Mechanism, (CTM designed as a complex elastic mechanism, comprising four parallelograms. Computer aided desigh (CAD model and finite element analysis (FEA of the Compliant Transmission Mechanism mechanisms have been carried out. A prototype of the scanning system is fabricated, based on CAD model. An experimental set-up of an optical system and a correlation technique for digital image processing have been used for testing the scanning system prototype. Results of the experimental investigations of the prototyped scanning system are also presented.

  8. A smartphone-readable barcode assay for the detection and quantitation of pesticide residues.

    Science.gov (United States)

    Guo, Juan; Wong, Jessica X H; Cui, Caie; Li, Xiaochun; Yu, Hua-Zhong

    2015-08-21

    In this paper, we present a smartphone-readable barcode assay for the qualitative detection of methyl parathion residues, a toxic organophosphorus pesticide that is popularly used in agriculture worldwide. The detection principle is based on the irreversible inhibition of the enzymatic activity of acetylcholinesterase (AchE) by methyl parathion; AchE catalytically hydrolyzes acetylthiocholine iodine to thiocholine that in turn dissociates dithiobis-nitrobenzoate to produce a yellow product (deprotonated thio-nitrobenzoate). The yellow intensity of the product was confirmed to be inversely dependent on the concentration of the pesticide. We have designed a barcode-formatted assay chip by using a PDMS (polydimethylsiloxane) channel plate (as the reaction reservoir), situated under a printed partial barcode, to complete the whole barcode such that it can be directly read by a barcode scanning app installed on a smartphone. The app is able to qualitatively present the result of the pesticide test; the absence or a low concentration of methyl parathion results in the barcode reading as "-", identifying the test as negative for pesticides. Upon obtaining a positive result (the app reads a "+" character), the captured image can be further analyzed to quantitate the methyl parathion concentration in the sample. Besides the portability and simplicity, this mobile-app based colorimetric barcode assay compares favorably with the standard spectrophotometric method. PMID:26087169

  9. Scanned Image Projection System Employing Intermediate Image Plane

    Science.gov (United States)

    DeJong, Christian Dean (Inventor); Hudman, Joshua M. (Inventor)

    2014-01-01

    In imaging system, a spatial light modulator is configured to produce images by scanning a plurality light beams. A first optical element is configured to cause the plurality of light beams to converge along an optical path defined between the first optical element and the spatial light modulator. A second optical element is disposed between the spatial light modulator and a waveguide. The first optical element and the spatial light modulator are arranged such that an image plane is created between the spatial light modulator and the second optical element. The second optical element is configured to collect the diverging light from the image plane and collimate it. The second optical element then delivers the collimated light to a pupil at an input of the waveguide.

  10. A Mobile Automated Tomographic Gamma Scanning System - 13231

    Energy Technology Data Exchange (ETDEWEB)

    Kirkpatrick, J.M.; LeBlanc, P.J.; Nakazawa, D.; Petroka, D.L.; Kane Smith, S.; Venkataraman, R.; Villani, M. [Canberra Industries, Inc. 800 Research Parkway, Meriden CT 06450 (United States)

    2013-07-01

    Canberra Industries have recently designed and built a new automated Tomographic Gamma Scanning (TGS) system for mobile deployment. The TGS technique combines high-resolution gamma spectroscopy with low spatial resolution 3-dimensional image reconstruction to provide increased accuracy over traditional approaches for the assay of non-uniform source distributions in low-to medium-density, non-heterogeneous matrices. Originally pioneered by R. Estep at Los Alamos National Laboratory (LANL), the TGS method has been further developed and commercialized by Canberra Industries in recent years. The present system advances the state of the art on several fronts: it is designed to be housed in a standard cargo transport container for ease of transport, allowing waste characterization at multiple facilities under the purview of a single operator. Conveyor feed, drum rotator, and detector and collimator positioning mechanisms operated by programmable logic control (PLC) allow automated batch mode operation. The variable geometry settings can accommodate a wide range of waste packaging, including but not limited to standard 220 liter drums, 380 liter overpack drums, and smaller 20 liter cans. A 20 mCi Eu-152 transmission source provides attenuation corrections for drum matrices up to 1 g/cm{sup 3} in TGS mode; the system can be operated in Segmented Gamma Scanning (SGS) mode to measure higher density drums. To support TGS assays at higher densities, the source shield is sufficient to house an alternate Co-60 transmission source of higher activity, up to 250 mCi. An automated shutter and attenuator assembly is provided for operating the system with a dual intensity transmission source. The system's 1500 kg capacity rotator turntable can handle heavy containers such as concrete lined 380 liter overpack drums. Finally, data acquisition utilizes Canberra's Broad Energy Germanium (BEGE) detector and Lynx MCA, with 32 k channels, providing better than 0.1 ke

  11. A Mobile Automated Tomographic Gamma Scanning System - 13231

    International Nuclear Information System (INIS)

    Canberra Industries have recently designed and built a new automated Tomographic Gamma Scanning (TGS) system for mobile deployment. The TGS technique combines high-resolution gamma spectroscopy with low spatial resolution 3-dimensional image reconstruction to provide increased accuracy over traditional approaches for the assay of non-uniform source distributions in low-to medium-density, non-heterogeneous matrices. Originally pioneered by R. Estep at Los Alamos National Laboratory (LANL), the TGS method has been further developed and commercialized by Canberra Industries in recent years. The present system advances the state of the art on several fronts: it is designed to be housed in a standard cargo transport container for ease of transport, allowing waste characterization at multiple facilities under the purview of a single operator. Conveyor feed, drum rotator, and detector and collimator positioning mechanisms operated by programmable logic control (PLC) allow automated batch mode operation. The variable geometry settings can accommodate a wide range of waste packaging, including but not limited to standard 220 liter drums, 380 liter overpack drums, and smaller 20 liter cans. A 20 mCi Eu-152 transmission source provides attenuation corrections for drum matrices up to 1 g/cm3 in TGS mode; the system can be operated in Segmented Gamma Scanning (SGS) mode to measure higher density drums. To support TGS assays at higher densities, the source shield is sufficient to house an alternate Co-60 transmission source of higher activity, up to 250 mCi. An automated shutter and attenuator assembly is provided for operating the system with a dual intensity transmission source. The system's 1500 kg capacity rotator turntable can handle heavy containers such as concrete lined 380 liter overpack drums. Finally, data acquisition utilizes Canberra's Broad Energy Germanium (BEGE) detector and Lynx MCA, with 32 k channels, providing better than 0.1 keV/channel resolution to support

  12. High-Performance Acousto-Ultrasonic Scan System Being Developed

    Science.gov (United States)

    Roth, Don J.; Martin, Richard E.; Cosgriff, Laura M.; Gyekenyesi, Andrew L.; Kautz, Harold E.

    2003-01-01

    Acousto-ultrasonic (AU) interrogation is a single-sided nondestructive evaluation (NDE) technique employing separated sending and receiving transducers. It is used for assessing the microstructural condition and distributed damage state of the material between the transducers. AU is complementary to more traditional NDE methods, such as ultrasonic cscan, x-ray radiography, and thermographic inspection, which tend to be used primarily for discrete flaw detection. Throughout its history, AU has been used to inspect polymer matrix composites, metal matrix composites, ceramic matrix composites, and even monolithic metallic materials. The development of a high-performance automated AU scan system for characterizing within-sample microstructural and property homogeneity is currently in a prototype stage at NASA. This year, essential AU technology was reviewed. In addition, the basic hardware and software configuration for the scanner was developed, and preliminary results with the system were described. Mechanical and environmental loads applied to composite materials can cause distributed damage (as well as discrete defects) that plays a significant role in the degradation of physical properties. Such damage includes fiber/matrix debonding (interface failure), matrix microcracking, and fiber fracture and buckling. Investigations at the NASA Glenn Research Center have shown that traditional NDE scan inspection methods such as ultrasonic c-scan, x-ray imaging, and thermographic imaging tend to be more suited to discrete defect detection rather than the characterization of accumulated distributed microdamage in composites. Since AU is focused on assessing the distributed microdamage state of the material in between the sending and receiving transducers, it has proven to be quite suitable for assessing the relative composite material state. One major success story at Glenn with AU measurements has been the correlation between the ultrasonic decay rate obtained during AU

  13. A DNA barcoding approach in the study of tardigrades

    Directory of Open Access Journals (Sweden)

    Michele Cesari

    2013-05-01

    Full Text Available DNA barcoding is a technique proposed by Hebert and co-workers in 2003 for discriminating species through analysis of a single gene barcode locus. It aims to obtain a better taxonomic resolution than that achieved through morphological studies, and to avoid the decline in taxonomic knowledge. Today DNA barcoding is a global enterprise, and the implementation of the idea has seen a rapid rise (more than 1900 papers published to date on different organisms. Nonetheless, controversy still arises regarding barcoding and taxonomy. It is important to note that DNA barcoding does not focus on building a tree-of-life or on doing DNA taxonomy, even though sometimes it has been used for these purposes. DNA barcoding rather focuses on producing a universal molecular identification key based on strong taxonomic knowledge that should be included in the barcode reference library. In the phylum Tardigrada, DNA barcoding represents a recent approach to species identification and to help in solving taxonomic problems, especially considering the diminutive size of these animals and the paucity of morphological characters useful for taxonomy. In the framework of the MoDNA Project (Morphology and DNA, carried out by our research group in collaboration with several colleagues, we are combining the study of a fragment of the mitochondrial cytochrome c oxidase subunit I gene (cox1 with morphological data, in a wide sense (cuticular structures, chromosomes, data on sex ratio and reproduction, to form an integrative taxonomy approach for tardigrade species identification. We believe that without verified reference sequences from voucher specimens that have been authenticated by qualified taxonomists, there is no reliable library for newly generated sequences with which to be compared. Methods and protocols for standardized results are focused on obtaining tight correspondence between tardigrade morphology (and egg shell morphology, when useful, possibly both light and

  14. Barcoding Fauna Bavarica: 78% of the Neuropterida fauna barcoded!

    Directory of Open Access Journals (Sweden)

    Jérome Morinière

    Full Text Available This publication provides the first comprehensive DNA barcode data set for the Neuropterida of Central Europe, including 80 of the 102 species (78% recorded from Bavaria (Germany and three other species from nearby regions (Austria, France and the UK. Although the 286 specimens analyzed had a heterogeneous conservation history (60% dried; 30% in 80% EtOH; 10% fresh specimens in 95% EtOH, 237 (83% generated a DNA barcode. Eleven species (13% shared a BIN, but three of these taxa could be discriminated through barcodes. Four pairs of closely allied species shared barcodes including Chrysoperla pallida Henry et al., 2002 and C. lucasina Lacroix, 1912; Wesmaelius concinnus (Stephens, 1836 and W. quadrifasciatus (Reuter, 1894; Hemerobius handschini Tjeder, 1957 and H. nitidulus Fabricius, 1777; and H. atrifrons McLachlan, 1868 and H. contumax Tjeder, 1932. Further studies are needed to test the possible synonymy of these species pairs or to determine if other genetic markers permit their discrimination. Our data highlight five cases of potential cryptic diversity within Bavarian Neuropterida: Nineta flava (Scopoli, 1763, Sympherobius pygmaeus (Rambur, 1842, Sisyra nigra (Retzius, 1783, Semidalis aleyrodiformis (Stephens, 1836 and Coniopteryx pygmaea Enderlein, 1906 are each split into two or three BINs. The present DNA barcode library not only allows the identification of adult and larval stages, but also provides valuable information for alpha-taxonomy, and for ecological and evolutionary research.

  15. Barcoding Fauna Bavarica: 78% of the Neuropterida fauna barcoded!

    Science.gov (United States)

    Morinière, Jérome; Hendrich, Lars; Hausmann, Axel; Hebert, Paul; Haszprunar, Gerhard; Gruppe, Axel

    2014-01-01

    This publication provides the first comprehensive DNA barcode data set for the Neuropterida of Central Europe, including 80 of the 102 species (78%) recorded from Bavaria (Germany) and three other species from nearby regions (Austria, France and the UK). Although the 286 specimens analyzed had a heterogeneous conservation history (60% dried; 30% in 80% EtOH; 10% fresh specimens in 95% EtOH), 237 (83%) generated a DNA barcode. Eleven species (13%) shared a BIN, but three of these taxa could be discriminated through barcodes. Four pairs of closely allied species shared barcodes including Chrysoperla pallida Henry et al., 2002 and C. lucasina Lacroix, 1912; Wesmaelius concinnus (Stephens, 1836) and W. quadrifasciatus (Reuter, 1894); Hemerobius handschini Tjeder, 1957 and H. nitidulus Fabricius, 1777; and H. atrifrons McLachlan, 1868 and H. contumax Tjeder, 1932. Further studies are needed to test the possible synonymy of these species pairs or to determine if other genetic markers permit their discrimination. Our data highlight five cases of potential cryptic diversity within Bavarian Neuropterida: Nineta flava (Scopoli, 1763), Sympherobius pygmaeus (Rambur, 1842), Sisyra nigra (Retzius, 1783), Semidalis aleyrodiformis (Stephens, 1836) and Coniopteryx pygmaea Enderlein, 1906 are each split into two or three BINs. The present DNA barcode library not only allows the identification of adult and larval stages, but also provides valuable information for alpha-taxonomy, and for ecological and evolutionary research.

  16. Currency verification by a 2D infrared barcode

    International Nuclear Information System (INIS)

    Nowadays all the National Central Banks are continuously studying innovative anti-counterfeiting systems for banknotes. In this note, an innovative solution is proposed, which combines the potentiality of a hylemetric approach (methodology conceptually similar to biometry), based on notes' intrinsic characteristics, with a well-known and consolidated 2D barcode identification system. In particular, in this note we propose to extract from the banknotes a univocal binary control sequence (template) and insert an encrypted version of it in a barcode printed on the same banknote. For a more acceptable look and feel of a banknote, the superposed barcode can be stamped using IR ink that is visible to near-IR image sensors. This makes the banknote verification simpler. (technical design note)

  17. Tamper-indicating barcode and method

    Energy Technology Data Exchange (ETDEWEB)

    Cummings, Eric B.; Even, Jr., William R.; Simmons, Blake A.; Dentinger, Paul Michael

    2005-03-22

    A novel tamper-indicating barcode methodology is disclosed that allows for detection of alteration to the barcode. The tamper-indicating methodology makes use of a tamper-indicating means that may be comprised of a particulate indicator, an optical indicator, a deformable substrate, and/or may be an integrated aspect of the barcode itself. This tamper-indicating information provides greater security for the contents of containers sealed with the tamper-indicating barcodes.

  18. DNA barcoding: species delimitation in tree peonies

    Institute of Scientific and Technical Information of China (English)

    ZHANG JinMei; WANG JianXiu; XIA Tao; ZHOU ShiLiang

    2009-01-01

    Delimitations of species are crucial for correct and precise identification of taxa. Unfortunately "spe-cies" is more a subjective than an objective concept in taxonomic practice due to difficulties in re-vealing patterns of infra- or inter-specific variations. Molecular phylogenetic studies at the population level solve this problem and lay a sound foundation for DNA barcoding. In this paper we exemplify the necessity of adopting a phylogenetic concept of species in DNA barcoding for tree peonies (Paeonia sect. Moutan). We used 40 samples representing all known populations of rare and endangered species and several populations of widely distributed tree peonies. All currently recognized species and majorbvariants have been included in this study. Four chloroplast gene fragments, I.e. ndhF, rps16-trnQ, trnL.F and trnS-G (a total of 5040 characters, 96 variable and 69 parsimony-informative characters) and one variable and single-copy nuclear GPAT gene fragment (2093-2197 bp, 279 variable and 148 parsi-mony-informative characters) were used to construct phylogenetic relationships among the taxa. The evolutionary lineages revealed by the nuclear gene and the chloroplast genes are inconsistent with the current circumscriptions of P. Decomposita, P. Jishanensis, P. Qiui, and P. Rockii based on morphology. The inconsistencies come from (1) significant chloroplast gene divergence but little nuclear GPAT gene divergence among population systems of P. Decomposita + P. Rockii, and (2) well-diverged nuclear GPAT gene but little chloroplast gene divergence between P. Jishanensis and P. Qiui. The incongruence of the phylogenies based on the chloroplast genes and the nuclear GPAT gene is probably due to the chloro-plast capture event in evolutionary history, as no reproductive barriers exist to prevent inter-specific hybridization. We also evaluated the suitability of these genes for use as DNA barcodes for tree peonies. The variability of chloroplast genes among well

  19. Classification of sharks in the Egyptian Mediterranean waters using morphological and DNA barcoding approaches.

    Directory of Open Access Journals (Sweden)

    Marie Moftah

    Full Text Available The identification of species constitutes the first basic step in phylogenetic studies, biodiversity monitoring and conservation. DNA barcoding, i.e. the sequencing of a short standardized region of DNA, has been proposed as a new tool for animal species identification. The present study provides an update on the composition of shark in the Egyptian Mediterranean waters off Alexandria, since the latest study to date was performed 30 years ago, DNA barcoding was used in addition to classical taxonomical methodologies. Thus, 51 specimen were DNA barcoded for a 667 bp region of the mitochondrial COI gene. Although DNA barcoding aims at developing species identification systems, some phylogenetic signals were apparent in the data. In the neighbor-joining tree, 8 major clusters were apparent, each of them containing individuals belonging to the same species, and most with 100% bootstrap value. This study is the first to our knowledge to use DNA barcoding of the mitochondrial COI gene in order to confirm the presence of species Squalus acanthias, Oxynotus centrina, Squatina squatina, Scyliorhinus canicula, Scyliorhinus stellaris, Mustelus mustelus, Mustelus punctulatus and Carcharhinus altimus in the Egyptian Mediterranean waters. Finally, our study is the starting point of a new barcoding database concerning shark composition in the Egyptian Mediterranean waters (Barcoding of Egyptian Mediterranean Sharks [BEMS], http://www.boldsystems.org/views/projectlist.php?&#Barcoding%20Fish%20%28FishBOL%29.

  20. Modelling and calibration of the laser beam-scanning triangulation measurement system

    NARCIS (Netherlands)

    Wang, Guoyu; Zheng, Bing; Li, Xin; Houkes, Z.; Regtien, P.P.L.

    2002-01-01

    We present an approach of modelling and calibration of an active laser beam-scanning triangulation measurement system. The system works with the pattern of two-dimensional beam-scanning illumination and one-dimensional slit-scanning detection with a photo-multiplier tube instead of a CCD camera. By

  1. Nanosecond step-scan FTIR spectroscopy applied to photobiological systems

    Science.gov (United States)

    Rödig, C.; Weidlich, O.; Hackmann, C.; Siebert, F.

    1998-06-01

    Our improved step-scan FTIR instrument, capable of measuring spectra within 15 ns after the flash, is employed to measure flash-induced infrared difference spectra of bacteriorhodopsin, halorhodopsin and CO-myoglobin. For all three systems it is necessary to cover a large time range extending into several milliseconds. Therefore, the linear time base provided by the transient recorder board is converted to a quasi-logarithmic scale. Each of the three systems is characterized by several time constants extending over the large time range. For bacteriorhodopsin, it is shown that two spectral changes occur, one in the 20 and the other in the 100 ns time range. Furthermore, spectral differences between the two M states could be detected in the μs time range. For halorhodopsin, a clear batho intermediate with red-shifted ethylenic mode could be identified in the nanosecond time range. In addition, a transition corresponding to the N intermediate in bacteriorhodopsin was deduced. Further, it is shown that the millisecond time constant depends on Cl- concentration, enabling the detection of the O intermediate. In the case of CO-myoglobin, spectral differences could be identified caused by mutations of the distal histidine of the heme binding pocket.

  2. A high-speed 12-layer two-dimensional bar code detection system with wideband photodetection amplifier and balanced raster scanner

    Science.gov (United States)

    Wakaumi, Hiroo; Ajiki, Hiroshi

    1998-12-01

    A high-speed 12-layer 2D bar-code detection system (BCDS) consisting of a photodetection amplifier with an amplification-type current-voltage converter and a balanced raster scanner combined with the complementary light emission drive method for laser diodes, has been developed in order to provide both a high effective scanning speed and multi-layer bar-code detection. This BCDS performs 1,250 scan/s, which is two and a half times the scanning speed of a conventional bar-code detection system. A new theoretical modulation model that gives an accurate model for laser scanning beam traces obtained by the balanced raster scanner is proposed. This model allows an optimum BCDS to be designed easily.

  3. DNA barcoding, phylogenetic relationships and speciation of snappers (genus Lutjanus)

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    The phylogenetic relationships of 13 snapper species from the South China Sea have been established using the combined DNA sequences of three full-length mitochondrial genes (COI, COII and CYTB) and two partial nuclear genes (RAG1, RAG2). The 13 species (genus Lutjanus) were selected after DNA barcoding 72 individuals, representing 20 species. Our study suggests that although DNA barcoding aims to develop species identification systems, it may also be useful in the construction of phylogenies by aiding the selection of taxa. Combined mitochondrial and nuclear gene data has an advantage over an individual dataset because of its higher resolving power.

  4. 2D Barcode for DNA Encoding

    CERN Document Server

    Purcaru, Elena

    2012-01-01

    The paper presents a solution for endcoding/decoding DNA information in 2D barcodes. First part focuses on the existing techniques and symbologies in 2D barcodes field. The 2D barcode PDF417 is presented as starting point. The adaptations and optimizations on PDF417 and on DataMatrix lead to the solution - DNA2DBC - DeoxyriboNucleic Acid Two Dimensional Barcode. The second part shows the DNA2DBC encoding/decoding process step by step. In conclusions are enumerated the most important features of 2D barcode implementation for DNA.

  5. 2D Barcode for DNA Encoding

    Directory of Open Access Journals (Sweden)

    Elena Purcaru

    2011-09-01

    Full Text Available The paper presents a solution for endcoding/decoding DNA information in 2D barcodes. First part focuses on the existing techniques and symbologies in 2D barcodes field. The 2D barcode PDF417 is presented as starting point. The adaptations and optimizations on PDF417 and on DataMatrix lead to the solution – DNA2DBC – DeoxyriboNucleic Acid Two Dimensional Barcode. The second part shows the DNA2DBC encoding/decoding process step by step. In conclusions are enumerated the most important features of 2D barcode implementation for DNA.

  6. Statistical Approaches for DNA Barcoding

    DEFF Research Database (Denmark)

    Nielsen, Rasmus; Matz, M.

    2006-01-01

    The use of DNA as a tool for species identification has become known as "DNA barcoding" (Floyd et al., 2002; Hebert et al., 2003; Remigio and Hebert, 2003). The basic idea is straightforward: a small amount of DNA is extracted from the specimen, amplified and sequenced. The gene region sequenced...... is chosen so that it is nearly identical among individuals of the same species, but different between species, and therefore its sequence, can serve as an identification tag for the species ("DNA barcode"). By matching the sequence obtained from an unidentified specimen ("query" sequence) to the database...

  7. From Barcode to QR Code Applications

    OpenAIRE

    László Várallyai

    2012-01-01

    This paper shows the Zsohár Horticulture Company in Nagyrákos, how they want to change their barcode identification system to QR code. They cultivate herbaceous, perpetual decorational plants, rock-garden, flower-bed and swamp perpetuals, decorational grasses and spices. A part of the perpetuals are evergreens, but most of them has special organs - such as onions, thick-, bulbous roots, "winter-proof" buds - so they can survive winter. In the first part of the paper I introduce the different ...

  8. Measuring and Test Equipment through barcode technology

    Energy Technology Data Exchange (ETDEWEB)

    Crockett, J.D.; Carr, C.C.

    1993-06-01

    Over the past several years, the use, trace methodology, and documentation of Measuring and Test Equipment has become a major concern. Current regulations are forcing companies to develop new policies, providing use history and traceability of Measuring and Test Equipment. The US Department of Energy and Environmental Organizations are driving Westinghouse Hanford Company to comply with the more stringent environmental guidelines and recent modifications in Department of Energy Orders. This paper discusses how the Fast Flux Test Facility at Westinghouse Hanford Company overcame these obstacles by using a computerized system through barcode technology.

  9. Uniform irradiation system using beam scanning method for cyclotron

    International Nuclear Information System (INIS)

    JAERI AVF-cyclotron is equipped with an ion beam scanner for large area irradiation. The two-dimensional fluence distribution of ion beam obtained using cellulose triacetate film dosimeter was not uniform. This is resulted from the distortion of excitation current for electromagnet of the scanner. So, the beam scanning condition, i.e., the relation between the ion species, the beam profile and the scanning width, was extremely limited to make a good uniformity. We have developed a beam scanning simulator to get fluence distributions by calculation and then compared the simulated distributions with the measured ones. It was revealed that the both of them are in good agreement and the beam scanning condition to get good uniformity was led by using this simulator. On the basis of these results, the power supply of scanner was improved. A good uniformity of beam distribution was available. (author)

  10. A novel scanning system using an industrial robot and the workspace measurement and positioning system

    Science.gov (United States)

    Zhao, Ziyue; Zhu, Jigui; Yang, Linghui; Lin, Jiarui

    2015-10-01

    The present scanning system consists of an industrial robot and a line-structured laser sensor which uses the industrial robot as a position instrument to guarantee the accuracy. However, the absolute accuracy of an industrial robot is relatively poor compared with the good repeatability in the manufacturing industry. This paper proposes a novel method using the workspace measurement and positioning system (wMPS) to remedy the lack of accuracy of the industrial robot. In order to guarantee the positioning accuracy of the system, the wMPS which is a laser-based measurement technology designed for large-volume metrology applications is brought in. Benefitting from the wMPS, this system can measure different cell-areas by the line-structured laser sensor and fuse the measurement data of different cell-areas by using the wMPS accurately. The system calibration which is the procedure to acquire and optimize the structure parameters of the scanning system is also stated in detail in this paper. In order to verify the feasibility of the system for scanning the large free-form surface, an experiment is designed to scan the internal surface of the door of a car-body in white. The final results show that the measurement data of the whole measuring areas have been jointed perfectly and there is no mismatch in the figure especially in the hole measuring areas. This experiment has verified the rationality of the system scheme, the correctness and effectiveness of the relevant methods.

  11. Adaptive noise Wiener filter for scanning electron microscope imaging system.

    Science.gov (United States)

    Sim, K S; Teh, V; Nia, M E

    2016-03-01

    Noise on scanning electron microscope (SEM) images is studied. Gaussian noise is the most common type of noise in SEM image. We developed a new noise reduction filter based on the Wiener filter. We compared the performance of this new filter namely adaptive noise Wiener (ANW) filter, with four common existing filters as well as average filter, median filter, Gaussian smoothing filter and the Wiener filter. Based on the experiments results the proposed new filter has better performance on different noise variance comparing to the other existing noise removal filters in the experiments. SCANNING 38:148-163, 2016. © 2015 Wiley Periodicals, Inc. PMID:26235517

  12. ADRISYA: A Flow Based Anomaly Detection System for Slow and Fast Scan

    Directory of Open Access Journals (Sweden)

    Muraleedharan N

    2010-10-01

    Full Text Available Attackers perform port scan to find reachability, liveness and running services in a system or network.Current day scanning tools provide different scanning options and capable of evading various securitytools like firewall, IDS and IPS. So in order to detect and prevent attacks in the early stages, an accuratedetection of scanning activity in real time is very much essential. In this paper we present a flow basedprotocol behaviour analysis system to detect TCP based slow and fast scan. This system providesscalable, accurate and generic solution to TCP based scanning by means of automatic behaviour analysisof the network traffic. Detection capability of proposed system is compared with SNORT and resultproves the high detection rate of the system over SNORT.

  13. Potential use of DNA barcodes in regulatory science: applications of the Regulatory Fish Encyclopedia.

    Science.gov (United States)

    Yancy, Haile F; Zemlak, Tyler S; Mason, Jacquline A; Washington, Jewell D; Tenge, Bradley J; Nguyen, Ngoc-Lan T; Barnett, James D; Savary, Warren E; Hill, Walter E; Moore, Michelle M; Fry, Frederick S; Randolph, Spring C; Rogers, Patricia L; Hebert, Paul D N

    2008-01-01

    The use of a DNA-based identification system (DNA barcoding) founded on the mitochondrial gene cytochrome c oxidase subunit I (COI) was investigated for updating the U.S. Food and Drug Administration Regulatory Fish Encyclopedia (RFE; http://www.cfsan.fda.gov/-frf/rfe0.html). The RFE is a compilation of data used to identify fish species. It was compiled to help regulators identify species substitution that could result in potential adverse health consequences or could be a source of economic fraud. For each of many aquatic species commonly sold in the United States, the RFE includes high-resolution photographs of whole fish and their marketed product forms and species-specific biochemical patterns for authenticated fish species. These patterns currently include data from isoelectric focusing studies. In this article, we describe the generation of DNA barcodes for 172 individual authenticated fish representing 72 species from 27 families contained in the RFE. These barcode sequences can be used as an additional identification resource. In a blind study, 60 unknown fish muscle samples were barcoded, and the results were compared with the RFE barcode reference library. All 60 samples were correctly identified to species based on the barcoding data. Our study indicates that DNA barcoding can be a powerful tool for species identification and has broad potential applications.

  14. Self-registering spread-spectrum barcode method

    Energy Technology Data Exchange (ETDEWEB)

    Cummings, Eric B.; Even Jr., William R.

    2004-11-09

    A novel spread spectrum barcode methodology is disclosed that allows a barcode to be read in its entirety even when a significant fraction or majority of the barcode is obscured. The barcode methodology makes use of registration or clocking information that is distributed along with the encoded user data across the barcode image. This registration information allows for the barcode image to be corrected for imaging distortion such as zoom, rotation, tilt, curvature, and perspective.

  15. An entropy-based persistence barcode

    OpenAIRE

    Chintakunta, Harish; Gentimis, Thanos; González Díaz, Rocío; Jiménez Rodríguez, María José; Krim, Hamid

    2015-01-01

    In persistent homology, the persistence barcode encodes pairs of simplices meaning birth and death of homology classes. Persistence barcodes depend on the ordering of the simplices (called a filter) of the given simplicial complex. In this paper, we define the notion of “minimal” barcodes in terms of entropy. Starting from a given filtration of a simplicial complex K, an algorithm for computing a “proper” filter (a total ordering of the simplices preserving the partial ordering imposed by the...

  16. The Practical Evaluation of DNA Barcode Efficacy*

    OpenAIRE

    Spouge, John L.; Mariño-Ramírez, Leonardo

    2012-01-01

    This chapter describes a workflow for measuring the efficacy of a barcode in identifying species. First, assemble individual sequence databases corresponding to each barcode marker. A controlled collection of taxonomic data is preferable to GenBank data, because GenBank data can be problematic, particularly when comparing barcodes based on more than one marker. To ensure proper controls when evaluating species identification, specimens not having a sequence in every marker database should be ...

  17. Measuring and test equipment control through bar-code technology

    International Nuclear Information System (INIS)

    Over the past several years, the use, tracking, and documentation of measuring and test equipment (M ampersand TE) has become a major issue. New regulations are forcing companies to develop new policies for providing use history, traceability, and accountability of M ampersand TE. This paper discusses how the Fast Flux Test Facility (FFTF), operated by Westinghouse Hanford Company and located at the Hanford site in Rich- land, Washington, overcame these obstacles by using a computerized system exercising bar-code technology. A data base was developed to identify M ampersand TE containing 33 separate fields, such as manufacturer, model, range, bar-code number, and other pertinent information. A bar-code label was attached to each piece of M ampersand TE. A second data base was created to identify the employee using the M ampersand TE. The fields contained pertinent user information such as name, location, and payroll number. Each employee's payroll number was bar coded and attached to the back of their identification badge. A computer program was developed to automate certain tasks previously performed and tracked by hand. Bar-code technology was combined with this computer program to control the input and distribution of information, eliminate common mistakes, electronically store information, and reduce the time required to check out the M ampersand TE for use

  18. Establishing an Environmental Scanning/Forecasting System to Augment College and University Planning.

    Science.gov (United States)

    Morrison, James L.

    1987-01-01

    The major benefit of an environmental scanning/forecasting system is in providing critical information for strategic planning. Such a system allows the institution to detect social, technological, economic, and political trends and potential events. The environmental scanning database developed by United Way of America is described. (MLW)

  19. Developing Environmental Scanning/Forecasting Systems To Augment Community College Planning.

    Science.gov (United States)

    Morrison, James L.; Held, William G.

    A description is provided of a conference session that was conducted to explore the structure and function of an environmental scanning/forecasting system that could be used in a community college to facilitate planning. Introductory comments argue that a college that establishes an environmental scanning and forecasting system is able to identify…

  20. 2D Barcode for DNA Encoding

    OpenAIRE

    Elena Purcaru; Cristian Toma

    2012-01-01

    The paper presents a solution for endcoding/decoding DNA information in 2D barcodes. First part focuses on the existing techniques and symbologies in 2D barcodes field. The 2D barcode PDF417 is presented as starting point. The adaptations and optimizations on PDF417 and on DataMatrix lead to the solution – DNA2DBC – DeoxyriboNucleic Acid Two Dimensional Barcode. The second part shows the DNA2DBC encoding/decoding process step by step. In conclusions are enumerated the most important features ...

  1. Angle extended linear MEMS scanning system for 3D laser vision sensor

    Science.gov (United States)

    Pang, Yajun; Zhang, Yinxin; Yang, Huaidong; Zhu, Pan; Gai, Ye; Zhao, Jian; Huang, Zhanhua

    2016-09-01

    Scanning system is often considered as the most important part for 3D laser vision sensor. In this paper, we propose a method for the optical system design of angle extended linear MEMS scanning system, which has features of huge scanning degree, small beam divergence angle and small spot size for 3D laser vision sensor. The principle of design and theoretical formulas are derived strictly. With the help of software ZEMAX, a linear scanning optical system based on MEMS has been designed. Results show that the designed system can extend scanning angle from ±8° to ±26.5° with a divergence angle small than 3.5 mr, and the spot size is reduced for 4.545 times.

  2. Reducing field distortion for galvanometer scanning system using a vision system

    Science.gov (United States)

    Ortega Delgado, Moises Alberto; Lasagni, Andrés Fabián

    2016-11-01

    Laser galvanometer scanning systems are well-established devices for material processing, medical imaging and laser projection. Besides all the advantages of these devices like high resolution, repeatability and processing velocity, they are always affected by field distortions. Different pre-compensating techniques using iterative marking and measuring methods are applied in order to reduce such field distortions and increase in some extends the accuracy of the scanning systems. High-tech devices, temperature control systems and self-adjusting galvanometers are some expensive possibilities for reducing these deviations. This contribution presents a method for reducing field distortions using a coaxially coupled vision device and a self-designed calibration plate; this avoids, among others, the necessity of repetitive marking and measuring phases.

  3. Control electronics for a multi-laser/multi-detector scanning system

    Science.gov (United States)

    Kennedy, W.

    1980-01-01

    The Mars Rover Laser Scanning system uses a precision laser pointing mechanism, a photodetector array, and the concept of triangulation to perform three dimensional scene analysis. The system is used for real time terrain sensing and vision. The Multi-Laser/Multi-Detector laser scanning system is controlled by a digital device called the ML/MD controller. A next generation laser scanning system, based on the Level 2 controller, is microprocessor based. The new controller capabilities far exceed those of the ML/MD device. The first draft circuit details and general software structure are presented.

  4. Evaluation of anthropometric accuracy and reliability using different three-dimensional scanning systems

    NARCIS (Netherlands)

    Fourie, Zacharias; Damstra, Janalt; Gerrits, Peter O.; Ren, Yijin

    2011-01-01

    The aim of this study was to evaluate the accuracy and reliability of standard anthropometric linear measurements made with three different three-dimensional scanning systems namely laser surface scanning (Minolta Vivid 900), cone beam computed tomography (CBCT), 3D stereo-photogrammetry (Di3D syste

  5. DNA Barcoding Investigations Bring Biology to Life

    Science.gov (United States)

    Musante, Susan

    2010-01-01

    This article describes how DNA barcoding investigations bring biology to life. Biologists recognize the power of DNA barcoding not just to teach biology through connections to the real world but also to immerse students in the exciting process of science. As an investigator in the Program for the Human Environment at Rockefeller University in New…

  6. Barcoding of soil microarthropods in Kobbefjord

    DEFF Research Database (Denmark)

    Krogh, Paul Henning; Wirta, Helena; Roslin, Tomas;

    2013-01-01

    Since it was proposed to identity species by small sequences of DNA with e.g. less than 1000 bp (base pairs) popularized by the term barcode, monitoring of biodiversity has included barcoding (Hebert et al. 2003, Hogg and Hebert 2004 and Rougerie et al. 2009). It is now a rapidly increasing colle...

  7. Long-range barcode labeling-sequencing

    Energy Technology Data Exchange (ETDEWEB)

    Chen, Feng; Zhang, Tao; Singh, Kanwar K.; Pennacchio, Len A.; Froula, Jeff L.; Eng, Kevin S.

    2016-10-18

    Methods for sequencing single large DNA molecules by clonal multiple displacement amplification using barcoded primers. Sequences are binned based on barcode sequences and sequenced using a microdroplet-based method for sequencing large polynucleotide templates to enable assembly of haplotype-resolved complex genomes and metagenomes.

  8. DNA Bar-Coding for Phytoplasma Identification

    DEFF Research Database (Denmark)

    Makarova, Olga; Contaldo, Nicoletta; Paltrinieri, Samanta;

    2013-01-01

    Phytoplasma identi fi cation has proved dif fi cult due to their inability to be maintained in vitro. DNA barcoding is an identi fi cation method based on comparison of a short DNA sequence with known sequences from a database. A DNA barcoding tool has been developed for phytoplasma identi fi cat...

  9. A DNA barcode for land plants.

    Science.gov (United States)

    2009-08-01

    DNA barcoding involves sequencing a standard region of DNA as a tool for species identification. However, there has been no agreement on which region(s) should be used for barcoding land plants. To provide a community recommendation on a standard plant barcode, we have compared the performance of 7 leading candidate plastid DNA regions (atpF-atpH spacer, matK gene, rbcL gene, rpoB gene, rpoC1 gene, psbK-psbI spacer, and trnH-psbA spacer). Based on assessments of recoverability, sequence quality, and levels of species discrimination, we recommend the 2-locus combination of rbcL+matK as the plant barcode. This core 2-locus barcode will provide a universal framework for the routine use of DNA sequence data to identify specimens and contribute toward the discovery of overlooked species of land plants. PMID:19666622

  10. A DNA barcode for land plants

    Science.gov (United States)

    Hollingsworth, Peter M.; Forrest, Laura L.; Spouge, John L.; Hajibabaei, Mehrdad; Ratnasingham, Sujeevan; van der Bank, Michelle; Chase, Mark W.; Cowan, Robyn S.; Erickson, David L.; Fazekas, Aron J.; Graham, Sean W.; James, Karen E.; Kim, Ki-Joong; Kress, W. John; Schneider, Harald; van AlphenStahl, Jonathan; Barrett, Spencer C.H.; van den Berg, Cassio; Bogarin, Diego; Burgess, Kevin S.; Cameron, Kenneth M.; Carine, Mark; Chacón, Juliana; Clark, Alexandra; Clarkson, James J.; Conrad, Ferozah; Devey, Dion S.; Ford, Caroline S.; Hedderson, Terry A.J.; Hollingsworth, Michelle L.; Husband, Brian C.; Kelly, Laura J.; Kesanakurti, Prasad R.; Kim, Jung Sung; Kim, Young-Dong; Lahaye, Renaud; Lee, Hae-Lim; Long, David G.; Madriñán, Santiago; Maurin, Olivier; Meusnier, Isabelle; Newmaster, Steven G.; Park, Chong-Wook; Percy, Diana M.; Petersen, Gitte; Richardson, James E.; Salazar, Gerardo A.; Savolainen, Vincent; Seberg, Ole; Wilkinson, Michael J.; Yi, Dong-Keun; Little, Damon P.

    2009-01-01

    DNA barcoding involves sequencing a standard region of DNA as a tool for species identification. However, there has been no agreement on which region(s) should be used for barcoding land plants. To provide a community recommendation on a standard plant barcode, we have compared the performance of 7 leading candidate plastid DNA regions (atpF–atpH spacer, matK gene, rbcL gene, rpoB gene, rpoC1 gene, psbK–psbI spacer, and trnH–psbA spacer). Based on assessments of recoverability, sequence quality, and levels of species discrimination, we recommend the 2-locus combination of rbcL+matK as the plant barcode. This core 2-locus barcode will provide a universal framework for the routine use of DNA sequence data to identify specimens and contribute toward the discovery of overlooked species of land plants. PMID:19666622

  11. DNA barcoding: an efficient tool to overcome authentication challenges in the herbal market.

    Science.gov (United States)

    Mishra, Priyanka; Kumar, Amit; Nagireddy, Akshitha; Mani, Daya N; Shukla, Ashutosh K; Tiwari, Rakesh; Sundaresan, Velusamy

    2016-01-01

    The past couple of decades have witnessed global resurgence of herbal-based health care. As a result, the trade of raw drugs has surged globally. Accurate and fast scientific identification of the plant(s) is the key to success for the herbal drug industry. The conventional approach is to engage an expert taxonomist, who uses a mix of traditional and modern techniques for precise plant identification. However, for bulk identification at industrial scale, the process is protracted and time-consuming. DNA barcoding, on the other hand, offers an alternative and feasible taxonomic tool box for rapid and robust species identification. For the success of DNA barcode, the barcode loci must have sufficient information to differentiate unambiguously between closely related plant species and discover new cryptic species. For herbal plant identification, matK, rbcL, trnH-psbA, ITS, trnL-F, 5S-rRNA and 18S-rRNA have been used as successful DNA barcodes. Emerging advances in DNA barcoding coupled with next-generation sequencing and high-resolution melting curve analysis have paved the way for successful species-level resolution recovered from finished herbal products. Further, development of multilocus strategy and its application has provided new vistas to the DNA barcode-based plant identification for herbal drug industry. For successful and acceptable identification of herbal ingredients and a holistic quality control of the drug, DNA barcoding needs to work harmoniously with other components of the systems biology approach. We suggest that for effectively resolving authentication challenges associated with the herbal market, DNA barcoding must be used in conjunction with metabolomics along with need-based transcriptomics and proteomics. PMID:26079154

  12. The neotype barcode of the cotton aphid (Hemiptera: Aphididae: Aphis gossypii Glover, 1877) and a proposal for type barcodes

    Science.gov (United States)

    A type barcode is a DNA barcode unequivocally tied to an authoritatively identified specimen, preferably the primary type specimen. Type barcodes are analogous, albeit subordinate, to type specimens, providing a stable reference to which other barcodes can be compared. We here designate and describe...

  13. With a little help from DNA barcoding: investigating the diversity of Gastropoda from the Portuguese coast.

    Science.gov (United States)

    Borges, Luísa M S; Hollatz, Claudia; Lobo, Jorge; Cunha, Ana M; Vilela, Ana P; Calado, Gonçalo; Coelho, Rita; Costa, Ana C; Ferreira, Maria S G; Costa, Maria H; Costa, Filipe O

    2016-02-15

    The Gastropoda is one of the best studied classes of marine invertebrates. Yet, most species have been delimited based on morphology only. The application of DNA barcodes has shown to be greatly useful to help delimiting species. Therefore, sequences of the cytochrome c oxidase I gene from 108 specimens of 34 morpho-species were used to investigate the molecular diversity within the gastropods from the Portuguese coast. To the above dataset, we added available COI-5P sequences of taxonomically close species, in a total of 58 morpho-species examined. There was a good match between ours and sequences from independent studies, in public repositories. We found 32 concordant (91.4%) out of the 35 Barcode Index Numbers (BINs) generated from our sequences. The application of a ranking system to the barcodes yield over 70% with top taxonomic congruence, while 14.2% of the species barcodes had insufficient data. In the majority of the cases, there was a good concordance between morphological identification and DNA barcodes. Nonetheless, the discordance between morphological and molecular data is a reminder that even the comparatively well-known European marine gastropods can benefit from being probed using the DNA barcode approach. Discordant cases should be reviewed with more integrative studies.

  14. Cells Cultured on Core-Shell Photonic Crystal Barcodes for Drug Screening.

    Science.gov (United States)

    Fu, Fanfan; Shang, Luoran; Zheng, Fuyin; Chen, Zhuoyue; Wang, Huan; Wang, Jie; Gu, Zhongze; Zhao, Yuanjin

    2016-06-01

    The development of effective drug screening platforms is an important task for biomedical engineering. Here, a novel methacrylated gelatin (GelMA) hydrogel-encapsulated core-shell photonic crystal (PhC) barcode particle was developed for three-dimensional cell aggregation culture and drug screening. The GelMA shells of the barcode particles enable creation of a three-dimensional extracellular matrix (ECM) microenvironment for cell adhesion and growth, while the PhC cores of the barcode particles provide stable diffraction peaks that can encode different cell spheroids during culture and distinguish their biological response during drug testing. The applicability of this cell spheroids-on-barcodes platform was investigated by testing the cytotoxic effect of tegafur (TF), a prodrug of 5-fluorouracil (5-FU), on barcode particle-loaded liver HepG2 and HCT-116 colonic tumor cell spheroids. The cytotoxicity of TF against the HCT-116 tumor cell spheroids was enhanced in systems using cocultures of HepG2 and NIH-3T3 cells, indicating the effectiveness of this multiple cell spheroids-on-barcodes platform for drug screening. PMID:27214156

  15. Construction of a New Molecular Barcode for Discriminating Plants and Animals with a Close Genetic Relationship

    Institute of Scientific and Technical Information of China (English)

    HUANG Li; ZHAO Xiao-feng; ZHU Yi-peng; DONG Heng; XU Ning-ying; CAO Jia-shu

    2013-01-01

    DNA barcodes have been proposed as a shortcut to provide species identification and as a way to accelerate the discovery of new species. A number of candidate gene regions have been suggested as possible barcodes for animals and plants, but for the identification of recently diverged species and/or varieties with only a few genetic differences it has been reported to be problematic in some cases. This study selected widely cultivated cruciferous vegetables as the primary samples, after failure of discrimination of each species using current DNA barcodes, we performed the fluorescent amplified fragment length polymorphism (F-AFLP) and successfully discriminated each species, subspecies, variety and their cultivar in 74 samples. Then the non-qualitative results obtained from F-AFLP were transformed into two-dimensional barcodes image file of each cultivar via the PDF417 software. This method was also successfully applied to the discrimination of 17 Chinese indigenous pig breeds. The barcode we constructed which greatly reduces the information storage space is genotypes-specific, and can be conveniently decoded into the original data and thereby be conveniently shared and referred to. We believe that it is possible to construct a new data sharing molecular barcode system that could discriminate the subspecies, varieties, cultivars and even individuals with close genetic relationships.

  16. A new generation scanning system for the high-speed analysis of nuclear emulsions

    Science.gov (United States)

    Alexandrov, A.; Buonaura, A.; Consiglio, L.; D'Ambrosio, N.; De Lellis, G.; Di Crescenzo, A.; Galati, G.; Lauria, A.; Montesi, M. C.; Tioukov, V.; Vladymyrov, M.

    2016-06-01

    The development of automatic scanning systems was a fundamental issue for large scale neutrino detectors exploiting nuclear emulsions as particle trackers. Such systems speed up significantly the event analysis in emulsion, allowing the feasibility of experiments with unprecedented statistics. In the early 1990s, R&D programs were carried out by Japanese and European laboratories leading to automatic scanning systems more and more efficient. The recent progress in the technology of digital signal processing and of image acquisition allows the fulfillment of new systems with higher performances. In this paper we report the description and the performance of a new generation scanning system able to operate at the record speed of 84 cm2/hour and based on the Large Angle Scanning System for OPERA (LASSO) software infrastructure developed by the Naples scanning group. Such improvement, reduces the scanning time by a factor 4 with respect to the available systems, allowing the readout of huge amount of nuclear emulsions in reasonable time. This opens new perspectives for the employment of such detectors in a wider variety of applications.

  17. Low-power portable scanning imaging ladar system

    Science.gov (United States)

    Pyburn, Dana; Leon, Roberto; Haji-Saeed, B.; Sengupta, Sandip K.; Testorf, Markus; Kierstead, John; Khoury, Jehad; Woods, Charles L.; Lorenzo, Joseph

    2003-08-01

    We propose and are in the process of progressively implementing an improved architecture for a laser based system to acquire intensity and range images of hard targets in real-time. The system design emphasizes the use of low power laser sources in conjunction with optical preamplification of target return signals to maintain eye safety without incurring the associated performance penalty. The design leverages advanced fiber optic component technology developed for the commercial market to achieve compactness and low power consumption without the high costs and long lead times associated with custom military devices. All important system parameters are designed to be configured in the field, by the user, in software, allowing for adaptive reconfiguration for different missions and targets. Recently we have started our transition from the initial test bed, using a laser in the visible wavelength, into the final system with a 1550nm diode laser. Currently we are able to acquire and display 3-D false-color and gray-scale images, in the laboratory, at moderate frame rates in real-time. Commercial off-the-shelf data acquisition and signal processing software on a desktop computer equipped with commercial acquisition hardware is utilized. Significant improvements in both range and spatial resolution are expected in the near future.

  18. Denture identification using unique identification authority of India barcode

    Science.gov (United States)

    Mahoorkar, Sudhindra; Jain, Anoop

    2013-01-01

    Over the years, various denture marking systems have been reported in the literature for personal identification. They have been broadly divided into surface marking and inclusion methods. In this technique, patient's unique identification number and barcode printed in the patient's Aadhaar card issued by Unique Identification Authority of India (UIDAI) are used as denture markers. This article describes a simple, quick, and economical method for identification of individual. PMID:23960418

  19. Texture Features based Blur Classification in Barcode Images

    OpenAIRE

    Shamik Tiwari; Vidya Prasad Shukla; Sangappa Birada; Ajay Singh

    2013-01-01

    Blur is an undesirable phenomenon which appears as image degradation. Blur classification is extremely desirable before application of any blur parameters estimation approach in case of blind restoration of barcode image. A novel approach to classify blur in motion, defocus, and co-existence of both blur categories is presented in this paper. The key idea involves statistical features extraction of blur pattern in frequency domain and designing of blur classification system with feed forward ...

  20. Denture identification using unique identification authority of India barcode

    Directory of Open Access Journals (Sweden)

    Sudhindra Mahoorkar

    2013-01-01

    Full Text Available Over the years, various denture marking systems have been reported in the literature for personal identification. They have been broadly divided into surface marking and inclusion methods. In this technique, patient′s unique identification number and barcode printed in the patient′s Aadhaar card issued by Unique Identification Authority of India (UIDAI are used as denture markers. This article describes a simple, quick, and economical method for identification of individual.

  1. Denture identification using unique identification authority of India barcode

    OpenAIRE

    Sudhindra Mahoorkar; Anoop Jain

    2013-01-01

    Over the years, various denture marking systems have been reported in the literature for personal identification. They have been broadly divided into surface marking and inclusion methods. In this technique, patient′s unique identification number and barcode printed in the patient′s Aadhaar card issued by Unique Identification Authority of India (UIDAI) are used as denture markers. This article describes a simple, quick, and economical method for identification of individual.

  2. SURVEY ON INFORMATION HIDING TECHNIQUES USING QR BARCODE

    OpenAIRE

    Manoj S. Rewatkar; Shital A. Raut

    2014-01-01

    Nowadays, the information processing system plays crucial part in the internet. Online information security has become the top priority in all sectors. Failing to provide online information security may cause loss of critical information or someone may use or distribute such information for malicious purpose. Recently QR barcodes have been used as an effective way to securely share information. This paper presents the survey on information hiding techniques which can share high...

  3. Spacelab data analysis using the space plasma computer analysis network (SCAN) system

    Science.gov (United States)

    Green, J. L.

    1984-01-01

    The Space-plasma Computer Analysis Network (SCAN) currently connects a large number of U.S. Spacelab investigators into a common computer network. Used primarily by plasma physics researchers at present, SCAN provides access to Spacelab investigators in other areas of space science, to Spacelab and non-Spacelab correlative data bases, and to large Class VI computational facilities for modeling. SCAN links computers together at remote institutions used by space researchers, utilizing commercially available software for computer-to-computer communications. Started by the NASA's Office of Space Science in mid 1980, SCAN presently contains ten system nodes located at major universities and space research laboratories, with fourteen new nodes projected for the near future. The Stanford University computer gateways allow SCAN users to connect onto the ARPANET and TELENET overseas networks.

  4. Performances of the scanning system for the CNAO center of oncological hadron therapy

    CERN Document Server

    Giordanengo, S; Attili, A; Pardo, J; Russo, G; Taddia, G; Monaco, V; Garella, M A; Zampieri, A; Fabbricatore, P; Cirio, R; Voelker, F; Sacchi, R; Bourhaleb, F; Marchetto, F; Burini, F; Incurvati, M; Ansarinejad, A; Peroni, C

    2010-01-01

    In hadron therapy one of the most advanced methods for beam delivery is the active scanning technique which uses fast scanning magnets to drive a narrow particle beam across the target. The Centro Nazionale di Adroterapia Oncologica (CNAO) will treat tumours with this technique. The CNAO scanning system includes two identical dipole magnets for horizontal and vertical beam deflection, each one connected to a fast power supply. The dose delivery system exploits a set of monitor chambers to measure the fluence and position of the beam and drives the beam during the treatment by controlling the sequence of currents set by the power supplies. A test of the dynamic performance of the scanning system has been performed using a Hall probe to measure the field inside the magnet and the results are presented in this paper. (C) 2009 Elsevier B.V. All rights reserved.

  5. Barcoding a quantified food web: crypsis, concepts, ecology and hypotheses.

    Directory of Open Access Journals (Sweden)

    M Alex Smith

    Full Text Available The efficient and effective monitoring of individuals and populations is critically dependent on correct species identification. While this point may seem obvious, identifying the majority of the more than 100 natural enemies involved in the spruce budworm (Choristoneura fumiferana--SBW food web remains a non-trivial endeavor. Insect parasitoids play a major role in the processes governing the population dynamics of SBW throughout eastern North America. However, these species are at the leading edge of the taxonomic impediment and integrating standardized identification capacity into existing field programs would provide clear benefits. We asked to what extent DNA barcoding the SBW food web would alter our understanding of the diversity and connectence of the food web and the frequency of generalists vs. specialists in different forest habitats. We DNA barcoded over 10% of the insects collected from the SBW food web in three New Brunswick forest plots from 1983 to 1993. For 30% of these specimens, we amplified at least one additional nuclear region. When the nodes of the food web were estimated based on barcode divergences (using molecular operational taxonomic units (MOTU or phylogenetic diversity (PD--the food web became much more diverse and connectence was reduced. We tested one measure of food web structure (the "bird feeder effect" and found no difference compared to the morphologically based predictions. Many, but not all, of the presumably polyphagous parasitoids now appear to be morphologically-cryptic host-specialists. To our knowledge, this project is the first to barcode a food web in which interactions have already been well-documented and described in space, time and abundance. It is poised to be a system in which field-based methods permit the identification capacity required by forestry scientists. Food web barcoding provided an effective tool for the accurate identification of all species involved in the cascading effects of

  6. DNA barcoding amphibians and reptiles.

    Science.gov (United States)

    Vences, Miguel; Nagy, Zoltán T; Sonet, Gontran; Verheyen, Erik

    2012-01-01

    Only a few major research programs are currently targeting COI barcoding of amphibians and reptiles (including chelonians and crocodiles), two major groups of tetrapods. Amphibian and reptile species are typically old, strongly divergent, and contain deep conspecific lineages which might lead to problems in species assignment with incomplete reference databases. As far as known, there is no single pair of COI primers that will guarantee a sufficient rate of success across all amphibian and reptile taxa, or within major subclades of amphibians and reptiles, which means that the PCR amplification strategy needs to be adjusted depending on the specific research question. In general, many more amphibian and reptile taxa have been sequenced for 16S rDNA, which for some purposes may be a suitable complementary marker, at least until a more comprehensive COI reference database becomes available. DNA barcoding has successfully been used to identify amphibian larval stages (tadpoles) in species-rich tropical assemblages. Tissue sampling, DNA extraction, and amplification of COI is straightforward in amphibians and reptiles. Single primer pairs are likely to have a failure rate between 5 and 50% if taxa of a wide taxonomic range are targeted; in such cases the use of primer cocktails or subsequent hierarchical usage of different primer pairs is necessary. If the target group is taxonomically limited, many studies have followed a strategy of designing specific primers which then allow an easy and reliable amplification of all samples.

  7. A DNA barcode for land plants

    OpenAIRE

    Hollingsworth, Peter M.; Forrest, Laura L.; Spouge, John L.; Hajibabaei, Mehrdad; Ratnasingham, Sujeevan; van der Bank,Michelle; Chase, Mark W.; Cowan, Robyn S; Erickson, David L.; Fazekas, Aron J.; Graham, Sean W.; James, Karen E.; Kim, Ki-Joong; Kress, W. John; Schneider, Harald

    2009-01-01

    DNA barcoding involves sequencing a standard region of DNA as a tool for species identification. However, there has been no agreement on which region(s) should be used for barcoding land plants. To provide a community recommendation on a standard plant barcode, we have compared the performance of 7 leading candidate plastid DNA regions (atpF–atpH spacer, matK gene, rbcL gene, rpoB gene, rpoC1 gene, psbK–psbI spacer, and trnH–psbA spacer). Based on assessments of recoverability, sequence quali...

  8. Handheld Thermoacoustic Scanning System Based on a Linear-array Transducer.

    Science.gov (United States)

    Ji, Zhong; Ding, Wenzheng; Ye, Fanghao; Lou, Cunguang

    2016-07-01

    To receive the information necessary for imaging, traditional microwave-induced thermoacoustic imaging systems (MITISs) use a type of circular-scanning mode using single or arc detectors. However, the use of MITISs for body scanning is complicated by restrictions in space and imaging time. A linear-array detector, the most widely used transducer in medical ultrasound imaging systems for body scanning, is a possible alternative to MITISs for scanning biological tissues, such as from the breast or limbs. In this paper, a handheld MITIS, based on a linear-array detector and a multiple data acquisition system, is described, and the capacity of the system is explored experimentally. First, the vertical and lateral resolution of the system is discussed. Next, real-time imaging of a moving object, obtained with an image capture rate of 20 frame/s, is described. Finally, a phantom experiment is detailed, investigating the overall imaging capability. The results show that this system achieves rapid scanning with a large field of view. The system has the obvious advantages of being handheld, not using coupled fluids, and achieving real-time imaging with a large field of view, which make this MITIS more suitable for clinical applications.

  9. Digital processing of side-scan sonar data with the Woods Hole image processing system software

    Science.gov (United States)

    Paskevich, Valerie F.

    1992-01-01

    Since 1985, the Branch of Atlantic Marine Geology has been involved in collecting, processing and digitally mosaicking high and low-resolution side-scan sonar data. Recent development of a UNIX-based image-processing software system includes a series of task specific programs for processing side-scan sonar data. This report describes the steps required to process the collected data and to produce an image that has equal along- and across-track resol

  10. 3D cavity detection technique and its application based on cavity auto scanning laser system

    Institute of Scientific and Technical Information of China (English)

    LIU Xi-ling; LI Xi-bing; LI Fa-ben; ZHAO Guo-yan; QIN Yu-hui

    2008-01-01

    Ground constructions and mines are severely threatened by underground cavities especially those unsafe or inaccessible ones. Safe and precise cavity detection is vital for reasonable cavity evaluation and disposal. The conventional cavity detection methods and their limitation were analyzed. Those methods cannot form 3D model of underground cavity which is used for instructing the cavity disposal; and their precisions in detection are always greatly affected by the geological circumstance. The importance of 3D cavity detection in metal mine for safe exploitation was pointed out; and the 3D cavity laser detection method and its principle were introduced. A cavity auto scanning laser system was recommended to actualize the cavity 3D detection after comparing with the other laser detection systems. Four boreholes were chosen to verify the validity of the cavity auto scanning laser system. The results show that the cavity auto scanning laser system is very suitable for underground 3D cavity detection, especially for those inaccessible ones.

  11. DNA barcoding in Mexico: an introduction.

    Science.gov (United States)

    Elías-Gutiérrez, M; León-Regagnon, V

    2013-11-01

    DNA barcoding has become an important current scientific trend to the understanding of the world biodiversity. In the case of mega-diverse hot spots like Mexico, this technique represents an important tool for taxonomists, allowing them to concentrate in highlighted species by the barcodes instead of analyzing entire sets of specimens. This tendency resulted in the creation of a national network named Mexican Barcode of Life (MEXBOL) which main goals are to train students, and to promote the interaction and collective work among researchers interested in this topic. As a result, the number of records in the Barcode of Life Database (BOLD) for some groups, such as the Mammalia, Actinopterygii, Polychaeta, Branchiopoda, Ostracoda, Maxillopoda, Nematoda, Pinophyta, Ascomycota and Basidiomycota place Mexico among the top ten countries in the generation of these data. This special number presents only few of the many interesting findings in this region of the world, after the use of this technique and its integration with other methodologies.

  12. Georeferenced Scanning System to Estimate the Leaf Wall Area in Tree Crops

    Directory of Open Access Journals (Sweden)

    Ignacio del-Moral-Martínez

    2015-04-01

    Full Text Available This paper presents the use of a terrestrial light detection and ranging (LiDAR system to scan the vegetation of tree crops to estimate the so-called pixelated leaf wall area (PLWA. Scanning rows laterally and considering only the half-canopy vegetation to the line of the trunks, PLWA refers to the vertical projected area without gaps detected by LiDAR. As defined, PLWA may be different depending on the side from which the LiDAR is applied. The system is completed by a real-time kinematic global positioning system (RTK-GPS sensor and an inertial measurement unit (IMU sensor for positioning. At the end, a total leaf wall area (LWA is computed and assigned to the X, Y position of each vertical scan. The final value of the area depends on the distance between two consecutive scans (or horizontal resolution, as well as the number of intercepted points within each scan, since PLWA is only computed when the laser beam detects vegetation. To verify system performance, tests were conducted related to the georeferencing task and synchronization problems between GPS time and central processing unit (CPU time. Despite this, the overall accuracy of the system is generally acceptable. The Leaf Area Index (LAI can then be estimated using PLWA as an explanatory variable in appropriate linear regression models.

  13. DNA barcoding of the Lemnaceae, a family of aquatic monocots

    Directory of Open Access Journals (Sweden)

    Wang Wenqin

    2010-09-01

    Full Text Available Abstract Background Members of the aquatic monocot family Lemnaceae (commonly called duckweeds represent the smallest and fastest growing flowering plants. Their highly reduced morphology and infrequent flowering result in a dearth of characters for distinguishing between the nearly 38 species that exhibit these tiny, closely-related and often morphologically similar features within the same family of plants. Results We developed a simple and rapid DNA-based molecular identification system for the Lemnaceae based on sequence polymorphisms. We compared the barcoding potential of the seven plastid-markers proposed by the CBOL (Consortium for the Barcode of Life plant-working group to discriminate species within the land plants in 97 accessions representing 31 species from the family of Lemnaceae. A Lemnaceae-specific set of PCR and sequencing primers were designed for four plastid coding genes (rpoB, rpoC1, rbcL and matK and three noncoding spacers (atpF-atpH, psbK-psbI and trnH-psbA based on the Lemna minor chloroplast genome sequence. We assessed the ease of amplification and sequencing for these markers, examined the extent of the barcoding gap between intra- and inter-specific variation by pairwise distances, evaluated successful identifications based on direct sequence comparison of the "best close match" and the construction of a phylogenetic tree. Conclusions Based on its reliable amplification, straightforward sequence alignment, and rates of DNA variation between species and within species, we propose that the atpF-atpH noncoding spacer could serve as a universal DNA barcoding marker for species-level identification of duckweeds.

  14. DNA Barcoding for Minor Crops and Food Traceability

    Directory of Open Access Journals (Sweden)

    Andrea Galimberti

    2014-01-01

    Full Text Available This outlook paper addresses the problem of the traceability of minor crops. These kinds of cultivations consist in a large number of plants locally distributed with a modest production in terms of cultivated acreage and quantity of final product. Because of globalization, the diffusion of minor crops is increasing due to their benefit for human health or their use as food supplements. Such a phenomenon implies a major risk for species substitution or uncontrolled admixture of manufactured plant products with severe consequences for the health of consumers. The need for a reliable identification system is therefore essential to evaluate the quality and provenance of minor agricultural products. DNA-based techniques can help in achieving this mission. In particular, the DNA barcoding approach has gained a role of primary importance thanks to its universality and versatility. Here, we present the advantages in the use of DNA barcoding for the characterization and traceability of minor crops based on our previous or ongoing studies at the ZooPlantLab (Milan, Italy. We also discuss how DNA barcoding may potentially be transferred from the laboratory to the food supply chain, from field to table.

  15. Quantitative phenotyping via deep barcode sequencing

    OpenAIRE

    SMITH, ANDREW M.; Heisler, Lawrence E.; Mellor, Joseph; Kaper, Fiona; Thompson, Michael J.; Chee, Mark; Roth, Frederick P.; Giaever, Guri; Nislow, Corey

    2009-01-01

    Next-generation DNA sequencing technologies have revolutionized diverse genomics applications, including de novo genome sequencing, SNP detection, chromatin immunoprecipitation, and transcriptome analysis. Here we apply deep sequencing to genome-scale fitness profiling to evaluate yeast strain collections in parallel. This method, Barcode analysis by Sequencing, or “Bar-seq,” outperforms the current benchmark barcode microarray assay in terms of both dynamic range and throughput. When applied...

  16. Efficient alignment-free DNA barcode analytics

    OpenAIRE

    Kuksa, Pavel; Pavlovic, Vladimir

    2009-01-01

    Background In this work we consider barcode DNA analysis problems and address them using alternative, alignment-free methods and representations which model sequences as collections of short sequence fragments (features). The methods use fixed-length representations (spectrum) for barcode sequences to measure similarities or dissimilarities between sequences coming from the same or different species. The spectrum-based representation not only allows for accurate and computationally efficient ...

  17. Concepts and analyses in the CT scanning of root systems and leaf canopies: A timely summary

    Directory of Open Access Journals (Sweden)

    Jonathan A Lafond

    2015-12-01

    Full Text Available Non-medical applications of computed tomography (CT scanning have flourished in recent years, including in Plant Science. This Perspective article on CT scanning of root systems and leaf canopies is intended to be of interest to three categories of readers: those who have not yet tried plant CT scanning, and should find inspiration for new research objectives; readers who are on the learning curve with applications – here is helpful advice for them; and researchers with greater experience – the field is evolving quickly and it is easy to miss aspects. Our conclusion is that CT scanning of roots and canopies is highly demanding in terms of technology, multidisciplinarity and big-data analysis, to name a few areas of expertise, but eventually, the reward for researchers is directly proportional!

  18. Establishing an Environmental Scanning System to Augment College and University Planning.

    Science.gov (United States)

    Morrison, James L.

    A plan to establish an environmental scanning and forecasting system for colleges and universities is discussed as a way to maximize long-range planning. After proposing a program structure, attention is directed to methods of gaining organizational acceptance, developing a comprehensive taxonomy with an electronic filing system, identifying and…

  19. DNA barcodes for Nearctic Auchenorrhyncha (Insecta: Hemiptera.

    Directory of Open Access Journals (Sweden)

    Robert G Foottit

    Full Text Available BACKGROUND: Many studies have shown the suitability of sequence variation in the 5' region of the mitochondrial cytochrome c oxidase I (COI gene as a DNA barcode for the identification of species in a wide range of animal groups. We examined 471 species in 147 genera of Hemiptera: Auchenorrhyncha drawn from specimens in the Canadian National Collection of Insects to assess the effectiveness of DNA barcoding in this group. METHODOLOGY/PRINCIPAL FINDINGS: Analysis of the COI gene revealed less than 2% intra-specific divergence in 93% of the taxa examined, while minimum interspecific distances exceeded 2% in 70% of congeneric species pairs. Although most species are characterized by a distinct sequence cluster, sequences for members of many groups of closely related species either shared sequences or showed close similarity, with 25% of species separated from their nearest neighbor by less than 1%. CONCLUSIONS/SIGNIFICANCE: This study, although preliminary, provides DNA barcodes for about 8% of the species of this hemipteran suborder found in North America north of Mexico. Barcodes can enable the identification of many species of Auchenorrhyncha, but members of some species groups cannot be discriminated. Future use of DNA barcodes in regulatory, pest management, and environmental applications will be possible as the barcode library for Auchenorrhyncha expands to include more species and broader geographic coverage.

  20. Development of a Hybrid Atomic Force Microscopic Measurement System Combined with White Light Scanning Interferometry

    Directory of Open Access Journals (Sweden)

    Xiaotang Hu

    2011-12-01

    Full Text Available A hybrid atomic force microscopic (AFM measurement system combined with white light scanning interferometry for micro/nanometer dimensional measurement is developed. The system is based on a high precision large-range positioning platform with nanometer accuracy on which a white light scanning interferometric module and an AFM head are built. A compact AFM head is developed using a self-sensing tuning fork probe. The head need no external optical sensors to detect the deflection of the cantilever, which saves room on the head, and it can be directly fixed under an optical microscopic interferometric system. To enhance the system’s dynamic response, the frequency modulation (FM mode is adopted for the AFM head. The measuring data can be traceable through three laser interferometers in the system. The lateral scanning range can reach 25 mm × 25 mm by using a large-range positioning platform. A hybrid method combining AFM and white light scanning interferometry is proposed to improve the AFM measurement efficiency. In this method, the sample is measured firstly by white light scanning interferometry to get an overall coarse morphology, and then, further measured with higher resolution by AFM. Several measuring experiments on standard samples demonstrate the system’s good measurement performance and feasibility of the hybrid measurement method.

  1. Recommendations for the design and the installation of large laser scanning microscopy systems

    Science.gov (United States)

    Helm, P. Johannes

    2012-03-01

    Laser Scanning Microscopy (LSM) has since the inventions of the Confocal Scanning Laser Microscope (CLSM) and the Multi Photon Laser Scanning Microscope (MPLSM) developed into an essential tool in contemporary life science and material science. The market provides an increasing number of turn-key and hands-off commercial LSM systems, un-problematic to purchase, set up and integrate even into minor research groups. However, the successful definition, financing, acquisition, installation and effective use of one or more large laser scanning microscopy systems, possibly of core facility character, often requires major efforts by senior staff members of large academic or industrial units. Here, a set of recommendations is presented, which are helpful during the process of establishing large systems for confocal or non-linear laser scanning microscopy as an effective operational resource in the scientific or industrial production process. Besides the description of technical difficulties and possible pitfalls, the article also illuminates some seemingly "less scientific" processes, i.e. the definition of specific laboratory demands, advertisement of the intention to purchase one or more large systems, evaluation of quotations, establishment of contracts and preparation of the local environment and laboratory infrastructure.

  2. Extents of scanning electron microscopy and the energy dispersive system in asbestos identification

    International Nuclear Information System (INIS)

    Optical microscopy and Scanning electron microscopy are widely applied in the identification of asbestos in the environment. This work makes an analysis of the extents and limitations of the Scanning electron microscope in combination with the energy dispersive systems in the asbestos identification. Equipment and reagents: Scanning electron microscope Joel Model 35 C F; Energy Dispersive System with Si/Li X-ray detector and Be window. Certified Asbestos Standards SPI-supplies. Commercial asbestos, samples A and B. Procedure; the asbestos standards as well as the samples to be analyzed are prepared separately dispersing a few quantity of the same in ethanol by means of an ultrasonic bath. For the observation of the morphology by the Scanning electron microscope, standards and samples separately are placed on a base or support and then covered with a gold film using a vacuum evaporator. For the microanalysis by means of the energy dispersive systems, standards and samples separately are fixed on graphite supports and were coated with a graphite film with a vacuum evaporator. Results.Morphological analysis. The samples were observed in the Scanning electron microscope for the morphological analysis and in the energy dispersive system for the microanalysis. (Author)

  3. Multi-frequency AOM for multi-beam laser scanning exposure system

    Science.gov (United States)

    Shinada, Hidetoshi

    2016-08-01

    Digital printing systems recorded on films or computer to plates (CTPs) have been required to improve their productivity and image quality. Under the circumstance, a printing technology of the multi-beam laser scanning for the drum capstan system, which is almost the same as optics configuration as the flat bed system, was developed using a newly developed multi-frequency acousto-optic modulator (AOM) as a key device instead of ultra-fast scanning devices toward a main scan direction. The multi-frequency AOM was developed with phased array-type transducers, achieving a wider bandwidth of over 160 MHz. The design consisted of a simultaneous three beams generation with interlace scan to avoid the beat effect by adjacent Doppler-shifted beams, which consequently attained the fastest recording speed of 5.0 mm/s compared with 2.0-3.0 mm/s of existing systems in those days. Furthermore, a couple of critical parameters of the multi-frequency AOM are studied, for example, a treatment of third-order intermodulation and also beat effect in connection with photosensitive media. As a result, the necessity of interlaces scanning to obtain good image quality without beat effect and also to allow a lower laser power to apply is proposed.

  4. DNA Barcoding for Honey Biodiversity

    Directory of Open Access Journals (Sweden)

    Alice Valentini

    2010-04-01

    Full Text Available Honey is produced by honeybees from nectar and from secretions of living plants. It reflects the honeybees’ diet and the local plant communities. Honey also shows different plant compositions in different geographical locations. We propose a new method for studying the plant diversity and the geographical origin of honey using a DNA barcoding approach that combines universal primers and massive parallel pyrosequencing. To test this method we use two commercial honeys, one from a regional origin and one composed of a worldwide mix of different honeys. We demonstrate that the method proposed here is fast, simple to implement, more robust than classical methods, and therefore suitable for analyzing plant diversity in honey.

  5. A voice coil motor based measuring force control system for tactile scanning profiler

    Science.gov (United States)

    Feng, Shengdong; Liu, Xiaojun; Chen, Liangzhou; Zhou, Liping; Lu, Wenlong

    2015-02-01

    In tactile scanning profiler, the measuring force would change in a wide range when it was used for profile measurement in a large range, which could possibly destroy the measured surface. To solve the problem, measuring force control system for tactile scanning profiler was needed. In the paper, a voice coil motor-based measuring force control system for tactile scanning profiler was designed. In the design, a low stiffness coefficient spring was used to provide contact force, while a voice coil motor (VCM) to balance the spring force so that the contact force could be kept for constant measuring force. A VCM was designed specially, and for active measuring force control, a precision current source circuit under the control of a DSP unit was designed to drive the VCM. The performance of voice coil motor based measuring force control system had been tested, and its good characteristics were verified.

  6. The correction of vibration in frequency scanning interferometry based absolute distance measurement system for dynamic measurements

    Science.gov (United States)

    Lu, Cheng; Liu, Guodong; Liu, Bingguo; Chen, Fengdong; Zhuang, Zhitao; Xu, Xinke; Gan, Yu

    2015-10-01

    Absolute distance measurement systems are of significant interest in the field of metrology, which could improve the manufacturing efficiency and accuracy of large assemblies in fields such as aircraft construction, automotive engineering, and the production of modern windmill blades. Frequency scanning interferometry demonstrates noticeable advantages as an absolute distance measurement system which has a high precision and doesn't depend on a cooperative target. In this paper , the influence of inevitable vibration in the frequency scanning interferometry based absolute distance measurement system is analyzed. The distance spectrum is broadened as the existence of Doppler effect caused by vibration, which will bring in a measurement error more than 103 times bigger than the changes of optical path difference. In order to decrease the influence of vibration, the changes of the optical path difference are monitored by a frequency stabilized laser, which runs parallel to the frequency scanning interferometry. The experiment has verified the effectiveness of this method.

  7. Innovative Gamma Ray Spectrometer Detection Systems for Conducting Scanning Surveys on Challenging Terrain - 13583

    Energy Technology Data Exchange (ETDEWEB)

    Palladino, Carl; Mason, Bryan; Engle, Matt; LeVangie, James [The Palladino Company, Inc., 720 Fillmore St., San Francisco, CA 94117 (United States); Dempsey, Gregg [United States Environmental Protection Agency, P.O. Box 98517, Las Vegas, NV 89193-8517 (United States); Klemovich, Ron [HydroGeoLogic, Inc., 6340 Glenwood, Suite 200, Building No. 7, Overland Park, KS 66202 (United States)

    2013-07-01

    The Santa Susana Field Laboratory located near Simi Valley, California was investigated to determine the nature and extent of gamma radiation anomalies. The primary objective was to conduct gamma scanning surveys over 100 percent of the approximately 1,906,000 square meters (471 acre) project site with the most sensitive detection system possible. The site had challenging topography that was not conducive to traditional gamma scanning detection systems. Terrain slope varied from horizontal to 48 degrees and the ground surface ranged from flat, grassy meadows to steep, rocky hillsides. In addition, the site was home to many protected endangered plant and animal species, and archaeologically significant sites that required minimal to no disturbance of the ground surface. Therefore, four innovative and unique gamma ray spectrometer detection systems were designed and constructed to successfully conduct gamma scanning surveys of approximately 1,076,000 square meters (266 acres) of the site. (authors)

  8. Scanning Ultrasonic Spectroscopy System Developed for the Inspection of Composite Flywheels

    Science.gov (United States)

    Martin, Richard E.; Baaklini, George Y.

    2002-01-01

    Composite flywheels are being considered as replacements for chemical batteries aboard the International Space Station. A flywheel stores energy in a spinning mass that can turn a generator to meet power demands. Because of the high rotational speeds of the spinning mass, extensive testing of the flywheel system must be performed prior to flight certification. With this goal in mind, a new scanning system has been developed at the NASA Glenn Research Center for the nondestructive inspection of composite flywheels and flywheel subcomponents. The system uses ultrasonic waves to excite a material and examines the response to detect and locate flaws and material variations. The ultrasonic spectroscopy system uses a transducer to send swept-frequency ultrasonic waves into a test material and then receives the returning signal with a second transducer. The received signal is then analyzed in the frequency domain using a fast Fourier transform. A second fast Fourier transform is performed to examine the spacing of the peaks in the frequency domain. The spacing of the peaks is related to the standing wave resonances that are present in the material because of the constructive and destructive interferences of the waves in the full material thickness as well as in individual layers within the material. Material variations and flaws are then identified by changes in the amplitudes and positions of the peaks in both the frequency and resonance spacing domains. This work, conducted under a grant through the Cleveland State University, extends the capabilities of an existing point-by-point ultrasonic spectroscopy system, thus allowing full-field automated inspection. Results of an ultrasonic spectroscopy scan of a plastic cylinder with intentionally seeded flaws. The result of an ultrasonic spectroscopy scan of a plastic cylinder used as a proof-of-concept specimen is shown. The cylinder contains a number of flat bottomed holes of various sizes and shapes. The scanning system

  9. An optical scanning system for spectroscopic impurity flux investigations inside the ASDEX tokamak

    International Nuclear Information System (INIS)

    A scanning mirror system was developed to resolve impurity flux sources spatially across about 2/3 of the ASDEX surface by using visible spectroscopy. A totally computer-controlled layout allows wide-range spatial scanning during a discharge. Spectra over a range of ∝ 150 A are recorded with an integration time down to 20 ms. The versatility of this new system is illustrated by means of first observations of ASDEX discharges with additional heating (NI, LH, ICRH) and modulated gas puffing experiments. (orig.)

  10. A 3D acquisition system combination of structured-light scanning and shape from silhouette

    Institute of Scientific and Technical Information of China (English)

    Changku Sun; Li Tao; Peng Wang; Li He

    2006-01-01

    @@ A robust and accurate three dimensional (3D) acquisition system is presented, which is a combination of structured-light scanning and shape from silhouette. Using common world coordinate system, two groups of point data can be integrated into the final complete 3D model without any integration and registration algorithm. The mathematics model of structured-light scanning is described in detail, and the shape from silhouette algorithm is introduced as well. The complete 3D model of a cup with a handle is obtained successfully by the proposed technique. At last the measurement on a ball bearing is performed, with the measurement precision better than 0.15 mm.

  11. Flat Gauss illumination for the step-and-scan lithographic system

    Science.gov (United States)

    Chen, Ming; Wang, Ying; Zeng, Aijun; Zhu, Jing; Yang, Baoxi; Huang, Huijie

    2016-08-01

    To meet the uniform dose exposure in optical lithography, it is desirable to get uniform illumination in the scanning direction on wafer for the step-and-scan lithographic system. We present a flat Gauss illumination for the step-and-scan lithographic system in this paper. Through flat Gauss illumination in scanning direction, pulse quantization effect could be reduced effectively. Correspondingly, the uniformity of the reticle and wafer is improved. Compared with the trapezoid illumination, flat Gauss illumination could keep the slit edge fixed, and pulse quantization effect will not be enhanced. Moreover flat Gauss illumination could be obtained directly without defocusing and blocking, which results in high energy efficiency and high throughput of the lithography. A design strategy for flat Gauss illumination is also proposed which offers high uniformity illumination, fixed slope and integral energy of flat Gauss illumination in different coherence factors. The strategy describes a light uniform device which contains first microlens array, second microlens array, one-dimensional Gauss diffuser and a Fourier lens. The device produces flat Gauss illumination directly at the scanning slit. The design and simulation results show that the uniformity of flat Gauss illumination in two directions satisfy the requirements of lithographic illumination system and the slope. In addition, slit edge of flat Gauss illumination does not change.

  12. EvoluCode: Evolutionary Barcodes as a Unifying Framework for Multilevel Evolutionary Data.

    Science.gov (United States)

    Linard, Benjamin; Nguyen, Ngoc Hoan; Prosdocimi, Francisco; Poch, Olivier; Thompson, Julie D

    2012-01-01

    Evolutionary systems biology aims to uncover the general trends and principles governing the evolution of biological networks. An essential part of this process is the reconstruction and analysis of the evolutionary histories of these complex, dynamic networks. Unfortunately, the methodologies for representing and exploiting such complex evolutionary histories in large scale studies are currently limited. Here, we propose a new formalism, called EvoluCode (Evolutionary barCode), which allows the integration of different evolutionary parameters (eg, sequence conservation, orthology, synteny …) in a unifying format and facilitates the multilevel analysis and visualization of complex evolutionary histories at the genome scale. The advantages of the approach are demonstrated by constructing barcodes representing the evolution of the complete human proteome. Two large-scale studies are then described: (i) the mapping and visualization of the barcodes on the human chromosomes and (ii) automatic clustering of the barcodes to highlight protein subsets sharing similar evolutionary histories and their functional analysis. The methodologies developed here open the way to the efficient application of other data mining and knowledge extraction techniques in evolutionary systems biology studies. A database containing all EvoluCode data is available at: http://lbgi.igbmc.fr/barcodes.

  13. Initial Tests and Accuracy Assesment of a Compact Mobile Laser Scanning System

    Science.gov (United States)

    Julge, K.; Ellmann, A.; Vajakas, T.; Kolka, R.

    2016-06-01

    Mobile laser scanning (MLS) is a faster and cost-effective alternative to static laser scanning, even though there is a slight trade-off in accuracy. This contribution describes a compact mobile laser scanning system mounted on a vehicle. The technical parameters of the used system components, i.e. a small LIDAR sensor Velodyne VLP-16 and a dual antenna GNSS/INS system Advanced Navigation Spatial Dual, are reviewed, along with the integration of these components for spatial data acquisition. Calculation principles of 3D coordinates from the real-time data of all the involved sensors are discussed. The field tests were carried out in a controlled environment of a parking lot and at different velocities. Experiments were carried out to test the ability of the GNSS/INS system to cope with difficult conditions, e.g. sudden movements due to cornering or swerving. The accuracy of the resulting MLS point cloud is evaluated with respect to high-accuracy static terrestrial laser scanning data. Problems regarding combining LIDAR, GNSS and INS sensors are outlined, as well as the initial accuracy assessments. Initial tests revealed errors related to insufficient quality of inertial data and a need for the trajectory post-processing calculations. Although this study was carried out while the system was mounted on a car, there is potential for operating the system on an unmanned aerial vehicle, all-terrain vehicle or in a backpack mode due to its relatively compact size.

  14. Fundamental analysis and algorithms for development of a mobile fast-scan lateral migration radiography system

    Science.gov (United States)

    Su, Zhong

    Lateral migration radiography (LMR) is a unique x-ray Compton backscatter imaging (CBI) technique to image surface and subsurface, or internal structure of an object. An x-ray pencil beam scans the interrogated area and the backscattered photons are registered by detectors which have varying degrees of collimation. In early LMR applications, either the LMR systems or the imaged objects are moved on a rectangular grid, and at each node, the systems register backscattered photon energy deposition as pixel intensity in acquired images. The mechanical movement of the system or objects from pixel to pixel causes prolonged image scan time with a high percentage of system dead time. To avoid this drawback, a particular x-ray beam formation technique is proposed and analyzed. A corresponding mobile, fast-scan LMR system is designed, fabricated and tested. The results show a two orders-of-magnitude reduction in image scan time compared with those of previous systems. The x-ray beam formation technique, based on a rotating collimator in the LMR system, implements surface line scan by sampling an x-ray fan beam. This rotating collimator yields unique imaging effects compared to those for an x-ray beam with fixed collimation and perpendicular incidence: (1) the speed of the x-ray beam spot on the scanned surface is not uniform; (2) constant movement of the x-ray beam spot changes the resolution in the image raster direction; (3) x-ray beam spot size changes with location on the scanned surface; (4) the object image shows a squeezed effect in the raster scan direction; (5) under a uniform background, the Compton scatter angular distribution causes the x-ray backscatter field to be stronger, when the x-ray beam has greater incidence angle; and (6) the x-ray illumination spot trace on the scanned surface is skewed. The physics generating these effects is analyzed with Monte Carlo computer simulations and/or measurements. Image acquisition and image processing algorithms are

  15. Experimental underwater scanning imaging system using pulsed blue-green lasers

    Science.gov (United States)

    Wang, Lei; Xu, Zhi-yong; Zhang, Qi-heng; Wang, Hua-chuang; Yu, Xue-gang; Nie, Rui-jie

    2011-06-01

    A new, simple and compact experimental laser scanning imaging system is introduced for underwater imaging, and the characteristics of the system are analyzed in this paper. The system consists of the illuminator, optical scanning system, optical receiving system, narrow band filters, high-sensitivity gated image sensor, synchronous control and data acquisition system and power supply and cooling system. The illuminator is a lump-pumped, Q-switched, frequency doubled Nd:YAG pulsed laser operating at 532 nm with a frequency of 50 Hz. The receiver is a self-made gated intensified charge coupled device (ICCD). As a result, gated super Gen-II image intensifier and PAL format charge-coupled device (CCD) camera are assembled to meet the requirements. The coupling gated ICCD has a sensitivity of approximated 10-5lx, and the minimum gate width can reach to 40 ns. And a set of scanning structure which only uses one mirror is used in the experimental system. In addition, the performance parameters are listed. Finally, the detection capabilities of the imaging system are theoretically analyzed in typical seawater. The analysis indicates that the detection depth of the system can reach to 16 m in the clear seawater.

  16. Design and performance of a practical variable-temperature scanning tunneling potentiometry system.

    Science.gov (United States)

    Rozler, M; Beasley, M R

    2008-07-01

    We have constructed a scanning tunneling potentiometry system capable of simultaneously mapping the transport-related electrochemical potential of a biased sample along with its surface topography. Combining a novel sample biasing technique with a continuous current-nulling feedback scheme pushes the noise performance of the measurement to its fundamental limit--the Johnson noise of the scanning tunneling microscope (STM) tunnel junction. The resulting 130 nV voltage sensitivity allows us to spatially resolve local potentials at scales down to 2 nm, while maintaining angstrom scale STM imaging, all at scan sizes of up to 15 microm. A millimeter-range two-dimensional coarse positioning stage and the ability to operate from liquid helium to room temperature with a fast turn-around time greatly expand the versatility of the instrument. By performing studies of several model systems, we discuss the implications of various types of surface morphology for potentiometric measurements.

  17. LiDAR Scan Matching Aided Inertial Navigation System in GNSS-Denied Environments

    OpenAIRE

    Jian Tang; Yuwei Chen; Xiaoji Niu; Li Wang; Liang Chen; Jingbin Liu; Chuang Shi; Juha Hyyppä

    2015-01-01

    A new scan that matches an aided Inertial Navigation System (INS) with a low-cost LiDAR is proposed as an alternative to GNSS-based navigation systems in GNSS-degraded or -denied environments such as indoor areas, dense forests, or urban canyons. In these areas, INS-based Dead Reckoning (DR) and Simultaneous Localization and Mapping (SLAM) technologies are normally used to estimate positions as separate tools. However, there are critical implementation problems with each standalone system. Th...

  18. Design of Dual Axis Laser Scanning Diameter Measuring Gauge System with PID Co

    Institute of Scientific and Technical Information of China (English)

    LI Xin-qiu; LI Zhi-wei; LIU Da-jiang

    2009-01-01

    Dual axis laser scanning diameter measuring gauge system(DALSDMGS)with PID controller,which can be used for online non-contact diameter measuring and control on the hose,wire and rod production line,is introduced.The measure principle and implementation of this system are also presented.A PID control module with PID parameters tuning is included in the measuring and control system,which functions as a PID automatic controller of the diameter.

  19. Influence of scanning system and dentist's level of training in the accuracy of digital impressions

    Science.gov (United States)

    Hategan, Simona; Gabor, Alin; Zaharia, Cristian; Sinescu, Cosmin; Negrutiu, Meda Lavinia; Jivanescu, Anca

    2016-03-01

    Background: The principal aim of our study was to evaluate digital impressions, taken with spray powder and powderfree scan systems, in order to determine the influence of the dentist's commitment to training as a critical factor regarding quality. Material and method: Two digital intraoral impression systems from the same manufacture (Sirona) : Apollo DI and CEREC Omnicam, were used to scan 16 crown preparations on teeth on a typodont maxillary model. Because an Apollo Di intraoral camera is a powder system, an adhesive was applied before using the powder spray. Three groups were used to scan the crown preparations in order to determine coating thickness homogeneity. One group consisted of senior year dental students, a second consisted of prosthodontics residents, and the third consisted of prosthodontics specialists. The same procedure was applied with a CEREC Omnicam intraoral camera, which is a powder-free system. By using the two systems software parameters we were able to determine the scanning precision. Results: Homogeneity scores for Apollo Di regarding the spray layer was significantly thinner for all dental surfaces in the first group, while the second group had thinner coatings for buccal and distal surfaces. For the third group, the crown preparations were coated more homogeneously than the first two groups. The powder-free system CEREC Omnicam can, to a degree, mask the lack of experience in direct optical impressions by avoiding the poor quality coating, which can lead to defective marginal adaptation of definitive restoration. Conclusions: The dentist's lack of experience can be mitigated, and partially avoided, by using powder-free systems. At the same time, the dentist can give more time towards learning how to integrate computerized fabricated restoration into the practice. The commitment to training is a critical factor in the successful integration of the technology. In addition, scanning marginal preparation details needs time in order to

  20. Local imaging of high mobility two-dimensional electron systems with virtual scanning tunneling microscopy

    Energy Technology Data Exchange (ETDEWEB)

    Pelliccione, M. [Department of Applied Physics, Stanford University, 348 Via Pueblo Mall, Stanford, California 94305 (United States); Stanford Institute for Materials and Energy Sciences, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025 (United States); Department of Physics, University of California, Santa Barbara, Santa Barbara, California 93106 (United States); Bartel, J.; Goldhaber-Gordon, D. [Stanford Institute for Materials and Energy Sciences, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025 (United States); Department of Physics, Stanford University, 382 Via Pueblo Mall, Stanford, California 94305 (United States); Sciambi, A. [Department of Applied Physics, Stanford University, 348 Via Pueblo Mall, Stanford, California 94305 (United States); Stanford Institute for Materials and Energy Sciences, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025 (United States); Pfeiffer, L. N.; West, K. W. [Department of Electrical Engineering, Princeton University, Princeton, New Jersey 08544 (United States)

    2014-11-03

    Correlated electron states in high mobility two-dimensional electron systems (2DESs), including charge density waves and microemulsion phases intermediate between a Fermi liquid and Wigner crystal, are predicted to exhibit complex local charge order. Existing experimental studies, however, have mainly probed these systems at micron to millimeter scales rather than directly mapping spatial organization. Scanning probes should be well-suited to study the spatial structure of these states, but high mobility 2DESs are found at buried semiconductor interfaces, beyond the reach of conventional scanning tunneling microscopy. Scanning techniques based on electrostatic coupling to the 2DES deliver important insights, but generally with resolution limited by the depth of the 2DES. In this letter, we present our progress in developing a technique called “virtual scanning tunneling microscopy” that allows local tunneling into a high mobility 2DES. Using a specially designed bilayer GaAs/AlGaAs heterostructure where the tunnel coupling between two separate 2DESs is tunable via electrostatic gating, combined with a scanning gate, we show that the local tunneling can be controlled with sub-250 nm resolution.

  1. DNA barcoding of Dalbergia spp. from Western Ghats in India

    Directory of Open Access Journals (Sweden)

    R. M. Bhagwat

    2011-01-01

    Full Text Available (Abstract selected from presentation in National Conference on Biodiversity of Medicinal and Aromatic Plants: Collection, Characterization and Utilization, held at Anand, India during November 24-25, 2010   The Western Ghats (WG in India are well known for their rich and unique assemblage of flora and fauna, and are amongst the 25 biodiversity hotspots identified in the world. Dalbergia (family: Fabaceae is an important member of the WG flora; valued for decorative and often fragrant wood (rosewood, African blackwood, sisu and is rich in aromatic oils. There is taxonomic confusion with respect to several Dalbergia species as these often have more than one species names. Hence, the size of the Dalbergia genus remains disputed. DNA barcoding is modern biotechnological tool which can distinguish among species that look alike. It is also useful in medicinal formulations to identify adulterants. Although DNA barcoding is well established ly accepted barcode is still lacking in plants. Hence, the main objective of this study is to develop a unique barcode for quick, accurate and reliable species identification using the Dalbergia genus as a model system. Leaf samples from 15 accessions each, belonging to six validated Dalbergia species (D. melanoxylon, D. candenatensis, D. rubiginosa, D. latifolia, D. volubilis and D. paniculata were collected from different locations in WG and DNA extractions have been carried out from these as well as characterized herbaria samples. Total 37 primer pairs specific to several chloroplast genes (matK, rpoC, rpoB, rbcL, accD, ndhJ, ycf5 and trnH-psbA as well as the nuclear genes were evaluated in the samples and 16 of these have been standardized for the six Dalbergia species. We are currently targeting the DNA sequences corresponding to matK, rpoc, rpoB, rbcl, trnH-psbA and nuclear ITS. Based on the preliminary sequence data, the resolution of the species differentiation using the rpoB and rbcL genes individually was

  2. TECHNICAL DESIGN NOTE: Currency verification by a 2D infrared barcode

    Science.gov (United States)

    Schirripa Spagnolo, Giuseppe; Cozzella, Lorenzo; Simonetti, Carla

    2010-10-01

    Nowadays all the National Central Banks are continuously studying innovative anti-counterfeiting systems for banknotes. In this note, an innovative solution is proposed, which combines the potentiality of a hylemetric approach (methodology conceptually similar to biometry), based on notes' intrinsic characteristics, with a well-known and consolidated 2D barcode identification system. In particular, in this note we propose to extract from the banknotes a univocal binary control sequence (template) and insert an encrypted version of it in a barcode printed on the same banknote. For a more acceptable look and feel of a banknote, the superposed barcode can be stamped using IR ink that is visible to near-IR image sensors. This makes the banknote verification simpler.

  3. DNA barcoding:species delimitation in tree peonies

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    Delimitations of species are crucial for correct and precise identification of taxa.Unfortunately "spe-cies" is more a subjective than an objective concept in taxonomic practice due to difficulties in revealing patterns of infra-or inter-specific variations.Molecular phylogenetic studies at the population level solve this problem and lay a sound foundation for DNA barcoding.In this paper we exemplify the necessity of adopting a phylogenetic concept of species in DNA barcoding for tree peonies(Paeonia sect.Moutan).We used 40 samples representing all known populations of rare and endangered species and several populations of widely distributed tree peonies.All currently recognized species and major variants have been included in this study.Four chloroplast gene fragments,i.e.ndhF,rps16-trnQ,trnL-F and trnS-G(a total of 5040 characters,96 variable and 69 parsimony-informative characters) and one variable and single-copy nuclear GPAT gene fragment(2093?2197 bp,279 variable and 148 parsi-mony-informative characters) were used to construct phylogenetic relationships among the taxa.The evolutionary lineages revealed by the nuclear gene and the chloroplast genes are inconsistent with the current circumscriptions of P.decomposita,P.jishanensis,P.qiui,and P.rockii based on morphology.The inconsistencies come from(1) significant chloroplast gene divergence but little nuclear GPAT gene divergence among population systems of P.decomposita + P.rockii,and(2) well-diverged nuclear GPAT gene but little chloroplast gene divergence between P.jishanensis and P.qiui.The incongruence of the phylogenies based on the chloroplast genes and the nuclear GPAT gene is probably due to the chloro-plast capture event in evolutionary history,as no reproductive barriers exist to prevent inter-specific hybridization.We also evaluated the suitability of these genes for use as DNA barcodes for tree peonies.The variability of chloroplast genes among well-defined species or population systems of a

  4. DNA Barcode Analysis of Thrips (Thysanoptera Diversity in Pakistan Reveals Cryptic Species Complexes.

    Directory of Open Access Journals (Sweden)

    Romana Iftikhar

    Full Text Available Although thrips are globally important crop pests and vectors of viral disease, species identifications are difficult because of their small size and inconspicuous morphological differences. Sequence variation in the mitochondrial COI-5' (DNA barcode region has proven effective for the identification of species in many groups of insect pests. We analyzed barcode sequence variation among 471 thrips from various plant hosts in north-central Pakistan. The Barcode Index Number (BIN system assigned these sequences to 55 BINs, while the Automatic Barcode Gap Discovery detected 56 partitions, a count that coincided with the number of monophyletic lineages recognized by Neighbor-Joining analysis and Bayesian inference. Congeneric species showed an average of 19% sequence divergence (range = 5.6% - 27% at COI, while intraspecific distances averaged 0.6% (range = 0.0% - 7.6%. BIN analysis suggested that all intraspecific divergence >3.0% actually involved a species complex. In fact, sequences for three major pest species (Haplothrips reuteri, Thrips palmi, Thrips tabaci, and one predatory thrips (Aeolothrips intermedius showed deep intraspecific divergences, providing evidence that each is a cryptic species complex. The study compiles the first barcode reference library for the thrips of Pakistan, and examines global haplotype diversity in four important pest thrips.

  5. Recovery of the mitochondrial COI barcode region in diverse Hexapoda through tRNA-based primers

    Directory of Open Access Journals (Sweden)

    Oh Hyun-Woo

    2010-07-01

    Full Text Available Abstract Background DNA barcoding uses a 650 bp segment of the mitochondrial cytochrome c oxidase I (COI gene as the basis for an identification system for members of the animal kingdom and some other groups of eukaryotes. PCR amplification of the barcode region is a key step in the analytical chain, but it sometimes fails because of a lack of homology between the standard primer sets and target DNA. Results Two forward PCR primers were developed following analysis of all known arthropod mitochondrial genome arrangements and sequence alignment of the tRNA-W gene which was usually located within 200 bp upstream of the COI gene. These two primers were combined with a standard reverse primer (LepR1 to produce a cocktail which generated a barcode amplicon from 125 of 141 species that included representatives of 121 different families of Hexapoda. High quality sequences were recovered from 79% of the species including groups, such as scale insects, that invariably fail to amplify with standard primers. Conclusions A cocktail of two tRNA-W forward primers coupled with a standard reverse primer amplifies COI for most hexapods, allowing characterization of the standard barcode primer binding region in COI 5' as well as the barcode segment. The current results show that primers designed to bind to highly conserved gene regions upstream of COI will aid the amplification of this gene region in species where standard primers fail and provide valuable information to design a primer for problem groups.

  6. DNA Barcode Analysis of Thrips (Thysanoptera) Diversity in Pakistan Reveals Cryptic Species Complexes.

    Science.gov (United States)

    Iftikhar, Romana; Ashfaq, Muhammad; Rasool, Akhtar; Hebert, Paul D N

    2016-01-01

    Although thrips are globally important crop pests and vectors of viral disease, species identifications are difficult because of their small size and inconspicuous morphological differences. Sequence variation in the mitochondrial COI-5' (DNA barcode) region has proven effective for the identification of species in many groups of insect pests. We analyzed barcode sequence variation among 471 thrips from various plant hosts in north-central Pakistan. The Barcode Index Number (BIN) system assigned these sequences to 55 BINs, while the Automatic Barcode Gap Discovery detected 56 partitions, a count that coincided with the number of monophyletic lineages recognized by Neighbor-Joining analysis and Bayesian inference. Congeneric species showed an average of 19% sequence divergence (range = 5.6% - 27%) at COI, while intraspecific distances averaged 0.6% (range = 0.0% - 7.6%). BIN analysis suggested that all intraspecific divergence >3.0% actually involved a species complex. In fact, sequences for three major pest species (Haplothrips reuteri, Thrips palmi, Thrips tabaci), and one predatory thrips (Aeolothrips intermedius) showed deep intraspecific divergences, providing evidence that each is a cryptic species complex. The study compiles the first barcode reference library for the thrips of Pakistan, and examines global haplotype diversity in four important pest thrips. PMID:26741134

  7. Inspection of float glass using a novel retroreflective laser scanning system

    Science.gov (United States)

    Holmes, Jonathan D.

    1997-07-01

    Since 1988, Image Automation has marketed a float glass inspection system using a novel retro-reflective laser scanning system. The (patented) instrument scans a laser beam by use of a polygon through the glass onto a retro-reflective screen, and collects the retro-reflected light off the polygon, such that a stationary image of the moving spot on the screen is produced. The spot image is then analyzed for optical effects introduced by defects within the glass, which typically distort and attenuate the scanned laser beam, by use of suitable detectors. The inspection system processing provides output of defect size, shape and severity, to the factory network for use in rejection or sorting of glass plates to the end customer. This paper briefly describes the principles of operation, the system architecture, and limitations to sensitivity and measurement repeatability. New instruments based on the retro-reflective scanning method have recently been developed. The principles and implementation are described. They include: (1) Simultaneous detection of defects within the glass and defects in a mirror coating on the glass surface using polarized light. (2) A novel distortion detector for very dark glass. (3) Measurement of optical quality (flatness/refractive homogeneity) of the glass using a position sensitive detector.

  8. Developing an Environmental Scanning System in an Educational Organization: Lessons Learned. AIR 1990 Annual Forum Paper.

    Science.gov (United States)

    Morrison, James L.; Ptaszynski, James G.

    An environmental scanning system was developed by the admissions office of a graduate school of management in a small southeastern university. The school's strategic planning committee felt that it would be beneficial to acquire information concerning issues, trends, and possible events that might impact upon the school in the future and to…

  9. Three-dimensional body scanning system for apparel mass-customization

    Science.gov (United States)

    Xu, Bugao; Huang, Yaxiong; Yu, Weiping; Chen, Tong

    2002-07-01

    Mass customization is a new manufacturing trend in which mass-market products (e.g., apparel) are quickly modified one at a time based on customers' needs. It is an effective competing strategy for maximizing customers' satisfaction and minimizing inventory costs. An automatic body measurement system is essential for apparel mass customization. This paper introduces the development of a body scanning system, body size extraction methods, and body modeling algorithms. The scanning system utilizes the multiline triangulation technique to rapidly acquire surface data on a body, and provides accurate body measurements, many of which are not available with conventional methods. Cubic B-spline curves are used to connect and smooth body curves. From the scanned data, a body form can be constructed using linear Coons surfaces. The body form can be used as a digital model of the body for 3-D garment design and for virtual try-on of a designed garment. This scanning system and its application software enable apparel manufacturers to provide custom design services to consumers seeking personal-fit garments.

  10. A Charge-Coupled Device CCD line-scan system for road luminance measurement.

    NARCIS (Netherlands)

    Schreuder, D.A.

    1996-01-01

    The problems involved in measuring road luminance are discussed and a new measuring system described which is based on a line-scan Charge Coupled Device (CCD) configuration. It is designed for the assessment of average road surface luminance and degree of non-uniformity of road lighting. Additionall

  11. The development of the scanning system of the neutron radiography experimental equipment

    International Nuclear Information System (INIS)

    The neutron radiography experimental equipment includes: the detector, the scanning system, the shielding facility etc. It rotates or moves the sample and adjusts the mutual position of the neutron source, the sample and the detector, and so it improves the image quality. (authors)

  12. Stripping chronopotentiometry at scanned deposition potential (SSCP). Part 5. Features of multi-metal systems

    NARCIS (Netherlands)

    Town, R.M.; Leeuwen, van H.P.

    2004-01-01

    This paper considers the mutual effects of metals on each other in scanned deposition potential stripping chronopotentiometry measurements (SSCP) on multi-metal systems. As compared to stripping voltammetry, depletive SSCP displays a certain resistance to the impact of intermetallic compounds, while

  13. 75 FR 56922 - Implementation of the Intelligent Mail Package Barcode

    Science.gov (United States)

    2010-09-17

    ... 111 Implementation of the Intelligent Mail Package Barcode AGENCY: Postal Service TM . ACTION: Advance... Intelligent Mail package barcodes (IMpb), no later than January of 2011; and expects to require the mandatory...Standards@usps.gov , with a subject line of ``Intelligent Mail Package Barcode comments.'' Faxed...

  14. Effects of bar coding on a pharmacy stock replenishment system.

    Science.gov (United States)

    Chester, M I; Zilz, D A

    1989-07-01

    A bar-code stock ordering system installed in the ambulatory-care pharmacy and sterile products area of a hospital pharmacy was compared with a manual paper system to quantify overall time demands and determine the error rate associated with each system. The bar-code system was implemented in the ambulatory-care pharmacy in November 1987 and in the sterile products area in January 1988. It consists of a Trakker 9440 transaction manager with a digital scanner; labels are printed with a dot matrix printer. Electronic scanning of bar-code labels and entry of the amount required using the key-pad on the transaction manager replaced use of a preprinted form for ordering items. With the bar-code system, ordering information is transferred electronically via cable to the pharmacy inventory computer; with the manual system, this information was input by a stockroom technician. To compare the systems, the work of technicians in the ambulatory-care pharmacy and sterile products area was evaluated before and after implementation of the bar-code system. The time requirements for information gathering and data transfer were recorded by direct observation; the prevalence of errors under each system was determined by comparing unprocessed ordering information with the corresponding computer-generated "pick lists" (itemized lists including the amount of each product ordered). Time consumed in extra trips to the stockroom to replace out-of-stock items was self-reported. Significantly less time was required to order stock and transfer data to the pharmacy inventory computer with the bar-code system than with the manual system.(ABSTRACT TRUNCATED AT 250 WORDS) PMID:2757044

  15. Verifying Data Integrity of Electronically Scanned Pressure Systems at the NASA Glenn Research Center

    Science.gov (United States)

    Panek, Joseph W.

    2001-01-01

    The proper operation of the Electronically Scanned Pressure (ESP) System critical to accomplish the following goals: acquisition of highly accurate pressure data for the development of aerospace and commercial aviation systems and continuous confirmation of data quality to avoid costly, unplanned, repeat wind tunnel or turbine testing. Standard automated setup and checkout routines are necessary to accomplish these goals. Data verification and integrity checks occur at three distinct stages, pretest pressure tubing and system checkouts, daily system validation and in-test confirmation of critical system parameters. This paper will give an overview of the existing hardware, software and methods used to validate data integrity.

  16. Botany without borders: barcoding in focus.

    Science.gov (United States)

    Kane, Nolan C; Cronk, Quentin

    2008-12-01

    This recent meeting, held on the campus of the University of British Columbia, attracted 1200 delegates and a vast array of talks, but was notable for a remarkable showing of talks and posters on DNA barcoding in plants, spread through many sessions. The Canadian Centre for DNA Barcoding defines barcoding as 'species identification and discovery through the analysis of short, standardized gene regions known as DNA barcodes'. This approach is somewhat controversial in animals (Rubinoff et al., 2006), although it has been shown to be useful and reliable in many metazoan taxa (Meyer & Paulay 2005; Hajibabaei et al., 2007), in which the mitochondrial cytochrome oxidase I (COI) gene is used. However, in land plants, COI evolves far too slowly to be useful, and there is no obvious single universal alternative (Fazekas et al., 2008).Genes that work well in one taxon may perform poorly in other taxa. Additionally, some perfectly good plant species,reproductively isolated and morphologically and ecologically distinct, are too young to show much sequence divergence at most loci. Nevertheless, as we saw at this conference, progress has been made towards identifying genes that serve many of the functions of DNA barcodes, at least in some plant taxa. PMID:19067801

  17. AUTOMATIC RECOGNITION OF PIPING SYSTEM FROM LARGE-SCALE TERRESTRIAL LASER SCAN DATA

    Directory of Open Access Journals (Sweden)

    K. Kawashima

    2012-09-01

    Full Text Available Recently, changes in plant equipment have been becoming more frequent because of the short lifetime of the products, and constructing 3D shape models of existing plants (as-built models from large-scale laser scanned data is expected to make their rebuilding processes more efficient. However, the laser scanned data of the existing plant has massive points, captures tangled objects and includes a large amount of noises, so that the manual reconstruction of a 3D model is very time-consuming and costs a lot. Piping systems especially, account for the greatest proportion of plant equipment. Therefore, the purpose of this research was to propose an algorithm which can automatically recognize a piping system from terrestrial laser scan data of the plant equipment. The straight portion of pipes, connecting parts and connection relationship of the piping system can be recognized in this algorithm. Eigenvalue analysis of the point clouds and of the normal vectors allows for the recognition. Using only point clouds, the recognition algorithm can be applied to registered point clouds and can be performed in a fully automatic way. The preliminary results of the recognition for large-scale scanned data from an oil rig plant have shown the effectiveness of the algorithm.

  18. 条码系统在企业ERP系统中的应用研究%Application of Barcode System in the Enterprise ERP System

    Institute of Scientific and Technical Information of China (English)

    陈玉娟; 杨淑梅; 王一兵

    2016-01-01

    With the development of enterprise information construction, the resource management in military enterprises should rely on ERP application platform, ERP system and bar code system and other enterprise application systems are combined with the depth, improve enterprise management level and production and research capacity. This paper analyzes the current situation of enterprise ERP, expounds the concept of bar code technology, and discusses the application of bar code technology in enterprise ERP, production, quality management, after sales module.%随着企业信息化建设的发展,军工企业的资源管理应凭借ERP应用平台,将ERP系统与条码系统以及企业其他应用系统深度结合,提高企业管理水平和生产科研能力。文章分析了企业ERP现状,阐述了条码技术概念,探讨条码技术在企业ERP、生产、质量管理、售后模块中的具体应用。

  19. Confocal Ellipsoidal Reflector System for a Mechanically Scanned Active Terahertz Imager

    OpenAIRE

    Llombart, Nuria; Cooper, Ken B.; Dengler, Robert J.; Bryllert, Tomas; Siegel, Peter H.

    2010-01-01

    We present the design of a reflector system that can rapidly scan and refocus a terahertz beam for high-resolution standoff imaging applications. The proposed optical system utilizes a confocal Gregorian geometry with a small mechanical rotating mirror and an axial displacement of the feed. For operation at submillimeter wavelengths and standoff ranges of many meters, the imaging targets are electrically very close to the antenna aperture. Therefore the main reflector surface must be an ellip...

  20. Histometric data obtained by in vivo confocal laser scanning microscopy in patients with systemic sclerosis

    Directory of Open Access Journals (Sweden)

    Altmeyer Peter

    2002-08-01

    Full Text Available Abstract Background It would be a benefit if time-saving, non-invasive methods could give hints for diagnosing systemic sclerosis. To investigate the skin of patients with systemic sclerosis using confocal laser scanning microscopy in vivo and to develop histometric parameters to describe characteristic cutaneous changes of systemic sclerosis observed by this new technique, we conducted an exploratory study. Materials and Methods Fifteen patients with systemic sclerosis treated with extracorporal photopheresis were compared with 15 healthy volunteers and 10 patients with other disorders also treated with extracorporal photopheresis. All subjects were investigated using confocal laser scanning microscopy in vivo. Results Micromorphologic characteristics of skin of patients with systemic sclerosis and measuring parameters for melanisation, epidermal hypotrophy, and fibrosis for dislocation of capillaries by collagen deposits in the papillary dermis were evaluated. An interesting finding was an increased thickness of the tissue in the dermal papillae superior to the first dermal papilla vessel. It was also possible to reproduce characteristic histologic features by confocal laser scanning microscopy in vivo. Histometric parameters for fibrosis and vascular features developed in this study showed significant differences in patients with systemic sclerosis compared to controls. Conclusions Although the predominant histopathological features in systemic sclerosis are findings of the reticular dermis and the subcutis, and in histopathological investigation the epidermis seems to remain unaffected by the disease, we have demonstrate some characteristic differences in the epidermis and papillary dermis by confocal laser scanning microscopy in vivo. Some of them have not been described so far. However, to use this technique as a tool for diagnosis and/or staging of systemic sclerosis, further studies are needed investigating the sensitivity and

  1. DNA barcodes for two scale insect families, mealybugs (Hemiptera: Pseudococcidae) and armored scales (Hemiptera: Diaspididae).

    Science.gov (United States)

    Park, D-S; Suh, S-J; Hebert, P D N; Oh, H-W; Hong, K-J

    2011-08-01

    Although DNA barcode coverage has grown rapidly for many insect orders, there are some groups, such as scale insects, where sequence recovery has been difficult. However, using a recently developed primer set, we recovered barcode records from 373 specimens, providing coverage for 75 species from 31 genera in two families. Overall success was >90% for mealybugs and >80% for armored scale species. The G·C content was very low in most species, averaging just 16.3%. Sequence divergences (K2P) between congeneric species averaged 10.7%, while intra-specific divergences averaged 0.97%. However, the latter value was inflated by high intra-specific divergence in nine taxa, cases that may indicate species overlooked by current taxonomic treatments. Our study establishes the feasibility of developing a comprehensive barcode library for scale insects and indicates that its construction will both create an effective system for identifying scale insects and reveal taxonomic situations worthy of deeper analysis.

  2. Spectral Barcoding of Quantum Dots: Deciphering Structural Motifs from the Excitonic Spectra

    International Nuclear Information System (INIS)

    Self-assembled semiconductor quantum dots (QDs) show in high-resolution single-dot spectra a multitude of sharp lines, resembling a barcode, due to various neutral and charged exciton complexes. Here we propose the 'spectral barcoding' method that deciphers structural motifs of dots by using such barcode as input to an artificial-intelligence learning system. Thus, we invert the common practice of deducing spectra from structure by deducing structure from spectra. This approach (i) lays the foundation for building a much needed structure-spectra understanding for large nanostructures and (ii) can guide future design of desired optical features of QDs by controlling during growth only those structural motifs that decide given optical features.

  3. Barcode-based position control servo for high-speed conditions

    Institute of Scientific and Technical Information of China (English)

    LU Chunhui; WANG Shigang; FU Wenhan

    2007-01-01

    A barcode-based position controlling method for high-speed Conditions was introduced to deal with the position control in some conditions where it cannot be done quickly and precisely using traditional methods.The position feedback will depend on the decoding of a specifically redesigned barcode with a special structure.By using the angle encoder and interpolation arithmetic,high precision position deviations can be attained.Then position correction will be done through the control algorithm and servo system.The design and decoding of the barcode and the method of obtaining extremely precise deviation are illuminated.In theory,this method of control servoing is very suitable for its real-time,high-precision and high-speed applicability.

  4. Multidimensional Laser Scanning System for Underwater Mapping of Small Structures and Bottom Topography

    Science.gov (United States)

    Fuchs, E.

    2005-05-01

    A multidimensional laser scanning imaging system is under development to investigate new concepts in underwater imaging. The system is a modification of the 3D Laser Imaging & Tracking Electro-optical System (3D LITES; HBOI, patent # 5,418,608) that was developed for 3D mapping applications in biological oceanography. The new 3D-FLITES ("F" stands for added Fluorescence capability) captures both spatial and spectral data and offers extended operation capabilities. The system can capture the range to each pixel in the sensor's field of view, the relative reflectance of each pixel (similar to "conventional" images) and five channels of fluorescence emission in the scene, captured sequentially. Multidimensional data sets can be instrumental in bottom topography mapping and object identification. The 3D FLITES has the unique capability to operate in user-selectable line or raster scanning modes if mounted on a moving platform. In raster mode two perpendicular mirrors are driven, allowing the operator to capture single frames (capturing either reflectance or fluorescence data) or a stream of images in fast rate (16 frames per second). With this operational flexibility the operator can combine a "fly over" scanning mode with "look ahead", "look sideways" and "zoom" modes. The current system is limited in range and resolution; nevertheless it can serve as a test-bed to evaluate operational parameters, data acquisition and signal processing protocols that could lead to a smaller, more efficient system in the future.

  5. BARCODE DEKODET : En diskursanalyse av byutviklingsdebatten om utbyggingsprosjektet Barcode i Bjørvika

    OpenAIRE

    2009-01-01

    Denne oppgaven handler om "byutviklingsdebatten om Barcode". Utbyggingsprosjektet Barcode ble kåret til vinner av en arkitektkonkurranse for fire tomter i Bjørvika våren 2003. Disse tomtene ligger like sør for sporområdet på Oslo Sentralstasjon. Da utbyggerne for tomtene, Oslo S Utvikling, kom med et nytt reguleringsforslag for området der byggehøydene økes i tråd med Barcode-prinsippet, kom det inn usedvanlig mange kritiske reaksjoner til PBE. Dette var kimen til byutviklingsdebatten om Barc...

  6. Plant DNA barcoding in China

    Institute of Scientific and Technical Information of China (English)

    De-Zhu LI; Jian-Quan LIU; Zhi-Duan CHEN; Hong WANG; Xue-Jun GE; Shi-Liang ZHOU; Lian-Ming GAO; Cheng-Xin FU; Shi-Lin CHEN

    2011-01-01

    @@ Identification is the keystone of biology (Bell, 1986).However, to biologists and students of biology, the total numbers of species that must be identified far outnumber the names commonly used in English, Chinese, or other living languages.In addition, the identification cues vary greatly between different taxonomical groups.Even for the taxonomists with long training and experience, it is difficult to remember all specific terms for a given group, e.g., Orchidaceae or Poaceae, without help of floristic books or monographs.It takes much time and effort to train a taxonomist, at a time when fewer and fewer young students are interested in this "classical" and "out-of-style", but extremely important, discipline.Many students elect to learn the more "advanced'' and "modem" biological disciples like molecular biology and biochemistry.Thus, in China and therest of the world, taxonomists are themselves becoming "endangered".The rise of the DNA barcoding is expected to mitigate, at least in part, this dilemma.

  7. Amplified Dispersive Fourier-Transform Imaging for Ultrafast Displacement Sensing and Barcode Reading

    CERN Document Server

    Goda, Keisuke; Jalali, Bahram

    2008-01-01

    Dispersive Fourier transformation is a powerful technique in which the spectrum of an optical pulse is mapped into a time-domain waveform using chromatic dispersion. It replaces a diffraction grating and detector array with a dispersive fiber and single photodetector. This simplifies the system and, more importantly, enables fast real-time measurements. Here we describe a novel ultrafast barcode reader and displacement sensor that employs internally-amplified dispersive Fourier transformation. This technique amplifies and simultaneously maps the spectrally encoded barcode into a temporal waveform. It achieves a record acquisition speed of 25 MHz -- four orders of magnitude faster than the current state-of-the-art.

  8. Amplified dispersive Fourier-transform imaging for ultrafast displacement sensing and barcode reading

    Science.gov (United States)

    Goda, Keisuke; Tsia, Kevin K.; Jalali, Bahram

    2008-09-01

    Dispersive Fourier transformation is a powerful technique in which the spectrum of an optical pulse is mapped into a time-domain waveform using chromatic dispersion. It replaces a diffraction grating and detector array with a dispersive fiber and single photodetector. This simplifies the system and, more importantly, enables fast real-time measurements. Here we describe a novel ultrafast barcode reader and displacement sensor that employs internally amplified dispersive Fourier transformation. This technique amplifies and simultaneously maps the spectrally encoded barcode into a temporal waveform. It achieves a record acquisition speed of 25MHz—four orders of magnitude faster than the current state of the art.

  9. Distributed management system of a scanning robot programmed real time in APL language

    International Nuclear Information System (INIS)

    The aim of this work is to propose an original solution in order to implement the control operating system of a robot designed to travel between the main tank and the safety tank of the SUPERPHENIX reactor for scanning up the welding by ultrasound measurements. The system consists of: - a MITRA mini-computer programmed in APL, that manages the driving unit and defines the scanning strategy (visual unit, cheking board...). - a microprocessor that realizes the connection between the MITRA and the robot on wich the motor commands and the safety fonctions are placed. Such a solution allows to limit input output volume in the MITRA and gives the possibility to program the system in real time in APL language

  10. A system level boundary scan controller board for VME applications [to CERN experiments

    CERN Document Server

    Cardoso, N; Da Silva, J C

    2000-01-01

    This work is the result of a collaboration between INESC and LIP in the CMS experiment being conducted at CERN. The collaboration addresses the application of boundary scan test at system level namely the development of a VME boundary scan controller (BSC) board prototype and the corresponding software. This prototype uses the MTM bus existing in the VME64* backplane to apply the 1149.1 test vectors to a system composed of nineteen boards, called here units under test (UUTs). A top-down approach is used to describe our work. The paper begins with some insights about the experiment being conducted at CERN, proceed with system level considerations concerning our work and with some details about the BSC board. The results obtained so far and the proposed work is reviewed in the end of this contribution. (11 refs).

  11. Short barcodes for next generation sequencing.

    Directory of Open Access Journals (Sweden)

    Katharina Mir

    Full Text Available We consider the design and evaluation of short barcodes, with a length between six and eight nucleotides, used for parallel sequencing on platforms where substitution errors dominate. Such codes should have not only good error correction properties but also the code words should fulfil certain biological constraints (experimental parameters. We compare published barcodes with codes obtained by two new constructions methods, one based on the currently best known linear codes and a simple randomized construction method. The evaluation done is with respect to the error correction capabilities, barcode size and their experimental parameters and fundamental bounds on the code size and their distance properties. We provide a list of codes for lengths between six and eight nucleotides, where for length eight, two substitution errors can be corrected. In fact, no code with larger minimum distance can exist.

  12. Short barcodes for next generation sequencing.

    Science.gov (United States)

    Mir, Katharina; Neuhaus, Klaus; Bossert, Martin; Schober, Steffen

    2013-01-01

    We consider the design and evaluation of short barcodes, with a length between six and eight nucleotides, used for parallel sequencing on platforms where substitution errors dominate. Such codes should have not only good error correction properties but also the code words should fulfil certain biological constraints (experimental parameters). We compare published barcodes with codes obtained by two new constructions methods, one based on the currently best known linear codes and a simple randomized construction method. The evaluation done is with respect to the error correction capabilities, barcode size and their experimental parameters and fundamental bounds on the code size and their distance properties. We provide a list of codes for lengths between six and eight nucleotides, where for length eight, two substitution errors can be corrected. In fact, no code with larger minimum distance can exist.

  13. Towards a global barcode library for Lymantria (Lepidoptera: Lymantriinae tussock moths of biosecurity concern.

    Directory of Open Access Journals (Sweden)

    Jeremy R deWaard

    Full Text Available BACKGROUND: Detecting and controlling the movements of invasive species, such as insect pests, relies upon rapid and accurate species identification in order to initiate containment procedures by the appropriate authorities. Many species in the tussock moth genus Lymantria are significant forestry pests, including the gypsy moth Lymantria dispar L., and consequently have been a focus for the development of molecular diagnostic tools to assist in identifying species and source populations. In this study we expand the taxonomic and geographic coverage of the DNA barcode reference library, and further test the utility of this diagnostic method, both for species/subspecies assignment and for determination of geographic provenance of populations. METHODOLOGY/PRINCIPAL FINDINGS: Cytochrome oxidase I (COI barcodes were obtained from 518 individuals and 36 species of Lymantria, including sequences assembled and generated from previous studies, vouchered material in public collections, and intercepted specimens obtained from surveillance programs in Canada. A maximum likelihood tree was constructed, revealing high bootstrap support for 90% of species clusters. Bayesian species assignment was also tested, and resulted in correct assignment to species and subspecies in all instances. The performance of barcoding was also compared against the commonly employed NB restriction digest system (also based on COI; while the latter is informative for discriminating gypsy moth subspecies, COI barcode sequences provide greater resolution and generality by encompassing a greater number of haplotypes across all Lymantria species, none shared between species. CONCLUSIONS/SIGNIFICANCE: This study demonstrates the efficacy of DNA barcodes for diagnosing species of Lymantria and reinforces the view that the approach is an under-utilized resource with substantial potential for biosecurity and surveillance. Biomonitoring agencies currently employing the NB restriction

  14. DNA barcoding the Lepidoptera inventory of a large complex tropical conserved wildland, Area de Conservacion Guanacaste, northwestern Costa Rica.

    Science.gov (United States)

    Janzen, Daniel H; Hallwachs, Winnie

    2016-09-01

    The 37-year ongoing inventory of the estimated 15 000 species of Lepidoptera living in the 125 000 terrestrial hectares of Area de Conservacion Guanacaste, northwestern Costa Rica, has DNA barcode documented 11 000+ species, and the simultaneous inventory of at least 6000+ species of wild-caught caterpillars, plus 2700+ species of parasitoids. The inventory began with Victorian methodologies and species-level perceptions, but it was transformed in 2004 by the full application of DNA barcoding for specimen identification and species discovery. This tropical inventory of an extraordinarily species-rich and complex multidimensional trophic web has relied upon the sequencing services provided by the Canadian Centre for DNA Barcoding, and the informatics support from BOLD, the Barcode of Life Data Systems, major tools developed by the Centre for Biodiversity Genomics at the Biodiversity Institute of Ontario, and available to all through couriers and the internet. As biodiversity information flows from these many thousands of undescribed and often look-alike species through their transformations to usable product, we see that DNA barcoding, firmly married to our centuries-old morphology-, ecology-, microgeography-, and behavior-based ways of taxonomizing the wild world, has made possible what was impossible before 2004. We can now work with all the species that we find, as recognizable species-level units of biology. In this essay, we touch on some of the details of the mechanics of actually using DNA barcoding in an inventory.

  15. DNA barcoding the Lepidoptera inventory of a large complex tropical conserved wildland, Area de Conservacion Guanacaste, northwestern Costa Rica.

    Science.gov (United States)

    Janzen, Daniel H; Hallwachs, Winnie

    2016-09-01

    The 37-year ongoing inventory of the estimated 15 000 species of Lepidoptera living in the 125 000 terrestrial hectares of Area de Conservacion Guanacaste, northwestern Costa Rica, has DNA barcode documented 11 000+ species, and the simultaneous inventory of at least 6000+ species of wild-caught caterpillars, plus 2700+ species of parasitoids. The inventory began with Victorian methodologies and species-level perceptions, but it was transformed in 2004 by the full application of DNA barcoding for specimen identification and species discovery. This tropical inventory of an extraordinarily species-rich and complex multidimensional trophic web has relied upon the sequencing services provided by the Canadian Centre for DNA Barcoding, and the informatics support from BOLD, the Barcode of Life Data Systems, major tools developed by the Centre for Biodiversity Genomics at the Biodiversity Institute of Ontario, and available to all through couriers and the internet. As biodiversity information flows from these many thousands of undescribed and often look-alike species through their transformations to usable product, we see that DNA barcoding, firmly married to our centuries-old morphology-, ecology-, microgeography-, and behavior-based ways of taxonomizing the wild world, has made possible what was impossible before 2004. We can now work with all the species that we find, as recognizable species-level units of biology. In this essay, we touch on some of the details of the mechanics of actually using DNA barcoding in an inventory. PMID:27584861

  16. Calibrating the taxonomy of a megadiverse insect family: 3000 DNA barcodes from geometrid type specimens (Lepidoptera, Geometridae).

    Science.gov (United States)

    Hausmann, Axel; Miller, Scott E; Holloway, Jeremy D; deWaard, Jeremy R; Pollock, David; Prosser, Sean W J; Hebert, Paul D N

    2016-09-01

    It is essential that any DNA barcode reference library be based upon correctly identified specimens. The Barcode of Life Data Systems (BOLD) requires information such as images, geo-referencing, and details on the museum holding the voucher specimen for each barcode record to aid recognition of potential misidentifications. Nevertheless, there are misidentifications and incomplete identifications (e.g., to a genus or family) on BOLD, mainly for species from tropical regions. Unfortunately, experts are often unavailable to correct taxonomic assignments due to time constraints and the lack of specialists for many groups and regions. However, considerable progress could be made if barcode records were available for all type specimens. As a result of recent improvements in analytical protocols, it is now possible to recover barcode sequences from museum specimens that date to the start of taxonomic work in the 18th century. The present study discusses success in the recovery of DNA barcode sequences from 2805 type specimens of geometrid moths which represent 1965 species, corresponding to about 9% of the 23 000 described species in this family worldwide and including 1875 taxa represented by name-bearing types. Sequencing success was high (73% of specimens), even for specimens that were more than a century old. Several case studies are discussed to show the efficiency, reliability, and sustainability of this approach. PMID:27549513

  17. Dual resolution two-dimensional color barcode

    Science.gov (United States)

    Fan, Zhigang; Zhao, Yonghui; Wang, Shenge; Ding, Hengzhou

    2013-03-01

    In this paper, a QR code is presented with a dual resolution structure. It contains a high resolution layer that is coded in luminance and is in consistency with the conventional QR code, and a low resolution layer providing additional error checking information, that is coded in chrominance and is robust to blurring. The proposed QR code is compatible to its underlying conventional black and white barcode as it can be read by their decoders. Its advantage is additional reliability when a color decoder is used. In particular, it enhances the decoding accuracy for devices such as mobile devices for barcodes printed in small sizes.

  18. DNA Barcoding on Bacteria: A Review

    Directory of Open Access Journals (Sweden)

    D. E. Lebonah

    2014-01-01

    Full Text Available Bacteria are omnipotent and they can be found everywhere. The study of bacterial pathogens has been happening from olden days to prevent epidemics, food spoilage, losses in agricultural production, and loss of lives. Modern techniques in DNA based species identification are considered. So, there is a need to acquire simple and quick identification technique. Hence, this review article covers the efficacy of DNA barcoding of bacteria. Routine DNA barcoding involves the production of PCR amplicons from particular regions to sequence them and these sequence data are used to identify or “barcode” that organism to make a distinction from other species.

  19. Denture bar-coding: An innovative technique in forensic dentistry

    OpenAIRE

    Dineshshankar, Janardhanam; Venkateshwaran, Rajendran; J. Vidhya; Anuradha, R.; Mary, Gold Pealin; Pradeep, R.; Senthileagappan, A. R.

    2015-01-01

    Denture markers play an important role in forensic odontology and also in identifying a person. A number of methods are there for identifying dentures from a less expensive technique to a more expensive technique. Out of different denture markers, the bar-coding system is a way of collecting data from the mobile. Even a huge amount of data can be stored in that. It can be easily incorporated during acrylization of the denture and thus could be helpful in identification. This article reviews t...

  20. Laser cutting of irregular shape object based on stereo vision laser galvanometric scanning system

    Science.gov (United States)

    Qi, Li; Zhang, Yixin; Wang, Shun; Tang, Zhiqiang; Yang, Huan; Zhang, Xuping

    2015-05-01

    Irregular shape objects with different 3-dimensional (3D) appearances are difficult to be shaped into customized uniform pattern by current laser machining approaches. A laser galvanometric scanning system (LGS) could be a potential candidate since it can easily achieve path-adjustable laser shaping. However, without knowing the actual 3D topography of the object, the processing result may still suffer from 3D shape distortion. It is desirable to have a versatile auxiliary tool that is capable of generating 3D-adjusted laser processing path by measuring the 3D geometry of those irregular shape objects. This paper proposed the stereo vision laser galvanometric scanning system (SLGS), which takes the advantages of both the stereo vision solution and conventional LGS system. The 3D geometry of the object obtained by the stereo cameras is used to guide the scanning galvanometers for 3D-shape-adjusted laser processing. In order to achieve precise visual-servoed laser fabrication, these two independent components are integrated through a system calibration method using plastic thin film target. The flexibility of SLGS has been experimentally demonstrated by cutting duck feathers for badminton shuttle manufacture.

  1. A study on SCAN, LOG and DISPLAY system for nuclear safety information

    International Nuclear Information System (INIS)

    The objective of the project is to develop SCAN, LOG and DISPLAY system for the nuclear safety informations. This system consists of the real time data acquisition system, the main processing system, the graphic display system, and the dose assessment system. We have used the real time data processing techniques for the data acqisition, the data communication, and the historical data base. The graphic display system that has the human factor engineered man-machine interface subsystem provides the plant operators with the useful information for the nuclear power plant in real time. In radiological dose assessment system, we have built the models of the radiological exposure analysis and the atmospheric diffusion of the radioactive material. (Author)

  2. Evaluation of a Backpack-Mounted 3D Mobile Scanning System

    Directory of Open Access Journals (Sweden)

    Helge A. Lauterbach

    2015-10-01

    Full Text Available Recently, several backpack-mounted systems, also known as personal laser scanning systems, have been developed. They consist of laser scanners or cameras that are carried by a human operator to acquire measurements of the environment while walking. These systems were first designed to overcome the challenges of mapping indoor environments with doors and stairs. While the human operator inherently has the ability to open doors and to climb stairs, the flexible movements introduce irregularities of the trajectory to the system. To compete with other mapping systems, the accuracy of these systems has to be evaluated. In this paper, we present an extensive evaluation of our backpack mobile mapping system in indoor environments. It is shown that the system can deal with the normal human walking motion, but has problems with irregular jittering. Moreover, we demonstrate the applicability of the backpack in a suitable urban scenario.

  3. Benchmarking the Performance of Mobile Laser Scanning Systems Using a Permanent Test Field

    Directory of Open Access Journals (Sweden)

    Hannu Hyyppä

    2012-09-01

    Full Text Available The performance of various mobile laser scanning systems was tested on an established urban test field. The test was connected to the European Spatial Data Research (EuroSDR project “Mobile Mapping—Road Environment Mapping Using Mobile Laser Scanning”. Several commercial and research systems collected laser point cloud data on the same test field. The system comparisons focused on planimetric and elevation errors using a filtered digital elevation model, poles, and building corners as the reference objects. The results revealed the high quality of the point clouds generated by all of the tested systems under good GNSS conditions. With all professional systems properly calibrated, the elevation accuracy was better than 3.5 cm up to a range of 35 m. The best system achieved a planimetric accuracy of 2.5 cm over a range of 45 m. The planimetric errors increased as a function of range, but moderately so if the system was properly calibrated. The main focus on mobile laser scanning development in the near future should be on the improvement of the trajectory solution, especially under non-ideal conditions, using both improvements in hardware and software. Test fields are relatively easy to implement in built environments and they are feasible for verifying and comparing the performance of different systems and also for improving system calibration to achieve optimum quality.

  4. Temporal subtraction system on torso FDG-PET scans based on statistical image analysis

    Science.gov (United States)

    Shimizu, Yusuke; Hara, Takeshi; Fukuoka, Daisuke; Zhou, Xiangrong; Muramatsu, Chisako; Ito, Satoshi; Hakozaki, Kenta; Kumita, Shin-ichiro; Ishihara, Kei-ichi; Katafuchi, Tetsuro; Fujita, Hiroshi

    2013-02-01

    Diagnostic imaging on FDG-PET scans was often used to evaluate chemotherapy results of cancer patients. Radiologists compare the changes of lesions' activities between previous and current examinations for the evaluation. The purpose of this study was to develop a new computer-aided detection (CAD) system with temporal subtraction technique for FDGPET scans and to show the fundamental usefulness based on an observer performance study. Z-score mapping based on statistical image analysis was newly applied to the temporal subtraction technique. The subtraction images can be obtained based on the anatomical standardization results because all of the patients' scans were deformed into standard body shape. An observer study was performed without and with computer outputs to evaluate the usefulness of the scheme by ROC (receiver operating characteristics) analysis. Readers responded as confidence levels on a continuous scale from absolutely no change to definitely change between two examinations. The recognition performance of the computer outputs for the 43 pairs was 96% sensitivity with 31.1 false-positive marks per scan. The average of area-under-the-ROC-curve (AUC) from 4 readers in the observer performance study was increased from 0.85 without computer outputs to 0.90 with computer outputs (p=0.0389, DBM-MRMC). The average of interpretation time was slightly decreased from 42.11 to 40.04 seconds per case (p=0.625, Wilcoxon test). We concluded that the CAD system for torso FDG-PET scans with temporal subtraction technique might improve the diagnostic accuracy of radiologist in cancer therapy evaluation.

  5. Assessment of mangroves from Goa, west coast India using DNA barcode.

    Science.gov (United States)

    Saddhe, Ankush Ashok; Jamdade, Rahul Arvind; Kumar, Kundan

    2016-01-01

    Mangroves are salt-tolerant forest ecosystems of tropical and subtropical intertidal regions. They are among most productive, diverse, biologically important ecosystem and inclined toward threatened system. Identification of mangrove species is of critical importance in conserving and utilizing biodiversity, which apparently hindered by a lack of taxonomic expertise. In recent years, DNA barcoding using plastid markers rbcL and matK has been suggested as an effective method to enrich traditional taxonomic expertise for rapid species identification and biodiversity inventories. In the present study, we performed assessment of available 14 mangrove species of Goa, west coast India based on core DNA barcode markers, rbcL and matK. PCR amplification success rate, intra- and inter-specific genetic distance variation and the correct identification percentage were taken into account to assess candidate barcode regions. PCR and sequence success rate were high in rbcL (97.7 %) and matK (95.5 %) region. The two candidate chloroplast barcoding regions (rbcL, matK) yielded barcode gaps. Our results clearly demonstrated that matK locus assigned highest correct identification rates (72.09 %) based on TaxonDNA Best Match criteria. The concatenated rbcL + matK loci were able to adequately discriminate all mangrove genera and species to some extent except those in Rhizophora, Sonneratia and Avicennia. Our study provides the first endorsement of the species resolution among mangroves using plastid genes with few exceptions. Our future work will be focused on evaluation of other barcode markers to delineate complete resolution of mangrove species and identification of putative hybrids. PMID:27652127

  6. Assessment of mangroves from Goa, west coast India using DNA barcode.

    Science.gov (United States)

    Saddhe, Ankush Ashok; Jamdade, Rahul Arvind; Kumar, Kundan

    2016-01-01

    Mangroves are salt-tolerant forest ecosystems of tropical and subtropical intertidal regions. They are among most productive, diverse, biologically important ecosystem and inclined toward threatened system. Identification of mangrove species is of critical importance in conserving and utilizing biodiversity, which apparently hindered by a lack of taxonomic expertise. In recent years, DNA barcoding using plastid markers rbcL and matK has been suggested as an effective method to enrich traditional taxonomic expertise for rapid species identification and biodiversity inventories. In the present study, we performed assessment of available 14 mangrove species of Goa, west coast India based on core DNA barcode markers, rbcL and matK. PCR amplification success rate, intra- and inter-specific genetic distance variation and the correct identification percentage were taken into account to assess candidate barcode regions. PCR and sequence success rate were high in rbcL (97.7 %) and matK (95.5 %) region. The two candidate chloroplast barcoding regions (rbcL, matK) yielded barcode gaps. Our results clearly demonstrated that matK locus assigned highest correct identification rates (72.09 %) based on TaxonDNA Best Match criteria. The concatenated rbcL + matK loci were able to adequately discriminate all mangrove genera and species to some extent except those in Rhizophora, Sonneratia and Avicennia. Our study provides the first endorsement of the species resolution among mangroves using plastid genes with few exceptions. Our future work will be focused on evaluation of other barcode markers to delineate complete resolution of mangrove species and identification of putative hybrids.

  7. Starting a DNA barcode reference library for shallow water polychaetes from the southern European Atlantic coast.

    Science.gov (United States)

    Lobo, Jorge; Teixeira, Marcos A L; Borges, Luisa M S; Ferreira, Maria S G; Hollatz, Claudia; Gomes, Pedro T; Sousa, Ronaldo; Ravara, Ascensão; Costa, Maria H; Costa, Filipe O

    2016-01-01

    Annelid polychaetes have been seldom the focus of dedicated DNA barcoding studies, despite their ecological relevance and often dominance, particularly in soft-bottom estuarine and coastal marine ecosystems. Here, we report the first assessment of the performance of DNA barcodes in the discrimination of shallow water polychaete species from the southern European Atlantic coast, focusing on specimens collected in estuaries and coastal ecosystems of Portugal. We analysed cytochrome oxidase I DNA barcodes (COI-5P) from 164 specimens, which were assigned to 51 morphospecies. To our data set from Portugal, we added available published sequences selected from the same species, genus or family, to inspect for taxonomic congruence among studies and collection location. The final data set comprised 290 specimens and 79 morphospecies, which generated 99 Barcode Index Numbers (BINs) within Barcode of Life Data Systems (BOLD). Among these, 22 BINs were singletons, 47 other BINs were concordant, confirming the initial identification based on morphological characters, and 30 were discordant, most of which consisted on multiple BINs found for the same morphospecies. Some of the most prominent cases in the latter category include Hediste diversicolor (O.F. Müller, 1776) (7), Eulalia viridis (Linnaeus, 1767) (2) and Owenia fusiformis (delle Chiaje, 1844) (5), all of them reported from Portugal and frequently used in ecological studies as environmental quality indicators. Our results for these species showed discordance between molecular lineages and morphospecies, or added additional relatively divergent lineages. The potential inaccuracies in environmental assessments, where underpinning polychaete species diversity is poorly resolved or clarified, demand additional and extensive investigation of the DNA barcode diversity in this group, in parallel with alpha taxonomy efforts. PMID:26129849

  8. Study on the parameters of the scanning system for the 300 keV electron accelerator

    Energy Technology Data Exchange (ETDEWEB)

    Leo, K. W.; Chulan, R. M., E-mail: leo@nm.gov.my; Hashim, S. A.; Baijan, A. H.; Sabri, R. M.; Mohtar, M.; Glam, H.; Lojius, L.; Zahidee, M.; Azman, A.; Zaid, M. [Malaysian Nuclear Agency, Bangi, 43000 Kajang. Selangor (Malaysia)

    2016-01-22

    This paper describes the method to identify the magnetic coil parameters of the scanning system. This locally designed low energy electron accelerator with the present energy of 140 keV will be upgraded to 300 keV. In this accelerator, scanning system is required to deflect the energetic electron beam across a titanium foil in vertical and horizontal direction. The excitation current of the magnetic coil is determined by the energy of the electron beam. Therefore, the magnetic coil parameters must be identified to ensure the matching of the beam energy and excitation coil current. As the result, the essential parameters of the effective lengths for X-axis and Y-axis have been found as 0.1198 m and 0.1134 m and the required excitation coil currents which is dependenton the electron beam energies have be identified.

  9. A scanned, focused, multiple transducer ultrasonic system for localized hyperthermia treatments. 1987.

    Science.gov (United States)

    Hynynen, K; Roemer, R; Anhalt, D; Johnson, C; Xu, Z X; Swindell, W; Cetas, T

    2010-02-01

    A commercial diagnostic ultrasound scanner (Octoson) was modified for performing hyperthermia treatments. The temperature elevations were induced in tissues by four large, focused ultrasonic transducers whose common focal zone was scanned along a computer controlled path as determined from B-scan images. The system is described and the results of preliminary tests demonstrating some of its capabilities are given. Extensive tests with canine thighs and kidneys were performed. The blood flow to the kidneys was controllable, and thus tumours having different blood perfusion rates could be simulated. The results showed that the system is capable of inducing a local temperature maximum deep in tissues (up to 10 cm was tested) and that tissues with high perfusion rates could be heated. PMID:20100046

  10. Accuracy of optical scanning methods of the Cerec®3D system in the process of making ceramic inlays

    Directory of Open Access Journals (Sweden)

    Trifković Branka

    2010-01-01

    Full Text Available Background/Aim. One of the results of many years of Cerec® 3D CAD/CAM system technological development is implementation of one intraoral and two extraoral optical scanning methods which, depending on the current indications, are applied in making fixed restorations. The aim of this study was to determine the degree of precision of optical scanning methods by the use of the Cerec®3D CAD/CAM system in the process of making ceramic inlays. Methods. The study was conducted in three experimental groups of inlays prepared using the procedure of three methods of scanning Cerec ®3D system. Ceramic inlays made by conventional methodology were the control group. The accuracy of optical scanning methods of the Cerec®3D system computer aided designcomputer aided manufacturing (CAD/CAM was indirectly examined by measuring a marginal gap size between inlays and demarcation preparation by scanning electron microscope (SEM. Results. The results of the study showed a difference in the accuracy of the existing methods of scanning dental CAD/CAM systems. The highest level of accuracy was achieved by the extraoral optical superficial scanning technique. The value of marginal gap size inlays made with the technique of extraoral optical superficial scanning was 32.97 ± 13.17 μ. Techniques of intraoral optical superficial and extraoral point laser scanning showed a lower level of accuracy (40.29 ± 21.46 μ for inlays of intraoral optical superficial scanning and 99.67 ± 37.25 μ for inlays of extraoral point laser scanning. Conclusion. Optical scanning methods in dental CAM/CAM technologies are precise methods of digitizing the spatial models; application of extraoral optical scanning methods provides the hightest precision.

  11. Characterization of Anabaena cylindrica Solution System Using Synchronous- Scan Fluorescence Spectroscopy

    Institute of Scientific and Technical Information of China (English)

    LIU Xian-li; DENG Nan-sheng; TAO Shu

    2005-01-01

    The characterization of the algae Anabaena cylindrica solu tion with Fe (Ⅲ) was investigated using fluorescence emission and syn chronous-scan spectroscopy. The ranges of concentrations of algae and Fe (Ⅲ) in aqueous solutions were 5. 0 × 107-2. 5 × 108 cell/L and 10-60μmol/L, respectively. The effective characterization method used was synchronous-scan fluorescence spectroscopy (SFS). The wavelength difference (△λ) of 90 nm was maintained between excitation wavelength (λex) and emission wavelength(λem ). The peak was observed at about λex 236 nm/λem 326 nm for synchronous-scan fluorescence spectroscopy. The fluorescence quenching in system of algae-Fe( Ⅲ)-HA was studied using synchronous-scan spectroscopy for the first time. Fe(Ⅲ) was clearly the effective quencher. The relationship between I0 / I (quenching efficiency)and c (concentration of Fe (Ⅲ) added) was a linear correlation for the al gae solution with Fe(Ⅲ). Also, Aldrich humic acid (HA) was found to be an effective quencher.

  12. Capabilities of a single scan TV-radiographic system for digital data acquisition.

    Science.gov (United States)

    Baily, N. A.; Crepeau, R. L.

    1971-01-01

    A single scan TV-radiography system capable of providing analogue signals ready for A-D conversion for input to a computer has been investigated. Modulation transfer functions of both horizontal and vertical resolution have been obtained. The capability for gray scale reproduction was also investigated. The output data rate of the system is 16 KHz thereby providing compatibility to A-D converters generally available for most computers. In general, the capability of the system was found to exceed the input capabilities of available image-amplifiers and is therefore acceptable for quantitative fluoroscopic applications.

  13. Design & Reality of CAD/CAM in Laser Beam Scanning Manufacturing System

    Institute of Scientific and Technical Information of China (English)

    SUN Jianjun; SUN Huilai; ZHAO Fangfang; LIN Shuzhong; QI Xiangyang

    2006-01-01

    In laser beam scanning manufacturing (LSM) system the PLT file was adopted as design file. The data of design file were processed by CAD software programmed. And the control model was adopted DEA control model. The DEA model was concerned with not only the distance of the two swaying mirrors, the distance between the swaying mirror and convex lens, the mirror swaying angle and the lens focal length but also the lens central height, the lens convex radius and the medium refractive index. It improved the precision and reduced the error in LBM system. The application of CAD/CAM system in LSM improved the LSM manufacturing velocity and manufacturing quality.

  14. Conceptual Issues Regarding the Development of Underground Railway Laser Scanning Systems

    Directory of Open Access Journals (Sweden)

    Raymond Hung

    2015-01-01

    Full Text Available Mobile Laser Scanning (MLS systems are widely applied for spatial data collection and support applications in many aspects. In recent years, MLS technology had been introduced to railway applications and greatly enhanced the spatial detail and efficiency when compared to traditional approaches. However, the advance of MLS technology is not completely applied to railway environment. Typical MLS systems rely on integrated navigation through the use of Inertial Navigation Systems (INS and Global Navigation Satellite Systems (GNSS for geo-referencing, while operation under long-term GNSS outages or even GNSS-free environments, such as underground railway or long tunnels, remains a challenging issue due to the degraded operation of standalone inertial navigation. Commercial MLS systems usually employ high performance inertial measurement units (IMU and various strategies to manage GNSS outages, but GNSS components are still necessary prior to and after experiencing the loss of GNSS signals. To tackle the problem of permanent GNSS outages, alternative methods are introduced to replace the GNSS and so allow the use of MLS systems in GNSS-free underground railway environments. Such approaches encourage the MLS systems to be developed into the Underground Railway Laser Scanning (URLS systems, which may provide several alternative operational functions for the management of underground railway operation.

  15. Compact Multipurpose Mobile Laser Scanning System — Initial Tests and Results

    Directory of Open Access Journals (Sweden)

    Craig Glennie

    2013-01-01

    Full Text Available We describe a prototype compact mobile laser scanning system that may be operated from a backpack or unmanned aerial vehicle. The system is small, self-contained, relatively inexpensive, and easy to deploy. A description of system components is presented, along with the initial calibration of the multi-sensor platform. The first field tests of the system, both in backpack mode and mounted on a helium balloon for real-world applications are presented. For both field tests, the acquired kinematic LiDAR data are compared with highly accurate static terrestrial laser scanning point clouds. These initial results show that the vertical accuracy of the point cloud for the prototype system is approximately 4 cm (1σ in balloon mode, and 3 cm (1σ in backpack mode while horizontal accuracy was approximately 17 cm (1σ for the balloon tests. Results from selected study areas on the Sacramento River Delta and San Andreas Fault in California demonstrate system performance, deployment agility and flexibility, and potential for operational production of high density and highly accurate point cloud data. Cost and production rate trade-offs place this system in the niche between existing airborne and tripod mounted LiDAR systems.

  16. Full-color holographic 3D imaging system using color optical scanning holography

    Science.gov (United States)

    Kim, Hayan; Kim, You Seok; Kim, Taegeun

    2016-06-01

    We propose a full-color holographic three-dimensional imaging system that composes a recording stage, a transmission and processing stage and reconstruction stage. In recording stage, color optical scanning holography (OSH) records the complex RGB holograms of an object. In transmission and processing stage, the recorded complex RGB holograms are transmitted to the reconstruction stage after conversion to off-axis RGB holograms. In reconstruction stage, the off-axis RGB holograms are reconstructed optically.

  17. Bore-Sight Calibration of Multiple Laser Range Finders for Kinematic 3D Laser Scanning Systems

    Directory of Open Access Journals (Sweden)

    Jaehoon Jung

    2015-05-01

    Full Text Available The Simultaneous Localization and Mapping (SLAM technique has been used for autonomous navigation of mobile systems; now, its applications have been extended to 3D data acquisition of indoor environments. In order to reconstruct 3D scenes of indoor space, the kinematic 3D laser scanning system, developed herein, carries three laser range finders (LRFs: one is mounted horizontally for system-position correction and the other two are mounted vertically to collect 3D point-cloud data of the surrounding environment along the system’s trajectory. However, the kinematic laser scanning results can be impaired by errors resulting from sensor misalignment. In the present study, the bore-sight calibration of multiple LRF sensors was performed using a specially designed double-deck calibration facility, which is composed of two half-circle-shaped aluminum frames. Moreover, in order to automatically achieve point-to-point correspondences between a scan point and the target center, a V-shaped target was designed as well. The bore-sight calibration parameters were estimated by a constrained least squares method, which iteratively minimizes the weighted sum of squares of residuals while constraining some highly-correlated parameters. The calibration performance was analyzed by means of a correlation matrix. After calibration, the visual inspection of mapped data and residual calculation confirmed the effectiveness of the proposed calibration approach.

  18. Design of a MEMS-based retina scanning system for biometric authentication

    Science.gov (United States)

    Woittennek, Franziska; Knobbe, Jens; Pügner, Tino; Schelinski, Uwe; Grüger, Heinrich

    2014-05-01

    There is an increasing need for reliable authentication for a number of applications such as e commerce. Common authentication methods based on ownership (ID card) or knowledge factors (password, PIN) are often prone to manipulations and may therefore be not safe enough. Various inherence factor based methods like fingerprint, retinal pattern or voice identifications are considered more secure. Retina scanning in particular offers both low false rejection rate (FRR) and low false acceptance rate (FAR) with about one in a million. Images of the retina with its characteristic pattern of blood vessels can be made with either a fundus camera or laser scanning methods. The present work describes the optical design of a new compact retina laser scanner which is based on MEMS (Micro Electric Mechanical System) technology. The use of a dual axis micro scanning mirror for laser beam deflection enables a more compact and robust design compared to classical systems. The scanner exhibits a full field of view of 10° which corresponds to an area of 4 mm2 on the retinal surface surrounding the optical disc. The system works in the near infrared and is designed for use under ambient light conditions, which implies a pupil diameter of 1.5 mm. Furthermore it features a long eye relief of 30 mm so that it can be conveniently used by persons wearing glasses. The optical design requirements and the optical performance are discussed in terms of spot diagrams and ray fan plots.

  19. Cytochrome c oxidase I primers for corbiculate bees: DNA barcode and mini-barcode.

    Science.gov (United States)

    Françoso, E; Arias, M C

    2013-09-01

    Bees (Apidae), of which there are more than 19 900 species, are extremely important for ecosystem services and economic purposes, so taxon identity is a major concern. The goal of this study was to optimize the DNA barcode technique based on the Cytochrome c oxidase (COI) mitochondrial gene region. This approach has previously been shown to be useful in resolving taxonomic inconsistencies and for species identification when morphological data are poor. Specifically, we designed and tested new primers and standardized PCR conditions to amplify the barcode region for bees, focusing on the corbiculate Apids. In addition, primers were designed to amplify small COI amplicons and tested with pinned specimens. Short barcode sequences were easily obtained for some Bombus century-old museum specimens and shown to be useful as mini-barcodes. The new primers and PCR conditions established in this study proved to be successful for the amplification of the barcode region for all species tested, regardless of the conditions of tissue preservation. We saw no evidence of Wolbachia or numts amplification by these primers, and so we suggest that these new primers are of broad value for corbiculate bee identification through DNA barcode.

  20. A LOW BUDGET MOBILE LASER SCANNING SOLUTION USING ON BOARD SENSORS AND FIELD BUS SYSTEMS OF TODAY'S CONSUMER AUTOMOBILES

    Directory of Open Access Journals (Sweden)

    D. M. M. Vock

    2012-09-01

    Full Text Available Mobile laser scanning systems (MLS offer a great potential for acquiring detailed point cloud data of urban and suburban surroundings with minimum effort. In this paper a new solution for MLSs is presented, requiring solely a combination of a profile laser scanning device and systems that are included in today's serialized end consumer vehicles. While today's mobile laser scan systems require different and expensive additional hardware that needs to be mounted onto the vehicle, the devices included within vehicle electronics offer good alternatives without additional costs.The actual scan consists of a continuous profile scan together with information gathered from on-board sensor modules. In a post- processing step, the sensor data is used to reconstruct the car's trajectory for the period of the scan and, based on this information, the track of the scan device for every measured laser pixel. Synchronization of pixel data and vehicle movement is realized via a timestamp signal which is transmitted to the car's field bus system and the scan device. To generate the final point cloud scenario, the trajectory is interpolated for every single scan point and used to convert its local position within the profile into the global coordinate system (Fig.1, Left.

  1. The Relationship between Barcode Medication Administration Satisfaction and the Use of Workarounds among Registered Nurses

    Science.gov (United States)

    Bennett, Sally F.

    2012-01-01

    Adverse drug events, resulting in preventable patient harm or death, are of great concern. To keep patients safe, hospitals have implemented barcode medication administration (BCMA) technology for RNs who have accepted this technology with varying levels of satisfaction. When nurses are dissatisfied with a BCMA system, they may find alternative…

  2. Detection Of Multilayer Cavities By Employing RC-DTH Air Hammer System And Cavity Auto Scanning Laser System

    Science.gov (United States)

    Luo, Yongjiang; Li, Lijia; Peng, Jianming; Yin, Kun; Li, Peng; Gan, Xin; Zhao, Letao; Su, Wei

    2015-12-01

    The subterranean cavities are seriously threatened to construction and mining safety, and it's important to obtain the exact localization and dimensions of subterranean cavities for the planning of geotechnical and mining activities. Geophysical investigation is an alternative method for cavity detection, but it usually failed for the uncertainly solution of information and data obtained by Geophysical methods. Drilling is considered as the most accurate method for cavity detection. However, the conventional drilling methods can only be used for single cavity detection, and there is no effective solution for multilayer cavities detection have been reported. In this paper, a reverse circulation (RC) down-the-hole (DTH) air hammer system with a special structured drill bit is built and a cavity auto scanning laser system based on laser range finding technique was employed to confirm the localization and dimensions of the cavities. This RC-DTH air hammer system allows drilling through the upper cavities and putting the cavity auto scanning laser system into the cavity area through the central passage of the drill tools to protect the detection system from collapsing of borehole wall. The RC-DTH air hammer system was built, and field tests were conducted in Lanxian County Iron Ore District, which is located in Lv Liang city of Shan Xi province, the northwest of china. Field tests show that employing the RC-DTH air hammer system assisted by the cavity auto scanning laser system is an efficiency method to detect multilayer cavities.

  3. Raman Barcode for Counterfeit Drug Product Detection.

    Science.gov (United States)

    Lawson, Latevi S; Rodriguez, Jason D

    2016-05-01

    Potential infiltration of counterfeit drug products-containing the wrong or no active pharmaceutical ingredient (API)-into the bona fide drug supply poses a significant threat to consumers worldwide. Raman spectroscopy offers a rapid, nondestructive avenue to screen a high throughput of samples. Traditional qualitative Raman identification is typically done with spectral correlation methods that compare the spectrum of a reference sample to an unknown. This is often effective for pure materials but is quite challenging when dealing with drug products that contain different formulations of active and inactive ingredients. Typically, reliable identification of drug products using common spectral correlation algorithms can only be made if the specific product under study is present in the library of reference spectra, thereby limiting the scope of products that can be screened. In this paper, we introduce the concept of the Raman barcode for identification of drug products by comparing the known peaks in the API reference spectrum to the peaks present in the finished drug product under study. This method requires the transformation of the Raman spectra of both API and finished drug products into a barcode representation by assigning zero intensity to every spectral frequency except the frequencies that correspond to Raman peaks. By comparing the percentage of nonzero overlap between the expected API barcode and finished drug product barcode, the identity of API present can be confirmed. In this study, 18 approved finished drug products and nine simulated counterfeits were successfully identified with 100% accuracy utilizing this method. PMID:27043140

  4. DNA barcoding and phylogenetic relationships in Timaliidae.

    Science.gov (United States)

    Huang, Z H; Ke, D H

    2015-01-01

    The Timaliidae, a diverse family of oscine passerine birds, has long been a subject of debate regarding its phylogeny. The mitochondrial cytochrome c oxidase subunit I (COI) gene has been used as a powerful marker for identification and phylogenetic studies of animal species. In the present study, we analyzed the COI barcodes of 71 species from 21 genera belonging to the family Timaliidae. Every bird species possessed a barcode distinct from that of other bird species. Kimura two-parameter (K2P) distances were calculated between barcodes. The average genetic distance between species was 18 times higher than the average genetic distance within species. The neighbor-joining method was used to construct a phylogenetic tree and all the species could be discriminated by their distinct clades within the phylogenetic tree. The results indicate that some currently recognized babbler genera might not be monophyletic, with the COI gene data supporting the hypothesis of polyphyly for Garrulax, Alcippe, and Minla. Thus, DNA barcoding is an effective molecular tool for Timaliidae species identification and phylogenetic inference. PMID:26125793

  5. Universal COI primers for DNA barcoding amphibians.

    Science.gov (United States)

    Che, Jing; Chen, Hong-Man; Yang, Jun-Xiao; Jin, Jie-Qiong; Jiang, Ke; Yuan, Zhi-Yong; Murphy, Robert W; Zhang, Ya-Ping

    2012-03-01

    DNA barcoding is a proven tool for the rapid and unambiguous identification of species, which is essential for many activities including the vouchering tissue samples in the genome 10K initiative, genealogical reconstructions, forensics and biodiversity surveys, among many other applications. A large-scale effort is underway to barcode all amphibian species using the universally sequenced DNA region, a partial fragment of mitochondrial cytochrome oxidase subunit I COI. This fragment is desirable because it appears to be superior to 16S for barcoding, at least for some groups of salamanders. The barcoding of amphibians is essential in part because many species are now endangered. Unfortunately, existing primers for COI often fail to achieve this goal. Herein, we report two new pairs of primers (➀, ➁) that in combination serve to universally amplify and sequence all three orders of Chinese amphibians as represented by 36 genera. This taxonomic diversity, which includes caecilians, salamanders and frogs, suggests that the new primer pairs will universally amplify COI for the vast majority species of amphibians.

  6. Determining lineage pathways from cellular barcoding experiments

    NARCIS (Netherlands)

    Perié, Leïla; Hodgkin, Philip D; Naik, Shalin H; Schumacher, Ton N; de Boer, Rob J; Duffy, Ken R

    2014-01-01

    Cellular barcoding and other single-cell lineage-tracing strategies form experimental methodologies for analysis of in vivo cell fate that have been instrumental in several significant recent discoveries. Due to the highly nonlinear nature of proliferation and differentiation, interrogation of the r

  7. 77 FR 26185 - POSTNET Barcode Discontinuation

    Science.gov (United States)

    2012-05-03

    ... March 2, 2012, the Postal Service published a proposed rule in the Federal Register (77 FR 12764-12769... enclosures. See 505.1.0 for Business Reply Mail (BRM) standards, 604.4.5.2 for postage evidencing reply mail... Qualified Business Reply Mail (QBRM), an Intelligent Mail barcode (IMb TM ) will be required. Summary...

  8. A Flexile and High Precision Calibration Method for Binocular Structured Light Scanning System

    Directory of Open Access Journals (Sweden)

    Jianying Yuan

    2014-01-01

    Full Text Available 3D (three-dimensional structured light scanning system is widely used in the field of reverse engineering, quality inspection, and so forth. Camera calibration is the key for scanning precision. Currently, 2D (two-dimensional or 3D fine processed calibration reference object is usually applied for high calibration precision, which is difficult to operate and the cost is high. In this paper, a novel calibration method is proposed with a scale bar and some artificial coded targets placed randomly in the measuring volume. The principle of the proposed method is based on hierarchical self-calibration and bundle adjustment. We get initial intrinsic parameters from images. Initial extrinsic parameters in projective space are estimated with the method of factorization and then upgraded to Euclidean space with orthogonality of rotation matrix and rank 3 of the absolute quadric as constraint. Last, all camera parameters are refined through bundle adjustment. Real experiments show that the proposed method is robust, and has the same precision level as the result using delicate artificial reference object, but the hardware cost is very low compared with the current calibration method used in 3D structured light scanning system.

  9. The Simulation Research on Capturing Time of Three Scanning Styles in Laser Tracking System

    Directory of Open Access Journals (Sweden)

    Leihong Zhang

    2012-11-01

    Full Text Available In the optical communication, the choosing scanning style is important for the optical communication, because the illuminating laser beam is narrow and the communication range is long. In this study, three typical scanning styles of raster scan, spiral scan and square spiral scan are compared with each other. The characteristics of the scanning styles are introduced. The numerical simulation model is built. The capturing time at the same condition is computed. The capturing time is affected by the scanning interval and the scanning area. In the same scanning area and scanning interval, the capturing time of raster scan is the biggest one and the capturing time of the square spiral scan is the smallest one.

  10. Application of information theory to the design of line-scan imaging systems

    Science.gov (United States)

    Huck, F. O.; Park, S. K.; Halyo, N.; Stallman, S.

    1981-01-01

    Information theory is used to formulate a single figure of merit for assessing the performance of line scan imaging systems as a function of their spatial response (point spread function or modulation transfer function), sensitivity, sampling and quantization intervals, and the statistical properties of a random radiance field. Computational results for the information density and efficiency (i.e., the ratio of information density to data density) are intuitively satisfying and compare well with experimental and theoretical results obtained by earlier investigators concerned with the performance of TV systems.

  11. Thermal characterization of starch-water system by photopyroelectric technique and adiabatic scanning calorimetry

    Science.gov (United States)

    Cruz-Orea, A.; Bentefour, E. H.; Jamée, P.; Chirtoc, M.; Glorieux, C.; Pitsi, G.; Thoen, J.

    2003-01-01

    Starch is one of the most important carbohydrate sources in human nutrition. For the thermal analysis of starch, techniques such as differential scanning calorimetry have been extensively used. As an alternative, we have applied a photopyroelectric (PPE) configuration and adiabatic scanning calorimetry (ASC) to study the thermal properties of starch-water systems. For this study we used nixtamalized corn flour and potato starch with different quantities of distilled water, in order to obtain samples with different moisture content. By using PPE and ASC methods we have measured, for each technique separately, the heat capacity by unit volume (ρcp) at room temperature for a corn flour sample at 90% moisture. The obtained values agree within experimental uncertainty. By using these techniques we also studied the thermal behavior of potato starch, at 80% moisture, in the temperature range where phase transitions occur. In this case the PPE signal phase could be used as a sensitive and versatile monitor for phase transitions.

  12. Acquisition of quantitative physiological data and computerized image reconstruction using a single scan TV system

    Science.gov (United States)

    Baily, N. A.

    1976-01-01

    A single-scan radiography system has been interfaced to a minicomputer, and the combined system has been used with a variety of fluoroscopic systems and image intensifiers available in clinical facilities. The system's response range is analyzed, and several applications are described. These include determination of the gray scale for typical X-ray-fluoroscopic-television chains, measurement of gallstone volume in patients, localization of markers or other small anatomical features, determinations of organ areas and volumes, computer reconstruction of tomographic sections of organs in motion, and computer reconstruction of transverse axial body sections from fluoroscopic images. It is concluded that this type of system combined with a minimum of statistical processing shows excellent capabilities for delineating small changes in differential X-ray attenuation.

  13. On possibility of high frequency electron beam scanning with application of focusing system for x-ray generation

    International Nuclear Information System (INIS)

    The article describes the electron beam scanning system in combination with electromagnetic focusing system. These systems find their application in different vacuum tube devices that provide the generation of X-ray radiation. Similar systems can be utilized in such fields as medicine, industry and defectoscopy. Electron tube system can be based on thermal or field emission cathodes. Scanning system is built up on two pair of electrical deflecting dipoles. The scanning can also be based on magnetic deflecting system. Beam focusing is achieved by the geometrical fea-tures of electrodes structure and electron lenses. Magnetic focusing can also be used for transversal focusing of the beam. The article describes the schemes of the unit with electron beam scanning and different methods of realization. Beam dynamics investigation in electromagnetic fields of the unit is considered

  14. Reqscan: An open source solution for laboratory requisition scanning, archiving and retrieval.

    Science.gov (United States)

    Bach, Eviatar; Holmes, Daniel T

    2015-01-01

    Requisition storage and retrieval are an integral part of the outpatient laboratory testing process. It is frequently necessary to review an original requisition to confirm the ordering physician, patient demographics, diagnostic information, and requested tests. Manual retrieval of a paper requisition is time-consuming and tedious. Although commercial solutions exist for the scanning and archiving of barcoded paper requisitions, the tools to accomplish this are freely available from the open source software community. We present a simple dedicated piece of software, Reqscan, for scanning patient laboratory requisitions, finding all barcode information, and saving the requisition as a portable document format named according the barcode(s) found. This Python application offers a simple solution to patient requisition digitization. Reqscan has been successfully tested and implemented into routine practice for storage and retrieval of outpatient requisitions at St. Paul's Hospital, Department of Pathology and Laboratory Medicine in Vancouver, British Columbia, Canada. PMID:25722943

  15. Reqscan: An open source solution for laboratory requisition scanning, archiving and retrieval

    Directory of Open Access Journals (Sweden)

    Eviatar Bach

    2015-01-01

    Full Text Available Requisition storage and retrieval are an integral part of the outpatient laboratory testing process. It is frequently necessary to review an original requisition to confirm the ordering physician, patient demographics, diagnostic information, and requested tests. Manual retrieval of a paper requisition is time-consuming and tedious. Although commercial solutions exist for the scanning and archiving of barcoded paper requisitions, the tools to accomplish this are freely available from the open source software community. We present a simple dedicated piece of software, Reqscan, for scanning patient laboratory requisitions, finding all barcode information, and saving the requisition as a portable document format named according the barcode(s found. This Python application offers a simple solution to patient requisition digitization. Reqscan has been successfully tested and implemented into routine practice for storage and retrieval of outpatient requisitions at St. Paul′s Hospital, Department of Pathology and Laboratory Medicine in Vancouver, British Columbia, Canada.

  16. A high-resolution pointing system for fast scanning platforms: The EBEX example

    CERN Document Server

    Didier, Joy; Aboobaker, Asad; Araujo, Derek; Grainger, Will; Hanany, Shaul; Helson, Kyle; Hillbrand, Seth; Korotkov, Andrei; Limon, Michele; Miller, Amber; Reichborn-Kjennerud, Britt; Sagiv, Ilan; Tucker, Greg; Vinokurov, Yuri

    2016-01-01

    The E and B experiment (EBEX) is a balloon-borne telescope designed to measure the polarization of the cosmic microwave background with 8' resolution employing a gondola scanning with speeds of order degree per second. In January 2013, EBEX completed 11 days of observations in a flight over Antarctica covering $\\sim$ 6000 square degrees of the sky. The payload is equipped with two redundant star cameras and two sets of three orthogonal gyroscopes to reconstruct the telescope attitude. The EBEX science goals require the pointing to be reconstructed to approximately 10" in the map domain, and in-flight attitude control requires the real time pointing to be accurate to $\\sim$ 0.5$^{\\circ}$ . The high velocity scan strategy of EBEX coupled to its float altitude only permits the star cameras to take images at scan turnarounds, every $\\sim$ 40 seconds, and thus requires the development of a pointing system with low noise gyroscopes and carefully controlled systematic errors. Here we report on the design of the poin...

  17. MIMIC: An Innovative Methodology for Determining Mobile Laser Scanning System Point Density

    Directory of Open Access Journals (Sweden)

    Conor Cahalane

    2014-08-01

    Full Text Available Understanding how various Mobile Mapping System (MMS laser hardware configurations and operating parameters exercise different influence on point density is important for assessing system performance, which in turn facilitates system design and MMS benchmarking. Point density also influences data processing, as objects that can be recognised using automated algorithms generally require a minimum point density. Although obtaining the necessary point density impacts on hardware costs, survey time and data storage requirements, a method for accurately and rapidly assessing MMS performance is lacking for generic MMSs. We have developed a method for quantifying point clouds collected by an MMS with respect to known objects at specified distances using 3D surface normals, 2D geometric formulae and line drawing algorithms. These algorithms were combined in a system called the Mobile Mapping Point Density Calculator (MIMIC and were validated using point clouds captured by both a single scanner and a dual scanner MMS. Results from MIMIC were promising: when considering the number of scan profiles striking the target, the average error equated to less than 1 point per scan profile. These tests highlight that MIMIC is capable of accurately calculating point density for both single and dual scanner MMSs.

  18. Excitation-scanning hyperspectral imaging system for microscopic and endoscopic applications

    Science.gov (United States)

    Mayes, Sam A.; Leavesley, Silas J.; Rich, Thomas C.

    2016-04-01

    Current microscopic and endoscopic technologies for cancer screening utilize white-light illumination sources. Hyper-spectral imaging has been shown to improve sensitivity while retaining specificity when compared to white-light imaging in both microscopy and in vivo imaging. However, hyperspectral imaging methods have historically suffered from slow acquisition times due to the narrow bandwidth of spectral filters. Often minutes are required to gather a full image stack. We have developed a novel approach called excitation-scanning hyperspectral imaging that provides 2-3 orders of magnitude increased signal strength. This reduces acquisition times significantly, allowing for live video acquisition. Here, we describe a preliminary prototype excitation-scanning hyperspectral imaging system that can be coupled with endoscopes or microscopes for hyperspectral imaging of tissues and cells. Our system is comprised of three subsystems: illumination, transmission, and imaging. The illumination subsystem employs light-emitting diode arrays to illuminate at different wavelengths. The transmission subsystem utilizes a unique geometry of optics and a liquid light guide. Software controls allow us to interface with and control the subsystems and components. Digital and analog signals are used to coordinate wavelength intensity, cycling and camera triggering. Testing of the system shows it can cycle 16 wavelengths at as fast as 1 ms per cycle. Additionally, more than 18% of the light transmits through the system. Our setup should allow for hyperspectral imaging of tissue and cells in real time.

  19. Pharmaceutical applications of confocal laser scanning microscopy: the physical characterisation of pharmaceutical systems.

    Science.gov (United States)

    Pygall, Samuel R; Whetstone, Joanne; Timmins, Peter; Melia, Colin D

    2007-12-10

    The application of confocal laser scanning microscopy (CLSM) to the physicochemical characterisation of pharmaceutical systems is not as widespread as its application within the field of cell biology. However, methods have been developed to exploit the imaging capabilities of CLSM to study a wide range of pharmaceutical systems, including phase-separated polymers, colloidal systems, microspheres, pellets, tablets, film coatings, hydrophilic matrices, and chromatographic stationary phases. Additionally, methods to measure diffusion in gels, bioadhesives, and for monitoring microenvironmental pH change within dosage forms have been utilised. CLSM has also been used in the study of the physical interaction of dosage forms with biological barriers such as the eye, skin and intestinal epithelia, and in particular, to determine the effectiveness of a plethora of pharmaceutical systems to deliver drugs through these barriers. In the future, there is continuing scope for wider exploitation of existing techniques, and continuing advancements in instrumentation.

  20. Correlations between scanning method and shunt index in the evaluation of the pulmonary systemic flux

    International Nuclear Information System (INIS)

    Full text: The radioisotopic method most used to the relative quantification of the pulmonary/systemic flux is the scanning or total body spots, which demands time and is subjected to errors in the quantification. Shunt index (SI) require only an acquisition of one image in the brain posterior incidence and one image in the lung posterior incidence, with posterior quantification.Our objective was to correlate the values obtained by the scanning method and shunt index. 240 pediatric patients bearing congenital cardiopathy with pulmonary hypo-flux (177) or pulmonary arterio-venous fistulas (63), were studied. The patients received Tc-99m human albumin macro-aggregates by venous injection (1.8 MBq/kg, maximum of 51 MBq up to 100.000 particles).Two types of acquisition were realized: the total body scanning (anterior and posterior) and spots in the posterior incidence of the brain and lungs. From the scanning on, the percentage concerned to the pulmonary flux (PI) was obtained and, from the spots on, the shunt index (SI) was obtained, using the formulas: PI=(Cp/Cl)x100 and SI(Cp/Cl)x100, where C=countings, p=lungs, t=total body, e=brain.The obtained values by the different techniques were plotted in a graphic, resulting in a correlation formula between the values PI = - 8,55 ln (SI) + 74,45. With this formula the shunt index is converted to % of macroaggregated albumin (MAA) in lungs, taking the SI more comprehensive in the clinic procedure. The SI determination, besides being a reliable method, practical and of easy execution, allows a time economy and provide more convenience for the patient

  1. The Scanning TMR Microscope for Biosensor Applications

    Directory of Open Access Journals (Sweden)

    Kunal N. Vyas

    2015-04-01

    Full Text Available We present a novel tunnel magnetoresistance (TMR scanning microscopeset-up capable of quantitatively imaging the magnetic stray field patterns of micron-sizedelements in 3D. By incorporating an Anderson loop measurement circuit for impedancematching, we are able to detect magnetoresistance changes of as little as 0.006%/Oe. By 3Drastering a mounted TMR sensor over our magnetic barcodes, we are able to characterisethe complex domain structures by displaying the real component, the amplitude and thephase of the sensor’s impedance. The modular design, incorporating a TMR sensor withan optical microscope, renders this set-up a versatile platform for studying and imagingimmobilised magnetic carriers and barcodes currently employed in biosensor platforms,magnetotactic bacteria and other complex magnetic domain structures of micron-sizedentities. The quantitative nature of the instrument and its ability to produce vector maps ofmagnetic stray fields has the potential to provide significant advantages over other commonlyused scanning magnetometry techniques.

  2. Application of PDF417 symbology for 'DNA Barcoding'.

    Science.gov (United States)

    Kumar, N Pradeep; Rajavel, A R; Jambulingam, P

    2008-05-01

    DNA sequences consisting of about 600 base pairs of the 5' region of the cytochrome c oxidase subunit 1 (COI) gene has been proposed as DNA Barcodes for taxonomical identification of species in different animals. We evaluated the application of two-dimensional barcodes for 'DNA Barcoding'. 'PDF417' symbology was applied to convert DNA Barcode sequences already proposed [N. Pradeep Kumar, A.R. Rajavel, R. Natarajan, P. Jambulingam, DNA Barcodes can distinguish species of Indian mosquitoes (Diptera: Culicidae). J. Med. Entomol. 77 (2007) 1-7.] for 10 different species of mosquitoes prevalent in India. Decoding of these digital images using 2-D scanner and a suitable software reproduced the input DNA sequences unchanged. This analysis indicated the utility of PDF417 for 'DNA Barcoding', which could be of definite use for taxonomic documentation of animals. PMID:18282635

  3. Fungi in Thailand: a case study of the efficacy of an ITS barcode for automatically identifying species within the Annulohypoxylon and Hypoxylon genera.

    Directory of Open Access Journals (Sweden)

    Nuttika Suwannasai

    Full Text Available Thailand, a part of the Indo-Burma biodiversity hotspot, has many endemic animals and plants. Some of its fungal species are difficult to recognize and separate, complicating assessments of biodiversity. We assessed species diversity within the fungal genera Annulohypoxylon and Hypoxylon, which produce biologically active and potentially therapeutic compounds, by applying classical taxonomic methods to 552 teleomorphs collected from across Thailand. Using probability of correct identification (PCI, we also assessed the efficacy of automated species identification with a fungal barcode marker, ITS, in the model system of Annulohypoxylon and Hypoxylon. The 552 teleomorphs yielded 137 ITS sequences; in addition, we examined 128 GenBank ITS sequences, to assess biases in evaluating a DNA barcode with GenBank data. The use of multiple sequence alignment in a barcode database like BOLD raises some concerns about non-protein barcode markers like ITS, so we also compared species identification using different alignment methods. Our results suggest the following. (1 Multiple sequence alignment of ITS sequences is competitive with pairwise alignment when identifying species, so BOLD should be able to preserve its present bioinformatics workflow for species identification for ITS, and possibly therefore with at least some other non-protein barcode markers. (2 Automated species identification is insensitive to a specific choice of evolutionary distance, contributing to resolution of a current debate in DNA barcoding. (3 Statistical methods are available to address, at least partially, the possibility of expert misidentification of species. Phylogenetic trees discovered a cryptic species and strongly supported monophyletic clades for many Annulohypoxylon and Hypoxylon species, suggesting that ITS can contribute usefully to a barcode for these fungi. The PCIs here, derived solely from ITS, suggest that a fungal barcode will require secondary markers in

  4. OCCLUSION AND ARTICULATION IN BRUXISM AND BRUXOMANIA INVESTIGATED WITH THE SYSTEM T-SCAN III.

    OpenAIRE

    Mariana Dimova

    2014-01-01

    Aim: To be analyzed common features of occlusal relationships in patients with bruxism and bruxomania at maximum intercuspation (MIP) and eccentric jaw movements. Materials and Methods: 30 patients (22 women and 8 men, mean aged of 42,8 ± 13,3) with bruxism and/or bruxomania are examined with the system T-Scan III. Sequence of records is - at maximum intercuspation (MIP); in manual leading to central relation and in eccentric jaw movements. In the same sequence is investigated control ...

  5. Adsorbate-induced quantum Hall system probed by scanning tunneling spectroscopy combined with transport measurements

    Energy Technology Data Exchange (ETDEWEB)

    Masutomi, Ryuichi, E-mail: masutomi@phys.s.u-tokyo.ac.jp; Okamoto, Tohru [Department of Physics, University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033 (Japan)

    2015-06-22

    An adsorbate-induced quantum Hall system at the cleaved InSb surfaces is investigated in magnetic fields up to 14 T using low-temperature scanning tunneling microscopy and spectroscopy combined with transport measurements. We show that an enhanced Zeeman splitting in the Shubnikov-de Haas oscillations is explained by an exchange enhancement of spin splitting and potential disorder, both of which are obtained from the spatially averaged density of states (DOS). Moreover, the Altshuler–Aronov correlation gap is observed in the spatially averaged DOS at 0 T.

  6. Magnetic Barcode Assay for Genetic Detection of Pathogens

    Science.gov (United States)

    Liong, Monty; Hoang, Anh N.; Chung, Jaehoon; Gural, Nil; Ford, Christopher B.; Min, Changwook; Shah, Rupal R.; Ahmad, Rushdy; Fernandez-Suarez, Marta; Fortune, Sarah M.; Toner, Mehmet; Lee, Hakho; Weissleder, Ralph

    2013-01-01

    The task of rapidly identifying patients infected with Mycobacterium tuberculosis (MTB) in resource-constrained environments remains a challenge. A sensitive and robust platform that does not require bacterial isolation or culture is critical in making informed diagnostic and therapeutic decisions. Here we introduce a platform for the detection of nucleic acids based on a magnetic barcoding strategy. PCR-amplified mycobacterial genes are sequence-specifically captured on microspheres, labeled by magnetic nanoprobes, and detected by nuclear magnetic resonance. All components are integrated into a single, small fluidic cartridge for streamlined on-chip operation. We use this platform to detect MTB and identify drug-resistance strains from mechanically processed sputum samples within 2.5 hours. The specificity of the assay is confirmed by a panel of clinically relevant non-MTB bacteria, and the clinical utility is demonstrated by the measurements in MTB-positive patient specimens. Combined with portable systems, the magnetic barcode assay holds promise to become a sensitive, high-throughput, and low-cost platform for point-of-care diagnostics. PMID:23612293

  7. Nested image steganography scheme using QR-barcode technique

    Science.gov (United States)

    Chen, Wen-Yuan; Wang, Jing-Wein

    2009-05-01

    In this paper, QR bar code and image processing techniques are used to construct a nested steganography scheme. There are two types of secret data (lossless and lossy) embedded into a cover image. The lossless data is text that is first encoded by the QR barcode; its data does not have any distortion when comparing with the extracted data and original data. The lossy data is a kind of image; the face image is suitable for our case. Because the extracted text is lossless, the error correction rate of QR encoding must be carefully designed. We found a 25% error correction rate is suitable for our goal. In image embedding, because it can sustain minor perceptible distortion, we thus adopted the lower nibble byte discard of the face image to reduce the secret data. When the image is extracted, we use a median filter to filter out the noise and obtain a smoother image quality. After simulation, it is evident that our scheme is robust to JPEG attacks. Compared to other steganography schemes, our proposed method has three advantages: (i) the nested scheme is an enhanced security system never previously developed; (ii) our scheme can conceal lossless and lossy secret data into a cover image simultaneously; and (iii) the QR barcode used as secret data can widely extend this method's application fields.

  8. LIDAR AND INS FUSION IN PERIODS OF GPS OUTAGES FOR MOBILE LASER SCANNING MAPPING SYSTEMS

    Directory of Open Access Journals (Sweden)

    I. Klein

    2012-09-01

    Full Text Available Mobile laser scanning systems are becoming an increasingly popular means to obtain 3D coverage on a large scale. To perform the mapping, the exact position of the vehicle must be known throughout the trajectory. Exact position is achieved via integration of Global Positioning Systems (GPS and Inertial Navigation Systems (INS. Yet, in urban environments, cases of complete or even partial GPS outages may occur leaving the navigation solution to rely only on the INS. The INS navigation solution degrades with time as the Inertial Measurement Unit (IMU measurements contains noise, which permeates into the navigation equations. Degradation of the position determination leads to loss of data in such segments. To circumvent such drift and its effects, we propose fusing INS with lidar data by using building edges. This detection of edges is then translated into position data, which is used as an aiding to the INS. It thereby enables the determination of the vehicle position with a satisfactory level accuracy, sufficient to perform the laser-scanning based mapping in those outage periods.

  9. Bilateral control-based compensation for rotation in imaging in scan imaging systems

    Science.gov (United States)

    Tian, Dapeng; Wang, Yutang; Wang, Fuchao; Zhang, Yupeng

    2015-12-01

    Scan imaging systems rely on the rotation of a mirror to scan an image. The rotation in the resulting image must be compensated to prevent information loss. Satisfactory performance of an imaging system is difficult to achieve when employing the methods of mechanical transmission and unilateral tracking control, especially when the system suffers from nonlinear factors, disturbances, and dynamic uncertainties. This paper proposes a compensation method based on bilateral control derived from the field of haptic robots. A two-loop disturbance observer was designed to guarantee that the dynamic characteristics of the motor are close to those of the nominal model. The controllers were designed on the basis of the small gain theorem. Experiments were conducted for a comparison with the traditional unilateral control-based compensation. The comparison showed a reduction of 99.83% in the L2 norm of error, which validates the method. The proposed method improves the accuracy of compensation for rotation in imaging, and demonstrates that bilateral control has feasibility for application in various fields, including photogrammetry.

  10. EEZ-SCAN: A U. S. GEOLOGICAL SURVEY SEA-FLOOR IMAGING PROGRAM USING THE GLORIA SIDE-SCAN SONAR SYSTEM.

    Science.gov (United States)

    Hill, Gary W.

    1985-01-01

    The U. S. Geological Survey initiated Program EEZ-SCAN in April 1984 in cooperation with the Institute of Oceanographic Sciences (IOS) of the United Kingdom to map the U. S. Exclusive Economic Zone (EEZ) at reconnaissance scale as a first effort to develop a geologic understanding of the new national territory. GLORIA*, a unique side-scan sonar system capable of mapping over 27,000 sq. km per day, is the principal tool being used in the mapping surveys. In 1984, GLORIA surveys were conducted in the EEZ off California, Oregon, and Washington covering an area of approximately 250,000 sq. nautical miles. These surveys were highlighted by discoveries of major geologic features.

  11. Barcode of life: Advancing species identification and discovery

    Digital Repository Service at National Institute of Oceanography (India)

    Chandramohan, D.

    approach overlooks morphologically cryptic taxa, which are seen very commonly in many groups. 3. Since morphological keys are often effective only for a particular life stage or gender, many individuals in their early stages of development can.... DNA barcoding is a technique that uses a short gene sequence from a standardized region of the genome as a diagnostic ?biomarker? for the species. Different species have different DNA barcodes making it possible to use barcodes to (i) identify...

  12. Defining operational taxonomic units using DNA barcode data

    OpenAIRE

    Blaxter, Mark; Mann, Jenna; Chapman, Tom; Thomas, Fran; Whitton, Claire; Floyd, Robin; Abebe, Eyualem

    2005-01-01

    The scale of diversity of life on this planet is a significant challenge for any scientific programme hoping to produce a complete catalogue, whatever means is used. For DNA barcoding studies, this difficulty is compounded by the realization that any chosen barcode sequence is not the gene 'for' speciation and that taxa have evolutionary histories. How are we to disentangle the confounding effects of reticulate population genetic processes? Using the DNA barcode data from meiofaunal surveys, ...

  13. One-dimensional barcode reading: an information theoretic approach

    OpenAIRE

    Houni, Karim; Sawaya, Wadih; Delignon, Yves

    2008-01-01

    In the convergence context of identification technology and information-data transmission, the barcode found its place as the simplest and the most pervasive solution for new uses, especially within mobile commerce, bringing youth to this long-lived technology. From a communication theory point of view, a barcode is a singular coding based on a graphical representation of the information to be transmitted. We present an information theoretic approach for 1D image-based barcode reading analysi...

  14. iBarcode.org: web-based molecular biodiversity analysis

    OpenAIRE

    Hajibabaei Mehrdad; Singer Gregory AC

    2009-01-01

    Abstract Background DNA sequences have become a primary source of information in biodiversity analysis. For example, short standardized species-specific genomic regions, DNA barcodes, are being used as a global standard for species identification and biodiversity studies. Most DNA barcodes are being generated by laboratories that have an expertise in DNA sequencing but not in bioinformatics data analysis. Therefore, we have developed a web-based suite of tools to help the DNA barcode research...

  15. Comprehensive DNA barcode coverage of North American birds

    OpenAIRE

    Kerr, Kevin C. R.; Mark Y Stoeckle; Carla J. Dove; Weigt, Lee A.; Charles M. Francis; Hebert, Paul D. N.

    2007-01-01

    DNA barcoding seeks to assemble a standardized reference library for DNA-based identification of eukaryotic species. The utility and limitations of this approach need to be tested on well-characterized taxonomic assemblages. Here we provide a comprehensive DNA barcode analysis for North American birds including 643 species representing 93% of the breeding and pelagic avifauna of the USA and Canada. Most (94%) species possess distinct barcode clusters, with average neighbour-joining bootstrap ...

  16. A DNA mini-barcode for land plants.

    Science.gov (United States)

    Little, Damon P

    2014-05-01

    Small portions of the barcode region - mini-barcodes - may be used in place of full-length barcodes to overcome DNA degradation for samples with poor DNA preservation. 591,491,286 rbcL mini-barcode primer combinations were electronically evaluated for PCR universality, and two novel highly universal sets of priming sites were identified. Novel and published rbcL mini-barcode primers were evaluated for PCR amplification [determined with a validated electronic simulation (n = 2765) and empirically (n = 188)], Sanger sequence quality [determined empirically (n = 188)], and taxonomic discrimination [determined empirically (n = 30,472)]. PCR amplification for all mini-barcodes, as estimated by validated electronic simulation, was successful for 90.2-99.8% of species. Overall Sanger sequence quality for mini-barcodes was very low - the best mini-barcode tested produced sequences of adequate quality (B20 ≥ 0.5) for 74.5% of samples. The majority of mini-barcodes provide correct identifications of families in excess of 70.1% of the time. Discriminatory power noticeably decreased at lower taxonomic levels. At the species level, the discriminatory power of the best mini-barcode was less than 38.2%. For samples believed to contain DNA from only one species, an investigator should attempt to sequence, in decreasing order of utility and probability of success, mini-barcodes F (rbcL1/rbcLB), D (F52/R193) and K (F517/R604). For samples believed to contain DNA from more than one species, an investigator should amplify and sequence mini-barcode D (F52/R193). PMID:24286499

  17. Identifying Canadian freshwater fishes through DNA barcodes.

    Directory of Open Access Journals (Sweden)

    Nicolas Hubert

    Full Text Available BACKGROUND: DNA barcoding aims to provide an efficient method for species-level identifications using an array of species specific molecular tags derived from the 5' region of the mitochondrial cytochrome c oxidase I (COI gene. The efficiency of the method hinges on the degree of sequence divergence among species and species-level identifications are relatively straightforward when the average genetic distance among individuals within a species does not exceed the average genetic distance between sister species. Fishes constitute a highly diverse group of vertebrates that exhibit deep phenotypic changes during development. In this context, the identification of fish species is challenging and DNA barcoding provide new perspectives in ecology and systematics of fishes. Here we examined the degree to which DNA barcoding discriminate freshwater fish species from the well-known Canadian fauna, which currently encompasses nearly 200 species, some which are of high economic value like salmons and sturgeons. METHODOLOGY/PRINCIPAL FINDINGS: We bi-directionally sequenced the standard 652 bp "barcode" region of COI for 1360 individuals belonging to 190 of the 203 Canadian freshwater fish species (95%. Most species were represented by multiple individuals (7.6 on average, the majority of which were retained as voucher specimens. The average genetic distance was 27 fold higher between species than within species, as K2P distance estimates averaged 8.3% among congeners and only 0.3% among concpecifics. However, shared polymorphism between sister-species was detected in 15 species (8% of the cases. The distribution of K2P distance between individuals and species overlapped and identifications were only possible to species group using DNA barcodes in these cases. Conversely, deep hidden genetic divergence was revealed within two species, suggesting the presence of cryptic species. CONCLUSIONS/SIGNIFICANCE: The present study evidenced that freshwater fish

  18. DNA barcoding of perennial fruit tree species of agronomic interest in the genus Annona (Annonaceae

    Directory of Open Access Journals (Sweden)

    Nerea eLarranaga

    2015-07-01

    Full Text Available The DNA barcode initiative aims to establish a universal protocol using short genetic sequences to discriminate among animal and plant species. Although many markers have been proposed to become the barcode of plants, the Consortium for the Barcode of Life (CBOL Plant Working Group recommended using as a core the combination of two portions of plastid coding region, rbcL and matK. In this paper, specific markers based on matK sequences were developed for 7 closely related Annona species of agronomic interest (Annona cherimola, A. reticulata, A. squamosa, A. muricata, A. macroprophyllata, A. glabra and A. purpurea and the discrimination power of both rbcL and matK was tested using also sequences of the genus Annona available in the Barcode of Life Database (BOLD data systems. The specific sequences developed allowed the discrimination among all those species tested. Moreover, the primers generated were validated in six additional species of the genus (A. liebmanniana, A. longiflora, A. montana, A. senegalensis, A. emarginata and A. neosalicifolia and in an interspecific hybrid (A. cherimola x A. squamosa. The development of a fast, reliable and economic approach for species identification in these underutilized subtropical fruit crops in a very initial state of domestication is of great importance in order to optimize genetic resource management.

  19. Cryptic diversity revealed by DNA barcoding in Colombian illegally traded bird species.

    Science.gov (United States)

    Mendoza, Ángela María; Torres, María Fernanda; Paz, Andrea; Trujillo-Arias, Natalia; López-Alvarez, Diana; Sierra, Socorro; Forero, Fernando; Gonzalez, Mailyn A

    2016-07-01

    Colombia is the country with the largest number of bird species worldwide, yet its avifauna is seriously threatened by habitat degradation and poaching. We built a DNA barcode library of nearly half of the bird species listed in the CITES appendices for Colombia, thereby constructing a species identification reference that will help in global efforts for controlling illegal species trade. We obtained the COI barcode sequence of 151 species based on 281 samples, representing 46% of CITES bird species registered for Colombia. The species analysed belong to nine families, where Trochilidae and Psittacidae are the most abundant ones. We sequenced for the first time the DNA barcode of 47 species, mainly hummingbirds endemic of the Northern Andes region. We found a correct match between morphological and genetic identification for 86-92% of the species analysed, depending on the cluster analysis performed (BIN, ABGD and TaxonDNA). Additionally, we identified eleven cases of high intraspecific divergence based on K2P genetic distances (up to 14.61%) that could reflect cryptic diversity. In these cases, the specimens were collected in geographically distant sites such as different mountain systems, opposite flanks of the mountain or different elevations. Likewise, we found two cases of possible hybridization and incomplete lineage sorting. This survey constitutes the first attempt to build the DNA barcode library of endangered bird species in Colombia establishing as a reference for management programs of illegal species trade, and providing major insights of phylogeographic structure that can guide future taxonomic research. PMID:26929271

  20. Advance in Researches on DNA Barcoding%植物DNA条形码研究进展

    Institute of Scientific and Technical Information of China (English)

    鲁松

    2012-01-01

    DNA barcoding is a new life identification system which can distinguish species rapidly and accurately by analyzing standard short and easy amplying DNA sequences with enough variation.In order to promote the development of domestic studies in plant DNA barcoding and taxonomy,this paper deals with DNA barcoding screening,application,present studying status in China,challenges and future prospects for plant DNA barcoding development.%DNA条形码技术是利用标准的、具有足够变异的、易扩增且相对较短的DNA片段在物种内的特异性和种间的多样性而创建的一种新的生物身份识别系统,从而实现对物种的快速自动鉴定。本文从植物DNA条形码的开发、应用、国内研究现状、植物DNA条形码面临的挑战以及发展前景等进行了综合分析,以期推动我国植物DNA条形码和分类学研究的发展。

  1. The Barcode of Life Data Portal: bridging the biodiversity informatics divide for DNA barcoding.

    Directory of Open Access Journals (Sweden)

    Indra Neil Sarkar

    Full Text Available With the volume of molecular sequence data that is systematically being generated globally, there is a need for centralized resources for data exploration and analytics. DNA Barcode initiatives are on track to generate a compendium of molecular sequence-based signatures for identifying animals and plants. To date, the range of available data exploration and analytic tools to explore these data have only been available in a boutique form--often representing a frustrating hurdle for many researchers that may not necessarily have resources to install or implement algorithms described by the analytic community. The Barcode of Life Data Portal (BDP is a first step towards integrating the latest biodiversity informatics innovations with molecular sequence data from DNA barcoding. Through establishment of community driven standards, based on discussion with the Data Analysis Working Group (DAWG of the Consortium for the Barcode of Life (CBOL, the BDP provides an infrastructure for incorporation of existing and next-generation DNA barcode analytic applications in an open forum.

  2. Molecular species identification of Central European ground beetles (Coleoptera: Carabidae using nuclear rDNA expansion segments and DNA barcodes

    Directory of Open Access Journals (Sweden)

    Raupach Michael J

    2010-09-01

    Full Text Available Abstract Background The identification of vast numbers of unknown organisms using DNA sequences becomes more and more important in ecological and biodiversity studies. In this context, a fragment of the mitochondrial cytochrome c oxidase I (COI gene has been proposed as standard DNA barcoding marker for the identification of organisms. Limitations of the COI barcoding approach can arise from its single-locus identification system, the effect of introgression events, incomplete lineage sorting, numts, heteroplasmy and maternal inheritance of intracellular endosymbionts. Consequently, the analysis of a supplementary nuclear marker system could be advantageous. Results We tested the effectiveness of the COI barcoding region and of three nuclear ribosomal expansion segments in discriminating ground beetles of Central Europe, a diverse and well-studied invertebrate taxon. As nuclear markers we determined the 18S rDNA: V4, 18S rDNA: V7 and 28S rDNA: D3 expansion segments for 344 specimens of 75 species. Seventy-three species (97% of the analysed species could be accurately identified using COI, while the combined approach of all three nuclear markers provided resolution among 71 (95% of the studied Carabidae. Conclusion Our results confirm that the analysed nuclear ribosomal expansion segments in combination constitute a valuable and efficient supplement for classical DNA barcoding to avoid potential pitfalls when only mitochondrial data are being used. We also demonstrate the high potential of COI barcodes for the identification of even closely related carabid species.

  3. Automatic Calibration Method of Voxel Size for Cone-beam 3D-CT Scanning System

    CERN Document Server

    Yang, Min; Liu, Yipeng; Men, Fanyong; Li, Xingdong; Liu, Wenli; Wei, Dongbo

    2013-01-01

    For cone-beam three-dimensional computed tomography (3D-CT) scanning system, voxel size is an important indicator to guarantee the accuracy of data analysis and feature measurement based on 3D-CT images. Meanwhile, the voxel size changes with the movement of the rotary table along X-ray direction. In order to realize the automatic calibration of the voxel size, a new easily-implemented method is proposed. According to this method, several projections of a spherical phantom are captured at different imaging positions and the corresponding voxel size values are calculated by non-linear least square fitting. Through these interpolation values, a linear equation is obtained, which reflects the relationship between the rotary table displacement distance from its nominal zero position and the voxel size. Finally, the linear equation is imported into the calibration module of the 3D-CT scanning system, and when the rotary table is moving along X-ray direction, the accurate value of the voxel size is dynamically expo...

  4. The Calibration Model and Simulation Analysis of Circular Scanning Airborne Laser Bathymetry System

    Directory of Open Access Journals (Sweden)

    SHEN Erhua

    2016-08-01

    Full Text Available To improve the positioning accuracy of circular scanning airborne laser bathymetry system, a calibration method is presented in this paper. When the laser points are collected by the bathymetry system on the level area, they should be on the same plane. However, they are not coplanar because of systematic error and random error. So we try to fit the points to a plane, which may help to adjust the errors and then correct the point location.Firstly, the circular scanning airborne laser bathymetry positioning model is derived in the simple mode. The intersection of laser line and sea surface is simulated depending on the mathematical principles of line and plane intersection. Combined with the direction vector of laser line in the water got by the refraction principle, the sea floor plane mathematical equation is used to compute the location of the laser points. Then, the parameter weighted least squares adjustment model is derived with the prior variance introduced, which lays the foundation for the following computing of calibration model. Finally, the calibration adjustment mathematic model and the detailed computing process are derived. The simulation computing and analysis for the calibration process is presented, and some meaningful conclusions for the calibration are achieved.

  5. Sub-pixel processing for super-resolution scanning imaging system with fiber bundle coupling

    Institute of Scientific and Technical Information of China (English)

    Bowen An; Bingbin Xue; Shengda Pan; Guilin Chen

    2011-01-01

    A multilayer fiber bundle is used to couple the image in a remote sensing imaging system. The object image passes through all layers of the fiber bundle in micro-scanning mode. The malposition of adjacent layers arranged in a hexagonal pattern is at sub-pixel scale. Therefore, sub-pixel processing can be applied to improve the spatial resolution. The images coupled by the adjacent layer fibers are separated, and subsequently, the intermediate image is obtained by histogram matching based on one of the separated image called base image. Finally, the intermediate and base images are processed in the frequency domain. The malposition of the adjacent layer fiber is converted to the phase difference in Fourier transform. Considering the limited sensitivity of the experimental instruments and human sight, the image is set as a band-limited signal and the interpolation function of image fusion is found. The results indicate that a super-resolution image with ultra-high spatial resolution is obtained.%@@ A multilayer fiber bundle is used to couple the image in a remote sensing imaging system.The object image passes through all layers of the fiber bundle in micro-scanning mode.The malposition of adjacent layers arranged in a hexagonal pattern is at sub-pixel scale.

  6. PCR Amplification System of DNA Barcoding Genes ITS, ITS2 and rbcL from Xanthium%DNA条形码基因ITS·ITS2及rbcL在苍耳属可采用相同的PCR条件

    Institute of Scientific and Technical Information of China (English)

    胡伟毅; 汪连军; 盛志超

    2013-01-01

    [目的]为植物 DNA条形码标准基因筛选研究提供参考,减少植物 DNA条形码研究中的工作量。[方法]对7种苍耳属植物 ITS、ITS2及 rbcL基因采用相同的扩增条件(95℃4 min;[35 cycles:94℃30 s;52℃45 s;72℃45 s];72℃10 min;4℃保存)。[结果]3种DNA条形码基因同时成功扩增。[结论]这说明植物 DNA条形码基因中 ITS、ITS2及 rbcL的PCR条件存在合并可能性。%[Objective] This study aimed to provide reference and reduce the workload for screening standard DNA barcoding genes of plants. [Method] Three DNA bar-coding genes ITS, ITS2 and rbcL were amplified from seven Xanthium species un-der the same PCR condition: PCR amplification was started with initial denaturation at 95 ℃ for 4 min, fol owed by 35 cycles of denaturation at 94 ℃ for 30 s, anneal-ing at 52 ℃ for 45 s, and extension at 72 ℃ for 45 s; the amplification was com-pleted by holding the reaction mixture at 72 ℃ for 10 min to al ow complete exten-sion of PCR, and the PCR products were stored at 4 ℃. [Result] Three DNA bar-coding genes ITS, ITS2 and rbcL were al amplified successful y. [Conclusion] This study indicates that PCR amplification conditions for DNA barcoding genes ITS, ITS2 and rbcL in plants may be consistent.

  7. DNA barcoding of Brazilian sea turtles (Testudines

    Directory of Open Access Journals (Sweden)

    Sarah M. Vargas

    2009-01-01

    Full Text Available Five out of the seven recognized species of sea turtles (Testudines occur on the Brazilian coast. The Barcode Initiative is an effort to undertake a molecular inventory of Earth biodiversity. Cytochrome Oxidase c subunit I (COI molecular tags for sea turtle species have not yet been described. In this study, COI sequences for the five species of sea turtles that occur in Brazil were generated. These presented widely divergent haplotypes. All observed values were on the same range as those already described for other animal groups: the overall mean distance was 8.2%, the mean distance between families (Dermochelyidae and Cheloniidae 11.7%, the mean intraspecific divergence 0.34%, and the mean distance within Cheloniidae 6.4%, this being 19-fold higher than the mean divergence observed within species. We obtained species-specific COI barcode tags that can be used for identifying each of the marine turtle species studied.

  8. Bayesian Cosmic Web Reconstruction: BARCODE for Clusters

    CERN Document Server

    Bos, E G Patrick; Kitaura, Francisco; Cautun, Marius

    2016-01-01

    We describe the Bayesian BARCODE formalism that has been designed towards the reconstruction of the Cosmic Web in a given volume on the basis of the sampled galaxy cluster distribution. Based on the realization that the massive compact clusters are responsible for the major share of the large scale tidal force field shaping the anisotropic and in particular filamentary features in the Cosmic Web. Given the nonlinearity of the constraints imposed by the cluster configurations, we resort to a state-of-the-art constrained reconstruction technique to find a proper statistically sampled realization of the original initial density and velocity field in the same cosmic region. Ultimately, the subsequent gravitational evolution of these initial conditions towards the implied Cosmic Web configuration can be followed on the basis of a proper analytical model or an N-body computer simulation. The BARCODE formalism includes an implicit treatment for redshift space distortions. This enables a direct reconstruction on the ...

  9. Machine Learning : for Barcode Detection and OCR

    OpenAIRE

    Fridolfsson, Olle

    2015-01-01

    Machine learning can be utilized in many different ways in the field of automatic manufacturing and logistics. In this thesis supervised machine learning have been utilized to train a classifiers for detection and recognition of objects in images. The techniques AdaBoost and Random forest have been examined, both are based on decision trees. The thesis has considered two applications: barcode detection and optical character recognition (OCR). Supervised machine learning methods are highly app...

  10. BEST: Barcode Enabled Sequencing of Tetrads

    OpenAIRE

    Scott, Adrian C.; Ludlow, Catherine L.; Cromie, Gareth A.; Dudley, Aimée M.

    2014-01-01

    Tetrad analysis is a valuable tool for yeast genetics, but the laborious manual nature of the process has hindered its application on large scales. Barcode Enabled Sequencing of Tetrads (BEST)1 replaces the manual processes of isolating, disrupting and spacing tetrads. BEST isolates tetrads by virtue of a sporulation-specific GFP fusion protein that permits fluorescence-activated cell sorting of tetrads directly onto agar plates, where the ascus is enzymatically digested and the spores are di...

  11. Ultra-high vacuum compatible optical chopper system for synchrotron x-ray scanning tunneling microscopy

    Energy Technology Data Exchange (ETDEWEB)

    Chang, Hao, E-mail: hc000211@ohio.edu [Advanced Photon Source, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, Illinois 60439 (United States); Nanoscale and Quantum Phenomena Institute, Physics & Astronomy Department, Ohio University, Athens, Ohio 45701 (United States); Cummings, Marvin; Shirato, Nozomi; Stripe, Benjamin; Preissner, Curt; Freeland, John W. [Advanced Photon Source, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, Illinois 60439 (United States); Rosenmann, Daniel [Center for Nanoscale Materials, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, Illinois 60439 (United States); Kersell, Heath; Hla, Saw-Wai [Nanoscale and Quantum Phenomena Institute, Physics & Astronomy Department, Ohio University, Athens, Ohio 45701 (United States); Center for Nanoscale Materials, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, Illinois 60439 (United States); Rose, Volker, E-mail: vrose@anl.gov [Advanced Photon Source, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, Illinois 60439 (United States); Center for Nanoscale Materials, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, Illinois 60439 (United States)

    2016-01-28

    High-speed beam choppers are a crucial part of time-resolved x-ray studies as well as a necessary component to enable elemental contrast in synchrotron x-ray scanning tunneling microscopy (SX-STM). However, many chopper systems are not capable of operation in vacuum, which restricts their application to x-ray studies with high photon energies, where air absorption does not present a significant problem. To overcome this limitation, we present a fully ultra-high vacuum (UHV) compatible chopper system capable of operating at variable chopping frequencies up to 4 kHz. The lightweight aluminum chopper disk is coated with Ti and Au films to provide the required beam attenuation for soft and hard x-rays with photon energies up to about 12 keV. The chopper is used for lock-in detection of x-ray enhanced signals in SX-STM.

  12. Monitoring an Alien Invasion: DNA Barcoding and the Identification of Lionfish and Their Prey on Coral Reefs of the Mexican Caribbean

    OpenAIRE

    Martha Valdez-Moreno; Carolina Quintal-Lizama; Ricardo Gómez-Lozano; María Del Carmen García-Rivas

    2012-01-01

    BACKGROUND: In the Mexican Caribbean, the exotic lionfish Pterois volitans has become a species of great concern because of their predatory habits and rapid expansion onto the Mesoamerican coral reef, the second largest continuous reef system in the world. This is the first report of DNA identification of stomach contents of lionfish using the barcode of life reference database (BOLD). METHODOLOGY/PRINCIPAL FINDINGS: We confirm with barcoding that only Pterois volitans is apparently present i...

  13. Investigation of tomosynthetic perfusion measurements using the scanning-beam digital x-ray (SBDX) system

    Science.gov (United States)

    Nett, Brian E.; Chen, Guang-Hong; Van Lysel, Michael S.; Betts, Timothy; Speidel, Michael; Rowley, Howard A.; Aagaard Kienitz, Beverly D.; Mistretta, Charles A.

    2004-10-01

    The feasibility of making regional perfusion measurements using a tomosynthetic digital subtraction angiography (TDSA) acquisition has been demonstrated. The study of tomosynthetic perfusion measurements was motivated by the clinical desire for perfusion measurements in an interventional angiography suite. These pilot studies were performed using the scanning-beam digital x-ray (SBDX) system which is an inverse-geometry imaging device which utilizes an electromagnetically-scanned x-ray source, and a small CdTe direct conversion photon counting detector. The scanning electron source was used to acquire planar-tomographic images of a 12.5 x 12.5 cm field of view at a frame rate of 15 frames/sec during dynamic contrast injection. A beagle animal model was used to evaluate the tomosynthetic perfusion measurements. A manual bolus injection of iodinated contrast solution was used in order to resolve the parameters of the contrast pass curve. The acquired planar tomosynthetic dataset was reconstructed with a simple back-projection algorithm. Digital subtraction techniques were used to visualize the change in contrast agent intensity in each reconstructed plane. Given the TDSA images, region of interest based analysis was used in the selection of the image pixels corresponding to the artery and tissue bed. The mean transit time (MTT), regional cerebral blood volume (rCBV) and regional cerebral blood flow (rCBF) were extracted from the tomosynthetic data for selected regions in each of the desired reconstructed planes. For the purpose of this study, the arterial contrast enhancement curve was fit with a combination of gamma variate terms, and the MTT was calculated using a deconvolution based on the singular value decomposition (SVD). The results of the contrast pass curves derived with TDSA were consistent with the results from perfusion measurements as implemented with CT acquisition.

  14. An Automated and Intelligent Medical Decision Support System for Brain MRI Scans Classification.

    Directory of Open Access Journals (Sweden)

    Muhammad Faisal Siddiqui

    Full Text Available A wide interest has been observed in the medical health care applications that interpret neuroimaging scans by machine learning systems. This research proposes an intelligent, automatic, accurate, and robust classification technique to classify the human brain magnetic resonance image (MRI as normal or abnormal, to cater down the human error during identifying the diseases in brain MRIs. In this study, fast discrete wavelet transform (DWT, principal component analysis (PCA, and least squares support vector machine (LS-SVM are used as basic components. Firstly, fast DWT is employed to extract the salient features of brain MRI, followed by PCA, which reduces the dimensions of the features. These reduced feature vectors also shrink the memory storage consumption by 99.5%. At last, an advanced classification technique based on LS-SVM is applied to brain MR image classification using reduced features. For improving the efficiency, LS-SVM is used with non-linear radial basis function (RBF kernel. The proposed algorithm intelligently determines the optimized values of the hyper-parameters of the RBF kernel and also applied k-fold stratified cross validation to enhance the generalization of the system. The method was tested by 340 patients' benchmark datasets of T1-weighted and T2-weighted scans. From the analysis of experimental results and performance comparisons, it is observed that the proposed medical decision support system outperformed all other modern classifiers and achieves 100% accuracy rate (specificity/sensitivity 100%/100%. Furthermore, in terms of computation time, the proposed technique is significantly faster than the recent well-known methods, and it improves the efficiency by 71%, 3%, and 4% on feature extraction stage, feature reduction stage, and classification stage, respectively. These results indicate that the proposed well-trained machine learning system has the potential to make accurate predictions about brain abnormalities

  15. An Automated and Intelligent Medical Decision Support System for Brain MRI Scans Classification.

    Science.gov (United States)

    Siddiqui, Muhammad Faisal; Reza, Ahmed Wasif; Kanesan, Jeevan

    2015-01-01

    A wide interest has been observed in the medical health care applications that interpret neuroimaging scans by machine learning systems. This research proposes an intelligent, automatic, accurate, and robust classification technique to classify the human brain magnetic resonance image (MRI) as normal or abnormal, to cater down the human error during identifying the diseases in brain MRIs. In this study, fast discrete wavelet transform (DWT), principal component analysis (PCA), and least squares support vector machine (LS-SVM) are used as basic components. Firstly, fast DWT is employed to extract the salient features of brain MRI, followed by PCA, which reduces the dimensions of the features. These reduced feature vectors also shrink the memory storage consumption by 99.5%. At last, an advanced classification technique based on LS-SVM is applied to brain MR image classification using reduced features. For improving the efficiency, LS-SVM is used with non-linear radial basis function (RBF) kernel. The proposed algorithm intelligently determines the optimized values of the hyper-parameters of the RBF kernel and also applied k-fold stratified cross validation to enhance the generalization of the system. The method was tested by 340 patients' benchmark datasets of T1-weighted and T2-weighted scans. From the analysis of experimental results and performance comparisons, it is observed that the proposed medical decision support system outperformed all other modern classifiers and achieves 100% accuracy rate (specificity/sensitivity 100%/100%). Furthermore, in terms of computation time, the proposed technique is significantly faster than the recent well-known methods, and it improves the efficiency by 71%, 3%, and 4% on feature extraction stage, feature reduction stage, and classification stage, respectively. These results indicate that the proposed well-trained machine learning system has the potential to make accurate predictions about brain abnormalities from the

  16. Bayesian Cosmic Web Reconstruction: BARCODE for Clusters

    Science.gov (United States)

    Patrick Bos, E. G.; van de Weygaert, Rien; Kitaura, Francisco; Cautun, Marius

    2016-10-01

    We describe the Bayesian \\barcode\\ formalism that has been designed towards the reconstruction of the Cosmic Web in a given volume on the basis of the sampled galaxy cluster distribution. Based on the realization that the massive compact clusters are responsible for the major share of the large scale tidal force field shaping the anisotropic and in particular filamentary features in the Cosmic Web. Given the nonlinearity of the constraints imposed by the cluster configurations, we resort to a state-of-the-art constrained reconstruction technique to find a proper statistically sampled realization of the original initial density and velocity field in the same cosmic region. Ultimately, the subsequent gravitational evolution of these initial conditions towards the implied Cosmic Web configuration can be followed on the basis of a proper analytical model or an N-body computer simulation. The BARCODE formalism includes an implicit treatment for redshift space distortions. This enables a direct reconstruction on the basis of observational data, without the need for a correction of redshift space artifacts. In this contribution we provide a general overview of the the Cosmic Web connection with clusters and a description of the Bayesian BARCODE formalism. We conclude with a presentation of its successful workings with respect to test runs based on a simulated large scale matter distribution, in physical space as well as in redshift space.

  17. Tree Root System Characterization and Volume Estimation by Terrestrial Laser Scanning and Quantitative Structure Modeling

    Directory of Open Access Journals (Sweden)

    Aaron Smith

    2014-12-01

    Full Text Available The accurate characterization of three-dimensional (3D root architecture, volume, and biomass is important for a wide variety of applications in forest ecology and to better understand tree and soil stability. Technological advancements have led to increasingly more digitized and automated procedures, which have been used to more accurately and quickly describe the 3D structure of root systems. Terrestrial laser scanners (TLS have successfully been used to describe aboveground structures of individual trees and stand structure, but have only recently been applied to the 3D characterization of whole root systems. In this study, 13 recently harvested Norway spruce root systems were mechanically pulled from the soil, cleaned, and their volumes were measured by displacement. The root systems were suspended, scanned with TLS from three different angles, and the root surfaces from the co-registered point clouds were modeled with the 3D Quantitative Structure Model to determine root architecture and volume. The modeling procedure facilitated the rapid derivation of root volume, diameters, break point diameters, linear root length, cumulative percentages, and root fraction counts. The modeled root systems underestimated root system volume by 4.4%. The modeling procedure is widely applicable and easily adapted to derive other important topological and volumetric root variables.

  18. How many loci does it take to DNA barcode a crocus?

    Directory of Open Access Journals (Sweden)

    Ole Seberg

    Full Text Available BACKGROUND: DNA barcoding promises to revolutionize the way taxonomists work, facilitating species identification by using small, standardized portions of the genome as substitutes for morphology. The concept has gained considerable momentum in many animal groups, but the higher plant world has been largely recalcitrant to the effort. In plants, efforts are concentrated on various regions of the plastid genome, but no agreement exists as to what kinds of regions are ideal, though most researchers agree that more than one region is necessary. One reason for this discrepancy is differences in the tests that are used to evaluate the performance of the proposed regions. Most tests have been made in a floristic setting, where the genetic distance and therefore the level of variation of the regions between taxa is large, or in a limited set of congeneric species. METHODOLOGY AND PRINCIPAL FINDINGS: Here we present the first in-depth coverage of a large taxonomic group, all 86 known species (except two doubtful ones of crocus. Even six average-sized barcode regions do not identify all crocus species. This is currently an unrealistic burden in a barcode context. Whereas most proposed regions work well in a floristic context, the majority will--as is the case in crocus--undoubtedly be less efficient in a taxonomic setting. However, a reasonable but less than perfect level of identification may be reached--even in a taxonomic context. CONCLUSIONS/SIGNIFICANCE: The time is ripe for selecting barcode regions in plants, and for prudent examination of their utility. Thus, there is no reason for the plant community to hold back the barcoding effort by continued search for the Holy Grail. We must acknowledge that an emerging system will be far from perfect, fraught with problems and work best in a floristic setting.

  19. Promise and Challenge of DNA Barcoding in Venus Slipper (Paphiopedilum).

    Science.gov (United States)

    Guo, Yan-Yan; Huang, Lai-Qiang; Liu, Zhong-Jian; Wang, Xiao-Quan

    2016-01-01

    Orchidaceae are one of the largest families of flowering plants, with over 27,000 species described and all orchids are listed in CITES. Moreover, the seedlings of orchid species from the same genus are similar. The objective of DNA barcoding is rapid, accurate, and automated species identification, which may be used to identify illegally traded endangered species from vegetative specimens of Paphiopedilum (Venus slipper), a flagship group for plant conservation with high ornamental and commercial values. Here, we selected eight chloroplast barcodes and nrITS to evaluate their suitability in Venus slippers. The results indicate that all tested barcodes had no barcoding gap and the core plant barcodes showed low resolution for the identification of Venus slippers (18.86%). Of the single-locus barcodes, nrITS is the most efficient for the species identification of the genus (52.27%), whereas matK + atpF-atpH is the most efficient multi-locus combination (28.97%). Therefore, we recommend the combination of matK + atpF-atpH + ITS as a barcode for Venus slippers. Furthermore, there is an upper limit of resolution of the candidate barcodes, and only half of the taxa with multiple samples were identified successfully. The low efficiency of these candidate barcodes in Venus slippers may be caused by relatively recent speciation, the upper limit of the barcodes, and/or the sampling density. Although the discriminatory power is relatively low, DNA barcoding may be a promising tool to identify species involved in illegal trade, which has broad applications and is valuable for orchid conservation. PMID:26752741

  20. Promise and Challenge of DNA Barcoding in Venus Slipper (Paphiopedilum).

    Science.gov (United States)

    Guo, Yan-Yan; Huang, Lai-Qiang; Liu, Zhong-Jian; Wang, Xiao-Quan

    2016-01-01

    Orchidaceae are one of the largest families of flowering plants, with over 27,000 species described and all orchids are listed in CITES. Moreover, the seedlings of orchid species from the same genus are similar. The objective of DNA barcoding is rapid, accurate, and automated species identification, which may be used to identify illegally traded endangered species from vegetative specimens of Paphiopedilum (Venus slipper), a flagship group for plant conservation with high ornamental and commercial values. Here, we selected eight chloroplast barcodes and nrITS to evaluate their suitability in Venus slippers. The results indicate that all tested barcodes had no barcoding gap and the core plant barcodes showed low resolution for the identification of Venus slippers (18.86%). Of the single-locus barcodes, nrITS is the most efficient for the species identification of the genus (52.27%), whereas matK + atpF-atpH is the most efficient multi-locus combination (28.97%). Therefore, we recommend the combination of matK + atpF-atpH + ITS as a barcode for Venus slippers. Furthermore, there is an upper limit of resolution of the candidate barcodes, and only half of the taxa with multiple samples were identified successfully. The low efficiency of these candidate barcodes in Venus slippers may be caused by relatively recent speciation, the upper limit of the barcodes, and/or the sampling density. Although the discriminatory power is relatively low, DNA barcoding may be a promising tool to identify species involved in illegal trade, which has broad applications and is valuable for orchid conservation.

  1. Cytochrome C oxidase subunit I barcodes provide an efficient tool for Jinqian Baihua She (Bungarus parvus authentication

    Directory of Open Access Journals (Sweden)

    Zhi Chao

    2014-01-01

    Full Text Available Objective: To test the feasibility of DNA barcoding for accurate identification of Jinqian Baihua She and its adulterants. Materials and Methods: Standard cytochrome C oxidase subunit I (COI gene fragments were sequenced for DNA barcoding of 39 samples from 9 snake species, including Bungarus multicinctus, the officially recognized origin animal by Chinese Pharmacopoeia, and other 8 adulterate species. The aligned sequences, 658 base pairs in length, were analyzed for divergence using the Kimura-2-parameter (K2P distance model with MEGA5.0. Results: The mean intraspecific K2P distance was 0.0103 and the average interspecific genetic distance was 0.2178 in B. multicinctus, far greater than the minimal interspecific genetic distance of 0.027 recommended for species identification. A neighbor-joining (NJ tree was constructed, in which each species formed a monophyletic clade with bootstrap supports of 100%. All the data were submitted to Barcode of Life Data system version 3.0 (BOLD, http://www.barcodinglife.org under the project title "DNA barcoding Bungarus multicinctus and its adulterants". Ten samples of commercially available crude drugs of JBS were identified using the identification engine provided by BOLD. All the samples were clearly identified at the species level, among which five were found to be the adulterants and identified as Dinodon rufozonatum. Conclusion: DNA barcoding using the standard COI gene fragments provides an effective and accurate means for JBS identification and authentication.

  2. Secured Data Encoding Technique in High Capacity Color Barcodes for M-Ticket Application

    Directory of Open Access Journals (Sweden)

    B. Akila

    2013-01-01

    Full Text Available This research aim is to increase the capacity of barcode (i.e. Number of data bits embedded inside barcode will be increased by encoding data through orientation modulation in elliptical dot array. BARCODES that encode digital data on physical media are commonly utilized in commercial applications for tracing/tracking of trade items, in security applications for linking personal documents with a user, or in other applications as an auxiliary channel to encode additional information on a physical medium. which are fundamentally analog, these methods can add security and functionality and features that are associated with digital techniques at the expense of consuming space on the media. For instance, in personal IDs, driving licenses and passports, high capacity can enable the encoding of a sample speech signal, a picture, or other identifying personal information which in turn may be used to establish authenticity of the user. Care must, however, be exercised in designing color barcodes to ensure that they are robust to variations in the color printing and scanning processes, which have a greater impact when considering color rather than black/white reproduction and capture.2D bar codes are being considered for new emerging applications such as M-ticketing, where they carry selected information of a ticket that is received via a mobile phone; reliable and secure personal identification, where they store personal biometric data on the identification document; and visual communications with side information, where they can be used as an auxiliary channel conveying additional data for improving visual communications.

  3. Permanent 3D laser scanning system for an active landslide in Gresten (Austria)

    Science.gov (United States)

    Canli, Ekrem; Höfle, Bernhard; Hämmerle, Martin; Benni, Thiebes; Glade, Thomas

    2015-04-01

    Terrestrial laser scanners (TLS) have widely been used for high spatial resolution data acquisition of topographic features and geomorphic analyses. Existing applications encompass different landslides including rockfall, translational or rotational landslides, debris flow, but also coastal cliff erosion, braided river evolution or river bank erosion. The main advantages of TLS are (a) the high spatial sampling density of XYZ-measurements (e.g. 1 point every 2-3 mm at 10 m distance), particularly in comparison with the low data density monitoring techniques such as GNSS or total stations, (b) the millimeter accuracy and precision of the range measurement to centimeter accuracy of the final DEM, and (c) the highly dense area-wide scanning that enables to look through vegetation and to measure bare ground. One of its main constraints is the temporal resolution of acquired data due to labor costs and time requirements for field campaigns. Thus, repetition measurements are generally performed only episodically. However, for an increased scientific understanding of the processes as well as for early warning purposes, we present a novel permanent 3D monitoring setup to increase the temporal resolution of TLS measurements. This accounts for different potential monitoring deliverables such as volumetric calculations, spatio-temporal movement patterns, predictions and even alerting. This system was installed at the active Salcher landslide in Gresten (Austria) that is situated in the transition zone of the Gresten Klippenbelt (Helvetic) and the Flyschzone (Penninic). The characteristic lithofacies are the Gresten Beds of Early Jurassic age that are covered by a sequence of marly and silty beds with intercalated sandy limestones. Permanent data acquisition can be implemented into our workflow with any long-range TLS system offering fully automated capturing. We utilize an Optech ILRIS-3D scanner. The time interval between two scans is currently set to 24 hours, but can be

  4. Evaluation of confocal laser scanning microscopy for enumeration of virus-like particles in aquatic systems

    Science.gov (United States)

    Agis, Martin; Luef, Birgit

    2016-01-01

    Abstract Abundances of virus-like particles (VLPs, mostly bacteriophages) are high in aquatic environments; therefore, techniques for precise enumeration are essential in ecological monitoring. VLPs were determined after staining with SYBR Gold by conventional epifluorescence microscopy and compared to enumerations performed by confocal laser scanning microscopy (CLSM). In order to assess the potential of CLSM for viral direct counts (VDCs), we processed samples from different freshwater and marine systems. Optical sectioning by CLSM and production of an overlay picture of multiple scans enables the often uneven whole investigated filter area to be brought to the plane of focus. This allows for subsequent image analysis of digitally created high-quality images. Another advantage using the CLSM was that the short spot excitation of the stain via laser beam minimized fading of the stain. The VDC results show that there is no significant difference between the two methods. Regarding the known difficulties of viral abundance estimates on particulate material, CLSM was further applied to enumerate VLPs on a small set of marine transparent exopolymeric particles sampled from the Atlantic Ocean. Our data suggest that CLSM is a useful tool to count viruses in water samples as well as attached to certain types of aquatic aggregates. PMID:23108709

  5. An expert system for the interpretation of radionuclide ventilation-perfusion lung scans

    Science.gov (United States)

    Gabor, Frank V.; Datz, Frederick L.; Christian, Paul E.; Gullberg, Grant T.; Morton, Kathryn A.

    1993-09-01

    One of the most commonly performed imaging procedures in nuclear medicine is the lung scan for suspected pulmonary embolism. The purpose of this research was to develop an expert system that interprets lung scans and gives a probability of pulmonary embolism. Three standard ventilation and eight standard perfusion images are first outlined manually. Then the images are normalized. Because lung size varies from patient to patient, each image undergoes a two-dimensional stretch onto a standard-size mask. To determine the presence of regional defects in ventilation or perfusion, images are then compared on a pixel by pixel basis with a normal database. This database consists of 21 normal studies that represent the variation in activity between subjects. Any pixel that falls more than 2.2 standard deviations below the normal file is flagged as possibly abnormal. To reduce statistical fluctuations, a clustering criteria is applied such that each pixel must have at least two continuous neighbors that are abnormal for a pixel to be flagged abnormal.

  6. On-line Scanned Probe Microscopy Transparently Integrated with DualBeam SEM/FIB Systems

    Science.gov (United States)

    Ignatov, Andrey; Komissar, Anatoly; Lewis, Aaron

    2013-03-01

    A multifunctional scanning probe microscope (SPM) will be described that transparently integrates with a DualBeam SEM/FIB System. This is done without perturbing any of the capabilities of the Dual Beam in terms of detectors, gas injectors, analyzers etc while allowing for a completely exposed probe tip to be imaged online even with immersion objectives at working distances as short as 4 mm. In addition, the completely free motion of the rotation axis of the stage is maintained with the probe tip at the eucentric point, this makes it possible to orient the sample in any direction on any structure The X and Y scan range of the atomic force microscopic (AFM) imaging achieves 35 microns with rough motion over 10 millimeters. This permits the SPM to tilt into position perpendicular to the SEM or FIB or under an angle for rapid and accurate placement of the probe tip at or on structures such as biopolymeric materials that are nanometric in X, Y and Z extent. Thus, not only can a structure's nanometric height be accurately profiled but this can be accomplished with the on-line excellence of SEM for X, Y metrology. Furthermore, electron and ion beam sensitive samples can be imaged and characterized by AFM at high resolution.

  7. A robust SNP barcode for typing Mycobacterium tuberculosis complex strains

    Science.gov (United States)

    Coll, Francesc; McNerney, Ruth; Guerra-Assunção, José Afonso; Glynn, Judith R.; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Pain, Arnab; Martin, Nigel; Clark, Taane G.

    2014-01-01

    Strain-specific genomic diversity in the Mycobacterium tuberculosis complex (MTBC) is an important factor in pathogenesis that may affect virulence, transmissibility, host response and emergence of drug resistance. Several systems have been proposed to classify MTBC strains into distinct lineages and families. Here, we investigate single-nucleotide polymorphisms (SNPs) as robust (stable) markers of genetic variation for phylogenetic analysis. We identify ~92k SNP across a global collection of 1,601 genomes. The SNP-based phylogeny is consistent with the gold-standard regions of difference (RD) classification system. Of the ~7k strain-specific SNPs identified, 62 markers are proposed to discriminate known circulating strains. This SNP-based barcode is the first to cover all main lineages, and classifies a greater number of sublineages than current alternatives. It may be used to classify clinical isolates to evaluate tools to control the disease, including therapeutics and vaccines whose effectiveness may vary by strain type. PMID:25176035

  8. Design and Implementation of a Mechanical Control System for the Scanning Microwave Limb Sounder

    Science.gov (United States)

    Bowden, William

    2011-01-01

    The Scanning Microwave Limb Sounder (SMLS) will use technological improvements in low noise mixers to provide precise data on the Earth's atmospheric composition with high spatial resolution. This project focuses on the design and implementation of a real time control system needed for airborne engineering tests of the SMLS. The system must coordinate the actuation of optical components using four motors with encoder readback, while collecting synchronized telemetric data from a GPS receiver and 3-axis gyrometric system. A graphical user interface for testing the control system was also designed using Python. Although the system could have been implemented with a FPGA-based setup, we chose to use a low cost processor development kit manufactured by XMOS. The XMOS architecture allows parallel execution of multiple tasks on separate threads-making it ideal for this application and is easily programmed using XC (a subset of C). The necessary communication interfaces were implemented in software, including Ethernet, with significant cost and time reduction compared to an FPGA-based approach. For these reasons, the XMOS technology is an attractive, cost effective, alternative to FPGA-based technologies for this design and similar rapid prototyping projects.

  9. Possibilities of a Personal Laser Scanning System for Forest Mapping and Ecosystem Services

    Directory of Open Access Journals (Sweden)

    Xinlian Liang

    2014-01-01

    Full Text Available A professional-quality, personal laser scanning (PLS system for collecting tree attributes was demonstrated in this paper. The applied system, which is wearable by human operators, consists of a multi-constellation navigation system and an ultra-high-speed phase-shift laser scanner mounted on a rigid baseplate and consisting of a single sensor block. A multipass-corridor-mapping method was developed to process PLS data and a 2,000 m2 forest plot was utilized in the test. The tree stem detection accuracy was 82.6%; the root mean square error (RMSE of the estimates of tree diameter at breast height (DBH was 5.06 cm; the RMSE of the estimates of tree location was 0.38 m. The relative RMSE of the DBH estimates was 14.63%. The results showed, for the first time, the potential of the PLS system in mapping large forest plots. Further research on mapping accuracy in various forest conditions, data correction methods and multi-sensoral positioning techniques is needed. The utilization of this system in different applications, such as harvester operations, should also be explored. In addition to collecting tree-level and plot-level data for forest inventory, other possible applications of PLS for forest ecosystem services include mapping of canopy gaps, measuring leaf area index of large areas, documenting and visualizing forest routes feasible for recreation, hiking and berry and mushroom picking.

  10. Possibilities of a personal laser scanning system for forest mapping and ecosystem services.

    Science.gov (United States)

    Liang, Xinlian; Kukko, Antero; Kaartinen, Harri; Hyyppä, Juha; Yu, Xiaowei; Jaakkola, Anttoni; Wang, Yunsheng

    2014-01-10

    A professional-quality, personal laser scanning (PLS) system for collecting tree attributes was demonstrated in this paper. The applied system, which is wearable by human operators, consists of a multi-constellation navigation system and an ultra-high-speed phase-shift laser scanner mounted on a rigid baseplate and consisting of a single sensor block. A multipass-corridor-mapping method was developed to process PLS data and a 2,000 m2 forest plot was utilized in the test. The tree stem detection accuracy was 82.6%; the root mean square error (RMSE) of the estimates of tree diameter at breast height (DBH) was 5.06 cm; the RMSE of the estimates of tree location was 0.38 m. The relative RMSE of the DBH estimates was 14.63%. The results showed, for the first time, the potential of the PLS system in mapping large forest plots. Further research on mapping accuracy in various forest conditions, data correction methods and multi-sensoral positioning techniques is needed. The utilization of this system in different applications, such as harvester operations, should also be explored. In addition to collecting tree-level and plot-level data for forest inventory, other possible applications of PLS for forest ecosystem services include mapping of canopy gaps, measuring leaf area index of large areas, documenting and visualizing forest routes feasible for recreation, hiking and berry and mushroom picking.

  11. A Combination of Stop-and-Go and Electro-Tricycle Laser Scanning Systems for Rural Cadastral Surveys

    Directory of Open Access Journals (Sweden)

    Liang Zhong

    2016-09-01

    Full Text Available Over the past decade, land-based laser scanning technologies have been actively studied and implemented, in response to the need for detailed three-dimensional (3D data about our rural and urban environment for topographic mapping, cadastral mapping, and other street-level features, which are difficult and time consuming to measure by other instruments. For rural areas in China, the complex terrain and poor planning limit the applicability of this advanced technology. To improve the efficiency of rural surveys, we present two SSW (Shoushi and SiWei laser scanning systems for rapid topographic mapping: stop-and-go and electro-tricycle laser scanning systems. The objective of this paper is to evaluate whether laser scanning data collected by the developed SSW systems meet the accuracy requirements for rural homestead mapping. We investigated the performance of the two laser scanning systems on Ma’anshan Village, a small, typical village in Hubei Province, China. To obtain full coverage of the village, we fused the stop-and-go and electro-tricycle laser scanning data. The performance of the developed SSW systems is described by the results of building contours extracted from the fused data against the established building vector map.

  12. Investigation of long-term in vivo tracer distribution patterns using an ultra-high-sensitivity scanning system

    International Nuclear Information System (INIS)

    An ultra-high-sensitivity scanning system for the coarse imaging of radiotracer distribution within the human body is described. Slow dynamic curves of tracer distribution in a number of selected areas can be produced by sequential scanning and computer analysis of the images produced. The system was developed round a conventional shadow-shield whole-body counter. The four detectors are arranged in two vertical pairs, positioned laterally across the scanning direction. In the scanning mode only the two bottom detectors are used; these are fitted with very coarse focusing multihole collimators, giving a FWHM of 100 mm for 51Cr and 120 mm for 59Fe. A digitally controlled bed moves longitudinally through the shadow-shield tunnel and steps laterally at the end of each passage. Signals from each of the detectors, after pulse-height analysis, are recorded in the memory of a multichannel analyser addressed by the digital control of the bed or directly outputted on to a punched tape. A pair of scans is produced concurrently and the lateral movement of the bed is designed so that at the end of the scanning procedure the two scans join in the middle. The scan image may have any format, more or less, provided that this is within 4 K pixels. The scan data are transferred to a computer (PDP-8 or PDP-11) where the images are assembled and stored for further processing. This includes multicolour images of the tracer distribution and sequential dynamic analysis of selected areas of the image. Effective images can be produced from total-body activity burdens of the order of 1-100 μCi. The system was used in a number of routine clinical investigations (red cell sequestration sites, ferrokinetics) and research studies in trace element distribution (Cu, Zn) as well as in studies of the distribution of other labelled substances (vitamin B-12). (author)

  13. Dissecting host-associated communities with DNA barcodes.

    Science.gov (United States)

    Baker, Christopher C M; Bittleston, Leonora S; Sanders, Jon G; Pierce, Naomi E

    2016-09-01

    DNA barcoding and metabarcoding methods have been invaluable in the study of interactions between host organisms and their symbiotic communities. Barcodes can help identify individual symbionts that are difficult to distinguish using morphological characters, and provide a way to classify undescribed species. Entire symbiont communities can be characterized rapidly using barcoding and especially metabarcoding methods, which is often crucial for isolating ecological signal from the substantial variation among individual hosts. Furthermore, barcodes allow the evolutionary histories of symbionts and their hosts to be assessed simultaneously and in reference to one another. Here, we describe three projects illustrating the utility of barcodes for studying symbiotic interactions: first, we consider communities of arthropods found in the ant-occupied domatia of the East African ant-plant Vachellia (Acacia) drepanolobium; second, we examine communities of arthropod and protozoan inquilines in three species of Nepenthes pitcher plant in South East Asia; third, we investigate communities of gut bacteria of South American ants in the genus Cephalotes Advances in sequencing and computation, and greater database connectivity, will continue to expand the utility of barcoding methods for the study of species interactions, especially if barcoding can be approached flexibly by making use of alternative genetic loci, metagenomes and whole-genome data.This article is part of the themed issue 'From DNA barcodes to biomes'. PMID:27481780

  14. Multilocus inference of species trees and DNA barcoding.

    Science.gov (United States)

    Mallo, Diego; Posada, David

    2016-09-01

    The unprecedented amount of data resulting from next-generation sequencing has opened a new era in phylogenetic estimation. Although large datasets should, in theory, increase phylogenetic resolution, massive, multilocus datasets have uncovered a great deal of phylogenetic incongruence among different genomic regions, due both to stochastic error and to the action of different evolutionary process such as incomplete lineage sorting, gene duplication and loss and horizontal gene transfer. This incongruence violates one of the fundamental assumptions of the DNA barcoding approach, which assumes that gene history and species history are identical. In this review, we explain some of the most important challenges we will have to face to reconstruct the history of species, and the advantages and disadvantages of different strategies for the phylogenetic analysis of multilocus data. In particular, we describe the evolutionary events that can generate species tree-gene tree discordance, compare the most popular methods for species tree reconstruction, highlight the challenges we need to face when using them and discuss their potential utility in barcoding. Current barcoding methods sacrifice a great amount of statistical power by only considering one locus, and a transition to multilocus barcodes would not only improve current barcoding methods, but also facilitate an eventual transition to species-tree-based barcoding strategies, which could better accommodate scenarios where the barcode gap is too small or inexistent.This article is part of the themed issue 'From DNA barcodes to biomes'. PMID:27481787

  15. Geometric validation of a mobile laser scanning system for urban applications

    Science.gov (United States)

    Guan, Haiyan; Li, Jonathan; Yu, Yongtao; Liu, Yan

    2016-03-01

    Mobile laser scanning (MLS) technologies have been actively studied and implemented over the past decade, as their application fields are rapidly expanding and extending beyond conventional topographic mapping. Trimble's MX-8, as one of the MLS systems in the current market, generates rich survey-grade laser and image data for urban surveying. The objective of this study is to evaluate whether Trimble MX-8 MLS data satisfies the accuracy requirements of urban surveying. According to the formula of geo-referencing, accuracies of navigation solution and laser scanner determines the accuracy of the collected LiDAR point clouds. Two test sites were selected to test the performance of Trimble MX-8. Those extensive tests confirm that Trimble MX-8 offers a very promising tool to survey complex urban areas.

  16. Development of a Mechanical Scanning-type Intravascular Ultrasound System Using a Miniature Ultrasound Motor

    Science.gov (United States)

    Tanabe, Masayuki; Xie, Shangping; Tagawa, Norio; Moriya, Tadashi; Furukawa, Yuji

    2007-07-01

    Intravascular ultrasound (IVUS) plays an important role for the detection of arteriosclerosis, which causes the ischemic heart disease. In mechanical scanning-type IVUS, it is necessary to rotate a transducer or a reflecting mirror. A method that involves rotating the transducer using a torque wire causes image distortion (NURD: non uniform rotation distortion). For a method that involves placing an electromagnetic motor on the tip of an IVUS probe is difficult to miniaturize the probe. Our objectives are to miniaturize the probe (1 mm in diameter, 5 mm in length) and to remove NURD. Therefore, we conducted a study to assess the feasibility of attaining these objectives by constructing a prototype IVUS system, in which an ultrasound motor using a stator in the form of a helical coil (abbreviated as CS-USM: coiled stator-ultrasonic motor) is incorporated, and to clarify problems that need to be solved in constructing the probe.

  17. Friedel oscillations in graphene-based systems probed by Scanning Tunneling Microscopy

    Science.gov (United States)

    Mallet, Pierre; Brihuega, Iván; Cherkez, Vladimir; Gómez-Rodríguez, Jose Marìa; Veuillen, Jean-Yves

    2016-03-01

    For the last 25 years, scientists have demonstrated the capabilities of Scanning Tunneling Microscopy (STM) to visualize in real space the response of a two-dimensional electron gas to atomic-scale impurities. The analysis of the Friedel oscillations surrounding the impurities yields valuable information regarding the elastic scattering properties, the band structure, the doping level and the symmetry of the electronic states in the two-dimensional host system. We will address in this article the use of this technique for probing the electronic properties of graphene, the star two-dimensional compound of the last decade. In particular, we will emphasize how this technique can be pushed up to unravel the electronic pseudospin, a distinctive degree of freedom of graphene's Dirac fermions. xml:lang="fr"

  18. Microscopic image processing system for measuring nonuniform film thickness profiles: Image scanning ellipsometry

    International Nuclear Information System (INIS)

    The long-term objective of this research program is to determine the stability and heat transfer characteristics of evaporating thin films. The current objective is to develop and use a microscopic image-processing system (IPS) which has two parts: an image analyzing interferometer (IAI) and an image scanning ellipsometer (ISE). The primary purpose of this paper is to present the basic concept of ISE, which is a novel technique to measure the two dimensional thickness profile of a non-uniform, thin film, from several nm up to several μm, in a steady state as well as in a transient state. It is a full-field imaging technique which can study every point on the surface simultaneously with high spatial resolution and thickness sensitivity, i.e., it can measure and map the 2-D film thickness profile. The ISE was tested by measuring the thickness profile and the refractive index of a nonuniform solid film

  19. Calculation of scanning tunnelling microscopy images for Kr/graphite system

    Institute of Scientific and Technical Information of China (English)

    周晓林; 陈向荣; 杨向东; 芶清泉

    2003-01-01

    The scanning-tunnelling-microscopy(STM)images of Kr atoms adsorbed on a monolayer graphite sheet(Kr/graphite system)are calculated using the first-principle total-energy electronic structure calculations within the density functional theory in the local density approximation.The results obtained agree well with the observations.It is found that the optimal site of the adsorbed Kr atom is at the top of the centre of the carbon hexagon,and its equilibrium distance from monolayer graphite surface is about 0.335nm.It is shown that the hybridization of C 2p electronic states(π-electronic states)and Kr 4p and 5s electronic states is the main origin of the Fermi-level local density of state.

  20. LiDAR Scan Matching Aided Inertial Navigation System in GNSS-Denied Environments.

    Science.gov (United States)

    Tang, Jian; Chen, Yuwei; Niu, Xiaoji; Wang, Li; Chen, Liang; Liu, Jingbin; Shi, Chuang; Hyyppä, Juha

    2015-07-10

    A new scan that matches an aided Inertial Navigation System (INS) with a low-cost LiDAR is proposed as an alternative to GNSS-based navigation systems in GNSS-degraded or -denied environments such as indoor areas, dense forests, or urban canyons. In these areas, INS-based Dead Reckoning (DR) and Simultaneous Localization and Mapping (SLAM) technologies are normally used to estimate positions as separate tools. However, there are critical implementation problems with each standalone system. The drift errors of velocity, position, and heading angles in an INS will accumulate over time, and on-line calibration is a must for sustaining positioning accuracy. SLAM performance is poor in featureless environments where the matching errors can significantly increase. Each standalone positioning method cannot offer a sustainable navigation solution with acceptable accuracy. This paper integrates two complementary technologies-INS and LiDAR SLAM-into one navigation frame with a loosely coupled Extended Kalman Filter (EKF) to use the advantages and overcome the drawbacks of each system to establish a stable long-term navigation process. Static and dynamic field tests were carried out with a self-developed Unmanned Ground Vehicle (UGV) platform-NAVIS. The results prove that the proposed approach can provide positioning accuracy at the centimetre level for long-term operations, even in a featureless indoor environment.

  1. An Airborne Scanning LiDAR System for Ocean and Coastal Applications

    Science.gov (United States)

    Reineman, B. D.; Lenain, L.; Castel, D.; Melville, W. K.

    2008-12-01

    We have developed an airborne scanning LiDAR (Light Detection And Ranging) system and demonstrated its functionality for terrestrial and oceanographic measurements. Differential GPS (DGPS) and an Inertial Navigation System (INS) are synchronized with the LiDAR, providing end result vertical rms errors of approximately 6~cm. Flying 170~m above the surface, we achieve a point density of ~ 0.7 m-2 and a swath width of 90 to 120~m over ocean and 200~m over land. Georeferencing algorithms were developed in-house and earth-referenced data are available several hours after acquisition. Surveys from the system are compared with ground DGPS surveys and existing airborne surveys of fixed targets. Twelve research flights in a Piper Twin Comanche from August 2007 to July 2008 have provided topography of the Southern California coastline and sea surface wave fields in the nearshore ocean environment. Two of the flights also documented the results of the October 2007 landslide on Mt.~Soledad in La Jolla, California. Eight research flights aboard a Cessna Caravan surveyed the topography, lagoon, reef, and surrounding seas of Lady Elliot Island (LEI) in Australia's Great Barrier Reef in April 2008. We describe applications for the system, including coastal topographic surveys, wave measurements, reef research, and ship wake studies.

  2. LiDAR Scan Matching Aided Inertial Navigation System in GNSS-Denied Environments.

    Science.gov (United States)

    Tang, Jian; Chen, Yuwei; Niu, Xiaoji; Wang, Li; Chen, Liang; Liu, Jingbin; Shi, Chuang; Hyyppä, Juha

    2015-01-01

    A new scan that matches an aided Inertial Navigation System (INS) with a low-cost LiDAR is proposed as an alternative to GNSS-based navigation systems in GNSS-degraded or -denied environments such as indoor areas, dense forests, or urban canyons. In these areas, INS-based Dead Reckoning (DR) and Simultaneous Localization and Mapping (SLAM) technologies are normally used to estimate positions as separate tools. However, there are critical implementation problems with each standalone system. The drift errors of velocity, position, and heading angles in an INS will accumulate over time, and on-line calibration is a must for sustaining positioning accuracy. SLAM performance is poor in featureless environments where the matching errors can significantly increase. Each standalone positioning method cannot offer a sustainable navigation solution with acceptable accuracy. This paper integrates two complementary technologies-INS and LiDAR SLAM-into one navigation frame with a loosely coupled Extended Kalman Filter (EKF) to use the advantages and overcome the drawbacks of each system to establish a stable long-term navigation process. Static and dynamic field tests were carried out with a self-developed Unmanned Ground Vehicle (UGV) platform-NAVIS. The results prove that the proposed approach can provide positioning accuracy at the centimetre level for long-term operations, even in a featureless indoor environment. PMID:26184206

  3. 3-D ultrasonic strain imaging based on a linear scanning system.

    Science.gov (United States)

    Huang, Qinghua; Xie, Bo; Ye, Pengfei; Chen, Zhaohong

    2015-02-01

    This paper introduces a 3-D strain imaging method based on a freehand linear scanning mode. We designed a linear sliding track with a position sensor and a height-adjustable holder to constrain the movement of an ultrasound probe in a freehand manner. When moving the probe along the sliding track, the corresponding positional measures for the probe are transmitted via a wireless communication module based on Bluetooth in real time. In a single examination, the probe is scanned in two sweeps in which the height of the probe is adjusted by the holder to collect the pre- and postcompression radio-frequency echoes, respectively. To generate a 3-D strain image, a volume cubic in which the voxels denote relative strains for tissues is defined according to the range of the two sweeps. With respect to the post-compression frames, several slices in the volume are determined and the pre-compression frames are re-sampled to precisely correspond to the post-compression frames. Thereby, a strain estimation method based on minimizing a cost function using dynamic programming is used to obtain the 2-D strain image for each pair of frames from the re-sampled pre-compression sweep and the post-compression sweep, respectively. A software system is developed for volume reconstruction, visualization, and measurement of the 3-D strain images. The experimental results show that high-quality 3-D strain images of phantom and human tissues can be generated by the proposed method, indicating that the proposed system can be applied for real clinical applications (e.g., musculoskeletal assessments).

  4. The application status of two-dimensional barcode technology and feasibility analysis of its application to traceability system for food additives%二维码技术的应用现状及用于食品添加剂系统管理的可行性

    Institute of Scientific and Technical Information of China (English)

    刘飞; 冷小京

    2013-01-01

    Two-dimensional barcode identification is a high-tech approach for data carrying and transmit-ting which can efficiently encode Chinese characters and store large amounts of data with an easy and conve-nient way to process. In this paper, a supplemental project of traceability system for food additives was de-signed based on two-dimensional barcode. The project can not only provide consumers with detailed informa-tion of food additives, but also provide a good platform for manufacturers and supervision departments.%二维码识别技术是一种具有汉字编码特性,可以储存大量产品信息,使用方式简单便捷的数据携带、传递的高科技手段。基于该技术,本文探讨了食品添加剂可追溯系统的补充方案。该方案不仅可以为消费者提供详细的食品添加剂信息,而且为生产企业和监管部门提供了良好的管理和监督平台。

  5. A system architecture for sharing de-identified, research-ready brain scans and health information across clinical imaging centers.

    Science.gov (United States)

    Chervenak, Ann L; van Erp, Theo G M; Kesselman, Carl; D'Arcy, Mike; Sobell, Janet; Keator, David; Dahm, Lisa; Murry, Jim; Law, Meng; Hasso, Anton; Ames, Joseph; Macciardi, Fabio; Potkin, Steven G

    2012-01-01

    Progress in our understanding of brain disorders increasingly relies on the costly collection of large standardized brain magnetic resonance imaging (MRI) data sets. Moreover, the clinical interpretation of brain scans benefits from compare and contrast analyses of scans from patients with similar, and sometimes rare, demographic, diagnostic, and treatment status. A solution to both needs is to acquire standardized, research-ready clinical brain scans and to build the information technology infrastructure to share such scans, along with other pertinent information, across hospitals. This paper describes the design, deployment, and operation of a federated imaging system that captures and shares standardized, de-identified clinical brain images in a federation across multiple institutions. In addition to describing innovative aspects of the system architecture and our initial testing of the deployed infrastructure, we also describe the Standardized Imaging Protocol (SIP) developed for the project and our interactions with the Institutional Review Board (IRB) regarding handling patient data in the federated environment. PMID:22941984

  6. Identification of herbal medicinal materials using DNA barcodes

    Institute of Scientific and Technical Information of China (English)

    Ming LI; Hui CAO; Paul Pui-Hay BUT; pang-Chui SHAW

    2011-01-01

    Herbal medicinal materials have been used worldwide for centuries to maintain health and to treat disease. However, adulteration of herbal medicines remains a major concern of users and industry for reasons of safety and efficacy. Identification of herbal medicinal materials by DNA technology has been widely applied,started from the mid-1990s. In recent years, DNA barcoding of global plant species using four standard barcodes (rbcL, matK, trnH-psbA and ITS) has been a major focus in the fields of biodiversity and conservation. These DNA barcodes can also be used as reliable tools to facilitate the identification of herbal medicinal materials for the safe use of herbs, quality control, and forensic investigation. Many studies have applied these DNA barcodes for the identification of herbal medicinal species and their adulterants. The present article reviews efforts in the identification of herbal medicinal materials using the standard DNA barcodes and other DNA sequence-based markers.

  7. [Hydrophidae identification through analysis on Cyt b gene barcode].

    Science.gov (United States)

    Liao, Li-xi; Zeng, Ke-wu; Tu, Peng-fei

    2015-08-01

    Hydrophidae, one of the precious traditional Chinese medicines, is generally drily preserved to prevent corruption, but it is hard to identify the species of Hydrophidae through the appearance because of the change due to the drying process. The identification through analysis on gene barcode, a new technique in species identification, can avoid the problem. The gene barcodes of the 6 species of Hydrophidae like Lapemis hardwickii were aquired through DNA extraction and gene sequencing. These barcodes were then in sequence alignment and test the identification efficency by BLAST. Our results revealed that the barcode sequences performed high identification efficiency, and had obvious difference between intra- and inter-species. These all indicated that Cyt b DNA barcoding can confirm the Hydrophidae identification.

  8. [Screening potential DNA barcode regions of genus Papaver].

    Science.gov (United States)

    Zhang, Shuang; Liu, Yu-jing; Wu, Yan-sheng; Cao, Ying; Yuan, Yuan

    2015-08-01

    DNA barcoding is an effective technique in species identification. To determine the candidate sequences which can be used as DNA barcode to identify in Papaver genus, five potential sequences (ITS, matK, psbA-trnH, rbcL, trnL-trnF) were screened. 69 sequences were downloaded from Genbank, including 21 ITS sequences, 10 matK sequences, 8 psbA-trnH sequences, 14 rbcL sequences and 16 trnL-trnF sequences. Mega 6.0 was used to analysis the comparison of sequences. By the methods of calculating the distances in intraspecific and interspecific divergences, evaluating DNA barcoding gap and constructing NJ and UPMGA phylogenetic trees. The sequence trnL-trnF performed best. In conclusion, trnL-trnF can be considered as a novel DNA barcode in Papaver genus, other four sequences can be as combination barcode for identification. PMID:26677693

  9. Identifying Chinese species of Gammarus (Crustacea: Amphipoda) using DNA barcoding

    Institute of Scientific and Technical Information of China (English)

    Zhong-e HOU; Zhu LI; Shu-qiang LI

    2009-01-01

    Using a standard cytochrome c oxidase I sequence, DNA barcoding has been shown to be effective to distinguish known species and to discover cryptic species. Here we assessed the efficiency of DNA barcoding for the amphipod genus Gammarus from China. The maximum intraspecific divergence for widespread species, Gammarus lacustris, was 3.5%, and mean interspecific divergence reached 21.9%. We presented a conservative benchmark for determining provisional species using maximum intraspecific divergence of Gammarus lacustris. Thirty-one species possessed distinct barcode clusters. Two species were comprised of highly divergent clades with strong neighbor-joining bootstrap values, and likely indicated the presence of cryptic species. Although DNA barcoding is effective, future identification of species of Gammarus should incorporate DNA barcoding and morphological detection[Current Zoology 55(2):158-164,2009].

  10. Gold Nanoparticles-Based Barcode Analysis for Detection of Norepinephrine.

    Science.gov (United States)

    An, Jeung Hee; Lee, Kwon-Jai; Choi, Jeong-Woo

    2016-02-01

    Nanotechnology-based bio-barcode amplification analysis offers an innovative approach for detecting neurotransmitters. We evaluated the efficacy of this method for detecting norepinephrine in normal and oxidative-stress damaged dopaminergic cells. Our approach use a combination of DNA barcodes and bead-based immunoassays for detecting neurotransmitters with surface-enhanced Raman spectroscopy (SERS), and provides polymerase chain reaction (PCR)-like sensitivity. This method relies on magnetic Dynabeads containing antibodies and nanoparticles that are loaded both with DNA barcords and with antibodies that can sandwich the target protein captured by the Dynabead-bound antibodies. The aggregate sandwich structures are magnetically separated from the solution and treated to remove the conjugated barcode DNA. The DNA barcodes are then identified by SERS and PCR analysis. The concentration of norepinephrine in dopaminergic cells can be readily detected using the bio-barcode assay, which is a rapid, high-throughput screening tool for detecting neurotransmitters. PMID:27305769

  11. [Hydrophidae identification through analysis on Cyt b gene barcode].

    Science.gov (United States)

    Liao, Li-xi; Zeng, Ke-wu; Tu, Peng-fei

    2015-08-01

    Hydrophidae, one of the precious traditional Chinese medicines, is generally drily preserved to prevent corruption, but it is hard to identify the species of Hydrophidae through the appearance because of the change due to the drying process. The identification through analysis on gene barcode, a new technique in species identification, can avoid the problem. The gene barcodes of the 6 species of Hydrophidae like Lapemis hardwickii were aquired through DNA extraction and gene sequencing. These barcodes were then in sequence alignment and test the identification efficency by BLAST. Our results revealed that the barcode sequences performed high identification efficiency, and had obvious difference between intra- and inter-species. These all indicated that Cyt b DNA barcoding can confirm the Hydrophidae identification. PMID:26790288

  12. DNA Barcoding and the International Barcode of Life Project in China

    Institute of Scientific and Technical Information of China (English)

    CHE Jing; HUANG Dawei; LI Dezhu; MA Juncai; ZHANG Yaping

    2010-01-01

    @@ 1.Scientific and Social Benefits of DNA Barcoding Along with the accelerated global trade and climate change,the needs for sustainable development and for understanding biodiversity are increasing.Rapid and accurate species identification and sustainable utility of biodiversity resources have become a great need for the world.

  13. Overcoming Barriers to the Implementation of a Pharmacy Bar Code Scanning System for Medication Dispensing: A Case Study

    OpenAIRE

    Nanji, Karen C.; Cina, Jennifer; Patel, Nirali; Churchill, William; Gandhi, Tejal K.; Poon, Eric G.

    2009-01-01

    Technology has great potential to reduce medication errors in hospitals. This case report describes barriers to, and facilitators of, the implementation of a pharmacy bar code scanning system to reduce medication dispensing errors at a large academic medical center. Ten pharmacy staff were interviewed about their experiences during the implementation. Interview notes were iteratively reviewed to identify common themes. The authors identified three main barriers to pharmacy bar code scanning s...

  14. In-situ continuous scanning high efficiency particulate air (HEPA) filter monitoring system

    International Nuclear Information System (INIS)

    The testing and replacement of HEPA filters, which are widely used in the nuclear industry to purify process air before it is ventilated to the atmosphere, is a costly and labor-intensive undertaking. Current methods of testing filter performance, such as differential pressure measurement and scanning air monitoring, allow for determination of overall filter performance but preclude detection of symptoms of incipient filter failure, such as small holes in the filters themselves. Using current technology, a continual in-situ monitoring system has been designed which provides three major improvements over current methods of filter testing and replacement. This system (1) realizes a cost savings by reducing the number of intact filters which are currently being replaced unnecessarily, (2) provides a more accurate and quantitative measurement of filter performance than is currently achieved with existing testing methods, and (3) reduces personnel exposure to a radioactive environment by automatically performing most testing operations. The operation and performance of the HEPA filter monitoring system are discussed

  15. Ag/ZnO hybrid systems studied with scanning tunnelling microscopy-based luminescence spectroscopy

    Science.gov (United States)

    Pascua, Leandro; Stavale, Fernando; Nilius, Niklas; Freund, Hans-Joachim

    2016-03-01

    Coupled metal/oxide systems are prepared by depositing and embedding Ag nanoparticles into crystalline ZnO films grown on Au(111) supports. The morphology and optical properties of the compounds are investigated by topographic imaging and luminescence spectroscopy performed in a scanning tunnelling microscope (STM). The luminescence of bare ZnO is governed by the band-recombination and a Zn-vacancy related peak. After Ag deposition, two additional maxima are detected that are assigned to the in-plane and out-of-plane plasmon in Ag nanoparticles and have energies below and slightly above the oxide band-gap, respectively. Upon coating the particles with additional ZnO, the out-of-plane plasmon redshifts and loses intensity, indicating strong coupling to the oxide electronic system, while the in-plane mode broadens but remains detectable. The original situation can be restored by gently heating the sample, which drives the silver back to the surface. However, the optical response of pristine ZnO is not recovered even after silver evaporation at high temperature. Small discrepancies are explained with changes in the ZnO defect landscape, e.g., due to silver incorporation. Our experiments demonstrate how energy-transfer processes can be investigated in well-defined metal/oxide systems by means of STM-based spectroscopic techniques.

  16. Imaging of aphakic intraocular lens with a slit-scanning tomography system

    Science.gov (United States)

    Oliveira, Cristina M.; Almeida, J. B.; Franco, S.

    2011-05-01

    Nowadays, cataract extraction with IOL implantation aims not only to restore the crystalline lens' transparency, but also to improve patients' retinal image quality. The refractive outcome and visual quality in pseudophakic eyes is mainly determined by the combination of corneal and internal optics resulting from the implanted IOLs. The optical function of the IOLs depends on its position in the eye. The IOL distance to the corneal apex determines the optical power needed for optical correction. In this paper it is described the usage of a slit-scanning imaging system to determine IOL positioning. Through the projection of the light from a slit onto the eye, this tomography system allows to acquire multiple sections of the anterior eye segment, at different meridians. The developed system's software corrects geometric and optical distortion of the images and provides 3-dimentional models of the eye's structures from the 2-dimensional sections. With this noninvasive technique, cross-sectional images of an eye with an aphakic IOL were obtained in order to reconstruct its 3- dimensional model of the lens and assess its position in the anterior segment camera.

  17. A New High Channel-Count, High Scan-Rate, Data Acquisition System for the NASA Langley Transonic Dynamics Tunnel

    Science.gov (United States)

    Ivanco, Thomas G.; Sekula, Martin K.; Piatak, David J.; Simmons, Scott A.; Babel, Walter C.; Collins, Jesse G.; Ramey, James M.; Heald, Dean M.

    2016-01-01

    A data acquisition system upgrade project, known as AB-DAS, is underway at the NASA Langley Transonic Dynamics Tunnel. AB-DAS will soon serve as the primary data system and will substantially increase the scan-rate capabilities and analog channel count while maintaining other unique aeroelastic and dynamic test capabilities required of the facility. AB-DAS is configurable, adaptable, and enables buffet and aeroacoustic tests by synchronously scanning all analog channels and recording the high scan-rate time history values for each data quantity. AB-DAS is currently available for use as a stand-alone data system with limited capabilities while development continues. This paper describes AB-DAS, the design methodology, and the current features and capabilities. It also outlines the future work and projected capabilities following completion of the data system upgrade project.

  18. A simple and accurate grading system for orthoiodohippurate renal scans in the assessment of post-transplant renal function

    Energy Technology Data Exchange (ETDEWEB)

    Zaki, S.K.; Bretan, P.N.; Go, R.T.; Rehm, P.K.; Streem, S.B.; Novick, A.C. (Cleveland Clinic Foundation, OH (USA))

    1990-06-01

    Orthoiodohippurate renal scanning has proved to be a reliable, noninvasive method for the evaluation and followup of renal allograft function. However, a standardized system for grading renal function with this test is not available. We propose a simple grading system to distinguish the different functional phases of hippurate scanning in renal transplant recipients. This grading system was studied in 138 patients who were evaluated 1 week after renal transplantation. There was a significant correlation between the isotope renographic functional grade and clinical correlates of allograft function such as the serum creatinine level (p = 0.0001), blood urea nitrogen level (p = 0.0001), urine output (p = 0.005) and need for hemodialysis (p = 0.007). We recommend this grading system as a simple and accurate method to interpret orthoiodohippurate renal scans in the evaluation and followup of renal allograft recipients.

  19. Atmospheric scanning electron microscope system with an open sample chamber: Configuration and applications

    Energy Technology Data Exchange (ETDEWEB)

    Nishiyama, Hidetoshi, E-mail: hinishiy@jeol.co.jp [JEOL Ltd., 3-1-2, Musashino, Akishima, Tokyo 196-8558 (Japan); Koizumi, Mitsuru, E-mail: koizumi@jeol.co.jp [JEOL Technics Ltd., 2-6-38 Musashino, Akishima, Tokyo 196-0021 (Japan); Ogawa, Koji, E-mail: kogawa@jeol.co.jp [JEOL Technics Ltd., 2-6-38 Musashino, Akishima, Tokyo 196-0021 (Japan); Kitamura, Shinich, E-mail: kitamura@jeol.co.jp [JEOL Ltd., 3-1-2, Musashino, Akishima, Tokyo 196-8558 (Japan); Konyuba, Yuji, E-mail: ykonyuub@jeol.co.jp [JEOL Ltd., 3-1-2, Musashino, Akishima, Tokyo 196-8558 (Japan); Watanabe, Yoshiyuki, E-mail: watanabeyoshiy@pref.yamagata.jp [Yamagata Research Institute of Technology, 2-2-1, Matsuei, Yamagata 990-2473 (Japan); Ohbayashi, Norihiko, E-mail: n.ohbayashi@m.tohoku.ac.jp [Laboratory of Membrane Trafficking Mechanisms, Department of Developmental Biology and Neurosciences, Graduate School of Life Sciences, Tohoku University, Aobayama, Aoba-ku, Sendai, Miyagi 980-8578 (Japan); Fukuda, Mitsunori, E-mail: nori@m.tohoku.ac.jp [Laboratory of Membrane Trafficking Mechanisms, Department of Developmental Biology and Neurosciences, Graduate School of Life Sciences, Tohoku University, Aobayama, Aoba-ku, Sendai, Miyagi 980-8578 (Japan); Suga, Mitsuo, E-mail: msuga@jeol.co.jp [JEOL Ltd., 3-1-2, Musashino, Akishima, Tokyo 196-8558 (Japan); Sato, Chikara, E-mail: ti-sato@aist.go.jp [Biomedical Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-4, Umezono, Tsukuba 305-8568 (Japan)

    2014-12-15

    An atmospheric scanning electron microscope (ASEM) with an open sample chamber and optical microscope (OM) is described and recent developments are reported. In this ClairScope system, the base of the open sample dish is sealed to the top of the inverted SEM column, allowing the liquid-immersed sample to be observed by OM from above and by SEM from below. The optical axes of the two microscopes are aligned, ensuring that the same sample areas are imaged to realize quasi-simultaneous correlative microscopy in solution. For example, the cathodoluminescence of ZnO particles was directly demonstrated. The improved system has (i) a fully motorized sample stage, (ii) a column protection system in the case of accidental window breakage, and (iii) an OM/SEM operation system controlled by a graphical user interface. The open sample chamber allows the external administration of reagents during sample observation. We monitored the influence of added NaCl on the random motion of silica particles in liquid. Further, using fluorescence as a transfection marker, the effect of small interfering RNA-mediated knockdown of endogenous Varp on Tyrp1 trafficking in melanocytes was examined. A temperature-regulated titanium ASEM dish allowed the dynamic observation of colloidal silver nanoparticles as they were heated to 240 °C and sintered. - Highlights: • Atmospheric SEM (ASEM) allows observation of samples in liquid or gas. • Open sample chamber allows in situ monitoring of evaporation and sintering processes. • in situ monitoring of processes during reagent administration is also accomplished. • Protection system for film breakage is developed for ASEM. • Usability of ASEM has been improved significantly including GUI control.

  20. Atmospheric scanning electron microscope system with an open sample chamber: Configuration and applications

    International Nuclear Information System (INIS)

    An atmospheric scanning electron microscope (ASEM) with an open sample chamber and optical microscope (OM) is described and recent developments are reported. In this ClairScope system, the base of the open sample dish is sealed to the top of the inverted SEM column, allowing the liquid-immersed sample to be observed by OM from above and by SEM from below. The optical axes of the two microscopes are aligned, ensuring that the same sample areas are imaged to realize quasi-simultaneous correlative microscopy in solution. For example, the cathodoluminescence of ZnO particles was directly demonstrated. The improved system has (i) a fully motorized sample stage, (ii) a column protection system in the case of accidental window breakage, and (iii) an OM/SEM operation system controlled by a graphical user interface. The open sample chamber allows the external administration of reagents during sample observation. We monitored the influence of added NaCl on the random motion of silica particles in liquid. Further, using fluorescence as a transfection marker, the effect of small interfering RNA-mediated knockdown of endogenous Varp on Tyrp1 trafficking in melanocytes was examined. A temperature-regulated titanium ASEM dish allowed the dynamic observation of colloidal silver nanoparticles as they were heated to 240 °C and sintered. - Highlights: • Atmospheric SEM (ASEM) allows observation of samples in liquid or gas. • Open sample chamber allows in situ monitoring of evaporation and sintering processes. • in situ monitoring of processes during reagent administration is also accomplished. • Protection system for film breakage is developed for ASEM. • Usability of ASEM has been improved significantly including GUI control

  1. Design of 240,000 orthogonal 25mer DNA barcode probes

    OpenAIRE

    Xu, Qikai; Schlabach, Michael R.; Hannon, Gregory J.; Elledge, Stephen J.

    2009-01-01

    DNA barcodes linked to genetic features greatly facilitate screening these features in pooled formats using microarray hybridization, and new tools are needed to design large sets of barcodes to allow construction of large barcoded mammalian libraries such as shRNA libraries. Here we report a framework for designing large sets of orthogonal barcode probes. We demonstrate the utility of this framework by designing 240,000 barcode probes and testing their performance by hybridization. From the ...

  2. Next-generation DNA barcoding: using next-generation sequencing to enhance and accelerate DNA barcode capture from single specimens.

    Science.gov (United States)

    Shokralla, Shadi; Gibson, Joel F; Nikbakht, Hamid; Janzen, Daniel H; Hallwachs, Winnie; Hajibabaei, Mehrdad

    2014-09-01

    DNA barcoding is an efficient method to identify specimens and to detect undescribed/cryptic species. Sanger sequencing of individual specimens is the standard approach in generating large-scale DNA barcode libraries and identifying unknowns. However, the Sanger sequencing technology is, in some respects, inferior to next-generation sequencers, which are capable of producing millions of sequence reads simultaneously. Additionally, direct Sanger sequencing of DNA barcode amplicons, as practiced in most DNA barcoding procedures, is hampered by the need for relatively high-target amplicon yield, coamplification of nuclear mitochondrial pseudogenes, confusion with sequences from intracellular endosymbiotic bacteria (e.g. Wolbachia) and instances of intraindividual variability (i.e. heteroplasmy). Any of these situations can lead to failed Sanger sequencing attempts or ambiguity of the generated DNA barcodes. Here, we demonstrate the potential application of next-generation sequencing platforms for parallel acquisition of DNA barcode sequences from hundreds of specimens simultaneously. To facilitate retrieval of sequences obtained from individual specimens, we tag individual specimens during PCR amplification using unique 10-mer oligonucleotides attached to DNA barcoding PCR primers. We employ 454 pyrosequencing to recover full-length DNA barcodes of 190 specimens using 12.5% capacity of a 454 sequencing run (i.e. two lanes of a 16 lane run). We obtained an average of 143 sequence reads for each individual specimen. The sequences produced are full-length DNA barcodes for all but one of the included specimens. In a subset of samples, we also detected Wolbachia, nontarget species, and heteroplasmic sequences. Next-generation sequencing is of great value because of its protocol simplicity, greatly reduced cost per barcode read, faster throughout and added information content.

  3. Identifying Fishes through DNA Barcodes and Microarrays.

    Directory of Open Access Journals (Sweden)

    Marc Kochzius

    Full Text Available BACKGROUND: International fish trade reached an import value of 62.8 billion Euro in 2006, of which 44.6% are covered by the European Union. Species identification is a key problem throughout the life cycle of fishes: from eggs and larvae to adults in fisheries research and control, as well as processed fish products in consumer protection. METHODOLOGY/PRINCIPAL FINDINGS: This study aims to evaluate the applicability of the three mitochondrial genes 16S rRNA (16S, cytochrome b (cyt b, and cytochrome oxidase subunit I (COI for the identification of 50 European marine fish species by combining techniques of "DNA barcoding" and microarrays. In a DNA barcoding approach, neighbour Joining (NJ phylogenetic trees of 369 16S, 212 cyt b, and 447 COI sequences indicated that cyt b and COI are suitable for unambiguous identification, whereas 16S failed to discriminate closely related flatfish and gurnard species. In course of probe design for DNA microarray development, each of the markers yielded a high number of potentially species-specific probes in silico, although many of them were rejected based on microarray hybridisation experiments. None of the markers provided probes to discriminate the sibling flatfish and gurnard species. However, since 16S-probes were less negatively influenced by the "position of label" effect and showed the lowest rejection rate and the highest mean signal intensity, 16S is more suitable for DNA microarray probe design than cty b and COI. The large portion of rejected COI-probes after hybridisation experiments (>90% renders the DNA barcoding marker as rather unsuitable for this high-throughput technology. CONCLUSIONS/SIGNIFICANCE: Based on these data, a DNA microarray containing 64 functional oligonucleotide probes for the identification of 30 out of the 50 fish species investigated was developed. It represents the next step towards an automated and easy-to-handle method to identify fish, ichthyoplankton, and fish products.

  4. A new generation of detectors for scanning x-ray beam imaging systems

    International Nuclear Information System (INIS)

    Scanning x-ray beam imaging systems were first developed by American Science and Engineering, Inc. (AS and E) in the early 1970s [1]. Since then, these systems have found a wide range of applications in security inspection and non-destructive testing. Large-area detectors are most frequently used to collect backscattered radiation but smaller transmission detectors are also employed for selected applications. Until recently, only two basic detector designs have been used: large scintillator blocks with attached photomultiplier tubes (PMTs) or large-volume light-sealed boxes, lined with scintillating screens and port windows for PMTs. In both cases, the detectors have required considerable depth to provide acceptable light collection efficiency. A new design recently developed by AS and E relies on wavelength shifting fibres (WSF) for light collection. For the first time, this approach enables the construction of thin large-area detectors. Stacking layers of WSF ribbons and scintillating screens in varying combinations enables optimization of the detection efficiency for different applications. Taking separate readings from different layers provides an energy-sensitive signal combination. Energy sensitivity can be improved further by adding filtration between the signal channels. Several prototype configurations have been built and characterized for both backscatter and transmission imaging. A WSF-based detector has been commercialized for a transmission x-ray imaging application

  5. THE BUBNOV–GALERKIN PROCEDURE IN PROBLEMS OF MOBILE (SCANNING CONTROL FOR SYSTEMS WITH DISTRIBUTED PARAMETERS

    Directory of Open Access Journals (Sweden)

    Arakelyan Sh. Kh.

    2015-09-01

    Full Text Available We suggest to apply the Bubnov–Galerkin procedure to solve scanning control problems for systems with distributed parameters. The algorithm is described in details for three-dimensional linear heat equation It allows to reduce the solution of control problem to finite-dimensional nonlinear moments problem. The procedure of derivation of moments problem is illustrated in details on the example of one-dimensional equation of thermal conductivity. The solution of obtained moments problem is found in a particular case. Based on obtained results a computer simulation is done using COMSOL Multiphysics platform in one-dimensional case for a rod. The main dependences of control function against input data of the problem are revealed. The state of the rod for several (constant values of the source intensity is expressed in terms of graphs and illustrations. Corresponding illustrations are brought in case of control absence (null-power source for comparison. An effective numerical scheme for solving the obtained system of nonlinear constraints is suggested in the case of extended class of admissible controls. Calculation of control parameters is reduced to the simplest problem of nonlinear programming.

  6. A transcontinental challenge--a test of DNA barcode performance for 1,541 species of Canadian Noctuoidea (Lepidoptera.

    Directory of Open Access Journals (Sweden)

    Reza Zahiri

    Full Text Available This study provides a first, comprehensive, diagnostic use of DNA barcodes for the Canadian fauna of noctuoids or "owlet" moths (Lepidoptera: Noctuoidea based on vouchered records for 1,541 species (99.1% species coverage, and more than 30,000 sequences. When viewed from a Canada-wide perspective, DNA barcodes unambiguously discriminate 90% of the noctuoid species recognized through prior taxonomic study, and resolution reaches 95.6% when considered at a provincial scale. Barcode sharing is concentrated in certain lineages with 54% of the cases involving 1.8% of the genera. Deep intraspecific divergence exists in 7.7% of the species, but further studies are required to clarify whether these cases reflect an overlooked species complex or phylogeographic variation in a single species. Non-native species possess higher Nearest-Neighbour (NN distances than native taxa, whereas generalist feeders have lower NN distances than those with more specialized feeding habits. We found high concordance between taxonomic names and sequence clusters delineated by the Barcode Index Number (BIN system with 1,082 species (70% assigned to a unique BIN. The cases of discordance involve both BIN mergers and BIN splits with 38 species falling into both categories, most likely reflecting bidirectional introgression. One fifth of the species are involved in a BIN merger reflecting the presence of 158 species sharing their barcode sequence with at least one other taxon, and 189 species with low, but diagnostic COI divergence. A very few cases (13 involved species whose members fell into both categories. Most of the remaining 140 species show a split into two or three BINs per species, while Virbia ferruginosa was divided into 16. The overall results confirm that DNA barcodes are effective for the identification of Canadian noctuoids. This study also affirms that BINs are a strong proxy for species, providing a pathway for a rapid, accurate estimation of animal diversity.

  7. DNA Barcode Authentication of Wood Samples of Threatened and Commercial Timber Trees within the Tropical Dry Evergreen Forest of India

    Science.gov (United States)

    Nithaniyal, Stalin; Newmaster, Steven G.; Ragupathy, Subramanyam; Krishnamoorthy, Devanathan; Vassou, Sophie Lorraine; Parani, Madasamy

    2014-01-01

    Background India is rich with biodiversity, which includes a large number of endemic, rare and threatened plant species. Previous studies have used DNA barcoding to inventory species for applications in biodiversity monitoring, conservation impact assessment, monitoring of illegal trading, authentication of traded medicinal plants etc. This is the first tropical dry evergreen forest (TDEF) barcode study in the World and the first attempt to assemble a reference barcode library for the trees of India as part of a larger project initiated by this research group. Methodology/Principal Findings We sampled 429 trees representing 143 tropical dry evergreen forest (TDEF) species, which included 16 threatened species. DNA barcoding was completed using rbcL and matK markers. The tiered approach (1st tier rbcL; 2nd tier matK) correctly identified 136 out of 143 species (95%). This high level of species resolution was largely due to the fact that the tree species were taxonomically diverse in the TDEF. Ability to resolve taxonomically diverse tree species of TDEF was comparable among the best match method, the phylogenetic method, and the characteristic attribute organization system method. Conclusions We demonstrated the utility of the TDEF reference barcode library to authenticate wood samples from timber operations in the TDEF. This pilot research study will enable more comprehensive surveys of the illegal timber trade of threatened species in the TDEF. This TDEF reference barcode library also contains trees that have medicinal properties, which could be used to monitor unsustainable and indiscriminate collection of plants from the wild for their medicinal value. PMID:25259794

  8. DNA barcode authentication of wood samples of threatened and commercial timber trees within the tropical dry evergreen forest of India.

    Directory of Open Access Journals (Sweden)

    Stalin Nithaniyal

    Full Text Available BACKGROUND: India is rich with biodiversity, which includes a large number of endemic, rare and threatened plant species. Previous studies have used DNA barcoding to inventory species for applications in biodiversity monitoring, conservation impact assessment, monitoring of illegal trading, authentication of traded medicinal plants etc. This is the first tropical dry evergreen forest (TDEF barcode study in the World and the first attempt to assemble a reference barcode library for the trees of India as part of a larger project initiated by this research group. METHODOLOGY/PRINCIPAL FINDINGS: We sampled 429 trees representing 143 tropical dry evergreen forest (TDEF species, which included 16 threatened species. DNA barcoding was completed using rbcL and matK markers. The tiered approach (1st tier rbcL; 2nd tier matK correctly identified 136 out of 143 species (95%. This high level of species resolution was largely due to the fact that the tree species were taxonomically diverse in the TDEF. Ability to resolve taxonomically diverse tree species of TDEF was comparable among the best match method, the phylogenetic method, and the characteristic attribute organization system method. CONCLUSIONS: We demonstrated the utility of the TDEF reference barcode library to authenticate wood samples from timber operations in the TDEF. This pilot research study will enable more comprehensive surveys of the illegal timber trade of threatened species in the TDEF. This TDEF reference barcode library also contains trees that have medicinal properties, which could be used to monitor unsustainable and indiscriminate collection of plants from the wild for their medicinal value.

  9. Surface scanning inspection system particle detection dependence on aluminum film morphology

    Science.gov (United States)

    Prater, Walter; Tran, Natalie; McGarvey, Steve

    2012-03-01

    Physical vapor deposition (PVD) aluminum films present unique challenges when detecting particulate defects with a Surface Scanning Inspection System (SSIS). Aluminum (Al) films 4500Å thick were deposited on 300mm particle grade bare Si wafers at two temperatures using a Novellus Systems INOVA® NExT,.. Film surface roughness and morphology measurements were performed using a Veeco Vx310® atomic force microscope (AFM). AFM characterization found the high deposition temperature (TD) Al roughness (Root Mean Square 16.5 nm) to be five-times rougher than the low-TD Al roughness (rms 3.7 nm). High-TD Al had grooves at the grain boundaries that were measured to be 20 to 80 nm deep. Scanning electron microscopy (SEM) examination, with a Hitachi RS6000 defect review SEM, confirmed the presence of pronounced grain grooves. SEM images established that the low-TD filmed wafers have fine grains (0.1 to 0.3 um diameter) and the high-TD film wafers have fifty-times larger equiaxed plateletshape grains (5 to 15 um diameter). Calibrated Poly-Styrene Latex (PSL) spheres ranging in size from 90 nm to 1 μm were deposited in circular patterns on the wafers using an aerosol deposition chamber. PSL sphere depositions at each spot were controlled to yield 2000 to 5000 counts. A Hitachi LS9100® dark field full wafer SSIS was used to experimentally determine the relationship of the PSL sphere scattered light intensity with S-polarized light, a measure of scattering cross-section, with respect to the calibrated PSL sphere diameter. Comparison of the SSIS scattered light versus PSL spot size calibration curves shows two distinct differences. Scattering cross-section (intensity) of the PSL spheres increased on the low-TD Al film with smooth surface roughness and the low-TD Al film defect detection sensitivity was 126 nm compared to 200 nm for the rougher high- TD Al film. This can be explained by the higher signal to noise attributed to the smooth low-TD Al. Dark field defect detection on

  10. Development, Calibration and Evaluation of a Portable and Direct Georeferenced Laser Scanning System for Kinematic 3D Mapping

    Science.gov (United States)

    Heinz, Erik; Eling, Christian; Wieland, Markus; Klingbeil, Lasse; Kuhlmann, Heiner

    2015-12-01

    In recent years, kinematic laser scanning has become increasingly popular because it offers many benefits compared to static laser scanning. The advantages include both saving of time in the georeferencing and a more favorable scanning geometry. Often mobile laser scanning systems are installed on wheeled platforms, which may not reach all parts of the object. Hence, there is an interest in the development of portable systems, which remain operational even in inaccessible areas. The development of such a portable laser scanning system is presented in this paper. It consists of a lightweight direct georeferencing unit for the position and attitude determination and a small low-cost 2D laser scanner. This setup provides advantages over existing portable systems that employ heavy and expensive 3D laser scanners in a profiling mode. A special emphasis is placed on the system calibration, i. e. the determination of the transformation between the coordinate frames of the direct georeferencing unit and the 2D laser scanner. To this end, a calibration field is used, which consists of differently orientated georeferenced planar surfaces, leading to estimates for the lever arms and boresight angles with an accuracy of mm and one-tenth of a degree. Finally, point clouds of the mobile laser scanning system are compared with georeferenced point clouds of a high-precision 3D laser scanner. Accordingly, the accuracy of the system is in the order of cm to dm. This is in good agreement with the expected accuracy, which has been derived from the error propagation of previously estimated variance components.

  11. Nuclear Scans

    Science.gov (United States)

    Nuclear scans use radioactive substances to see structures and functions inside your body. They use a special ... images. Most scans take 20 to 45 minutes. Nuclear scans can help doctors diagnose many conditions, including ...

  12. FLEXBAR—Flexible Barcode and Adapter Processing for Next-Generation Sequencing Platforms

    OpenAIRE

    Matthias Dodt; Roehr, Johannes T.; Rina Ahmed; Christoph Dieterich

    2012-01-01

    Quantitative and systems biology approaches benefit from the unprecedented depth of next-generation sequencing. A typical experiment yields millions of short reads, which oftentimes carry particular sequence tags. These tags may be: (a) specific to the sequencing platform and library construction method (e.g., adapter sequences); (b) have been introduced by experimental design (e.g., sample barcodes); or (c) constitute some biological signal (e.g., splice leader sequences in nematodes). Our s...

  13. Current Progress of DNA Barcoding%DNA条形码研究进展

    Institute of Scientific and Technical Information of China (English)

    程希婷; 王爱民; 顾志峰; 王嫣; 战欣; 石耀华

    2011-01-01

    DNA barcoding is a new life identification system which can distinguish species rapidly and accurately by analyzing standard short DNA sequences with enough variation. In 2003, the concept of DNA barcoding was formally proposed by Hebert and his colleagues, Canada biologists from University of Guelph. In 2004, Consortium for the Barcode of Life (CBOL) was subsequently constructed. There are more than 200 group members from 50 different countries in CBOL. The first DNA barcode identifying center came into existence in the University of Guelph in May, 2007. In January, 2009, International Barcode of Life (iBOL) was started up. Chinese Academy of Sciences, deputy of China, was one of four subcenter of iBOL, the same as others in Canda, USA and European Union. Mitochondrion cytochrome c oxidase subunit I (CO I ) was ideal DNA barcoding sequence for animal because of its various advantages, such as high primer universality and evolutionary rate. However, CO I was not so good DNA barcoding in plant as in animal. Thus, ribosome Internal Transcribed Spacer (ITS) and plastid rbcL, matK, trnH-psbA sequences were used as DNA barcoding in plant studying. Although it is on the initial phase for DNA barcoding, facing great challenge, more and more studies showed that DNA barcoding can be widely used in life taxonomy and identification. DNA barcoding, a simple effective accurate species identification method, is now one of the fastest development discipline hot in biological study. Here, in order to promote develonment of Chinese study in DNA barcoding and taxonomy, we introduced DNA barcoding screening, application,present studying status in China, challenges and future prospects for DNA barcoding development.%DNA条形码是应用有足够变异的标准化短基因片段对物种进行快速、准确鉴定的新的生物身份识别系统。2003年,加拿大Guelph大学Hebert等首次正式提出了DNA条形码概念,2004年成立了生物条形

  14. Current Progress of DNA Barcoding%DNA条形码研究进展

    Institute of Scientific and Technical Information of China (English)

    程希婷; 王爱民; 顾志峰; 王嫣; 战欣; 石耀华

    2011-01-01

    DNA barcoding is a new life identification system which can distinguish species rapidly and accurately by analyzing standard short DNA sequences with enough variation. In 2003, the concept of DNA barcoding was formally proposed by Hebert and his colleagues, Canada biologists from University of Guelph. In 2004, Consortium for the Barcode of Life (CBOL) was subsequently constructed. There are more than 200 group members from 50 different countries in CBOL. The first DNA barcode identifying center came into existence in the University of Guelph in May, 2007. In January, 2009, International Barcode of Life (iBOL) was started up. Chinese Academy of Sciences, deputy of China, was one of four subcenter of iBOL, the same as others in Canda, USA and European Union. Mitochondrion cytochrome c oxidase subunit I (CO I ) was ideal DNA barcoding sequence for animal because of its various advantages, such as high primer universality and evolutionary rate. However, CO I was not so good DNA barcoding in plant as in animal. Thus, ribosome Internal Transcribed Spacer (ITS) and plastid rb-cL, matK, trnH-psbA sequences were used as DNA barcoding in plant studying. Although it is on the initial phase for DNA barcoding, facing great challenge, more and more studies showed that DNA barcoding can be widely used in life taxonomy and identification. DNA barcoding, a simple effective accurate species identification method, is now one of the fastest development discipline hot in biological study. Here, in order to promote development of Chinese study in DNA barcoding and taxonomy, we introduced DNA barcoding screening, application,present studying status in China, challenges and future prospects for DNA barcoding development.%DNA条形码是应用有足够变异的标准化短基因片段对物种进行快速、准确鉴定的新的生物身份识别系统.2003年,加拿大Guelph大学Hebert等首次正式提出了DNA条形码概念,2004年成立了生物条形码联盟,目前有来自50个

  15. Mobile gamma-ray scanning system for detecting radiation anomalies associated with 226Ra-bearing materials

    International Nuclear Information System (INIS)

    A mobile gamma-ray scanning system has been developed by Oak Ridge National Laboratory for use in the Department of Energy's remedial action survey programs. The unit consists of a NaI(T1) detection system housed in a specially-equipped van. The system is operator controlled through an on-board mini-computer, with data output provided on the computer video screen, strip chart recorders, and an on-line printer. Data storage is provided by a floppy disk system. Multichannel analysis capabilities are included for qualitative radionuclide identification. A 226Ra-specific algorithm is employed to identify locations containing residual radium-bearing materials. This report presents the details of the system description, software development, and scanning methods utilized with the ORNL system. Laboratory calibration and field testing have established the system sensitivity, field of view, and other performance characteristics, the results of which are also presented. Documentation of the instrumentation and computer programs are included

  16. Environmental barcoding reveals massive dinoflagellate diversity in marine environments.

    Directory of Open Access Journals (Sweden)

    Rowena F Stern

    Full Text Available BACKGROUND: Dinoflagellates are an ecologically important group of protists with important functions as primary producers, coral symbionts and in toxic red tides. Although widely studied, the natural diversity of dinoflagellates is not well known. DNA barcoding has been utilized successfully for many protist groups. We used this approach to systematically sample known "species", as a reference to measure the natural diversity in three marine environments. METHODOLOGY/PRINCIPAL FINDINGS: In this study, we assembled a large cytochrome c oxidase 1 (COI barcode database from 8 public algal culture collections plus 3 private collections worldwide resulting in 336 individual barcodes linked to specific cultures. We demonstrate that COI can identify to the species level in 15 dinoflagellate genera, generally in agreement with existing species names. Exceptions were found in species belonging to genera that were generally already known to be taxonomically challenging, such as Alexandrium or Symbiodinium. Using this barcode database as a baseline for cultured dinoflagellate diversity, we investigated the natural diversity in three diverse marine environments (Northeast Pacific, Northwest Atlantic, and Caribbean, including an evaluation of single-cell barcoding to identify uncultivated groups. From all three environments, the great majority of barcodes were not represented by any known cultured dinoflagellate, and we also observed an explosion in the diversity of genera that previously contained a modest number of known species, belonging to Kareniaceae. In total, 91.5% of non-identical environmental barcodes represent distinct species, but only 51 out of 603 unique environmental barcodes could be linked to cultured species using a conservative cut-off based on distances between cultured species. CONCLUSIONS/SIGNIFICANCE: COI barcoding was successful in identifying species from 70% of cultured genera. When applied to environmental samples, it revealed a

  17. INS/GPS/LiDAR Integrated Navigation System for Urban and Indoor Environments Using Hybrid Scan Matching Algorithm

    Directory of Open Access Journals (Sweden)

    Yanbin Gao

    2015-09-01

    Full Text Available This paper takes advantage of the complementary characteristics of Global Positioning System (GPS and Light Detection and Ranging (LiDAR to provide periodic corrections to Inertial Navigation System (INS alternatively in different environmental conditions. In open sky, where GPS signals are available and LiDAR measurements are sparse, GPS is integrated with INS. Meanwhile, in confined outdoor environments and indoors, where GPS is unreliable or unavailable and LiDAR measurements are rich, LiDAR replaces GPS to integrate with INS. This paper also proposes an innovative hybrid scan matching algorithm that combines the feature-based scan matching method and Iterative Closest Point (ICP based scan matching method. The algorithm can work and transit between two modes depending on the number of matched line features over two scans, thus achieving efficiency and robustness concurrently. Two integration schemes of INS and LiDAR with hybrid scan matching algorithm are implemented and compared. Real experiments are performed on an Unmanned Ground Vehicle (UGV for both outdoor and indoor environments. Experimental results show that the multi-sensor integrated system can remain sub-meter navigation accuracy during the whole trajectory.

  18. 3D Body Scanning Measurement System Associated with RF Imaging, Zero-padding and Parallel Processing

    Directory of Open Access Journals (Sweden)

    Kim Hyung Tae

    2016-04-01

    Full Text Available This work presents a novel signal processing method for high-speed 3D body measurements using millimeter waves with a general processing unit (GPU and zero-padding fast Fourier transform (ZPFFT. The proposed measurement system consists of a radio-frequency (RF antenna array for a penetrable measurement, a high-speed analog-to-digital converter (ADC for significant data acquisition, and a general processing unit for fast signal processing. The RF waves of the transmitter and the receiver are converted to real and imaginary signals that are sampled by a high-speed ADC and synchronized with the kinematic positions of the scanner. Because the distance between the surface and the antenna is related to the peak frequency of the conjugate signals, a fast Fourier transform (FFT is applied to the signal processing after the sampling. The sampling time is finite owing to a short scanning time, and the physical resolution needs to be increased; further, zero-padding is applied to interpolate the spectra of the sampled signals to consider a 1/m floating point frequency. The GPU and parallel algorithm are applied to accelerate the speed of the ZPFFT because of the large number of additional mathematical operations of the ZPFFT. 3D body images are finally obtained by spectrograms that are the arrangement of the ZPFFT in a 3D space.

  19. Feasibility of fiber optic displacement sensor scanning system for imaging of dental cavity

    Science.gov (United States)

    Rahman, Husna Abdul; Che Ani, Adi Izhar; Harun, Sulaiman Wadi; Yasin, Moh.; Apsari, Retna; Ahmad, Harith

    2012-07-01

    The purpose of this study is to investigate the potential of intensity modulated fiber optic displacement sensor scanning system for the imaging of dental cavity. Here, we discuss our preliminary results in the imaging of cavities on various teeth surfaces, as well as measurement of the diameter of the cavities which are represented by drilled holes on the teeth surfaces. Based on the analysis of displacement measurement, the sensitivities and linear range for the molar, canine, hybrid composite resin, and acrylic surfaces are obtained at 0.09667 mV/mm and 0.45 mm 0.775 mV/mm and 0.4 mm 0.5109 mV/mm and 0.5 mm and 0.25 mV/mm and 0.5 mm, respectively, with a good linearity of more than 99%. The results also show a clear distinction between the cavity and surrounding tooth region. The stability, simplicity of design, and low cost of fabrication make it suitable for restorative dentistry.

  20. Exposure of 895i resist using a vector scan Gaussian electron-beam lithography system

    Science.gov (United States)

    Kugelmass, Sheldon M.; Mitchell, Joseph; Poreda, John T.

    1996-07-01

    A positive tone, optical resist, OCG 895i, was exposed using the Lepton EBES4, a vector scan Gaussian electron beam lithography system. Proximity Effect Corrections (PEC) were applied via dose modulation on a figure-by-figure basis at write time. Test patterns were corrected using a simple "framing" technique that is the first step in a phased implementation of a complete PEC solution. Figures were separated into bulk and frame regions, with different doses being applied to each. The corrected pattern was exposed in a single pass using a single pattern file. The mask lithography quality of these exposures was evaluated by measurement of CD Linearity, Line Edge Roughness and CD X-Y Bias. A throughput study was conducted to determine the impact of using lower sensitivity resists on mask write times. A series of test jobs was written at conditions consistent with exposure doses of 2 and 8 μC/cm2. This 4X dose increase resulted in a write times that were only 1 .5X longer. A 64 MBit DRAM pattern, prepared with framing, with 50 nm address was exposed at 8 μC/cm2 in 3 hr 35 min.

  1. State of the art of 3D scanning systems and inspection of textile surfaces

    Science.gov (United States)

    Montilla, M.; Orjuela-Vargas, S. A.; Philips, W.

    2014-02-01

    The rapid development of hardware and software in the digital image processing field has boosted research in computer vision for applications in industry. The development of new electronic devices and the tendency to decrease their prices makes possible new developments that few decades ago were possible only in the imagination. This is the case of 3D imaging technology which permits to detect failures in industrial products by inspecting aspects on their 3D surface. In search of an optimal solution for scanning textiles we present in this paper a review of existing techniques for digitizing 3D surfaces. Topographic details of textiles can be obtained by digitizing surfaces using laser line triangulation, phase shifting optical triangulation, projected-light, stereo-vision systems and silhouette analysis. Although we are focused on methods that have been used in the textile industry, we also consider potential mechanisms used for other applications. We discuss the advantages and disadvantages of the evaluated methods and state a summary of potential implementations for the textile industry.

  2. Application of chemometric methods to differential scanning calorimeter (DSC) to estimate nimodipine polymorphs from cosolvent system.

    Science.gov (United States)

    Siddiqui, Akhtar; Rahman, Ziyaur; Khan, Mansoor A

    2015-06-01

    The focus of this study was to evaluate the applicability of chemometrics to differential scanning calorimetry data (DSC) to evaluate nimodipine polymorphs. Multivariate calibration models were built using DSC data from known mixtures of the nimodipine modification. The linear baseline correction treatment of data was used to reduce dispersion in thermograms. Principal component analysis of the treated and untreated data explained 96% and 89% of the data variability, respectively. Score and loading plots correlated variability between samples with change in proportion of nimodipine modifications. The R(2) for principal component regression (PCR) and partial lease square regression (PLS) were found to be 0.91 and 0.92. The root mean square of standard error of the treated samples for calibration and validation in PCR and PLS was found to be lower than the untreated sample. These models were applied to samples recrystallized from a cosolvent system, which indicated different proportion of modifications in the mixtures than those obtained by placing samples under different storage conditions. The model was able to predict the nimodipine modifications with known margin of error. Therefore, these models can be used as a quality control tool to expediently determine the nimodipine modification in an unknown mixture.

  3. Quantitative analysis of CT scan in degenerative diseases of the nervous system

    International Nuclear Information System (INIS)

    Quantitative analysis was made on cranial CT scans of 142 patients with spinocerebellar degeneration (SCD), 16 with dentato-rubro-pallido-luysian atrophy (DRPLA), 12 with Huntington's chorea (HC), and four with chorea-acanthocytosis (CA). One hundred sex- and age-matched persons without any neurologic signs served as controls. Regarding parameters for atrophy in the infratentorial brain tissue, there was statistically significant difference between the SCD group and the control group. This indicated remarkable atrophy in the cerebellum and brain stem in SCD. According to subgroups of SCD, both bilateral atrophy of the pons and dilation of the prepontine cistern were significantly greater in the group of sporadic olivo-ponto-cerebellar atrophy than the group of Menzel type of olivo-ponto-cerebellar atrophy. The subgroup of hereditary spastic paraplegia had the mildest atrophy of the brain on CT, although there was still a significant atrophy compared with controls. In the DRPLA group, finding in the infratentorial brain tissue were similar to those in the SCD group. The HC group was characterized by having the greatest atrophy in the lateral ventricle, especially the caudate nuclei. Similar findings were seen in the CA group, although atrophy was generally mild. The results indicate the usefulness of quantitative analysis on CT in the diagnosis of degenerative diseases of the nervous system. (Namekawa, K.)

  4. a Feasibility Study on Use of Generic Mobile Laser Scanning System for Detecting Asphalt Pavement Cracks

    Science.gov (United States)

    Chen, Xinqu; Li, Jonathan

    2016-06-01

    This study aims to automatically detect pavement cracks on urban roads by employing the 3D point clouds acquired by a mobile laser scanning (MLS) system. Our method consists of four steps: ground point filtering, high-pass convolution, matched filtering, and noise removal. First, a voxel-based upward growing method is applied to construct Digital Terrain Model (DTM) of the road surface. Then, a high-pass filter convolutes the DTM to detect local elevation changes that may embed cracking information. Next, a two-step matched filter is applied to extract crack features. Lastly, a noise removal process is conducted to refine the results. Instead of using MLS intensity, this study takes advantages of the MLS elevation information to perform automated crack detection from large-volume, mixed-density, unstructured MLS point clouds. Four types of cracks including longitudinal, transvers, random, and alligator cracks are detected. Our results demonstrated that the proposed method works well with the RIEGL VMX-450 point clouds and can detect cracks in moderate-to-severe severity (13 - 25 mm) within a 200 m by 30 m urban road segment located in Kingston, Ontario, at one time. Due to the resolution capability, small cracks with slight severity remain unclear in the MLS point cloud.

  5. Robust dead reckoning system for mobile robots based on particle filter and raw range scan.

    Science.gov (United States)

    Duan, Zhuohua; Cai, Zixing; Min, Huaqing

    2014-09-04

    Robust dead reckoning is a complicated problem for wheeled mobile robots (WMRs), where the robots are faulty, such as the sticking of sensors or the slippage of wheels, for the discrete fault models and the continuous states have to be estimated simultaneously to reach a reliable fault diagnosis and accurate dead reckoning. Particle filters are one of the most promising approaches to handle hybrid system estimation problems, and they have also been widely used in many WMRs applications, such as pose tracking, SLAM, video tracking, fault identification, etc. In this paper, the readings of a laser range finder, which may be also interfered with by noises, are used to reach accurate dead reckoning. The main contribution is that a systematic method to implement fault diagnosis and dead reckoning in a particle filter framework concurrently is proposed. Firstly, the perception model of a laser range finder is given, where the raw scan may be faulty. Secondly, the kinematics of the normal model and different fault models for WMRs are given. Thirdly, the particle filter for fault diagnosis and dead reckoning is discussed. At last, experiments and analyses are reported to show the accuracy and efficiency of the presented method.

  6. Cosmetic and aesthetic skin photosurgery using a computer-assisted CO2 laser-scanning system

    Science.gov (United States)

    Dutu, Doru C. A.; Dumitras, Dan C.; Nedelcu, Ioan; Ghetie, Sergiu D.

    1997-12-01

    Since the first application of CO2 laser in skin photosurgery, various techniques such as laser pulsing, beam scanning and computer-assisted laser pulse generator have been introduced for the purpose of reducing tissue carbonization and thermal necrosis. Using a quite simple XY optical scanner equipped with two galvanometric driven mirrors and an appropriate software to process the scanning data and control the interaction time and energy density in the scanned area, we have obtained a device which can improve CO2 laser application in cosmetic and aesthetic surgery. The opto-mechanical CO2 laser scanner based on two total reflecting flat mirrors placed at 90 degree(s) in respect to the XY scanning directions and independently driven through a magnetic field provides a linear movement of the incident laser beam in the operating field. A DA converter supplied with scanning data by the software enables a scanning with linearity better than 1% for a maximum angular deviation of 20 degree(s). Because the scanning quality of the laser beam in the operating field is given not only by the displacement function of the two mirrors, but also by the beam characteristics in the focal plane and the cross distribution in the laser beam, the surgeon can control through software either the scanning field dimensions or the distance between two consecutive points of the vertically and/or horizontally sweep line. The development of computer-assisted surgical scanning techniques will help control the surgical laser, to create either a reproducible incision with a controlled depth or a controlled incision pattern with minimal incision width, a long desired facility for plastic surgery, neurosurgery, ENT and dentistry.

  7. Computer-assisted evaluation of pulmonary emphysema in CT scans: comparison between a locally developed system and a freeware system

    International Nuclear Information System (INIS)

    Objective: to present a locally developed system of computer vision for use with HRCT images, designated SIStema para a Deteccao e a quantificacao de Enfisema Pulmonar (SISDEP, System to Detect and Quantify Pulmonary Emphysema), and to compare this system with a free ware system tool. Methods: thirty-three HRCT images scanned at the apex, hilum and base of the lungs of 11 patients with COPD were analyzed. The SISDEP was compared with the Osiris Medical Imaging Software Program regarding lung parenchyma segmentation, precision of the measurement of the cross-sectional area of the lungs in mm2, mean lung density (MLD), relative area (RA) of the lung occupied by voxels with attenuation values 2 = 0.99, 0.99, 0.99 and 1.00, respectively). The color mask tool of the SISDEP allowed excellent visualization of hyper inflated areas, discriminating them from normal areas. Conclusions: the SISDEP was efficient in segmenting the lungs and quantifying lung hyper inflation, presenting an excellent correlation with the Osiris system. The SISDEP constitutes a promising computational tool for diagnosing and assessing the progression of emphysema in HRCT images of COPD patients. (author)

  8. BEST: Barcode Enabled Sequencing of Tetrads

    Science.gov (United States)

    Scott, Adrian C.; Ludlow, Catherine L.; Cromie, Gareth A.; Dudley, Aimée M.

    2014-01-01

    Tetrad analysis is a valuable tool for yeast genetics, but the laborious manual nature of the process has hindered its application on large scales. Barcode Enabled Sequencing of Tetrads (BEST)1 replaces the manual processes of isolating, disrupting and spacing tetrads. BEST isolates tetrads by virtue of a sporulation-specific GFP fusion protein that permits fluorescence-activated cell sorting of tetrads directly onto agar plates, where the ascus is enzymatically digested and the spores are disrupted and randomly arrayed by glass bead plating. The haploid colonies are then assigned sister spore relationships, i.e. information about which spores originated from the same tetrad, using molecular barcodes read during genotyping. By removing the bottleneck of manual dissection, hundreds or even thousands of tetrads can be isolated in minutes. Here we present a detailed description of the experimental procedures required to perform BEST in the yeast Saccharomyces cerevisiae, starting with a heterozygous diploid strain through the isolation of colonies derived from the haploid meiotic progeny. PMID:24836713

  9. Spatial scan double crystal monochromator for JET (diagnostic system KS2)

    International Nuclear Information System (INIS)

    The spatial dependence of the main impurity concentrations of the JET plasma can be determined by absolute radiation measurements in a wide spectral range using a double crystal monochromator device, which enables spatial scan over the minor plasma radius during a time interval short compared to the plasma energy confinement time. The report describes the engineering design and tests for a spatial scan double crystal spectrometer that fulfills the conditions of crystal orientation according to the Bragg condition, of continuous spatial scanning using a swivel motion around the axis defined by the two crystal centres and of operating during the hydrogen and the deuterium experimental phases of JET. (orig.)

  10. DNA Barcode Authentication of Saw Palmetto Herbal Dietary Supplements

    OpenAIRE

    Little, Damon P.; Jeanson, Marc L.

    2013-01-01

    Herbal dietary supplements made from saw palmetto (Serenoa repens; Arecaceae) fruit are commonly consumed to ameliorate benign prostate hyperplasia. A novel DNA mini–barcode assay to accurately identify [specificity = 1.00 (95% confidence interval = 0.74–1.00); sensitivity = 1.00 (95% confidence interval = 0.66–1.00); n = 31] saw palmetto dietary supplements was designed from a DNA barcode reference library created for this purpose. The mini–barcodes were used to estimate the frequency of mis...

  11. Design and operation of gamma scan and fission gas sampling systems for characterization of irradiated commercial nuclear fuel

    International Nuclear Information System (INIS)

    One of the primary objectives of the Materials Characterization Center (MCC) is to acquire and characterize spent fuels used in waste form testing related to nuclear waste disposal. The initial steps in the characterization of a fuel rod consist of gamma scanning the rod and sampling the gas contained in the fuel rod (referred to as fission gas sampling). The gamma scan and fission gas sampling systems used by the MCC are adaptable to a wide range of fuel types and have been successfully used to characterize both boiling water reactor (BWR) and pressurized water reactor (PWR) fuel rods. This report describes the design and operation of systems used to gamma scan and fission gas sample full-length PWR and BWR fuel rods. 1 ref., 10 figs., 1 tab

  12. Design and operation of gamma scan and fission gas sampling systems for characterization of irradiated commercial nuclear fuel

    Energy Technology Data Exchange (ETDEWEB)

    Knox, C.A.; Thornhill, R.E.; Mellinger, G.B.

    1989-09-01

    One of the primary objectives of the Materials Characterization Center (MCC) is to acquire and characterize spent fuels used in waste form testing related to nuclear waste disposal. The initial steps in the characterization of a fuel rod consist of gamma scanning the rod and sampling the gas contained in the fuel rod (referred to as fission gas sampling). The gamma scan and fission gas sampling systems used by the MCC are adaptable to a wide range of fuel types and have been successfully used to characterize both boiling water reactor (BWR) and pressurized water reactor (PWR) fuel rods. This report describes the design and operation of systems used to gamma scan and fission gas sample full-length PWR and BWR fuel rods. 1 ref., 10 figs., 1 tab.

  13. Geometrical correction of the e-beam proximity effect for raster scan systems

    Science.gov (United States)

    Belic, Nikola; Eisenmann, Hans; Hartmann, Hans; Waas, Thomas

    1999-06-01

    Increasing demands on pattern fidelity and CD accuracy in e- beam lithography require a correction of the e-beam proximity effect. The new needs are mainly coming from OPC at mask level and x-ray lithography. The e-beam proximity limits the achievable resolution and affects neighboring structures causing under- or over-exposion depending on the local pattern densities and process settings. Methods to compensate for this unequilibrated does distribution usually use a dose modulation or multiple passes. In general raster scan systems are not able to apply variable doses in order to compensate for the proximity effect. For system of this kind a geometrical modulation of the original pattern offers a solution for compensation of line edge deviations due to the proximity effect. In this paper a new method for the fast correction of the e-beam proximity effect via geometrical pattern optimization is described. The method consists of two steps. In a first step the pattern dependent dose distribution caused by back scattering is calculated by convolution of the pattern with the long range part of the proximity function. The restriction to the long range part result in a quadratic sped gain in computing time for the transformation. The influence of the short range part coming from forward scattering is not pattern dependent and can therefore be determined separately in a second step. The second calculation yields the dose curve at the border of a written structure. The finite gradient of this curve leads to an edge displacement depending on the amount of underground dosage at the observed position which was previously determined in the pattern dependent step. This unintended edge displacement is corrected by splitting the line into segments and shifting them by multiples of the writers address grid to the opposite direction.

  14. Review: two-photon scanning systems for clinical high resolution in vivo tissue imaging

    Science.gov (United States)

    König, K.; Müller, J.; Höfer, M.; Müller, C.; Weinigel, M.; Bückle, R.; Elsner, P.; Kaatz, M.; Messerschmidt, B.

    2008-02-01

    The femtosecond laser multiphoton tomograph DermaInspect as well as high NA two-photon GRIN microendoscopes for in vivo tomography of human skin have been used to detect malignant melanoma as well as to study the diffusion and intradermal accumulation of topically applied cosmetical and pharmaceutical components. So far, more than 500 patients and volunteers in Europe, Australia, and Asia have been investigated with this unique tomograph. Near infrared 80 MHz picojoule femtosecond laser pulses were employed to excite endogenous fluorophores such as NAD(P)H, flavoproteins, melanin, and elastin as well as fluorescent components of a variety of ointments via a twophoton excitation process. In addition, collagen has been imaged by second harmonic generation. Using a two-PMT detection system, the ratio of elastin to collagen was determined during optical sectioning. A high submicron spatial resolution and 50 picosecond temporal resolution was achieved using galvoscan mirrors and piezodriven focusing optics as well as a time-correlated single photon counting module with a fast microchannel plate detector and fast photomultipliers. Individual intratissue cells, mitochondria, melanosomes, and the morphology of the nuclei as well as extracellular matrix elements could be clearly visualized due to molecular imaging and the calculation of fluorescence lifetime images. Nanoparticles and intratissue drugs have been detected non-invasively, in situ and over a period of up to 3 months. In addition, hydration effects and UV effects were studied by monitoring modifications of cellular morphology and autofluorescence. The system was used to observe the diffusion through the stratum corneum and the accumulation and release of functionalized nanoparticles along hair shafts and epidermal ridges. The DermaInspect been also employed to gain information on skin age and wound healing in patients with ulcers. Novel developments include a galvo/piezo-scan driven flexible articulated arm as

  15. Equivalente esférico e valores da espessura da camada de fibras nervosas obtidas com o GDX TM Scanning Laser System® Spherical equivalent and nerve fiber layer thickness assessed with GDX TM Scanning Laser System®

    Directory of Open Access Journals (Sweden)

    Lênio Souza Alvarenga

    1999-12-01

    Full Text Available Objetivo: Estudar a influência do equivalente esférico nos valores obtidos pelo GDX TM Scanning Laser System®. Métodos: Foram avaliados 41 olhos de 41 voluntários sem doenças oculares e com campo visual sem alterações. Foi realizada a polarimetria de varredura a laser com o GDX TM Scanning Laser System® de acordo com as instruções contidas no manual do aparelho. Foram comparados os valores obtidos nesse exame em um grupo de pacientes com equivalente esférico positivo e em um outro com este valor nulo ou negativo, pelo teste de Mann-Whitney. Resultados: Não se verificou diferença estatística entre os valores obtidos nos olhos de pacientes do grupo I e os do grupo II. Não foi encontrada correlação entre o equivalente esférico e os valores obtidos com o GDX TM Scanning Laser System®. Conclusões: Na amostra estudada não houve diferença estatística entre os valores obtidos em um grupo de olhos com equivalente esférico positivo e outro com este valor negativo ou nulo, usando-se o GDX TM Scanning Laser System®.Purpose: To evaluate the effect of spherical equivalent on the acquisition of nerve fiber layer (NFL thickness with GDX TM Scanning Laser System®. Methods: Forty-one eyes of 41 volunteers were enrolled in this study. All of them presented with no ocular disease and no visual field defect. The NFL thickness was measured with GDX TM Scanning Laser System® as described in its manual. The values obtained in a group of volunteers with negative spherical equivalent (group I were compared to those from a group with a positive spherical equivalent (group II by the Mann-Whitney test. Results: There was no statistical difference between mea-surements in eyes of group I and those in group II. The NFL thickness measurements were not correlated with the sphe-rical equivalent. Conclusions: In the studied group there was no statistical difference in the GDX TM Scanning Laser System® parameters related to spherical equivalent.

  16. An automatic scanning method for high throughput microscopic system to facilitate medical genetic diagnosis: an initial study

    Science.gov (United States)

    Qiu, Yuchen; Chen, Xiaodong; Li, Zheng; Li, Yuhua; Chen, Wei R.; Zheng, Bin; Li, Shibo; Liu, Hong

    2012-03-01

    The purpose of this paper is to report a new automatic scanning scheme for high throughput microscopic systems aiming to facilitate disease diagnosis in genetic laboratories. To minimize the impact of the random vibration and mechanical drifting of the scanning stage in microscopic image acquisition, auto-focusing operations are usually applied repeatedly during the scanning process. Such methods ensure the acquisition of well focused images for clinical diagnosis, but are time consuming. The technique investigated in this preliminary study applies the auto-focusing operations at a limited number of locations on the slide. For the rest of the imaging field, the focusing position is quickly adjusted through linear interpolation. In this initial validation study, blood pathological slides containing both metaphase and interphase cells are scanned. For a selected area of 6.9mm×6.9mm, a number of 2×2, 3×2, 3×3, and 4×4 positions are evenly sampled for auto-focusing operations. Respectively, 25, 29, 40, and 41 clinically meaningful cells are identified for each sampling scheme. For the specific case investigated, the results demonstrate that the 4 position auto-focusing scheme could obtain the adequate number of clinically meaningful cells for the diagnosis. The schemes with more auto-focusing operations provide an option for high reliability diagnosis when clinically necessary. More comprehensive research is planned, and that may lead to optimal design of trade-off for developing the scanning scheme of the high throughput microscopic systems.

  17. The Pervasive Fridge. A smart computer system against uneaten food loss

    OpenAIRE

    Rouillard, José

    2012-01-01

    International audience Food waste or food loss is food that is discarded or lost uneaten. The work presented in this paper is related to our researches in the field of pervasive and ubiquitous computing. Our "Pervasive Fridge" prototype allows users to be notified proactively, when a food arrives to its expiration date. Speech and image recognition are also integrated in our prototype. This system combines various resources in order to scan barcode, identify and store data related to produ...

  18. Computer-assisted evaluation of pulmonary emphysema in CT scans: comparison between a locally developed system and a freeware system

    Energy Technology Data Exchange (ETDEWEB)

    Felix, John Hebert da Silva; Cortez, Paulo Cesar; Costa, Rodrigo Carvalho Sousa [Federal University of Ceara (UFC), Fortaleza, CE (Brazil). Dept. of Computer Engineering. Computing Systems Engineering Lab.], e-mail: jhsfelix@gmail.com; Fortaleza, Simone Castelo Branco; Pereira, Eanes Delgado Barros; Holanda, Marcelo Alcantara [Federal University of Ceara (UFC), Fortaleza, CE (Brazil). Walter Cantidio University Hospital

    2009-09-15

    Objective: to present a locally developed system of computer vision for use with HRCT images, designated SIStema para a Deteccao e a quantificacao de Enfisema Pulmonar (SISDEP, System to Detect and Quantify Pulmonary Emphysema), and to compare this system with a free ware system tool. Methods: thirty-three HRCT images scanned at the apex, hilum and base of the lungs of 11 patients with COPD were analyzed. The SISDEP was compared with the Osiris Medical Imaging Software Program regarding lung parenchyma segmentation, precision of the measurement of the cross-sectional area of the lungs in mm{sup 2}, mean lung density (MLD), relative area (RA) of the lung occupied by voxels with attenuation values < -950 Hounsfield units (RA -950), 15th percentile point (Perc15) and visualization of hyper inflated areas using a color mask. Results: although both computational systems were efficient in segmenting the lungs, the SISDEP performed this task automatically and more rapidly. There were significant correlations between the two systems in terms of the results obtained for lung cross-sectional area, MLD, RA -950 and Perc15 (r{sup 2} = 0.99, 0.99, 0.99 and 1.00, respectively). The color mask tool of the SISDEP allowed excellent visualization of hyper inflated areas, discriminating them from normal areas. Conclusions: the SISDEP was efficient in segmenting the lungs and quantifying lung hyper inflation, presenting an excellent correlation with the Osiris system. The SISDEP constitutes a promising computational tool for diagnosing and assessing the progression of emphysema in HRCT images of COPD patients. (author)

  19. A DNA Barcode Library for Korean Chironomidae (Insecta: Diptera) and Indexes for Defining Barcode Gap

    OpenAIRE

    Kim, Sungmin; Song, Kyo-Hong; Ree, Han-Il; Kim, Won

    2011-01-01

    Non-biting midges (Diptera: Chironomidae) are a diverse population that commonly causes respiratory allergies in humans. Chironomid larvae can be used to indicate freshwater pollution, but accurate identification on the basis of morphological characteristics is difficult. In this study, we constructed a mitochondrial cytochrome c oxidase subunit I (COI)-based DNA barcode library for Korean chironomids. This library consists of 211 specimens from 49 species, including adults and unidentified l...

  20. Clinical assessment of a commercial aerosol delivery system for ventilation scanning by comparison with KR-81m

    International Nuclear Information System (INIS)

    Radioactive aerosols offer a means for steady state ventilation scanning in multiple views. The clinical use of radioaerosol techniques has been hampered by the lack of delivery systems producing sufficiently small particles. If the aerosol contains large particles, heavy deposition occurs in major airways, especially in patients with airways disease. The authors have assessed a new, commercial aerosol delivery system (Syntevent) by comparison with Kr-81m ventilation scanning in 23 patients with airways obstruction. An indirect comparison was also made with a settling bad technique. Ventilation scans in four projections were obtained during continuous inhalation of Kr-81m. Subsequently, the patient inhaled an aerosol labelled with In-113m from the Syntevent system, and aerosol ventilation scans were obtained in the same projections. Spirometry was performed to establish the degree of airways obstruction. The aerosol delineated the ventilated regions of the lungs adequately in all the patients. Deposition of aerosol in larger airways was seen in a few patients only, and this did not impede the interpretation of the scintigram. A quantitative analysis of the penetration of the aerosol to the periphery of the lung failed to demonstrate any significant correlation between particle penetration and airways obstruction. Aerosol penetration was significantly greater (p<0.001) with the Syntevent system than with a settling bag technique

  1. DNA barcoding Satyrine butterflies (Lepidoptera: Nymphalidae) in China.

    Science.gov (United States)

    Yang, Mingsheng; Zhai, Qing; Yang, Zhaofu; Zhang, Yalin

    2016-07-01

    We investigated the effectiveness of the standard 648 bp mitochondrial COI barcode region in discriminating among Satyrine species from China. A total of 214 COI sequences were obtained from 90 species, including 34 species that have never been barcoded. Analyses of genetic divergence show that the mean interspecific genetic divergence is about 16-fold higher than within species, and little overlap occurs between them. Neighbour-joining (NJ) analyses showed that 48 of the 50 species with two or more individuals, including two cases with deep intraspecific divergence (>3%), are monophyletic. Furthermore, when our sequences are combined with the conspecific sequences sampled from distantly geographic regions, the "barcoding gap" still exists, and all related species are recovered to be monophyletic in NJ analysis. Our study demonstrates that COI barcoding is effective in discriminating among the satyrine species of China, and provides a reference library for their future molecular identification.

  2. DNA barcoding Satyrine butterflies (Lepidoptera: Nymphalidae) in China.

    Science.gov (United States)

    Yang, Mingsheng; Zhai, Qing; Yang, Zhaofu; Zhang, Yalin

    2016-07-01

    We investigated the effectiveness of the standard 648 bp mitochondrial COI barcode region in discriminating among Satyrine species from China. A total of 214 COI sequences were obtained from 90 species, including 34 species that have never been barcoded. Analyses of genetic divergence show that the mean interspecific genetic divergence is about 16-fold higher than within species, and little overlap occurs between them. Neighbour-joining (NJ) analyses showed that 48 of the 50 species with two or more individuals, including two cases with deep intraspecific divergence (>3%), are monophyletic. Furthermore, when our sequences are combined with the conspecific sequences sampled from distantly geographic regions, the "barcoding gap" still exists, and all related species are recovered to be monophyletic in NJ analysis. Our study demonstrates that COI barcoding is effective in discriminating among the satyrine species of China, and provides a reference library for their future molecular identification. PMID:26017046

  3. VEHICLE IDENTIFICATION TASK SOLUTION BY WINDSCREEN MARKING WITH A BARCODE

    Directory of Open Access Journals (Sweden)

    A. Levterov

    2012-01-01

    Full Text Available The vehicle identification means are considered and the present-day traffic requirements are set. The vehicle automatic identification method concerned with barcode use is proposed and described.

  4. Topological mapping and navigation in indoor environment with invisible barcode

    International Nuclear Information System (INIS)

    This paper addresses the localization and navigation problem using invisible two dimensional barcodes on the floor. Compared with other methods using natural/artificial landmark, the proposed localization method has great advantages in cost and appearance, since the location of the robot is perfectly known using the barcode information after the mapping is finished. We also propose a navigation algorithm which uses the topological structure. For the topological information, we define nodes and edges which are suitable for indoor navigation, especially for large area having multiple rooms, many walls and many static obstacles. The proposed algorithm also has an advantage that errors occurred in each node are mutually independent and can be compensated exactly after some navigation using barcode. Simulation and experimental results were performed to verify the algorithm in the barcode environment, and the result showed an excellent performance. After mapping, it is also possible to solve the kidnapped case and generate paths using topological information

  5. Topological mapping and navigation in indoor environment with invisible barcode

    Energy Technology Data Exchange (ETDEWEB)

    Huh, Jin Wook [Agency for Defense Development, Daejeon (Korea, Republic of); Chung, Woong Sik [Microrobot, Seoul (Korea, Republic of); Chung, Wan Kyun [Pohang University of Science and Technology, Pohang (Korea, Republic of)

    2006-09-15

    This paper addresses the localization and navigation problem using invisible two dimensional barcodes on the floor. Compared with other methods using natural/artificial landmark, the proposed localization method has great advantages in cost and appearance, since the location of the robot is perfectly known using the barcode information after the mapping is finished. We also propose a navigation algorithm which uses the topological structure. For the topological information, we define nodes and edges which are suitable for indoor navigation, especially for large area having multiple rooms, many walls and many static obstacles. The proposed algorithm also has an advantage that errors occurred in each node are mutually independent and can be compensated exactly after some navigation using barcode. Simulation and experimental results were performed to verify the algorithm in the barcode environment, and the result showed an excellent performance. After mapping, it is also possible to solve the kidnapped case and generate paths using topological information.

  6. DNA barcoding in animal species: progress, potential and pitfalls.

    Science.gov (United States)

    Waugh, John

    2007-02-01

    Despite 250 years of work in systematics, the majority of species remains to be identified. Rising extinction rates and the need for increased biological monitoring lend urgency to this task. DNA sequencing, with key sequences serving as a "barcode", has therefore been proposed as a technology that might expedite species identification. In particular, the mitochondrial cytochrome c oxidase subunit 1 gene has been employed as a possible DNA marker for species and a number of studies in a variety of taxa have accordingly been carried out to examine its efficacy. In general, these studies demonstrate that DNA barcoding resolves most species, although some taxa have proved intractable. In some studies, barcoding provided a means of highlighting potential cryptic, synonymous or extinct species as well as matching adults with immature specimens. Higher taxa, however, have not been resolved as accurately as species. Nonetheless, DNA barcoding appears to offer a means of identifying species and may become a standard tool. PMID:17226815

  7. Novel DNA barcodes for detection, idenfication and tracking of stachybotrys and chaetomium species

    DEFF Research Database (Denmark)

    Lewinska, Anna Malgorzata; Nielsen, Jakob Birkedal; Peuhkuri, Ruut Hannele;

    2014-01-01

    Detection and identification of indoor fungi in water-damaged buildings is crucial for preventi and control of fungal growth. This study focuses on a molecular method called DNA barcoding. evaluates commonly used sequences in DNA barcoding for fungal species identification Chaetomium and...... Stachybotrys. The existing DNA barcodes: ITS, SSU, LSU, B-TUB, CMD, RP and TEF-1α do not give satisfying species resolution to be considered as DNA barcodes for the two genera. Therefore, novel barcodes for them are needed. Barcode potentials, such as HOG1 a NAHA, were identified using bioinformatics and are...

  8. A CD45-based barcoding approach to multiplex mass-cytometry (CyTOF).

    Science.gov (United States)

    Lai, Liyun; Ong, Raymond; Li, Juntao; Albani, Salvatore

    2015-04-01

    CyTOF enables the study of the immune system with a complexity, depth, and multidimensionality never achieved before. However, the full potential of using CyTOF can be limited by scarce cell samples. Barcoding strategies developed based on direct labeling of cells using maleimido-monoamide-DOTA (m-DOTA) provide a very useful tool. However, using m-DOTA has some inherent problems, mainly associated with signal intensity. This may be a source of uncertainty when samples are multiplexed. As an alternative or complementary approach to m-DOTA, conjugating an antibody, specific for a membrane protein present on most immune cells, with different isotopes could address the issues of stability and signal intensity needed for effective barcoding. We chose for this purpose CD45, and designed experiments to address different types of cultures and the ability to detect extra- and intra-cellular targets. We show here that our approach provides an useful alternative to m-DOTA in terms of sensitivity, specificity, flexibility, and user-friendliness. Our manuscript provides details to effectively barcode immune cells, overcoming limitations in current technology and enabling the use of CyTOF with scarce samples (for instance precious clinical samples). PMID:25645694

  9. DNA Barcoding of Catfish: Species Authentication and Phylogenetic Assessment

    OpenAIRE

    Wong, Li Lian; Peatman, Eric; Lu, Jianguo; Kucuktas, Huseyin; He, Shunping; Zhou, Chuanjiang; Na-Nakorn, Uthairat; Liu, Zhanjiang

    2011-01-01

    As the global market for fisheries and aquaculture products expands, mislabeling of these products has become a growing concern in the food safety arena. Molecular species identification techniques hold the potential for rapid, accurate assessment of proper labeling. Here we developed and evaluated DNA barcodes for use in differentiating United States domestic and imported catfish species. First, we sequenced 651 base-pair barcodes from the cytochrome oxidase I (COI) gene from individuals of ...

  10. Graded core/shell semiconductor nanorods and nanorod barcodes

    Science.gov (United States)

    Alivisatos, A. Paul; Scher, Erik C.; Manna, Liberato

    2010-12-14

    Graded core/shell semiconductor nanorods and shaped nanorods are disclosed comprising Group II-VI, Group III-V and Group IV semiconductors and methods of making the same. Also disclosed are nanorod barcodes using core/shell nanorods where the core is a semiconductor or metal material, and with or without a shell. Methods of labeling analytes using the nanorod barcodes are also disclosed.

  11. A DNA Barcoding Approach to Characterize Pollen Collected by Honeybees

    OpenAIRE

    Andrea Galimberti; Fabrizio De Mattia; Ilaria Bruni; Daniela Scaccabarozzi; Anna Sandionigi; Michela Barbuto; Maurizio Casiraghi; Massimo Labra

    2014-01-01

    In the present study, we investigated DNA barcoding effectiveness to characterize honeybee pollen pellets, a food supplement largely used for human nutrition due to its therapeutic properties. We collected pollen pellets using modified beehives placed in three zones within an alpine protected area (Grigna Settentrionale Regional Park, Italy). A DNA barcoding reference database, including rbcL and trnH-psbA sequences from 693 plant species (104 sequenced in this study) was assembled. The datab...

  12. DNA barcoding the native flowering plants and conifers of Wales.

    Directory of Open Access Journals (Sweden)

    Natasha de Vere

    Full Text Available We present the first national DNA barcode resource that covers the native flowering plants and conifers for the nation of Wales (1143 species. Using the plant DNA barcode markers rbcL and matK, we have assembled 97.7% coverage for rbcL, 90.2% for matK, and a dual-locus barcode for 89.7% of the native Welsh flora. We have sampled multiple individuals for each species, resulting in 3304 rbcL and 2419 matK sequences. The majority of our samples (85% are from DNA extracted from herbarium specimens. Recoverability of DNA barcodes is lower using herbarium specimens, compared to freshly collected material, mostly due to lower amplification success, but this is balanced by the increased efficiency of sampling species that have already been collected, identified, and verified by taxonomic experts. The effectiveness of the DNA barcodes for identification (level of discrimination is assessed using four approaches: the presence of a barcode gap (using pairwise and multiple alignments, formation of monophyletic groups using Neighbour-Joining trees, and sequence similarity in BLASTn searches. These approaches yield similar results, providing relative discrimination levels of 69.4 to 74.9% of all species and 98.6 to 99.8% of genera using both markers. Species discrimination can be further improved using spatially explicit sampling. Mean species discrimination using barcode gap analysis (with a multiple alignment is 81.6% within 10×10 km squares and 93.3% for 2×2 km squares. Our database of DNA barcodes for Welsh native flowering plants and conifers represents the most complete coverage of any national flora, and offers a valuable platform for a wide range of applications that require accurate species identification.

  13. Magnetic phase diagrams of barcode-type nanostructures

    International Nuclear Information System (INIS)

    The magnetic configurations of barcode-type magnetic nanostructures consisting of alternate ferromagnetic and nonmagnetic layers arranged within a multilayer nanotube structure are investigated as a function of their geometry. Based on a continuum approach we have obtained analytical expressions for the energy which lead us to obtain phase diagrams giving the relative stability of characteristic internal magnetic configurations of the barcode-type nanostructures.

  14. Biodegradable porous silicon barcode nanowires with defined geometry

    OpenAIRE

    Chiappini, Ciro; Liu, Xuewu; Fakhoury, Jean Raymond; Ferrari, Mauro

    2010-01-01

    Silicon nanowires are of proven importance in diverse fields such as energy production and storage, flexible electronics, and biomedicine due to the unique characteristics emerging from their one-dimensional semiconducting nature and their mechanical properties. Here we report the synthesis of biodegradable porous silicon barcode nanowires by metal assisted electroless etch of single crystal silicon with resistivity ranging from 0.0008 Ω-cm to 10 Ω-cm. We define the geometry of the barcode na...

  15. Barcode van DNA. Democratisering van de taxonomie door digitaal identificatiesysteem

    OpenAIRE

    Bakker, F.T.

    2011-01-01

    Het herkennen van biologische soorten aan de hand van een gestandaardiseerde DNA-barcode heeft de laatste tijd een enorme vlucht genomen. Gedreven door aan de ene kant de biodiversiteitscrises en de mogelijke global change, en aan de andere kant zowel razendsnelle technologische vooruitgang als ook het vooruitzicht dat niet genoeg klassieke taxonomen worden opgeleid voor de nabije toekomst, lijkt DNA-barcoding zich een strategische plek te veroveren op huidige, al dan niet toegepaste, biodive...

  16. Magnetic phase diagrams of barcode-type nanostructures

    OpenAIRE

    Leighton, B; O.J Suarez; Landeros, P.; Escrig, J.

    2010-01-01

    The magnetic configurations of barcode-type magnetic nanostructures consisting of alternate ferromagnetic and nonmagnetic layers arranged within a multilayer nanotube structure are investigated as a function of their geometry. Based on a continuum approach we have obtained analytical expressions for the energy which lead us to obtain phase diagrams giving the relative stability of characteristic internal magnetic configurations of the barcode-type nanostructures.

  17. Magnetic phase diagrams of barcode-type nanostructures

    Energy Technology Data Exchange (ETDEWEB)

    Leighton, B; Escrig, J [Departamento de Fisica, Universidad de Santiago de Chile (USACH), Avenida Ecuador 3493, 917-0124 Santiago (Chile); Suarez, O J; Landeros, P, E-mail: juan.escrig@usach.c [Departamento de Fisica, Universidad Tecnica Federico Santa Maria, Avenida Espana 1680, Casilla 110 V, 2340000 Valparaiso (Chile)

    2009-09-23

    The magnetic configurations of barcode-type magnetic nanostructures consisting of alternate ferromagnetic and nonmagnetic layers arranged within a multilayer nanotube structure are investigated as a function of their geometry. Based on a continuum approach we have obtained analytical expressions for the energy which lead us to obtain phase diagrams giving the relative stability of characteristic internal magnetic configurations of the barcode-type nanostructures.

  18. A comparative analysis of DNA barcode microarray feature size

    OpenAIRE

    Ammar, Ron; SMITH, ANDREW M.; Heisler, Lawrence E.; Giaever, Guri; Nislow, Corey

    2009-01-01

    Background Microarrays are an invaluable tool in many modern genomic studies. It is generally perceived that decreasing the size of microarray features leads to arrays with higher resolution (due to greater feature density), but this increase in resolution can compromise sensitivity. Results We demonstrate that barcode microarrays with smaller features are equally capable of detecting variation in DNA barcode intensity when compared to larger feature sizes within a specific microarray platfor...

  19. Filling the gap - COI barcode resolution in eastern Palearctic birds

    OpenAIRE

    Koblik Eugeny A; Red'kin Yaroslav A; Kalyakin Mikhail V; Birks Sharon M; Kerr Kevin CR; Hebert Paul DN

    2009-01-01

    Abstract Background The Palearctic region supports relatively few avian species, yet recent molecular studies have revealed that cryptic lineages likely still persist unrecognized. A broad survey of cytochrome c oxidase I (COI) sequences, or DNA barcodes, can aid on this front by providing molecular diagnostics for species assignment. Barcodes have already been extensively surveyed in the Nearctic, which provides an interesting comparison to this region; faunal interchange between these regio...

  20. A comparative analysis of DNA barcode microarray feature size

    OpenAIRE

    Smith Andrew M; Ammar Ron; Heisler Lawrence E; Giaever Guri; Nislow Corey

    2009-01-01

    Abstract Background Microarrays are an invaluable tool in many modern genomic studies. It is generally perceived that decreasing the size of microarray features leads to arrays with higher resolution (due to greater feature density), but this increase in resolution can compromise sensitivity. Results We demonstrate that barcode microarrays with smaller features are equally capable of detecting variation in DNA barcode intensity when compared to larger feature sizes within a specific microarra...

  1. SU-E-I-56: Scan Angle Reduction for a Limited-Angle Intrafraction Verification (LIVE) System

    International Nuclear Information System (INIS)

    Purpose: To develop a novel adaptive reconstruction strategy to further reduce the scanning angle required by the limited-angle intrafraction verification (LIVE) system for intrafraction verification. Methods: LIVE acquires limited angle MV projections from the exit fluence of the arc treatment beam or during gantry rotation between static beams. Orthogonal limited-angle kV projections are also acquired simultaneously to provide additional information. LIVE considers the on-board 4D-CBCT images as a deformation of the prior 4D-CT images, and solves the deformation field based on deformation models and data fidelity constraint. LIVE reaches a checkpoint after a limited-angle scan, and reconstructs 4D-CBCT for intrafraction verification at the checkpoint. In adaptive reconstruction strategy, a larger scanning angle of 30° is used for the first checkpoint, and smaller scanning angles of 15° are used for subsequent checkpoints. The onboard images reconstructed at the previous adjacent checkpoint are used as the prior images for reconstruction at the current checkpoint. As the algorithm only needs to reconstruct the small deformation occurred between adjacent checkpoints, projections from a smaller scan angle provide enough information for the reconstruction. XCAT was used to simulate tumor motion baseline drift of 2mm along sup-inf direction at every subsequent checkpoint, which are 15° apart. Adaptive reconstruction strategy was used to reconstruct the images at each checkpoint using orthogonal 15° kV and MV projections. Results: Results showed that LIVE reconstructed the tumor volumes accurately using orthogonal 15° kV-MV projections. Volume percentage differences (VPDs) were within 5% and center of mass shifts (COMS) were within 1mm for reconstruction at all checkpoints. Conclusion: It's feasible to use an adaptive reconstruction strategy to further reduce the scan angle needed by LIVE to allow faster and more frequent intrafraction verification to minimize the

  2. DNA barcoding of Gaultheria L.in China (Ericaceae: Vaccinioideae)

    Institute of Scientific and Technical Information of China (English)

    He REN; Lu LU; Hong WANG; De-Zhu LI

    2011-01-01

    Four DNA barcoding loci,chloroplast loci rbcL,matK,trnH-psbA,and nuclear locus internal transcribed spacer (ITS),were tested for the accurate discrimination of the Chinese species of Gaultheria by using intraspecific and interspecific pairwise P-distance,Wilcoxon signed rank test,and tree-based analyses.This study included 186 individuals from 89 populations representing 30 species.For all individuals,single locus markers showed high levels of sequencing universality but were ineffective for species resolvability.Polymerase chain reaction amplification and sequencing were successful for all four loci.Both ITS and matK showed significantly higher levels of interspecific species delimitation than rbcL and trnH-psbA.A combination ofmatK and ITS was the most efficient DNA barcode among all studied regions,however,they do not represent an appropriate candidate barcode for Chinese Gaultheria,by which only 11 out of 30 species can be separated.Loci rbcL,matK,and trnH-psbA,which were recently proposed as universal plant barcodes,have a very poor capacity for species separation for Chinese Gaultheria.DNA barcodes may be reliable tools to identify the evolutionary units of this group,so further studies are needed to develop more efficient DNA barcodes for Gaultheria and other genera with complicated evolutionary histories.

  3. RFID Checkout System

    Directory of Open Access Journals (Sweden)

    Ms.Shrishti Bhatia

    2013-10-01

    Full Text Available This project utilizes the RFID tags to automate the checkout process by building a system that could read the RFID signals of all the objects that were placed in proximity to an antenna. This eliminates the need for barcode scanning of each individual item, making checkout a significantly faster experience. The resulting ‘RFID Checkout System’ will enable consumers to instantly pay for their entire purchase upon arrival at the register, increasing customer satisfaction, reducing retailer costs, and ultimately lowering consumer prices.

  4. Identifying Fishes through DNA Barcodes and Microarrays

    Science.gov (United States)

    Kochzius, Marc; Seidel, Christian; Antoniou, Aglaia; Botla, Sandeep Kumar; Campo, Daniel; Cariani, Alessia; Vazquez, Eva Garcia; Hauschild, Janet; Hervet, Caroline; Hjörleifsdottir, Sigridur; Hreggvidsson, Gudmundur; Kappel, Kristina; Landi, Monica; Magoulas, Antonios; Marteinsson, Viggo; Nölte, Manfred; Planes, Serge; Tinti, Fausto; Turan, Cemal; Venugopal, Moleyur N.; Weber, Hannes; Blohm, Dietmar

    2010-01-01

    Background International fish trade reached an import value of 62.8 billion Euro in 2006, of which 44.6% are covered by the European Union. Species identification is a key problem throughout the life cycle of fishes: from eggs and larvae to adults in fisheries research and control, as well as processed fish products in consumer protection. Methodology/Principal Findings This study aims to evaluate the applicability of the three mitochondrial genes 16S rRNA (16S), cytochrome b (cyt b), and cytochrome oxidase subunit I (COI) for the identification of 50 European marine fish species by combining techniques of “DNA barcoding” and microarrays. In a DNA barcoding approach, neighbour Joining (NJ) phylogenetic trees of 369 16S, 212 cyt b, and 447 COI sequences indicated that cyt b and COI are suitable for unambiguous identification, whereas 16S failed to discriminate closely related flatfish and gurnard species. In course of probe design for DNA microarray development, each of the markers yielded a high number of potentially species-specific probes in silico, although many of them were rejected based on microarray hybridisation experiments. None of the markers provided probes to discriminate the sibling flatfish and gurnard species. However, since 16S-probes were less negatively influenced by the “position of label” effect and showed the lowest rejection rate and the highest mean signal intensity, 16S is more suitable for DNA microarray probe design than cty b and COI. The large portion of rejected COI-probes after hybridisation experiments (>90%) renders the DNA barcoding marker as rather unsuitable for this high-throughput technology. Conclusions/Significance Based on these data, a DNA microarray containing 64 functional oligonucleotide probes for the identification of 30 out of the 50 fish species investigated was developed. It represents the next step towards an automated and easy-to-handle method to identify fish, ichthyoplankton, and fish products. PMID

  5. DNA barcoding of Pedicularis L.(Orobanchaceae): Evaluating four universal barcode loci in a large and hemiparasitic genus

    Institute of Scientific and Technical Information of China (English)

    Wen-Bin YU; pan-Hui HUANG; Richard H. REE; Min-Lu LIU; De-Zhu LI; Hong WANG

    2011-01-01

    One application ofDNA barcoding is species identification based on sequences of a short and standardized DNA region.In plants,various DNA regions,alone or in combination,have been proposed and investigated,but consensus on a universal plant barcode remains elusive.In this study,we tested the utility of four candidate barcoding regions (rbcL,matK,trnH-psbA,and internal transcribed spacer (ITS)) as DNA barcodes for discriminating species in a large and hemiparasitic genus Pedicularis (Orobanchaceae).Amplification and sequencing was successful using single primer pairs for rbcL,trnH-psbA,and ITS,whereas two primer pairs were required for matK.Patterns of sequence divergence commonly showed a “barcoding gap”,that is,a bimodal frequency distribution of pairwise distances representing genetic diversity within and between species,respectively Considering primer universality,ease of amplification and sequencing,and performance in discriminating species,we found the most effective single-region barcode for Pedicularis to be ITS,and the most effective two-region barcode to be rbcL +ITS.Both discriminated at least 78% of the 88 species and correctly identified at least 89% of the sequences in our sample,and were effective in placing unidentified samples in known species groups.Our results suggest that DNA barcoding has the potential to aid taxonomic research in Pedicularis,a species-rich cosmopolitan clade much in need of revision,as well as ecological studies in its center of diversity,the Hengduan Mountains region of China.

  6. CT Scans

    Science.gov (United States)

    ... cross-sectional pictures of your body. Doctors use CT scans to look for Broken bones Cancers Blood clots Signs of heart disease Internal bleeding During a CT scan, you lie still on a table. The table ...

  7. Thyroid scan

    Science.gov (United States)

    ... PET scan Skin nodules Thyroid cancer Thyroid cancer - medullary carcinoma Thyroid cancer - papillary carcinoma Toxic nodular goiter ... Topics Hyperthyroidism Hypothyroidism Nuclear Scans Thyroid Cancer Thyroid Diseases Thyroid Tests Browse the Encyclopedia A.D.A. ...

  8. Use of Slow-Scan Television Systems in Telemedicine, Distance Education, Government, and Industrial Applications.

    Science.gov (United States)

    Southworth, Glen

    Reducing the costs of teaching by television through slow-scan methods is discussed. Conventional television is costly to use, largely because the wide-band communications circuits required are in limited supply. One technical answer is bandwidth compression to fit an image into less spectrum space. A simpler and far less costly answer is to…

  9. Methodology for converting CT medical images to MCNP input using the Scan2MCNP system

    Energy Technology Data Exchange (ETDEWEB)

    Boia, L.S.; Silva, A.X. [Coordenacao dos Programas de Pos-graduacao de Engenharia (COPPE/UFRJ), Rio de Janeiro, RJ (Brazil). Programa de Engenharia Nuclear], e-mail: lboia@con.ufrj.br, e-mail: ademir@con.ufrj.br; Facure, A. [Comissao Nacional de Energia Nuclear (CNEN), Rio de Janeiro, RJ (Brazil)], e-mail: facure@cnen.gov.br; Cardoso, S.C. [Universidade Federal do Rio de Janeiro (UFRJ), RJ (Brazil). Inst. de Fisica. Dept. de Fisica Nuclear], e-mail: simone@if.ufrj.br; Rosa, L.A.R. [Instituto de Radioprotecao e Dosimetria (IRD-CNEN/RJ), Rio de Janeiro, RJ (Brazil)], e-mail: lrosa@ird.gov.br; Castro, R.C. [Colegio Pedro II, Rio de Janeiro, RJ (Brazil)], e-mail: prof.robinho@gmail.com

    2009-07-01

    This paper develops a methodology for the application software Scan2MCNP, which converts medical images DICOM (Digital Imaging and Communications in Medicine) for MCNP input file. The Scan2MCNP handles, processes and executes the medical images generated by CT equipment, allowing the user to perform the selection and parameterization of the study area in question (tissues and organs). The details of these worked in medical imaging software, therefore, will be converted to equity to the process of language analysis of MCNP radiation transport, through the generation of a code input file. With this file, it is possible to simulate any situation/problem of the type and level of radiation to the proposed treatment chosen by the medical staff responsible for the patient. Within a computational process oriented, the Scan2MCNP can contribute along with other software that has been used recently in the area of medical physics, to improve the levels of quality and precision of radiotherapy treatments. In this work, medical images DICOM of the Anthropomorphic Rando Phantom were used in the process of analysis and development of computer software Scan2MCNP. However, it emphasized that the software is successful in certain situations, depending upon a number of auxiliary procedures and software that can help in the solution of certain problems in the natural radiation treatment or express agility by the team of medical physics. (author)

  10. Compensation for Target Motion in Magnetic Raster Scanning System at GSI

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Conformal radiation therapy methods including the magnetic raster scanning used at GSI yield a very high dose inside tumor volume while drastically reducing the dose contribution to surrounding healthy tissue.This is achieved by delivering a previously calculated dose to every single volume element(voxel)of the tumor and

  11. Scanning Electron Microscopy (SEM) Procedure for HE Powders on a LEO 438VP System

    Energy Technology Data Exchange (ETDEWEB)

    Zaka, Fowzia [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). Energetic Materials Center

    2016-03-21

    This method describes the characterization of HE powders by Scanning Electron Microscopy (SEM). HE particles are dispersed onto an aluminum standard SEM specimen mount. Electron micrographs are collected at various magnifications (150 to 10,000 X) depending on HE particle size.

  12. Scanning Electron Microscopy (SEM) Procedure for HE Powders on a LEO 438VP System

    Energy Technology Data Exchange (ETDEWEB)

    Zaka, Fowzia [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). Energetic Materials Center

    2016-03-08

    This method describes the characterization of HE powders by Scanning Electron Microscopy (SEM). HE particles are dispersed onto an aluminum standard SEM specimen mount. Electron micrographs are collected at various magnifications (150 to 10,000 X) depending on HE particle size.

  13. Development of an efficient scanning and purging magnet system for IMRT with narrow high energy photon beams

    Science.gov (United States)

    Andreassen, Björn; Svensson, Roger; Holmberg, Rickard; Danared, Håkan; Brahme, Anders

    2009-12-01

    Due to the clinical advantages of Intensity Modulated Radiation Therapy (IMRT) high flexibility and accuracy in intensity modulated dose delivery is desirable to really maximize treatment outcome. Although it is possible to deliver IMRT by using broad beams in combination with dynamic multileaf collimation the process is rather time consuming and inefficient. By using narrow scanned high energy photon beams the treatment outcome can be improved, the treatment time reduced and accurate 3D in vivo dose delivery monitoring is possible by PET-CT based dose delivery imaging of photo nuclear reactions in human tissues. Narrow photon beams can be produced by directing a low emittance high energy electron beam on a thin target, and then cleaning the therapeutic photon beam from transmitted high energy electrons, and photon generated charged leptons, with a dedicated purging magnet placed directly downstream of the target. To have an effective scanning and purging magnet system the purging magnet should be placed immediately after the bremsstrahlung target to deflect the transmitted electrons to an efficient electron stopper. In the static electron stopper the electrons should be safely collected independent of the desired direction of the therapeutic scanned photon beam. The SID (Source to Isocenter Distance) should preferably be short while retaining the ability to scan over a large area on the patient and consequently there are severe requirements both on the strength and the geometry of the scanning and purging magnets. In the present study an efficient magnet configuration with a purging and scanning magnet assembly is developed for electron energies in the 50-75 MeV range and a SID of 75 cm. For a bremsstrahlung target of 3 mm Be these electron energies produce a photon beam of 25-17 mm FWHM (Full Width Half Maximum) at a SID of 75 cm. The magnet system was examined both in terms of the efficiency in scanning the narrow bremsstrahlung beam and the deflection of

  14. Development of an efficient scanning and purging magnet system for IMRT with narrow high energy photon beams

    International Nuclear Information System (INIS)

    Due to the clinical advantages of Intensity Modulated Radiation Therapy (IMRT) high flexibility and accuracy in intensity modulated dose delivery is desirable to really maximize treatment outcome. Although it is possible to deliver IMRT by using broad beams in combination with dynamic multileaf collimation the process is rather time consuming and inefficient. By using narrow scanned high energy photon beams the treatment outcome can be improved, the treatment time reduced and accurate 3D in vivo dose delivery monitoring is possible by PET-CT based dose delivery imaging of photo nuclear reactions in human tissues. Narrow photon beams can be produced by directing a low emittance high energy electron beam on a thin target, and then cleaning the therapeutic photon beam from transmitted high energy electrons, and photon generated charged leptons, with a dedicated purging magnet placed directly downstream of the target. To have an effective scanning and purging magnet system the purging magnet should be placed immediately after the bremsstrahlung target to deflect the transmitted electrons to an efficient electron stopper. In the static electron stopper the electrons should be safely collected independent of the desired direction of the therapeutic scanned photon beam. The SID (Source to Isocenter Distance) should preferably be short while retaining the ability to scan over a large area on the patient and consequently there are severe requirements both on the strength and the geometry of the scanning and purging magnets. In the present study an efficient magnet configuration with a purging and scanning magnet assembly is developed for electron energies in the 50-75 MeV range and a SID of 75 cm. For a bremsstrahlung target of 3 mm Be these electron energies produce a photon beam of 25-17 mm FWHM (Full Width Half Maximum) at a SID of 75 cm. The magnet system was examined both in terms of the efficiency in scanning the narrow bremsstrahlung beam and the deflection of

  15. Range 7 Scanner Integration with PaR Robot Scanning System

    Science.gov (United States)

    Schuler, Jason; Burns, Bradley; Carlson, Jeffrey; Minich, Mark

    2011-01-01

    An interface bracket and coordinate transformation matrices were designed to allow the Range 7 scanner to be mounted on the PaR Robot detector arm for scanning the heat shield or other object placed in the test cell. A process was designed for using Rapid Form XOR to stitch data from multiple scans together to provide an accurate 3D model of the object scanned. An accurate model was required for the design and verification of an existing heat shield. The large physical size and complex shape of the heat shield does not allow for direct measurement of certain features in relation to other features. Any imaging devices capable of imaging the entire heat shield in its entirety suffers a reduced resolution and cannot image sections that are blocked from view. Prior methods involved tools such as commercial measurement arms, taking images with cameras, then performing manual measurements. These prior methods were tedious and could not provide a 3D model of the object being scanned, and were typically limited to a few tens of measurement points at prominent locations. Integration of the scanner with the robot allows for large complex objects to be scanned at high resolution, and for 3D Computer Aided Design (CAD) models to be generated for verification of items to the original design, and to generate models of previously undocumented items. The main components are the mounting bracket for the scanner to the robot and the coordinate transformation matrices used for stitching the scanner data into a 3D model. The steps involve mounting the interface bracket to the robot's detector arm, mounting the scanner to the bracket, and then scanning sections of the object and recording the location of the tool tip (in this case the center of the scanner's focal point). A novel feature is the ability to stitch images together by coordinates instead of requiring each scan data set to have overlapping identifiable features. This setup allows models of complex objects to be developed

  16. Analysis of the Possibilities of Using Low-Cost Scanning System in 3d Modeling

    Science.gov (United States)

    Kedzierski, M.; Wierzbickia, D.; Fryskowska, A.; Chlebowska, B.

    2016-06-01

    The laser scanning technique is still a very popular and fast growing method of obtaining information on modeling 3D objects. The use of low-cost miniature scanners creates new opportunities for small objects of 3D modeling based on point clouds acquired from the scan. The same, the development of accuracy and methods of automatic processing of this data type is noticeable. The article presents methods of collecting raw datasets in the form of a point-cloud using a low-cost ground-based laser scanner FabScan. As part of the research work 3D scanner from an open source FabLab project was constructed. In addition, the results for the analysis of the geometry of the point clouds obtained by using a low-cost laser scanner were presented. Also, some analysis of collecting data of different structures (made of various materials such as: glass, wood, paper, gum, plastic, plaster, ceramics, stoneware clay etc. and of different shapes: oval and similar to oval and prism shaped) have been done. The article presents two methods used for analysis: the first one - visual (general comparison between the 3D model and the real object) and the second one - comparative method (comparison between measurements on models and scanned objects using the mean error of a single sample of observations). The analysis showed, that the low-budget ground-based laser scanner FabScan has difficulties with collecting data of non-oval objects. Items built of glass painted black also caused problems for the scanner. In addition, the more details scanned object contains, the lower the accuracy of the collected point-cloud is. Nevertheless, the accuracy of collected data (using oval-straight shaped objects) is satisfactory. The accuracy, in this case, fluctuates between ± 0,4 mm and ± 1,0 mm whereas when using more detailed objects or a rectangular shaped prism the accuracy is much more lower, between 2,9 mm and ± 9,0 mm. Finally, the publication presents the possibility (for the future expansion of

  17. ANALYSIS OF THE POSSIBILITIES OF USING LOW-COST SCANNING SYSTEM IN 3D MODELING

    Directory of Open Access Journals (Sweden)

    M. Kedzierski

    2016-06-01

    Full Text Available The laser scanning technique is still a very popular and fast growing method of obtaining information on modeling 3D objects. The use of low-cost miniature scanners creates new opportunities for small objects of 3D modeling based on point clouds acquired from the scan. The same, the development of accuracy and methods of automatic processing of this data type is noticeable. The article presents methods of collecting raw datasets in the form of a point-cloud using a low-cost ground-based laser scanner FabScan. As part of the research work 3D scanner from an open source FabLab project was constructed. In addition, the results for the analysis of the geometry of the point clouds obtained by using a low-cost laser scanner were presented. Also, some analysis of collecting data of different structures (made of various materials such as: glass, wood, paper, gum, plastic, plaster, ceramics, stoneware clay etc. and of different shapes: oval and similar to oval and prism shaped have been done. The article presents two methods used for analysis: the first one - visual (general comparison between the 3D model and the real object and the second one - comparative method (comparison between measurements on models and scanned objects using the mean error of a single sample of observations. The analysis showed, that the low-budget ground-based laser scanner FabScan has difficulties with collecting data of non-oval objects. Items built of glass painted black also caused problems for the scanner. In addition, the more details scanned object contains, the lower the accuracy of the collected point-cloud is. Nevertheless, the accuracy of collected data (using oval-straight shaped objects is satisfactory. The accuracy, in this case, fluctuates between ± 0,4 mm and ± 1,0 mm whereas when using more detailed objects or a rectangular shaped prism the accuracy is much more lower, between 2,9 mm and ± 9,0 mm. Finally, the publication presents the possibility (for the

  18. Overcoming barriers to the implementation of a pharmacy bar code scanning system for medication dispensing: a case study.

    Science.gov (United States)

    Nanji, Karen C; Cina, Jennifer; Patel, Nirali; Churchill, William; Gandhi, Tejal K; Poon, Eric G

    2009-01-01

    Technology has great potential to reduce medication errors in hospitals. This case report describes barriers to, and facilitators of, the implementation of a pharmacy bar code scanning system to reduce medication dispensing errors at a large academic medical center. Ten pharmacy staff were interviewed about their experiences during the implementation. Interview notes were iteratively reviewed to identify common themes. The authors identified three main barriers to pharmacy bar code scanning system implementation: process (training requirements and process flow issues), technology (hardware, software, and the role of vendors), and resistance (communication issues, changing roles, and negative perceptions about technology). The authors also identified strategies to overcome these barriers. Adequate training, continuous improvement, and adaptation of workflow to address one's own needs mitigated process barriers. Ongoing vendor involvement, acknowledgment of technology limitations, and attempts to address them were crucial in overcoming technology barriers. Staff resistance was addressed through clear communication, identifying champions, emphasizing new information provided by the system, and facilitating collaboration. PMID:19567797

  19. Real-time motion control and data acquisition system for scanning X-ray microscopy using programmable hardware

    International Nuclear Information System (INIS)

    We developed a real-time motion control and measurement system for a scanning transmission X-ray microscope. The system was designed with an FPGA (field-programmable gate array), which is a programmable, reconfigurable circuit for real-time feature modification. This system enabled specimen stage control driven by a piezoelectric element and precise stage position measurement with a laser interferometer. Programmable hardware processing with FPGA realized high-speed control and measurement that cannot be handled by software processing. This system enables very high-speed control and measurement such as 'on the fly' measurement.

  20. SCANS (Shipping Cask ANalysis System) a microcomputer-based analysis system for shipping cask design review: User's manual to Version 3a. Volume 1, Revision 2

    International Nuclear Information System (INIS)

    SCANS (Shipping Cask ANalysis System) is a microcomputer-based system of computer programs and databases developed at the Lawrence Livermore National Laboratory (LLNL) for evaluating safety analysis reports on spent fuel shipping casks. SCANS is an easy-to-use system that calculates the global response to impact loads, pressure loads and thermal conditions, providing reviewers with an independent check on analyses submitted by licensees. SCANS is based on microcomputers compatible with the IBM-PC family of computers. The system is composed of a series of menus, input programs, cask analysis programs, and output display programs. All data is entered through fill-in-the-blank input screens that contain descriptive data requests. Analysis options are based on regulatory cases described in the Code of Federal Regulations 10 CFR 71 and Regulatory Guides published by the US Nuclear Regulatory Commission in 1977 and 1978

  1. SCANS (Shipping Cask ANalysis System) a microcomputer-based analysis system for shipping cask design review: User`s manual to Version 3a. Volume 1, Revision 2

    Energy Technology Data Exchange (ETDEWEB)

    Mok, G.C.; Thomas, G.R.; Gerhard, M.A.; Trummer, D.J.; Johnson, G.L. [Lawrence Livermore National Lab., CA (United States)

    1998-03-01

    SCANS (Shipping Cask ANalysis System) is a microcomputer-based system of computer programs and databases developed at the Lawrence Livermore National Laboratory (LLNL) for evaluating safety analysis reports on spent fuel shipping casks. SCANS is an easy-to-use system that calculates the global response to impact loads, pressure loads and thermal conditions, providing reviewers with an independent check on analyses submitted by licensees. SCANS is based on microcomputers compatible with the IBM-PC family of computers. The system is composed of a series of menus, input programs, cask analysis programs, and output display programs. All data is entered through fill-in-the-blank input screens that contain descriptive data requests. Analysis options are based on regulatory cases described in the Code of Federal Regulations 10 CFR 71 and Regulatory Guides published by the US Nuclear Regulatory Commission in 1977 and 1978.

  2. QR Code Scanning app for Mobile Devices

    OpenAIRE

    Mircea Moisoiu; Andrei Negrău; Robert Győrödi; Cornelia Győrödi; George Pecherle

    2014-01-01

    QR code (abbreviated from Quick Response Code) is the trademark for a type of matrix barcode first designed for the automotive industry [1]. Today the QR code is widely used in all industries. In our paper we present an implementation of an Android device using libraries and combined algorithms in order to be able to scan any QR code fast accurate and easy. The devices that we targeted for our application are the Google Glasses and an Android operated phone. The implementation for each of the...

  3. DNA barcoding in the media: does coverage of cool science reflect its social context?

    Science.gov (United States)

    Geary, Janis; Camicioli, Emma; Bubela, Tania

    2016-09-01

    Paul Hebert and colleagues first described DNA barcoding in 2003, which led to international efforts to promote and coordinate its use. Since its inception, DNA barcoding has generated considerable media coverage. We analysed whether this coverage reflected both the scientific and social mandates of international barcoding organizations. We searched newspaper databases to identify 900 English-language articles from 2003 to 2013. Coverage of the science of DNA barcoding was highly positive but lacked context for key topics. Coverage omissions pose challenges for public understanding of the science and applications of DNA barcoding; these included coverage of governance structures and issues related to the sharing of genetic resources across national borders. Our analysis provided insight into how barcoding communication efforts have translated into media coverage; more targeted communication efforts may focus media attention on previously omitted, but important topics. Our analysis is timely as the DNA barcoding community works to establish the International Society for the Barcode of Life.

  4. DNA barcoding in the media: does coverage of cool science reflect its social context?

    Science.gov (United States)

    Geary, Janis; Camicioli, Emma; Bubela, Tania

    2016-09-01

    Paul Hebert and colleagues first described DNA barcoding in 2003, which led to international efforts to promote and coordinate its use. Since its inception, DNA barcoding has generated considerable media coverage. We analysed whether this coverage reflected both the scientific and social mandates of international barcoding organizations. We searched newspaper databases to identify 900 English-language articles from 2003 to 2013. Coverage of the science of DNA barcoding was highly positive but lacked context for key topics. Coverage omissions pose challenges for public understanding of the science and applications of DNA barcoding; these included coverage of governance structures and issues related to the sharing of genetic resources across national borders. Our analysis provided insight into how barcoding communication efforts have translated into media coverage; more targeted communication efforts may focus media attention on previously omitted, but important topics. Our analysis is timely as the DNA barcoding community works to establish the International Society for the Barcode of Life. PMID:27463361

  5. JPEG color barcode images analysis: A camera phone capture channel model with auto-focus

    Directory of Open Access Journals (Sweden)

    Keng T. Tan

    2009-12-01

    Full Text Available As camera phones have permeated into our everyday lives, two dimensional (2D barcode has attracted researchers and developers as a cost-effective ubiquitous computing tool. A variety of 2D barcodes and their applications have been developed. Often, only monochrome2D barcodes are used due to their robustness in an uncontrolled operating environment of camera phones. However, we are seeing an emerging use of color 2D barcodes for camera phones. Nonetheless, using a greater multitude of colors introduces errors that can negatively affect the robustness of barcode reading. This is especially true when developing a 2D barcode for camera phones which capture and store these barcode images in the baselineJPEG format. This paper presents one aspect of the errors introduced by such camera phones by modeling the camera phone capture channel for JPEG color barcode images wherein there is camera auto-focus.

  6. Modelling of Camera Phone Capture Channel for JPEG Colour Barcode Images

    Science.gov (United States)

    Tan, Keng T.; Ong, Siong Khai; Chai, Douglas

    As camera phones have permeated into our everyday lives, two dimensional (2D) barcode has attracted researchers and developers as a cost-effective ubiquitous computing tool. A variety of 2D barcodes and their applications have been developed. Often, only monochrome 2D barcodes are used due to their robustness in an uncontrolled operating environment of camera phones. However, we are seeing an emerging use of colour 2D barcodes for camera phones. Nonetheless, using a greater multitude of colours introduces errors that can negatively affect the robustness of barcode reading. This is especially true when developing a 2D barcode for camera phones which capture and store these barcode images in the baseline JPEG format. This paper present one aspect of the errors introduced by such camera phones by modelling the camera phone capture channel for JPEG colour barcode images.

  7. Development of Kinematic 3D Laser Scanning System for Indoor Mapping and As-Built BIM Using Constrained SLAM

    Directory of Open Access Journals (Sweden)

    Jaehoon Jung

    2015-10-01

    Full Text Available The growing interest and use of indoor mapping is driving a demand for improved data-acquisition facility, efficiency and productivity in the era of the Building Information Model (BIM. The conventional static laser scanning method suffers from some limitations on its operability in complex indoor environments, due to the presence of occlusions. Full scanning of indoor spaces without loss of information requires that surveyors change the scanner position many times, which incurs extra work for registration of each scanned point cloud. Alternatively, a kinematic 3D laser scanning system, proposed herein, uses line-feature-based Simultaneous Localization and Mapping (SLAM technique for continuous mapping. Moreover, to reduce the uncertainty of line-feature extraction, we incorporated constrained adjustment based on an assumption made with respect to typical indoor environments: that the main structures are formed of parallel or orthogonal line features. The superiority of the proposed constrained adjustment is its reduction for uncertainties of the adjusted lines, leading to successful data association process. In the present study, kinematic scanning with and without constrained adjustment were comparatively evaluated in two test sites, and the results confirmed the effectiveness of the proposed system. The accuracy of the 3D mapping result was additionally evaluated by comparison with the reference points acquired by a total station: the Euclidean average distance error was 0.034 m for the seminar room and 0.043 m for the corridor, which satisfied the error tolerance for point cloud acquisition (0.051 m according to the guidelines of the General Services Administration for BIM accuracy.

  8. Research and Development of High-speed Laser Scanning Galvanometer System

    Directory of Open Access Journals (Sweden)

    Chao-Ching Ho

    2013-12-01

    Full Text Available This study developed and controlled laser scanning mechanism and circuit design, in order to reduce the vibratory magnitude resulted from high-speed operation. The principle of mechanism design is that the output end mirror can swing within ± 3° when the laser scanning mechanism is in operation, the accuracy value is ± 0.2°. The static simulation and dynamic measurement were carried out for mutual validation. The vibration generated in the operation of machine causes dynamic unbalance, influencing the stability of machine. In order to overcome and improve the dynamic unbalance generated when the mechanism is in motion, different solutions were proposed, such as changing the output end mass, to add elastic material in or to change constant speed control of input end motor to variable speed control.

  9. Streamlining DNA barcoding protocols: automated DNA extraction and a new cox1 primer in arachnid systematics.

    Directory of Open Access Journals (Sweden)

    Nina Vidergar

    Full Text Available BACKGROUND: DNA barcoding is a popular tool in taxonomic and phylogenetic studies, but for most animal lineages protocols for obtaining the barcoding sequences--mitochondrial cytochrome C oxidase subunit I (cox1 AKA CO1--are not standardized. Our aim was to explore an optimal strategy for arachnids, focusing on the species-richest lineage, spiders by (1 improving an automated DNA extraction protocol, (2 testing the performance of commonly used primer combinations, and (3 developing a new cox1 primer suitable for more efficient alignment and phylogenetic analyses. METHODOLOGY: We used exemplars of 15 species from all major spider clades, processed a range of spider tissues of varying size and quality, optimized genomic DNA extraction using the MagMAX Express magnetic particle processor-an automated high throughput DNA extraction system-and tested cox1 amplification protocols emphasizing the standard barcoding region using ten routinely employed primer pairs. RESULTS: The best results were obtained with the commonly used Folmer primers (LCO1490/HCO2198 that capture the standard barcode region, and with the C1-J-2183/C1-N-2776 primer pair that amplifies its extension. However, C1-J-2183 is designed too close to HCO2198 for well-interpreted, continuous sequence data, and in practice the resulting sequences from the two primer pairs rarely overlap. We therefore designed a new forward primer C1-J-2123 60 base pairs upstream of the C1-J-2183 binding site. The success rate of this new primer (93% matched that of C1-J-2183. CONCLUSIONS: The use of C1-J-2123 allows full, indel-free overlap of sequences obtained with the standard Folmer primers and with C1-J-2123 primer pair. Our preliminary tests suggest that in addition to spiders, C1-J-2123 will also perform in other arachnids and several other invertebrates. We provide optimal PCR protocols for these primer sets, and recommend using them for systematic efforts beyond DNA barcoding.

  10. Feasibility of Concurrent Treatment with the Scanning Ultrasound Reflector Linear Array System (SURLAS) and the Helical Tomotherapy System

    Science.gov (United States)

    Peñagarícano, José A.; Moros, Eduardo; Novák, Petr; Yan, Yulong; Corry, Peter

    2010-01-01

    Purpose To evaluate the feasibility of concurrent treatment with the Scanning Ultrasound Reflector Linear Array System (SURLAS) and helical tomotherapy (HT) intensity modulated radiation therapy (IMRT). Methods The SURLAS was placed on a RANDO phantom simulating a patient with superficial or deep recurrent breast cancer. A Megavoltage CT (MVCT) of the phantom with and without the SURLAS was obtained in the HT system. MVCT images with the SURLAS were obtained for two configurations: i) with the SURLAS' long axis parallel and ii) perpendicular to the longitudinal axis of the phantom. The MVCT simulation data set was then transferred to a radiation therapy planning station. Organs at risk (OAR) were contoured including the lungs, heart, abdomen and spinal cord. The metallic parts of the SURLAS were contoured as well and constraints were assigned to completely or directionally block radiation through them. The MVCT-simulation data set and regions of interest (ROI) files were subsequently transferred to the HT planning station. Several HT plans were obtained with optimization parameters that are usually used in the clinic. For comparison purposes, planning was also performed without the SURLAS on the phantom. Results All plans with the SURLAS on the phantom showed adequate dose covering 95% of the planning target volume (PTV D95%), average dose and coefficient of variation of the planning target volume (PTV) dose distribution regardless of the SURLAS' orientation with respect to the RANDO phantom. Likewise, all OAR showed clinically acceptable dose values. Spatial dose distributions and dose-volume histogram (DVH) evaluation showed negligible plan degradation due to the presence of the SURLAS. Beam-on time varied depending on the selected optimization parameters. Conclusion From the perspective of the radiation dosage, concurrent treatment with the SURLAS and HT IMRT is feasible as demonstrated by the obtained clinically acceptable treatment plans. In addition, proper

  11. International Barcode of Life: Evolution of a global research community.

    Science.gov (United States)

    Adamowicz, Sarah J

    2015-05-01

    The 6th International Barcode of Life Conference (Guelph, Canada, 18-21 August 2015), themed Barcodes to Biomes, showcases the latest developments in DNA barcoding research and its diverse applications. The meeting also provides a venue for a global research community to share ideas and to initiate collaborations. All plenary and contributed abstracts are being published as an open-access special issue of Genome. Here, I use a comparison with the 3rd Conference (Mexico City, 2009) to highlight 10 recent and emerging trends that are apparent among the contributed abstracts. One of the outstanding trends is the rising proportion of abstracts that focus upon multiple socio-economically important applications of DNA barcoding, including studies of agricultural pests, quarantine and invasive species, wildlife forensics, disease vectors, biomonitoring of ecosystem health, and marketplace surveys evaluating the authenticity of seafood products and medicinal plants. Other key movements include the use of barcoding and metabarcoding approaches for dietary analyses-and for studies of food webs spanning three or more trophic levels-as well as the spread of next-generation sequencing methods in multiple contexts. In combination with the rising taxonomic and geographic scope of many barcoding iniatives, these developments suggest that several important questions in biology are becoming tractable. "What is this specimen on an agricultural shipment?", "Who eats whom in this whole food web?", and even "How many species are there?" are questions that may be answered in time periods ranging from a few years to one or a few decades. The next phases of DNA barcoding may expand yet further into prediction of community shifts with climate change and improved management of biological resources. PMID:26444714

  12. Patterns of DNA Barcode Variation in Canadian Marine Molluscs

    Science.gov (United States)

    Layton, Kara K.S.; Martel, André L.; Hebert, Paul DN.

    2014-01-01

    Background Molluscs are the most diverse marine phylum and this high diversity has resulted in considerable taxonomic problems. Because the number of species in Canadian oceans remains uncertain, there is a need to incorporate molecular methods into species identifications. A 648 base pair segment of the cytochrome c oxidase subunit I gene has proven useful for the identification and discovery of species in many animal lineages. While the utility of DNA barcoding in molluscs has been demonstrated in other studies, this is the first effort to construct a DNA barcode registry for marine molluscs across such a large geographic area. Methodology/Principal Findings This study examines patterns of DNA barcode variation in 227 species of Canadian marine molluscs. Intraspecific sequence divergences ranged from 0–26.4% and a barcode gap existed for most taxa. Eleven cases of relatively deep (>2%) intraspecific divergence were detected, suggesting the possible presence of overlooked species. Structural variation was detected in COI with indels found in 37 species, mostly bivalves. Some indels were present in divergent lineages, primarily in the region of the first external loop, suggesting certain areas are hotspots for change. Lastly, mean GC content varied substantially among orders (24.5%–46.5%), and showed a significant positive correlation with nearest neighbour distances. Conclusions/Significance DNA barcoding is an effective tool for the identification of Canadian marine molluscs and for revealing possible cases of overlooked species. Some species with deep intraspecific divergence showed a biogeographic partition between lineages on the Atlantic, Arctic and Pacific coasts, suggesting the role of Pleistocene glaciations in the subdivision of their populations. Indels were prevalent in the barcode region of the COI gene in bivalves and gastropods. This study highlights the efficacy of DNA barcoding for providing insights into sequence variation across a broad

  13. Closed-loop control of a 2-D mems micromirror with sidewall electrodes for a laser scanning microscope system

    Science.gov (United States)

    Chen, Hui; Chen, Albert; Jie Sun, Wei; Sun, Zhen Dong; Yeow, John TW

    2016-01-01

    This article presents the development and implementation of a robust nonlinear control scheme for a 2-D micromirror-based laser scanning microscope system. The presented control scheme, built around sliding mode control approach and augmented an adaptive algorithm, is proposed to improve the tracking accuracy in presence of cross-axis effect. The closed-loop controlled imaging system is developed through integrating a 2-D micromirror with sidewall electrodes (SW), a laser source, NI field-programmable gate array (FPGA) hardware, the optics, position sensing detector (PSD) and photo detector (PD). The experimental results demonstrated that the proposed scheme is able to achieve accurate tracking of a reference triangular signal. Compared with open-loop control, the scanning performance is significantly improved, and a better 2-D image is obtained using the micromirror with the proposed scheme.

  14. Wide area scanning system and carbon microbeams at the external microbeam facility of the INFN LABEC laboratory in Florence

    Science.gov (United States)

    Giuntini, L.; Massi, M.; Calusi, S.; Castelli, L.; Carraresi, L.; Fedi, M. E.; Gelli, N.; Liccioli, L.; Mandò, P. A.; Mazzinghi, A.; Palla, L.; Romano, F. P.; Ruberto, C.; Taccetti, F.

    2015-04-01

    Recently, developments have been made to the external scanning microbeam of INFN-LABEC laboratory in Florence. A new system for mechanical sample scanning was implemented. This system allows us to acquire large maps (up to 20 × 20 cm2), of great interest in the Cultural Heritage field. In parallel, the possibility of using carbon microbeams for experiments, such as, for example, ion beam modification of materials and MeV Secondary Ion Mass Spectrometry, has been investigated. As a test application, Particle Induced X-ray Emission with carbon microbeams has been performed on a lapis lazuli stone. First results for both wide area imaging and external carbon microbeams are briefly reported.

  15. Wide area scanning system and carbon microbeams at the external microbeam facility of the INFN LABEC laboratory in Florence

    Energy Technology Data Exchange (ETDEWEB)

    Giuntini, L. [Istituto Nazionale di Fisica Nucleare (INFN), Sezione di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Dipartimento di Fisica e Astronomia, Università di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Massi, M. [Istituto Nazionale di Fisica Nucleare (INFN), Sezione di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Calusi, S. [Istituto Nazionale di Fisica Nucleare (INFN), Sezione di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Dipartimento di Fisica e Astronomia, Università di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Castelli, L. [Istituto Nazionale di Fisica Nucleare (INFN), Sezione di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Carraresi, L. [Istituto Nazionale di Fisica Nucleare (INFN), Sezione di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Dipartimento di Fisica e Astronomia, Università di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Fedi, M.E.; Gelli, N. [Istituto Nazionale di Fisica Nucleare (INFN), Sezione di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Liccioli, L.; Mandò, P.A.; Mazzinghi, A. [Istituto Nazionale di Fisica Nucleare (INFN), Sezione di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Dipartimento di Fisica e Astronomia, Università di Firenze, Via Sansone 1, I-50019 Sesto Fiorentino, Firenze (Italy); Palla, L. [INFN, Sezione di Pisa and Università di Pisa, Largo B. Pontecorvo 3, I-56127 Pisa (Italy); Romano, F.P. [Consiglio Nazionale delle Ricerche (CNR), Istituto per i Beni Archeologici e Monumentali (IBAM), Via Biblioteca, 4, 95124 Catania (Italy); Istituto Nazionale di Fisica Nucleare (INFN), LNS, Via S.Sofia 62, 95125 Catania (Italy); and others

    2015-04-01

    Recently, developments have been made to the external scanning microbeam of INFN-LABEC laboratory in Florence. A new system for mechanical sample scanning was implemented. This system allows us to acquire large maps (up to 20 × 20 cm{sup 2}), of great interest in the Cultural Heritage field. In parallel, the possibility of using carbon microbeams for experiments, such as, for example, ion beam modification of materials and MeV Secondary Ion Mass Spectrometry, has been investigated. As a test application, Particle Induced X-ray Emission with carbon microbeams has been performed on a lapis lazuli stone. First results for both wide area imaging and external carbon microbeams are briefly reported.

  16. ycf1, the most promising plastid DNA barcode of land plants

    OpenAIRE

    Wenpan Dong; Chao Xu; Changhao Li; Jiahui Sun; Yunjuan Zuo; Shuo Shi; Tao Cheng; Junjie Guo; Shiliang Zhou

    2015-01-01

    A DNA barcode is a DNA fragment used to identify species. For land plants, DNA fragments of plastid genome could be the primary consideration. Unfortunately, most of the plastid candidate barcodes lack species-level resolution. The identification of DNA barcodes of high resolution at species level is critical to the success of DNA barcoding in plants. We searched the available plastid genomes for the most variable regions and tested the best candidates using both a large number of tree specie...

  17. Identification of ancient Olea europaea L. and Cornus mas L. seeds by DNA barcoding.

    Science.gov (United States)

    Gismondi, Angelo; Rolfo, Mario Federico; Leonardi, Donatella; Rickards, Olga; Canini, Antonella

    2012-07-01

    The analysis of ancient DNA (aDNA) provides archaeologists and anthropologists with innovative, scientific and accurate data to study and understand the past. In this work, ancient seeds, found in the "Mora Cavorso" archaeological site (Latium, Central Italy), were analyzed to increase information about Italian Neolithic populations (plant use, agriculture, diet, trades, customs and ecology). We performed morphological and genetic techniques to identify fossil botanical species. In particular, this study also suggests and emphasizes the use of DNA barcode method for ancient plant sample analysis. Scanning electron microscope (SEM) observations showed seed compact structure and irregular surface but they did not permit a precise nor empirical classification: so, a molecular approach was necessary. DNA was extracted from ancient seeds and then it was used, as template, for PCR amplifications of standardized barcode genes. Although aDNA could be highly degraded by the time, successful PCR products were obtained, sequenced and compared to nucleotide sequence databases. Positive outcomes (supported by morphological comparison with modern seeds, geographical distribution and historical data) indicated that seeds could be identified as belonging to two plant species: Olea europaea L. and Cornus mas L. PMID:22847014

  18. Minimal Apical Enlargement for Penetration of Irrigants to the Apical Third of Root Canal System: A Scanning Electron Microscope Study

    OpenAIRE

    P. Srikanth; Krishna, Amaravadi Gopi; Srinivas, Siva; Reddy, E Sujayeendranatha; Battu, Someshwar; Aravelli, Swathi

    2015-01-01

    Background: The aim of this study was to determine minimal apical enlargement for irrigant penetration into apical third of root canal system using scanning electron microscope (SEM). Materials and Methods: Distobuccal canals of 40 freshly extracted human maxillary first molar teeth were instrumented using crown-down technique. The teeth were divided into four test groups according to size of their master apical file (MAF) (#20, #25, #30, #35 0.06% taper), and two control groups. After final ...

  19. A versatile dual spot laser scanning confocal microscopy system for advanced fluorescence correlation spectroscopy analysis in living cell

    CERN Document Server

    Ferrand, P; Kress, A; Aillaud, A; Rigneault, H; Marguet, D

    2009-01-01

    A fluorescence correlation spectroscopy (FCS) system based on two independent measurement volumes is presented. The optical setup and data acquisition hardware are detailed, as well as a complete protocol to control the location, size and shape of the measurement volumes. A method that allows to monitor independently the excitation and collection efficiency distribution is proposed. Finally, a few examples of measurements that exploit the two spots in static and/or scanning schemes, are reported.

  20. A robust SNP barcode for typing Mycobacterium tuberculosis complex strains

    KAUST Repository

    Coll, Francesc

    2014-09-01

    Strain-specific genomic diversity in the Mycobacterium tuberculosis complex (MTBC) is an important factor in pathogenesis that may affect virulence, transmissibility, host response and emergence of drug resistance. Several systems have been proposed to classify MTBC strains into distinct lineages and families. Here, we investigate single-nucleotide polymorphisms (SNPs) as robust (stable) markers of genetic variation for phylogenetic analysis. We identify ∼92k SNP across a global collection of 1,601 genomes. The SNP-based phylogeny is consistent with the gold-standard regions of difference (RD) classification system. Of the ∼7k strain-specific SNPs identified, 62 markers are proposed to discriminate known circulating strains. This SNP-based barcode is the first to cover all main lineages, and classifies a greater number of sublineages than current alternatives. It may be used to classify clinical isolates to evaluate tools to control the disease, including therapeutics and vaccines whose effectiveness may vary by strain type. © 2014 Macmillan Publishers Limited.