Science.gov

Sample records for annotated receipts capture

  1. Annotated receipts capture household food purchases from a broad range of sources

    PubMed Central

    French, Simone A; Wall, Melanie; Mitchell, Nathan R; Shimotsu, Scott T; Welsh, Ericka

    2009-01-01

    Background Accurate measurement of household food purchase behavior (HFPB) is important for understanding its association with household characteristics, individual dietary intake and neighborhood food retail outlets. However, little research has been done to develop measures of HFPB. The main objective of this paper is to describe the development of a measure of HFPB using annotated food purchase receipts. Methods Households collected and annotated food purchase receipts for a four-week period as part of the baseline assessment of a household nutrition intervention. Receipts were collected from all food sources, including grocery stores and restaurants. Households (n = 90) were recruited from the community as part of an obesity prevention intervention conducted in 2007–2008 in Minneapolis, Minnesota, USA. Household primary shoppers were trained to follow a standardized receipt collection and annotation protocol. Annotated receipts were mailed weekly to research staff. Staff coded the receipt data and entered it into a database. Total food dollars, proportion of food dollars, and ounces of food purchased were examined for different food sources and food categories. Descriptive statistics and correlations are presented. Results A total of 2,483 receipts were returned by 90 households. Home sources comprised 45% of receipts and eating-out sources 55%. Eating-out entrees were proportionally the largest single food category based on counts (16.6%) and dollars ($106 per month). Two-week expenditures were highly correlated (r = 0.83) with four-week expenditures. Conclusion Receipt data provided important quantitative information about HFPB from a wide range of sources and food categories. Two weeks may be adequate to reliably characterize HFPB using annotated receipts. PMID:19570234

  2. 77 FR 4059 - Certain Electronic Devices for Capturing and Transmitting Images, and Components Thereof; Receipt...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-01-26

    ... COMMISSION Certain Electronic Devices for Capturing and Transmitting Images, and Components Thereof; Receipt... Images, and Components Thereof, DN 2869; the Commission is soliciting comments on any public interest... for capturing and transmitting images, and components thereof. The complaint names Apple Inc....

  3. Student Annotation Form To Capture Reflections on Work Samples in Portfolios.

    ERIC Educational Resources Information Center

    Brookhart, Susan M.

    Evidence is presented for the validity and reliability of a student annotation form used to collect student reflections on work samples in portfolios. The form was designed to be general enough to apply to many grades and subjects and simple enough for students at all levels to complete. The annotation forms asked students to indicate how…

  4. Computing human image annotation.

    PubMed

    Channin, David S; Mongkolwat, Pattanasak; Kleper, Vladimir; Rubin, Daniel L

    2009-01-01

    An image annotation is the explanatory or descriptive information about the pixel data of an image that is generated by a human (or machine) observer. An image markup is the graphical symbols placed over the image to depict an annotation. In the majority of current, clinical and research imaging practice, markup is captured in proprietary formats and annotations are referenced only in free text radiology reports. This makes these annotations difficult to query, retrieve and compute upon, hampering their integration into other data mining and analysis efforts. This paper describes the National Cancer Institute's Cancer Biomedical Informatics Grid's (caBIG) Annotation and Image Markup (AIM) project, focusing on how to use AIM to query for annotations. The AIM project delivers an information model for image annotation and markup. The model uses controlled terminologies for important concepts. All of the classes and attributes of the model have been harmonized with the other models and common data elements in use at the National Cancer Institute. The project also delivers XML schemata necessary to instantiate AIMs in XML as well as a software application for translating AIM XML into DICOM S/R and HL7 CDA. Large collections of AIM annotations can be built and then queried as Grid or Web services. Using the tools of the AIM project, image annotations and their markup can be captured and stored in human and machine readable formats. This enables the inclusion of human image observation and inference as part of larger data mining and analysis activities. PMID:19964202

  5. Annotation and Classification of Argumentative Writing Revisions

    ERIC Educational Resources Information Center

    Zhang, Fan; Litman, Diane

    2015-01-01

    This paper explores the annotation and classification of students' revision behaviors in argumentative writing. A sentence-level revision schema is proposed to capture why and how students make revisions. Based on the proposed schema, a small corpus of student essays and revisions was annotated. Studies show that manual annotation is reliable with…

  6. Motion lecture annotation system to learn Naginata performances

    NASA Astrophysics Data System (ADS)

    Kobayashi, Daisuke; Sakamoto, Ryota; Nomura, Yoshihiko

    2013-12-01

    This paper describes a learning assistant system using motion capture data and annotation to teach "Naginata-jutsu" (a skill to practice Japanese halberd) performance. There are some video annotation tools such as YouTube. However these video based tools have only single angle of view. Our approach that uses motion-captured data allows us to view any angle. A lecturer can write annotations related to parts of body. We have made a comparison of effectiveness between the annotation tool of YouTube and the proposed system. The experimental result showed that our system triggered more annotations than the annotation tool of YouTube.

  7. Gene Ontology annotations and resources.

    PubMed

    Blake, J A; Dolan, M; Drabkin, H; Hill, D P; Li, Ni; Sitnikov, D; Bridges, S; Burgess, S; Buza, T; McCarthy, F; Peddinti, D; Pillai, L; Carbon, S; Dietze, H; Ireland, A; Lewis, S E; Mungall, C J; Gaudet, P; Chrisholm, R L; Fey, P; Kibbe, W A; Basu, S; Siegele, D A; McIntosh, B K; Renfro, D P; Zweifel, A E; Hu, J C; Brown, N H; Tweedie, S; Alam-Faruque, Y; Apweiler, R; Auchinchloss, A; Axelsen, K; Bely, B; Blatter, M -C; Bonilla, C; Bouguerleret, L; Boutet, E; Breuza, L; Bridge, A; Chan, W M; Chavali, G; Coudert, E; Dimmer, E; Estreicher, A; Famiglietti, L; Feuermann, M; Gos, A; Gruaz-Gumowski, N; Hieta, R; Hinz, C; Hulo, C; Huntley, R; James, J; Jungo, F; Keller, G; Laiho, K; Legge, D; Lemercier, P; Lieberherr, D; Magrane, M; Martin, M J; Masson, P; Mutowo-Muellenet, P; O'Donovan, C; Pedruzzi, I; Pichler, K; Poggioli, D; Porras Millán, P; Poux, S; Rivoire, C; Roechert, B; Sawford, T; Schneider, M; Stutz, A; Sundaram, S; Tognolli, M; Xenarios, I; Foulgar, R; Lomax, J; Roncaglia, P; Khodiyar, V K; Lovering, R C; Talmud, P J; Chibucos, M; Giglio, M Gwinn; Chang, H -Y; Hunter, S; McAnulla, C; Mitchell, A; Sangrador, A; Stephan, R; Harris, M A; Oliver, S G; Rutherford, K; Wood, V; Bahler, J; Lock, A; Kersey, P J; McDowall, D M; Staines, D M; Dwinell, M; Shimoyama, M; Laulederkind, S; Hayman, T; Wang, S -J; Petri, V; Lowry, T; D'Eustachio, P; Matthews, L; Balakrishnan, R; Binkley, G; Cherry, J M; Costanzo, M C; Dwight, S S; Engel, S R; Fisk, D G; Hitz, B C; Hong, E L; Karra, K; Miyasato, S R; Nash, R S; Park, J; Skrzypek, M S; Weng, S; Wong, E D; Berardini, T Z; Huala, E; Mi, H; Thomas, P D; Chan, J; Kishore, R; Sternberg, P; Van Auken, K; Howe, D; Westerfield, M

    2013-01-01

    The Gene Ontology (GO) Consortium (GOC, http://www.geneontology.org) is a community-based bioinformatics resource that classifies gene product function through the use of structured, controlled vocabularies. Over the past year, the GOC has implemented several processes to increase the quantity, quality and specificity of GO annotations. First, the number of manual, literature-based annotations has grown at an increasing rate. Second, as a result of a new 'phylogenetic annotation' process, manually reviewed, homology-based annotations are becoming available for a broad range of species. Third, the quality of GO annotations has been improved through a streamlined process for, and automated quality checks of, GO annotations deposited by different annotation groups. Fourth, the consistency and correctness of the ontology itself has increased by using automated reasoning tools. Finally, the GO has been expanded not only to cover new areas of biology through focused interaction with experts, but also to capture greater specificity in all areas of the ontology using tools for adding new combinatorial terms. The GOC works closely with other ontology developers to support integrated use of terminologies. The GOC supports its user community through the use of e-mail lists, social media and web-based resources. PMID:23161678

  8. Gene Ontology Annotations and Resources

    PubMed Central

    2013-01-01

    The Gene Ontology (GO) Consortium (GOC, http://www.geneontology.org) is a community-based bioinformatics resource that classifies gene product function through the use of structured, controlled vocabularies. Over the past year, the GOC has implemented several processes to increase the quantity, quality and specificity of GO annotations. First, the number of manual, literature-based annotations has grown at an increasing rate. Second, as a result of a new ‘phylogenetic annotation’ process, manually reviewed, homology-based annotations are becoming available for a broad range of species. Third, the quality of GO annotations has been improved through a streamlined process for, and automated quality checks of, GO annotations deposited by different annotation groups. Fourth, the consistency and correctness of the ontology itself has increased by using automated reasoning tools. Finally, the GO has been expanded not only to cover new areas of biology through focused interaction with experts, but also to capture greater specificity in all areas of the ontology using tools for adding new combinatorial terms. The GOC works closely with other ontology developers to support integrated use of terminologies. The GOC supports its user community through the use of e-mail lists, social media and web-based resources. PMID:23161678

  9. Ranking Biomedical Annotations with Annotator's Semantic Relevancy

    PubMed Central

    2014-01-01

    Biomedical annotation is a common and affective artifact for researchers to discuss, show opinion, and share discoveries. It becomes increasing popular in many online research communities, and implies much useful information. Ranking biomedical annotations is a critical problem for data user to efficiently get information. As the annotator's knowledge about the annotated entity normally determines quality of the annotations, we evaluate the knowledge, that is, semantic relationship between them, in two ways. The first is extracting relational information from credible websites by mining association rules between an annotator and a biomedical entity. The second way is frequent pattern mining from historical annotations, which reveals common features of biomedical entities that an annotator can annotate with high quality. We propose a weighted and concept-extended RDF model to represent an annotator, a biomedical entity, and their background attributes and merge information from the two ways as the context of an annotator. Based on that, we present a method to rank the annotations by evaluating their correctness according to user's vote and the semantic relevancy between the annotator and the annotated entity. The experimental results show that the approach is applicable and efficient even when data set is large. PMID:24899918

  10. Ranking biomedical annotations with annotator's semantic relevancy.

    PubMed

    Wu, Aihua

    2014-01-01

    Biomedical annotation is a common and affective artifact for researchers to discuss, show opinion, and share discoveries. It becomes increasing popular in many online research communities, and implies much useful information. Ranking biomedical annotations is a critical problem for data user to efficiently get information. As the annotator's knowledge about the annotated entity normally determines quality of the annotations, we evaluate the knowledge, that is, semantic relationship between them, in two ways. The first is extracting relational information from credible websites by mining association rules between an annotator and a biomedical entity. The second way is frequent pattern mining from historical annotations, which reveals common features of biomedical entities that an annotator can annotate with high quality. We propose a weighted and concept-extended RDF model to represent an annotator, a biomedical entity, and their background attributes and merge information from the two ways as the context of an annotator. Based on that, we present a method to rank the annotations by evaluating their correctness according to user's vote and the semantic relevancy between the annotator and the annotated entity. The experimental results show that the approach is applicable and efficient even when data set is large. PMID:24899918

  11. Annotating user-defined abstractions for optimization

    SciTech Connect

    Quinlan, D; Schordan, M; Vuduc, R; Yi, Q

    2005-12-05

    This paper discusses the features of an annotation language that we believe to be essential for optimizing user-defined abstractions. These features should capture semantics of function, data, and object-oriented abstractions, express abstraction equivalence (e.g., a class represents an array abstraction), and permit extension of traditional compiler optimizations to user-defined abstractions. Our future work will include developing a comprehensive annotation language for describing the semantics of general object-oriented abstractions, as well as automatically verifying and inferring the annotated semantics.

  12. Automated Knowledge Annotation for Dynamic Collaborative Environments

    SciTech Connect

    Cowell, Andrew J.; Gregory, Michelle L.; Marshall, Eric J.; McGrath, Liam R.

    2009-05-19

    This paper describes the Knowledge Encapsulation Framework (KEF), a suite of tools to enable automated knowledge annotation for modeling and simulation projects. This framework can be used to capture evidence (e.g., facts extracted from journal articles and government reports), discover new evidence (from similar peer-reviewed material as well as social media), enable discussions surrounding domain-specific topics and provide automatically generated semantic annotations for improved corpus investigation. The current KEF implementation is presented within a wiki environment, providing a simple but powerful collaborative space for team members to review, annotate, discuss and align evidence with their modeling frameworks.

  13. Representing annotation compositionality and provenance for the Semantic Web

    PubMed Central

    2013-01-01

    Background Though the annotation of digital artifacts with metadata has a long history, the bulk of that work focuses on the association of single terms or concepts to single targets. As annotation efforts expand to capture more complex information, annotations will need to be able to refer to knowledge structures formally defined in terms of more atomic knowledge structures. Existing provenance efforts in the Semantic Web domain primarily focus on tracking provenance at the level of whole triples and do not provide enough detail to track how individual triple elements of annotations were derived from triple elements of other annotations. Results We present a task- and domain-independent ontological model for capturing annotations and their linkage to their denoted knowledge representations, which can be singular concepts or more complex sets of assertions. We have implemented this model as an extension of the Information Artifact Ontology in OWL and made it freely available, and we show how it can be integrated with several prominent annotation and provenance models. We present several application areas for the model, ranging from linguistic annotation of text to the annotation of disease-associations in genome sequences. Conclusions With this model, progressively more complex annotations can be composed from other annotations, and the provenance of compositional annotations can be represented at the annotation level or at the level of individual elements of the RDF triples composing the annotations. This in turn allows for progressively richer annotations to be constructed from previous annotation efforts, the precise provenance recording of which facilitates evidence-based inference and error tracking. PMID:24268021

  14. Inter-Annotator Reliability of Medical Events, Coreferences and Temporal Relations in Clinical Narratives by Annotators with Varying Levels of Clinical Expertise

    PubMed Central

    Raghavan, Preethi; Fosler-Lussier, Eric; Lai, Albert M.

    2012-01-01

    The manual annotation of clinical narratives is an important step for training and validating the performance of automated systems that utilize these clinical narratives. We build an annotation specification to capture medical events, and coreferences and temporal relations between medical events in clinical text. Unfortunately, the process of clinical data annotation is both time consuming and costly. Many annotation efforts have used physicians to annotate the data. We investigate using annotators that are current students or graduates from diverse clinical backgrounds with varying levels of clinical experience. In spite of this diversity, the annotation agreement across our team of annotators is high; the average inter-annotator kappa statistic for medical events, coreferences, temporal relations, and medical event concept unique identifiers was 0.843, 0.859, 0.833, and 0.806, respectively. We describe methods towards leveraging the annotations to support temporal reasoning with medical events. PMID:23304416

  15. 7 CFR 1427.11 - Warehouse receipts.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 10 2013-01-01 2013-01-01 false Warehouse receipts. 1427.11 Section 1427.11... Deficiency Payments § 1427.11 Warehouse receipts. (a) Producers may obtain loans on eligible cotton represented by warehouse receipts only if the warehouse receipts meet the definition of a warehouse...

  16. 7 CFR 1427.11 - Warehouse receipts.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 10 2014-01-01 2014-01-01 false Warehouse receipts. 1427.11 Section 1427.11... Deficiency Payments § 1427.11 Warehouse receipts. (a) Producers may obtain loans on eligible cotton represented by warehouse receipts only if the warehouse receipts meet the definition of a warehouse...

  17. The Otter Annotation System

    PubMed Central

    Searle, Stephen M.J.; Gilbert, James; Iyer, Vivek; Clamp, Michele

    2004-01-01

    With the completion of the human genome sequence and genome sequence available for other vertebrate genomes, the task of manual annotation at the large genome scale has become a priority. Possibly even more important, is the requirement to curate and improve this annotation in the light of future data. For this to be possible, there is a need for tools to access and manage the annotation. Ensembl provides an excellent means for storing gene structures, genome features, and sequence, but it does not support the extra textual data necessary for manual annotation. We have extended Ensembl to create the Otter manual annotation system. This comprises a relational database schema for storing the manual annotation data, an application-programming interface (API) to access it, an extensible markup language (XML) format to allow transfer of the data, and a server to allow multiuser/multimachine access to the data. We have also written a data-adaptor plugin for the Apollo Browser/Editor to enable it to utilize an Otter server. The otter database is currently used by the Vertebrate Genome Annotation (VEGA) site (http://vega.sanger.ac.uk), which provides access to manually curated human chromosomes. Support is also being developed for using the AceDB annotation editor, FMap, via a perl wrapper called Lace. The Human and Vertebrate Annotation (HAVANA) group annotators at the Sanger center are using this to annotate human chromosomes 1 and 20. PMID:15123593

  18. SEED Software Annotations.

    ERIC Educational Resources Information Center

    Bethke, Dee; And Others

    This document provides a composite index of the first five sets of software annotations produced by Project SEED. The software has been indexed by title, subject area, and grade level, and it covers sets of annotations distributed in September 1986, April 1987, September 1987, November 1987, and February 1988. The date column in the index…

  19. Annotation extension through protein family annotation coherence metrics

    PubMed Central

    Bastos, Hugo P.; Clarke, Luka A.; Couto, Francisco M.

    2013-01-01

    Protein functional annotation consists in associating proteins with textual descriptors elucidating their biological roles. The bulk of annotation is done via automated procedures that ultimately rely on annotation transfer. Despite a large number of existing protein annotation procedures the ever growing protein space is never completely annotated. One of the facets of annotation incompleteness derives from annotation uncertainty. Often when protein function cannot be predicted with enough specificity it is instead conservatively annotated with more generic terms. In a scenario of protein families or functionally related (or even dissimilar) sets this leads to a more difficult task of using annotations to compare the extent of functional relatedness among all family or set members. However, we postulate that identifying sub-sets of functionally coherent proteins annotated at a very specific level, can help the annotation extension of other incompletely annotated proteins within the same family or functionally related set. As an example we analyse the status of annotation of a set of CAZy families belonging to the Polysaccharide Lyase class. We show that through the use of visualization methods and semantic similarity based metrics it is possible to identify families and respective annotation terms within them that are suitable for possible annotation extension. Based on our analysis we then propose a semi-automatic methodology leading to the extension of single annotation terms within these partially annotated protein sets or families. PMID:24130572

  20. 7 CFR 1421.107 - Warehouse receipts.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... must be submitted for each grade and class of any commodity tendered to CCC and, for rice, such receipt must also state the milling yield of the rice, and for wool, such receipts must also state the yield... grade, type, and segregation for peanuts tendered to CCC. (g)(1) Each warehouse receipt, or...

  1. 7 CFR 1421.107 - Warehouse receipts.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... must be submitted for each grade and class of any commodity tendered to CCC and, for rice, such receipt must also state the milling yield of the rice, and for wool, such receipts must also state the yield... grade, type, and segregation for peanuts tendered to CCC. (g)(1) Each warehouse receipt, or...

  2. An annotated energy bibliography

    NASA Technical Reports Server (NTRS)

    Blow, S. J.

    1979-01-01

    Comprehensive annotated compilation of books, journals, periodicals, and reports on energy and energy related topics, contains approximately 10,0000 tehcnical and nontechnical references from bibliographic and other sources dated January 1975 through May 1977.

  3. Semantic Annotation of Mutable Data

    PubMed Central

    Morris, Robert A.; Dou, Lei; Hanken, James; Kelly, Maureen; Lowery, David B.; Ludäscher, Bertram; Macklin, James A.; Morris, Paul J.

    2013-01-01

    Electronic annotation of scientific data is very similar to annotation of documents. Both types of annotation amplify the original object, add related knowledge to it, and dispute or support assertions in it. In each case, annotation is a framework for discourse about the original object, and, in each case, an annotation needs to clearly identify its scope and its own terminology. However, electronic annotation of data differs from annotation of documents: the content of the annotations, including expectations and supporting evidence, is more often shared among members of networks. Any consequent actions taken by the holders of the annotated data could be shared as well. But even those current annotation systems that admit data as their subject often make it difficult or impossible to annotate at fine-enough granularity to use the results in this way for data quality control. We address these kinds of issues by offering simple extensions to an existing annotation ontology and describe how the results support an interest-based distribution of annotations. We are using the result to design and deploy a platform that supports annotation services overlaid on networks of distributed data, with particular application to data quality control. Our initial instance supports a set of natural science collection metadata services. An important application is the support for data quality control and provision of missing data. A previous proof of concept demonstrated such use based on data annotations modeled with XML-Schema. PMID:24223697

  4. Linking pollinator visitation rate and pollen receipt.

    PubMed

    Cayenne Engel, E; Irwin, Rebecca E

    2003-11-01

    The majority of flowering plants require animals for pollination, a critical ecosystem service in natural and agricultural systems. However, quantifying useful estimates of pollinator visitation rates can be nearly impossible when pollinator visitation is infrequent. We examined the utility of an indirect measure of pollinator visitation, namely pollen receipt by flowers, using the hummingbird-pollinated plant, Ipomopsis aggregata (Polemoniaceae). Our a priori hypothesis was that increased pollinator visitation should result in increased pollen receipt by stigmas. However, the relationship between pollinator visitation rate and pollen receipt may be misleading if pollen receipt is a function of both the number of pollinator visits and variation in pollinator efficiency at depositing pollen, especially in the context of variable floral morphology. Therefore, we measured floral and plant characters known to be important to pollinator visitation and/or pollen receipt in I. aggregata (corolla length and width and plant height) and used path analysis to dissect and compare the effect of pollinator visitation rate vs. pollinator efficiency on pollen receipt. Of the characters we measured, pollinator visitation rate (number of times plants were visited multiplied by the mean percentage of flowers probed per visit) had the strongest direct positive effect on pollen receipt, explaining 36% of the variation in pollen receipt. Plant height had a direct positive effect on pollinator visitation rate and an indirect positive effect on pollen receipt. Despite the supposition that floral characters would directly affect pollen receipt as a result of changes in pollinator efficiency, corolla length and width only weakly affected pollen receipt. These results suggest a direct positive link between pollinator visitation rate and pollen receipt across naturally varying floral morphology in I. aggregata. Understanding the relationship between pollinator visitation rate and pollen

  5. Algal functional annotation tool

    Energy Science and Technology Software Center (ESTSC)

    2012-07-12

    Abstract BACKGROUND: Progress in genome sequencing is proceeding at an exponential pace, and several new algal genomes are becoming available every year. One of the challenges facing the community is the association of protein sequences encoded in the genomes with biological function. While most genome assembly projects generate annotations for predicted protein sequences, they are usually limited and integrate functional terms from a limited number of databases. Another challenge is the use of annotations tomore » interpret large lists of 'interesting' genes generated by genome-scale datasets. Previously, these gene lists had to be analyzed across several independent biological databases, often on a gene-by-gene basis. In contrast, several annotation databases, such as DAVID, integrate data from multiple functional databases and reveal underlying biological themes of large gene lists. While several such databases have been constructed for animals, none is currently available for the study of algae. Due to renewed interest in algae as potential sources of biofuels and the emergence of multiple algal genome sequences, a significant need has arisen for such a database to process the growing compendiums of algal genomic data. DESCRIPTION: The Algal Functional Annotation Tool is a web-based comprehensive analysis suite integrating annotation data from several pathway, ontology, and protein family databases. The current version provides annotation for the model alga Chlamydomonas reinhardtii, and in the future will include additional genomes. The site allows users to interpret large gene lists by identifying associated functional terms, and their enrichment. Additionally, expression data for several experimental conditions were compiled and analyzed to provide an expression-based enrichment search. A tool to search for functionally-related genes based on gene expression across these conditions is also provided. Other features include dynamic visualization of genes on

  6. Algal functional annotation tool

    SciTech Connect

    2012-07-12

    Abstract BACKGROUND: Progress in genome sequencing is proceeding at an exponential pace, and several new algal genomes are becoming available every year. One of the challenges facing the community is the association of protein sequences encoded in the genomes with biological function. While most genome assembly projects generate annotations for predicted protein sequences, they are usually limited and integrate functional terms from a limited number of databases. Another challenge is the use of annotations to interpret large lists of 'interesting' genes generated by genome-scale datasets. Previously, these gene lists had to be analyzed across several independent biological databases, often on a gene-by-gene basis. In contrast, several annotation databases, such as DAVID, integrate data from multiple functional databases and reveal underlying biological themes of large gene lists. While several such databases have been constructed for animals, none is currently available for the study of algae. Due to renewed interest in algae as potential sources of biofuels and the emergence of multiple algal genome sequences, a significant need has arisen for such a database to process the growing compendiums of algal genomic data. DESCRIPTION: The Algal Functional Annotation Tool is a web-based comprehensive analysis suite integrating annotation data from several pathway, ontology, and protein family databases. The current version provides annotation for the model alga Chlamydomonas reinhardtii, and in the future will include additional genomes. The site allows users to interpret large gene lists by identifying associated functional terms, and their enrichment. Additionally, expression data for several experimental conditions were compiled and analyzed to provide an expression-based enrichment search. A tool to search for functionally-related genes based on gene expression across these conditions is also provided. Other features include dynamic visualization of genes on KEGG

  7. Human Genome Annotation

    NASA Astrophysics Data System (ADS)

    Gerstein, Mark

    A central problem for 21st century science is annotating the human genome and making this annotation useful for the interpretation of personal genomes. My talk will focus on annotating the 99% of the genome that does not code for canonical genes, concentrating on intergenic features such as structural variants (SVs), pseudogenes (protein fossils), binding sites, and novel transcribed RNAs (ncRNAs). In particular, I will describe how we identify regulatory sites and variable blocks (SVs) based on processing next-generation sequencing experiments. I will further explain how we cluster together groups of sites to create larger annotations. Next, I will discuss a comprehensive pseudogene identification pipeline, which has enabled us to identify >10K pseudogenes in the genome and analyze their distribution with respect to age, protein family, and chromosomal location. Throughout, I will try to introduce some of the computational algorithms and approaches that are required for genome annotation. Much of this work has been carried out in the framework of the ENCODE, modENCODE, and 1000 genomes projects.

  8. Algal functional annotation tool

    SciTech Connect

    Lopez, D.; Casero, D.; Cokus, S. J.; Merchant, S. S.; Pellegrini, M.

    2012-07-01

    The Algal Functional Annotation Tool is a web-based comprehensive analysis suite integrating annotation data from several pathway, ontology, and protein family databases. The current version provides annotation for the model alga Chlamydomonas reinhardtii, and in the future will include additional genomes. The site allows users to interpret large gene lists by identifying associated functional terms, and their enrichment. Additionally, expression data for several experimental conditions were compiled and analyzed to provide an expression-based enrichment search. A tool to search for functionally-related genes based on gene expression across these conditions is also provided. Other features include dynamic visualization of genes on KEGG pathway maps and batch gene identifier conversion.

  9. Increasing Receipt of Women's Preventive Services.

    PubMed

    Stolp, Haley; Fox, Jared

    2015-11-01

    The receipt of clinical preventive services is important for health promotion and prevention of illness, death, and disability for women in the United States. Today, the Affordable Care Act makes a variety of evidence-based preventive services available with no out-of-pocket cost to women with certain health insurance plans. Nevertheless, available service receipt data suggest receipt of the services for all American adults remains suboptimal. This article seeks to raise awareness about the critical gaps in the delivery of preventive services to women and highlight opportunities for women, primary care providers, and public health professionals to increase receipt of clinical preventive services among women. PMID:26447836

  10. Mulligan Concept manual therapy: standardizing annotation.

    PubMed

    McDowell, Jillian Marie; Johnson, Gillian Margaret; Hetherington, Barbara Helen

    2014-10-01

    Quality technique documentation is integral to the practice of manual therapy, ensuring uniform application and reproducibility of treatment. Manual therapy techniques are described by annotations utilizing a range of acronyms, abbreviations and universal terminology based on biomechanical and anatomical concepts. The various combinations of therapist and patient generated forces utilized in a variety of weight-bearing positions, which are synonymous with Mulligan Concept, challenge practitioners existing annotational skills. An annotation framework with recording rules adapted to the Mulligan Concept is proposed in which the abbreviations incorporate established manual therapy tenets and are detailed in the following sequence of; starting position, side, joint/s, method of application, glide/s, Mulligan technique, movement (or function), whether an assistant is used, overpressure (and by whom) and numbers of repetitions or time and sets. Therapist or patient application of overpressure and utilization of treatment belts or manual techniques must be recorded to capture the complete description. The adoption of the Mulligan Concept annotation framework in this way for documentation purposes will provide uniformity and clarity of information transfer for the future purposes of teaching, clinical practice and audit for its practitioners. PMID:24491791

  11. Community gene annotation in practice

    PubMed Central

    Loveland, Jane E.; Gilbert, James G.R.; Griffiths, Ed; Harrow, Jennifer L.

    2012-01-01

    Manual annotation of genomic data is extremely valuable to produce an accurate reference gene set but is expensive compared with automatic methods and so has been limited to model organisms. Annotation tools that have been developed at the Wellcome Trust Sanger Institute (WTSI, http://www.sanger.ac.uk/.) are being used to fill that gap, as they can be used remotely and so open up viable community annotation collaborations. We introduce the ‘Blessed’ annotator and ‘Gatekeeper’ approach to Community Annotation using the Otterlace/ZMap genome annotation tool. We also describe the strategies adopted for annotation consistency, quality control and viewing of the annotation. Database URL: http://vega.sanger.ac.uk/index.html PMID:22434843

  12. Annotation: The Savant Syndrome

    ERIC Educational Resources Information Center

    Heaton, Pamela; Wallace, Gregory L.

    2004-01-01

    Background: Whilst interest has focused on the origin and nature of the savant syndrome for over a century, it is only within the past two decades that empirical group studies have been carried out. Methods: The following annotation briefly reviews relevant research and also attempts to address outstanding issues in this research area.…

  13. Collaborative Movie Annotation

    NASA Astrophysics Data System (ADS)

    Zad, Damon Daylamani; Agius, Harry

    In this paper, we focus on metadata for self-created movies like those found on YouTube and Google Video, the duration of which are increasing in line with falling upload restrictions. While simple tags may have been sufficient for most purposes for traditionally very short video footage that contains a relatively small amount of semantic content, this is not the case for movies of longer duration which embody more intricate semantics. Creating metadata is a time-consuming process that takes a great deal of individual effort; however, this effort can be greatly reduced by harnessing the power of Web 2.0 communities to create, update and maintain it. Consequently, we consider the annotation of movies within Web 2.0 environments, such that users create and share that metadata collaboratively and propose an architecture for collaborative movie annotation. This architecture arises from the results of an empirical experiment where metadata creation tools, YouTube and an MPEG-7 modelling tool, were used by users to create movie metadata. The next section discusses related work in the areas of collaborative retrieval and tagging. Then, we describe the experiments that were undertaken on a sample of 50 users. Next, the results are presented which provide some insight into how users interact with existing tools and systems for annotating movies. Based on these results, the paper then develops an architecture for collaborative movie annotation.

  14. Annotated Bibliography. First Edition.

    ERIC Educational Resources Information Center

    Haring, Norris G.

    An annotated bibliography which presents approximately 300 references from 1951 to 1973 on the education of severely/profoundly handicapped persons. Citations are grouped alphabetically by author's name within the following categories: characteristics and treatment, gross motor development, sensory and motor development, physical therapy for the…

  15. Ghostwriting: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Simmons, Donald B.

    Drawn from communication journals, historical and news magazines, business and industrial magazines, political science and world affairs journals, general interest periodicals, and literary and political review magazines, the approximately 90 entries in this annotated bibliography discuss ghostwriting as practiced through the ages and reveal the…

  16. 7 CFR 1427.11 - Warehouse receipts.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 10 2011-01-01 2011-01-01 false Warehouse receipts. 1427.11 Section 1427.11 Agriculture Regulations of the Department of Agriculture (Continued) COMMODITY CREDIT CORPORATION, DEPARTMENT OF AGRICULTURE LOANS, PURCHASES, AND OTHER OPERATIONS COTTON Nonrecourse Cotton Loan and Loan Deficiency Payments § 1427.11 Warehouse receipts....

  17. 7 CFR 1427.11 - Warehouse receipts.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 10 2012-01-01 2012-01-01 false Warehouse receipts. 1427.11 Section 1427.11 Agriculture Regulations of the Department of Agriculture (Continued) COMMODITY CREDIT CORPORATION, DEPARTMENT OF AGRICULTURE LOANS, PURCHASES, AND OTHER OPERATIONS COTTON Nonrecourse Cotton Loan and Loan Deficiency Payments § 1427.11 Warehouse receipts....

  18. The caBIG annotation and image Markup project.

    PubMed

    Channin, David S; Mongkolwat, Pattanasak; Kleper, Vladimir; Sepukar, Kastubh; Rubin, Daniel L

    2010-04-01

    Image annotation and markup are at the core of medical interpretation in both the clinical and the research setting. Digital medical images are managed with the DICOM standard format. While DICOM contains a large amount of meta-data about whom, where, and how the image was acquired, DICOM says little about the content or meaning of the pixel data. An image annotation is the explanatory or descriptive information about the pixel data of an image that is generated by a human or machine observer. An image markup is the graphical symbols placed over the image to depict an annotation. While DICOM is the standard for medical image acquisition, manipulation, transmission, storage, and display, there are no standards for image annotation and markup. Many systems expect annotation to be reported verbally, while markups are stored in graphical overlays or proprietary formats. This makes it difficult to extract and compute with both of them. The goal of the Annotation and Image Markup (AIM) project is to develop a mechanism, for modeling, capturing, and serializing image annotation and markup data that can be adopted as a standard by the medical imaging community. The AIM project produces both human- and machine-readable artifacts. This paper describes the AIM information model, schemas, software libraries, and tools so as to prepare researchers and developers for their use of AIM. PMID:19294468

  19. A method for increasing expressivity of Gene Ontology annotations using a compositional approach

    PubMed Central

    2014-01-01

    Background The Gene Ontology project integrates data about the function of gene products across a diverse range of organisms, allowing the transfer of knowledge from model organisms to humans, and enabling computational analyses for interpretation of high-throughput experimental and clinical data. The core data structure is the annotation, an association between a gene product and a term from one of the three ontologies comprising the GO. Historically, it has not been possible to provide additional information about the context of a GO term, such as the target gene or the location of a molecular function. This has limited the specificity of knowledge that can be expressed by GO annotations. Results The GO Consortium has introduced annotation extensions that enable manually curated GO annotations to capture additional contextual details. Extensions represent effector–target relationships such as localization dependencies, substrates of protein modifiers and regulation targets of signaling pathways and transcription factors as well as spatial and temporal aspects of processes such as cell or tissue type or developmental stage. We describe the content and structure of annotation extensions, provide examples, and summarize the current usage of annotation extensions. Conclusions The additional contextual information captured by annotation extensions improves the utility of functional annotation by representing dependencies between annotations to terms in the different ontologies of GO, external ontologies, or an organism’s gene products. These enhanced annotations can also support sophisticated queries and reasoning, and will provide curated, directional links between many gene products to support pathway and network reconstruction. PMID:24885854

  20. Apollo: a sequence annotation editor

    PubMed Central

    Lewis, SE; Searle, SMJ; Harris, N; Gibson, M; Iyer, V; Richter, J; Wiel, C; Bayraktaroglu, L; Birney, E; Crosby, MA; Kaminker, JS; Matthews, BB; Prochnik, SE; Smith, CD; Tupy, JL; Rubin, GM; Misra, S; Mungall, CJ; Clamp, ME

    2002-01-01

    The well-established inaccuracy of purely computational methods for annotating genome sequences necessitates an interactive tool to allow biological experts to refine these approximations by viewing and independently evaluating the data supporting each annotation. Apollo was developed to meet this need, enabling curators to inspect genome annotations closely and edit them. FlyBase biologists successfully used Apollo to annotate the Drosophila melanogaster genome and it is increasingly being used as a starting point for the development of customized annotation editing tools for other genome projects. PMID:12537571

  1. Spent fuel receipt scenarios study

    SciTech Connect

    Ballou, L.B.; Montan, D.N.; Revelli, M.A.

    1990-09-01

    This study reports on the results of an assignment from the DOE Office of Civilian Radioactive Waste Management to evaluate of the effects of different scenarios for receipt of spent fuel on the potential performance of the waste packages in the proposed Yucca Mountain high-level waste repository. The initial evaluations were performed and an interim letter report was prepared during the fall of 1988. Subsequently, the scope of work was expanded and additional analyses were conducted in 1989. This report combines the results of the two phases of the activity. This study is a part of a broader effort to investigate the options available to the DOE and the nuclear utilities for selection of spent fuel for acceptance into the Federal Waste Management System for disposal. Each major element of the system has evaluated the effects of various options on its own operations, with the objective of providing the basis for performing system-wide trade-offs and determining an optimum acceptance scenario. Therefore, this study considers different scenarios for receipt of spent fuel by the repository only from the narrow perspective of their effect on the very-near-field temperatures in the repository following permanent closure. This report is organized into three main sections. The balance of this section is devoted to a statement of the study objective, a summary of the assumptions. The second section of the report contains a discussion of the major elements of the study. The third section summarizes the results of the study and draws some conclusions from them. The appendices include copies of the waste acceptance schedule and the existing and projected spent fuel inventory that were used in the study. 10 refs., 27 figs.

  2. 7 CFR 735.300 - Warehouse receipt requirements.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 7 2010-01-01 2010-01-01 false Warehouse receipt requirements. 735.300 Section 735..., DEPARTMENT OF AGRICULTURE REGULATIONS FOR WAREHOUSES REGULATIONS FOR THE UNITED STATES WAREHOUSE ACT Warehouse Receipts § 735.300 Warehouse receipt requirements. (a) Warehouse receipts may be: (1)...

  3. 7 CFR 735.302 - Paper warehouse receipts.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 7 2010-01-01 2010-01-01 false Paper warehouse receipts. 735.302 Section 735.302... AGRICULTURE REGULATIONS FOR WAREHOUSES REGULATIONS FOR THE UNITED STATES WAREHOUSE ACT Warehouse Receipts § 735.302 Paper warehouse receipts. Paper warehouse receipts must be issued as follows: (a)...

  4. Assessment of community-submitted ontology annotations from a novel database-journal partnership.

    PubMed

    Berardini, Tanya Z; Li, Donghui; Muller, Robert; Chetty, Raymond; Ploetz, Larry; Singh, Shanker; Wensel, April; Huala, Eva

    2012-01-01

    As the scientific literature grows, leading to an increasing volume of published experimental data, so does the need to access and analyze this data using computational tools. The most commonly used method to convert published experimental data on gene function into controlled vocabulary annotations relies on a professional curator, employed by a model organism database or a more general resource such as UniProt, to read published articles and compose annotation statements based on the articles' contents. A more cost-effective and scalable approach capable of capturing gene function data across the whole range of biological research organisms in computable form is urgently needed. We have analyzed a set of ontology annotations generated through collaborations between the Arabidopsis Information Resource and several plant science journals. Analysis of the submissions entered using the online submission tool shows that most community annotations were well supported and the ontology terms chosen were at an appropriate level of specificity. Of the 503 individual annotations that were submitted, 97% were approved and community submissions captured 72% of all possible annotations. This new method for capturing experimental results in a computable form provides a cost-effective way to greatly increase the available body of annotations without sacrificing annotation quality. Database URL: www.arabidopsis.org. PMID:22859749

  5. 7 CFR 1421.107 - Warehouse receipts.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    .... The receipts must be negotiable and must represent a commodity that is the same quantity and quality... percent; (3) Grain sorghum: 14.0 percent; (4) Oats: 14.0 percent; (5) Rice: 14.0 percent; (6) Soybeans:...

  6. 7 CFR 1421.107 - Warehouse receipts.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    .... The receipts must be negotiable and must represent a commodity that is the same quantity and quality... percent; (3) Grain sorghum: 14.0 percent; (4) Oats: 14.0 percent; (5) Rice: 14.0 percent; (6) Soybeans:...

  7. 7 CFR 1421.107 - Warehouse receipts.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    .... The receipts must be negotiable and must represent a commodity that is the same quantity and quality... percent; (3) Grain sorghum: 14.0 percent; (4) Oats: 14.0 percent; (5) Rice: 14.0 percent; (6) Soybeans:...

  8. 7 CFR 1427.11 - Warehouse receipts.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ..., standard, gin standard, standard density (short), gin universal, universal density (short), or warehouse universal density. The receipt must show if the compression charge has been paid, or if the warehouse...

  9. The Ensembl gene annotation system.

    PubMed

    Aken, Bronwen L; Ayling, Sarah; Barrell, Daniel; Clarke, Laura; Curwen, Valery; Fairley, Susan; Fernandez Banet, Julio; Billis, Konstantinos; García Girón, Carlos; Hourlier, Thibaut; Howe, Kevin; Kähäri, Andreas; Kokocinski, Felix; Martin, Fergal J; Murphy, Daniel N; Nag, Rishi; Ruffier, Magali; Schuster, Michael; Tang, Y Amy; Vogel, Jan-Hinnerk; White, Simon; Zadissa, Amonida; Flicek, Paul; Searle, Stephen M J

    2016-01-01

    The Ensembl gene annotation system has been used to annotate over 70 different vertebrate species across a wide range of genome projects. Furthermore, it generates the automatic alignment-based annotation for the human and mouse GENCODE gene sets. The system is based on the alignment of biological sequences, including cDNAs, proteins and RNA-seq reads, to the target genome in order to construct candidate transcript models. Careful assessment and filtering of these candidate transcripts ultimately leads to the final gene set, which is made available on the Ensembl website. Here, we describe the annotation process in detail.Database URL: http://www.ensembl.org/index.html. PMID:27337980

  10. The Ensembl gene annotation system

    PubMed Central

    Aken, Bronwen L.; Ayling, Sarah; Barrell, Daniel; Clarke, Laura; Curwen, Valery; Fairley, Susan; Fernandez Banet, Julio; Billis, Konstantinos; García Girón, Carlos; Hourlier, Thibaut; Howe, Kevin; Kähäri, Andreas; Kokocinski, Felix; Martin, Fergal J.; Murphy, Daniel N.; Nag, Rishi; Ruffier, Magali; Schuster, Michael; Tang, Y. Amy; Vogel, Jan-Hinnerk; White, Simon; Zadissa, Amonida; Flicek, Paul

    2016-01-01

    The Ensembl gene annotation system has been used to annotate over 70 different vertebrate species across a wide range of genome projects. Furthermore, it generates the automatic alignment-based annotation for the human and mouse GENCODE gene sets. The system is based on the alignment of biological sequences, including cDNAs, proteins and RNA-seq reads, to the target genome in order to construct candidate transcript models. Careful assessment and filtering of these candidate transcripts ultimately leads to the final gene set, which is made available on the Ensembl website. Here, we describe the annotation process in detail. Database URL: http://www.ensembl.org/index.html PMID:27337980

  11. Model and Interoperability using Meta Data Annotations

    NASA Astrophysics Data System (ADS)

    David, O.

    2011-12-01

    Software frameworks and architectures are in need for meta data to efficiently support model integration. Modelers have to know the context of a model, often stepping into modeling semantics and auxiliary information usually not provided in a concise structure and universal format, consumable by a range of (modeling) tools. XML often seems the obvious solution for capturing meta data, but its wide adoption to facilitate model interoperability is limited by XML schema fragmentation, complexity, and verbosity outside of a data-automation process. Ontologies seem to overcome those shortcomings, however the practical significance of their use remains to be demonstrated. OMS version 3 took a different approach for meta data representation. The fundamental building block of a modular model in OMS is a software component representing a single physical process, calibration method, or data access approach. Here, programing language features known as Annotations or Attributes were adopted. Within other (non-modeling) frameworks it has been observed that annotations lead to cleaner and leaner application code. Framework-supported model integration, traditionally accomplished using Application Programming Interfaces (API) calls is now achieved using descriptive code annotations. Fully annotated components for various hydrological and Ag-system models now provide information directly for (i) model assembly and building, (ii) data flow analysis for implicit multi-threading or visualization, (iii) automated and comprehensive model documentation of component dependencies, physical data properties, (iv) automated model and component testing, calibration, and optimization, and (v) automated audit-traceability to account for all model resources leading to a particular simulation result. Such a non-invasive methodology leads to models and modeling components with only minimal dependencies on the modeling framework but a strong reference to its originating code. Since models and

  12. Widowed Persons Service: Selected Annotated Bibliography.

    ERIC Educational Resources Information Center

    Bressler, Dawn, Comp.; And Others

    This document presents an annotated bibliography of books and articles on topics relevant to widowhood. These annotations are included: (1) 21 annotations on the grief process; (2) 11 annotations on personal observations about widowhood; (3) 16 annotations on practical problems surrounding widowhood, including legal and financial problems and job…

  13. Communication and Gender: Annotated Bibliography

    ERIC Educational Resources Information Center

    Todd-Mancillas, William R.; Krug, Linda

    Focusing on the similarities and differences in men's and women's verbal and nonverbal communication behavior, this 33-item annotated bibliography presents a sample of articles appearing in speech communication publications on the subject. Categories of the annotated bibliography are books, sexism and sexual harassment in academia, theoretic…

  14. Drug Education: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Mathieson, Moira B.

    This bibliography consists of a total of 215 entries dealing with drug education, including curriculum guides, and drawn from documents in the ERIC system. There are two sections, the first containing 130 annotated citations of documents and journal articles, and the second containing 85 citations of journal articles without annotations, but with…

  15. Women in Communication: Annotated Bibliography.

    ERIC Educational Resources Information Center

    Mills, Carol A.

    This annotated bibliography is designed to survey the field of women in communication. The bibliography is centered on a specific context: who are and who were the women who worked in the communication field, and specifically, what were their writings like? The 56 annotations date from 1949 through 1990 and deal mostly with books (especially…

  16. Towards Automated Annotation of Benthic Survey Images: Variability of Human Experts and Operational Modes of Automation.

    PubMed

    Beijbom, Oscar; Edmunds, Peter J; Roelfsema, Chris; Smith, Jennifer; Kline, David I; Neal, Benjamin P; Dunlap, Matthew J; Moriarty, Vincent; Fan, Tung-Yung; Tan, Chih-Jui; Chan, Stephen; Treibitz, Tali; Gamst, Anthony; Mitchell, B Greg; Kriegman, David

    2015-01-01

    Global climate change and other anthropogenic stressors have heightened the need to rapidly characterize ecological changes in marine benthic communities across large scales. Digital photography enables rapid collection of survey images to meet this need, but the subsequent image annotation is typically a time consuming, manual task. We investigated the feasibility of using automated point-annotation to expedite cover estimation of the 17 dominant benthic categories from survey-images captured at four Pacific coral reefs. Inter- and intra- annotator variability among six human experts was quantified and compared to semi- and fully- automated annotation methods, which are made available at coralnet.ucsd.edu. Our results indicate high expert agreement for identification of coral genera, but lower agreement for algal functional groups, in particular between turf algae and crustose coralline algae. This indicates the need for unequivocal definitions of algal groups, careful training of multiple annotators, and enhanced imaging technology. Semi-automated annotation, where 50% of the annotation decisions were performed automatically, yielded cover estimate errors comparable to those of the human experts. Furthermore, fully-automated annotation yielded rapid, unbiased cover estimates but with increased variance. These results show that automated annotation can increase spatial coverage and decrease time and financial outlay for image-based reef surveys. PMID:26154157

  17. Towards Automated Annotation of Benthic Survey Images: Variability of Human Experts and Operational Modes of Automation

    PubMed Central

    Beijbom, Oscar; Edmunds, Peter J.; Roelfsema, Chris; Smith, Jennifer; Kline, David I.; Neal, Benjamin P.; Dunlap, Matthew J.; Moriarty, Vincent; Fan, Tung-Yung; Tan, Chih-Jui; Chan, Stephen; Treibitz, Tali; Gamst, Anthony; Mitchell, B. Greg; Kriegman, David

    2015-01-01

    Global climate change and other anthropogenic stressors have heightened the need to rapidly characterize ecological changes in marine benthic communities across large scales. Digital photography enables rapid collection of survey images to meet this need, but the subsequent image annotation is typically a time consuming, manual task. We investigated the feasibility of using automated point-annotation to expedite cover estimation of the 17 dominant benthic categories from survey-images captured at four Pacific coral reefs. Inter- and intra- annotator variability among six human experts was quantified and compared to semi- and fully- automated annotation methods, which are made available at coralnet.ucsd.edu. Our results indicate high expert agreement for identification of coral genera, but lower agreement for algal functional groups, in particular between turf algae and crustose coralline algae. This indicates the need for unequivocal definitions of algal groups, careful training of multiple annotators, and enhanced imaging technology. Semi-automated annotation, where 50% of the annotation decisions were performed automatically, yielded cover estimate errors comparable to those of the human experts. Furthermore, fully-automated annotation yielded rapid, unbiased cover estimates but with increased variance. These results show that automated annotation can increase spatial coverage and decrease time and financial outlay for image-based reef surveys. PMID:26154157

  18. Incorporating Feature-Based Annotations into Automatically Generated Knowledge Representations

    NASA Astrophysics Data System (ADS)

    Lumb, L. I.; Lederman, J. I.; Aldridge, K. D.

    2006-12-01

    Earth Science Markup Language (ESML) is efficient and effective in representing scientific data in an XML- based formalism. However, features of the data being represented are not accounted for in ESML. Such features might derive from events (e.g., a gap in data collection due to instrument servicing), identifications (e.g., a scientifically interesting area/volume in an image), or some other source. In order to account for features in an ESML context, we consider them from the perspective of annotation, i.e., the addition of information to existing documents without changing the originals. Although it is possible to extend ESML to incorporate feature-based annotations internally (e.g., by extending the XML schema for ESML), there are a number of complicating factors that we identify. Rather than pursuing the ESML-extension approach, we focus on an external representation for feature-based annotations via XML Pointer Language (XPointer). In previous work (Lumb &Aldridge, HPCS 2006, IEEE, doi:10.1109/HPCS.2006.26), we have shown that it is possible to extract relationships from ESML-based representations, and capture the results in the Resource Description Format (RDF). Thus we explore and report on this same requirement for XPointer-based annotations of ESML representations. As in our past efforts, the Global Geodynamics Project (GGP) allows us to illustrate with a real-world example this approach for introducing annotations into automatically generated knowledge representations.

  19. 19 CFR 162.15 - Receipt for seized property.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... TREASURY (CONTINUED) INSPECTION, SEARCH, AND SEIZURE Search Warrants § 162.15 Receipt for seized property. A receipt for property seized under a search warrant shall be left with the person in charge or... place on the premises searched....

  20. 19 CFR 162.15 - Receipt for seized property.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... TREASURY (CONTINUED) INSPECTION, SEARCH, AND SEIZURE Search Warrants § 162.15 Receipt for seized property. A receipt for property seized under a search warrant shall be left with the person in charge or... place on the premises searched....

  1. 19 CFR 162.15 - Receipt for seized property.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... TREASURY (CONTINUED) INSPECTION, SEARCH, AND SEIZURE Search Warrants § 162.15 Receipt for seized property. A receipt for property seized under a search warrant shall be left with the person in charge or... place on the premises searched....

  2. 19 CFR 162.15 - Receipt for seized property.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... TREASURY (CONTINUED) INSPECTION, SEARCH, AND SEIZURE Search Warrants § 162.15 Receipt for seized property. A receipt for property seized under a search warrant shall be left with the person in charge or... place on the premises searched....

  3. 19 CFR 162.15 - Receipt for seized property.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... TREASURY (CONTINUED) INSPECTION, SEARCH, AND SEIZURE Search Warrants § 162.15 Receipt for seized property. A receipt for property seized under a search warrant shall be left with the person in charge or... place on the premises searched....

  4. 7 CFR 1131.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... butterfat contained in or represented by: (1) Receipts of producer milk, including producer milk diverted by... skim milk and butterfat contained in receipts of milk from producers; and (2) The utilization...

  5. Enriching a biomedical event corpus with meta-knowledge annotation

    PubMed Central

    2011-01-01

    Background Biomedical papers contain rich information about entities, facts and events of biological relevance. To discover these automatically, we use text mining techniques, which rely on annotated corpora for training. In order to extract protein-protein interactions, genotype-phenotype/gene-disease associations, etc., we rely on event corpora that are annotated with classified, structured representations of important facts and findings contained within text. These provide an important resource for the training of domain-specific information extraction (IE) systems, to facilitate semantic-based searching of documents. Correct interpretation of these events is not possible without additional information, e.g., does an event describe a fact, a hypothesis, an experimental result or an analysis of results? How confident is the author about the validity of her analyses? These and other types of information, which we collectively term meta-knowledge, can be derived from the context of the event. Results We have designed an annotation scheme for meta-knowledge enrichment of biomedical event corpora. The scheme is multi-dimensional, in that each event is annotated for 5 different aspects of meta-knowledge that can be derived from the textual context of the event. Textual clues used to determine the values are also annotated. The scheme is intended to be general enough to allow integration with different types of bio-event annotation, whilst being detailed enough to capture important subtleties in the nature of the meta-knowledge expressed in the text. We report here on both the main features of the annotation scheme, as well as its application to the GENIA event corpus (1000 abstracts with 36,858 events). High levels of inter-annotator agreement have been achieved, falling in the range of 0.84-0.93 Kappa. Conclusion By augmenting event annotations with meta-knowledge, more sophisticated IE systems can be trained, which allow interpretative information to be specified as

  6. Patient Education: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Simmons, Jeannette

    Topics included in this annotated bibliography on patient education are (1) background on development of patient education programs, (2) patient education interventions, (3) references for health professionals, and (4) research and evaluation in patient education. (TA)

  7. 27 CFR 28.286 - Receipt in customs bonded warehouse.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Receipt in customs bonded... in Customs Bonded Warehouse § 28.286 Receipt in customs bonded warehouse. On receipt of the distilled spirits or wine and the related TTB Form 5100.11 or 5110.30 as the case may be, the customs officer...

  8. 27 CFR 28.286 - Receipt in customs bonded warehouse.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2012-04-01 2012-04-01 false Receipt in customs bonded... in Customs Bonded Warehouse § 28.286 Receipt in customs bonded warehouse. On receipt of the distilled spirits or wine and the related TTB Form 5100.11 or 5110.30 as the case may be, the customs officer...

  9. 27 CFR 28.286 - Receipt in customs bonded warehouse.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2013-04-01 2013-04-01 false Receipt in customs bonded... in Customs Bonded Warehouse § 28.286 Receipt in customs bonded warehouse. On receipt of the distilled spirits or wine and the related TTB Form 5100.11 or 5110.30 as the case may be, the customs officer...

  10. 7 CFR 735.303 - Electronic warehouse receipts.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 7 2012-01-01 2012-01-01 false Electronic warehouse receipts. 735.303 Section 735.303... AGRICULTURE REGULATIONS FOR WAREHOUSES REGULATIONS FOR THE UNITED STATES WAREHOUSE ACT Warehouse Receipts § 735.303 Electronic warehouse receipts. (a) Warehouse operators issuing EWR under the Act may issue...

  11. 7 CFR 735.303 - Electronic warehouse receipts.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 7 2014-01-01 2014-01-01 false Electronic warehouse receipts. 735.303 Section 735.303... AGRICULTURE REGULATIONS FOR WAREHOUSES REGULATIONS FOR THE UNITED STATES WAREHOUSE ACT Warehouse Receipts § 735.303 Electronic warehouse receipts. (a) Warehouse operators issuing EWR under the Act may issue...

  12. 7 CFR 735.303 - Electronic warehouse receipts.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 7 2013-01-01 2013-01-01 false Electronic warehouse receipts. 735.303 Section 735.303... AGRICULTURE REGULATIONS FOR WAREHOUSES REGULATIONS FOR THE UNITED STATES WAREHOUSE ACT Warehouse Receipts § 735.303 Electronic warehouse receipts. (a) Warehouse operators issuing EWR under the Act may issue...

  13. 27 CFR 28.286 - Receipt in customs bonded warehouse.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2014-04-01 2014-04-01 false Receipt in customs bonded... in Customs Bonded Warehouse § 28.286 Receipt in customs bonded warehouse. On receipt of the distilled spirits or wine and the related TTB Form 5100.11 or 5110.30 as the case may be, the customs officer...

  14. 27 CFR 28.286 - Receipt in customs bonded warehouse.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2011-04-01 2011-04-01 false Receipt in customs bonded... in Customs Bonded Warehouse § 28.286 Receipt in customs bonded warehouse. On receipt of the distilled spirits or wine and the related TTB Form 5100.11 or 5110.30 as the case may be, the customs officer...

  15. 48 CFR 1845.502-1 - Receipts for Government property.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 48 Federal Acquisition Regulations System 6 2010-10-01 2010-10-01 true Receipts for Government... SPACE ADMINISTRATION CONTRACT MANAGEMENT GOVERNMENT PROPERTY Management of Government Property in the Possession of Contractors 1845.502-1 Receipts for Government property. Receipts for Government property...

  16. 29 CFR 402.6 - Receipt of reports and documents.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 29 Labor 2 2010-07-01 2010-07-01 false Receipt of reports and documents. 402.6 Section 402.6 Labor Regulations Relating to Labor OFFICE OF LABOR-MANAGEMENT STANDARDS, DEPARTMENT OF LABOR LABOR-MANAGEMENT STANDARDS LABOR ORGANIZATION INFORMATION REPORTS § 402.6 Receipt of reports and documents. Upon receipt of all reports and documents...

  17. 27 CFR 28.290 - Receipt in foreign trade zone.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2013-04-01 2013-04-01 false Receipt in foreign trade zone. 28.290 Section 28.290 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX AND TRADE... in Foreign-Trade Zone § 28.290 Receipt in foreign trade zone. On receipt at the zone, the...

  18. 27 CFR 28.285 - Receipt in manufacturing bonded warehouse.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2011-04-01 2011-04-01 false Receipt in manufacturing bonded warehouse. 28.285 Section 28.285 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX... Export Receipt in Manufacturing Bonded Warehouse § 28.285 Receipt in manufacturing bonded warehouse....

  19. 27 CFR 28.285 - Receipt in manufacturing bonded warehouse.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2014-04-01 2014-04-01 false Receipt in manufacturing bonded warehouse. 28.285 Section 28.285 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX... Export Receipt in Manufacturing Bonded Warehouse § 28.285 Receipt in manufacturing bonded warehouse....

  20. 27 CFR 28.285 - Receipt in manufacturing bonded warehouse.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Receipt in manufacturing bonded warehouse. 28.285 Section 28.285 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX... Export Receipt in Manufacturing Bonded Warehouse § 28.285 Receipt in manufacturing bonded warehouse....

  1. 27 CFR 28.285 - Receipt in manufacturing bonded warehouse.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2013-04-01 2013-04-01 false Receipt in manufacturing bonded warehouse. 28.285 Section 28.285 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX... Export Receipt in Manufacturing Bonded Warehouse § 28.285 Receipt in manufacturing bonded warehouse....

  2. 27 CFR 28.285 - Receipt in manufacturing bonded warehouse.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2012-04-01 2012-04-01 false Receipt in manufacturing bonded warehouse. 28.285 Section 28.285 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX... Export Receipt in Manufacturing Bonded Warehouse § 28.285 Receipt in manufacturing bonded warehouse....

  3. Cash receipts process for HANDI 2000 business management system

    SciTech Connect

    Wilson, D.

    1998-08-24

    All Fluor Daniel Hanford cash receipts are processed in the Operations Travel System. There are five types of cash receipts. Depending on the type, the receipt may be processed by APM OTS, Site-Wide Savings, retirement Information System, or PeopleSoft Benefits System. Regardless of the source, all cash received is eventually forwarded to Treasure for deposit into the bank.

  4. 27 CFR 28.290 - Receipt in foreign trade zone.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2011-04-01 2011-04-01 false Receipt in foreign trade zone. 28.290 Section 28.290 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX AND TRADE... in Foreign-Trade Zone § 28.290 Receipt in foreign trade zone. On receipt at the zone, the...

  5. 27 CFR 28.290 - Receipt in foreign trade zone.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2014-04-01 2014-04-01 false Receipt in foreign trade zone. 28.290 Section 28.290 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX AND TRADE... in Foreign-Trade Zone § 28.290 Receipt in foreign trade zone. On receipt at the zone, the...

  6. 27 CFR 28.290 - Receipt in foreign trade zone.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Receipt in foreign trade zone. 28.290 Section 28.290 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX AND TRADE... in Foreign-Trade Zone § 28.290 Receipt in foreign trade zone. On receipt at the zone, the...

  7. 27 CFR 28.290 - Receipt in foreign trade zone.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2012-04-01 2012-04-01 false Receipt in foreign trade zone. 28.290 Section 28.290 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX AND TRADE... in Foreign-Trade Zone § 28.290 Receipt in foreign trade zone. On receipt at the zone, the...

  8. 27 CFR 28.251 - Railway express receipts.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2012-04-01 2012-04-01 false Railway express receipts... § 28.251 Railway express receipts. Where the exportation is to a contiguous foreign country and the shipment is by railway express, a receipt issued by the railway express agency may be accepted in lieu...

  9. 27 CFR 28.251 - Railway express receipts.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2014-04-01 2014-04-01 false Railway express receipts... § 28.251 Railway express receipts. Where the exportation is to a contiguous foreign country and the shipment is by railway express, a receipt issued by the railway express agency may be accepted in lieu...

  10. 27 CFR 28.251 - Railway express receipts.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2011-04-01 2011-04-01 false Railway express receipts... § 28.251 Railway express receipts. Where the exportation is to a contiguous foreign country and the shipment is by railway express, a receipt issued by the railway express agency may be accepted in lieu...

  11. 27 CFR 28.251 - Railway express receipts.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Railway express receipts... § 28.251 Railway express receipts. Where the exportation is to a contiguous foreign country and the shipment is by railway express, a receipt issued by the railway express agency may be accepted in lieu...

  12. 27 CFR 28.251 - Railway express receipts.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2013-04-01 2013-04-01 false Railway express receipts... § 28.251 Railway express receipts. Where the exportation is to a contiguous foreign country and the shipment is by railway express, a receipt issued by the railway express agency may be accepted in lieu...

  13. 7 CFR 735.302 - Paper warehouse receipts.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 7 2013-01-01 2013-01-01 false Paper warehouse receipts. 735.302 Section 735.302... § 735.302 Paper warehouse receipts. Paper warehouse receipts must be issued as follows: (a) On distinctive paper specified by DACO; (b) Printed by a printer authorized by DACO; and (c) Issued,...

  14. 7 CFR 735.302 - Paper warehouse receipts.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 7 2011-01-01 2011-01-01 false Paper warehouse receipts. 735.302 Section 735.302... § 735.302 Paper warehouse receipts. Paper warehouse receipts must be issued as follows: (a) On distinctive paper specified by DACO; (b) Printed by a printer authorized by DACO; and (c) Issued,...

  15. 7 CFR 735.302 - Paper warehouse receipts.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 7 2012-01-01 2012-01-01 false Paper warehouse receipts. 735.302 Section 735.302... § 735.302 Paper warehouse receipts. Paper warehouse receipts must be issued as follows: (a) On distinctive paper specified by DACO; (b) Printed by a printer authorized by DACO; and (c) Issued,...

  16. 7 CFR 735.302 - Paper warehouse receipts.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 7 2014-01-01 2014-01-01 false Paper warehouse receipts. 735.302 Section 735.302... § 735.302 Paper warehouse receipts. Paper warehouse receipts must be issued as follows: (a) On distinctive paper specified by DACO; (b) Printed by a printer authorized by DACO; and (c) Issued,...

  17. 27 CFR 26.211 - Warehouse receipts covering distilled spirits.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Warehouse receipts... and Recordkeeping § 26.211 Warehouse receipts covering distilled spirits. The sale of warehouse..., warehouse receipts for distilled spirits stored in warehouses, or elsewhere, must register and keep...

  18. 27 CFR 27.31 - Warehouse receipts covering distilled spirits.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Warehouse receipts... BEER Dealer Registration and Recordkeeping § 27.31 Warehouse receipts covering distilled spirits. The sale of warehouse receipts for distilled spirits is equivalent to the sale of distilled...

  19. 27 CFR 31.47 - Warehouse receipts covering spirits.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Warehouse receipts... Part Certain Organizations, Agencies, and Persons § 31.47 Warehouse receipts covering spirits. The sale of warehouse receipts for distilled spirits is equivalent to the sale of distilled...

  20. 27 CFR 26.45 - Warehouse receipts covering distilled spirits.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Warehouse receipts... Recordkeeping § 26.45 Warehouse receipts covering distilled spirits. The sale of warehouse receipts for... distilled spirits into the United States from Puerto Rico who sells, or offers for sale, warehouse...

  1. Chemical annotation of small and peptide-like molecules at the Protein Data Bank.

    PubMed

    Young, Jasmine Y; Feng, Zukang; Dimitropoulos, Dimitris; Sala, Raul; Westbrook, John; Zhuravleva, Marina; Shao, Chenghua; Quesada, Martha; Peisach, Ezra; Berman, Helen M

    2013-01-01

    Over the past decade, the number of polymers and their complexes with small molecules in the Protein Data Bank archive (PDB) has continued to increase significantly. To support scientific advancements and ensure the best quality and completeness of the data files over the next 10 years and beyond, the Worldwide PDB partnership that manages the PDB archive is developing a new deposition and annotation system. This system focuses on efficient data capture across all supported experimental methods. The new deposition and annotation system is composed of four major modules that together support all of the processing requirements for a PDB entry. In this article, we describe one such module called the Chemical Component Annotation Tool. This tool uses information from both the Chemical Component Dictionary and Biologically Interesting molecule Reference Dictionary to aid in annotation. Benchmark studies have shown that the Chemical Component Annotation Tool provides significant improvements in processing efficiency and data quality. Database URL: http://wwpdb.org. PMID:24291661

  2. NCBI prokaryotic genome annotation pipeline.

    PubMed

    Tatusova, Tatiana; DiCuccio, Michael; Badretdin, Azat; Chetvernin, Vyacheslav; Nawrocki, Eric P; Zaslavsky, Leonid; Lomsadze, Alexandre; Pruitt, Kim D; Borodovsky, Mark; Ostell, James

    2016-08-19

    Recent technological advances have opened unprecedented opportunities for large-scale sequencing and analysis of populations of pathogenic species in disease outbreaks, as well as for large-scale diversity studies aimed at expanding our knowledge across the whole domain of prokaryotes. To meet the challenge of timely interpretation of structure, function and meaning of this vast genetic information, a comprehensive approach to automatic genome annotation is critically needed. In collaboration with Georgia Tech, NCBI has developed a new approach to genome annotation that combines alignment based methods with methods of predicting protein-coding and RNA genes and other functional elements directly from sequence. A new gene finding tool, GeneMarkS+, uses the combined evidence of protein and RNA placement by homology as an initial map of annotation to generate and modify ab initio gene predictions across the whole genome. Thus, the new NCBI's Prokaryotic Genome Annotation Pipeline (PGAP) relies more on sequence similarity when confident comparative data are available, while it relies more on statistical predictions in the absence of external evidence. The pipeline provides a framework for generation and analysis of annotation on the full breadth of prokaryotic taxonomy. For additional information on PGAP see https://www.ncbi.nlm.nih.gov/genome/annotation_prok/ and the NCBI Handbook, https://www.ncbi.nlm.nih.gov/books/NBK174280/. PMID:27342282

  3. Determining similarity of scientific entities in annotation datasets.

    PubMed

    Palma, Guillermo; Vidal, Maria-Esther; Haag, Eric; Raschid, Louiqa; Thor, Andreas

    2015-01-01

    Linked Open Data initiatives have made available a diversity of scientific collections where scientists have annotated entities in the datasets with controlled vocabulary terms from ontologies. Annotations encode scientific knowledge, which is captured in annotation datasets. Determining relatedness between annotated entities becomes a building block for pattern mining, e.g. identifying drug-drug relationships may depend on the similarity of the targets that interact with each drug. A diversity of similarity measures has been proposed in the literature to compute relatedness between a pair of entities. Each measure exploits some knowledge including the name, function, relationships with other entities, taxonomic neighborhood and semantic knowledge. We propose a novel general-purpose annotation similarity measure called 'AnnSim' that measures the relatedness between two entities based on the similarity of their annotations. We model AnnSim as a 1-1 maximum weight bipartite match and exploit properties of existing solvers to provide an efficient solution. We empirically study the performance of AnnSim on real-world datasets of drugs and disease associations from clinical trials and relationships between drugs and (genomic) targets. Using baselines that include a variety of measures, we identify where AnnSim can provide a deeper understanding of the semantics underlying the relatedness of a pair of entities or where it could lead to predicting new links or identifying potential novel patterns. Although AnnSim does not exploit knowledge or properties of a particular domain, its performance compares well with a variety of state-of-the-art domain-specific measures. Database URL: http://www.yeastgenome.org/ PMID:25725057

  4. Determining similarity of scientific entities in annotation datasets

    PubMed Central

    Palma, Guillermo; Vidal, Maria-Esther; Haag, Eric; Raschid, Louiqa; Thor, Andreas

    2015-01-01

    Linked Open Data initiatives have made available a diversity of scientific collections where scientists have annotated entities in the datasets with controlled vocabulary terms from ontologies. Annotations encode scientific knowledge, which is captured in annotation datasets. Determining relatedness between annotated entities becomes a building block for pattern mining, e.g. identifying drug–drug relationships may depend on the similarity of the targets that interact with each drug. A diversity of similarity measures has been proposed in the literature to compute relatedness between a pair of entities. Each measure exploits some knowledge including the name, function, relationships with other entities, taxonomic neighborhood and semantic knowledge. We propose a novel general-purpose annotation similarity measure called ‘AnnSim’ that measures the relatedness between two entities based on the similarity of their annotations. We model AnnSim as a 1–1 maximum weight bipartite match and exploit properties of existing solvers to provide an efficient solution. We empirically study the performance of AnnSim on real-world datasets of drugs and disease associations from clinical trials and relationships between drugs and (genomic) targets. Using baselines that include a variety of measures, we identify where AnnSim can provide a deeper understanding of the semantics underlying the relatedness of a pair of entities or where it could lead to predicting new links or identifying potential novel patterns. Although AnnSim does not exploit knowledge or properties of a particular domain, its performance compares well with a variety of state-of-the-art domain-specific measures. Database URL: http://www.yeastgenome.org/ PMID:25725057

  5. Collective dynamics of social annotation

    PubMed Central

    Cattuto, Ciro; Barrat, Alain; Baldassarri, Andrea; Schehr, Gregory; Loreto, Vittorio

    2009-01-01

    The enormous increase of popularity and use of the worldwide web has led in the recent years to important changes in the ways people communicate. An interesting example of this fact is provided by the now very popular social annotation systems, through which users annotate resources (such as web pages or digital photographs) with keywords known as “tags.” Understanding the rich emergent structures resulting from the uncoordinated actions of users calls for an interdisciplinary effort. In particular concepts borrowed from statistical physics, such as random walks (RWs), and complex networks theory, can effectively contribute to the mathematical modeling of social annotation systems. Here, we show that the process of social annotation can be seen as a collective but uncoordinated exploration of an underlying semantic space, pictured as a graph, through a series of RWs. This modeling framework reproduces several aspects, thus far unexplained, of social annotation, among which are the peculiar growth of the size of the vocabulary used by the community and its complex network structure that represents an externalization of semantic structures grounded in cognition and that are typically hard to access. PMID:19506244

  6. Collective dynamics of social annotation.

    PubMed

    Cattuto, Ciro; Barrat, Alain; Baldassarri, Andrea; Schehr, Gregory; Loreto, Vittorio

    2009-06-30

    The enormous increase of popularity and use of the worldwide web has led in the recent years to important changes in the ways people communicate. An interesting example of this fact is provided by the now very popular social annotation systems, through which users annotate resources (such as web pages or digital photographs) with keywords known as "tags." Understanding the rich emergent structures resulting from the uncoordinated actions of users calls for an interdisciplinary effort. In particular concepts borrowed from statistical physics, such as random walks (RWs), and complex networks theory, can effectively contribute to the mathematical modeling of social annotation systems. Here, we show that the process of social annotation can be seen as a collective but uncoordinated exploration of an underlying semantic space, pictured as a graph, through a series of RWs. This modeling framework reproduces several aspects, thus far unexplained, of social annotation, among which are the peculiar growth of the size of the vocabulary used by the community and its complex network structure that represents an externalization of semantic structures grounded in cognition and that are typically hard to access. PMID:19506244

  7. Whiplash: a selective annotated bibliography

    PubMed Central

    Smith, Brad MT; Adams, Alan

    1997-01-01

    Objective: To review the literature on whiplash injury including an overview, collision mechanics, pathophysiology, neurobehavioral, imaging, treatment/management, prognosis, outcomes, and litigation. Design: An annotated bibliography. Methods: A literature search of MEDLINE from 1987 to 1995 and CHIROLARS from 1900 to 1996, with emphasis on the last ten years, was performed. Conference proceedings and the personal files of the authors were searched for relevant citations. Key words utilized in the search were whiplash injury, acceleration/deceleration injury, neck pain, head pain, cognitive impairment, treatment, imaging, prognosis and litigation. Results: This annotated bibliography identifies key studies and potential models for future research. Conclusions: There is currently a lack of clinical consensus both in practice and in the literature regarding the evaluation and management of an episode of whiplash injury. This annotated bibliography has been developed in an attempt to provide an overview of the literature regarding various issues surrounding an episode of whiplash injury.

  8. Vcfanno: fast, flexible annotation of genetic variants.

    PubMed

    Pedersen, Brent S; Layer, Ryan M; Quinlan, Aaron R

    2016-01-01

    The integration of genome annotations is critical to the identification of genetic variants that are relevant to studies of disease or other traits. However, comprehensive variant annotation with diverse file formats is difficult with existing methods. Here we describe vcfanno, which flexibly extracts and summarizes attributes from multiple annotation files and integrates the annotations within the INFO column of the original VCF file. By leveraging a parallel "chromosome sweeping" algorithm, we demonstrate substantial performance gains by annotating ~85,000 variants per second with 50 attributes from 17 commonly used genome annotation resources. Vcfanno is available at https://github.com/brentp/vcfanno under the MIT license. PMID:27250555

  9. Onotology-Based Annotation and Ranking Service for Geoscience

    NASA Astrophysics Data System (ADS)

    Sainju, R.; Ramachandran, R.; Li, X.; McEniry, M.; Kulkarni, A.; Conover, H.

    2012-12-01

    There is a need to automatically annotate information using a either a control vocabulary or an ontology to make the information not only easily discoverable but also allow the information to be linked to other information based on these semantic annotations. We present an ontology annotation and a ranking service designed to address this need. The service can be configured to use an ontology describing a specific application domain. Given text inputs, this service generates annotations whenever the service finds terms that intersect both in the text and the ontology. The service is also capable of ranking the different inputs based on the "contextual" similarity to the information captured in the ontology. To rank a given input, the service uses a specialized algorithm which calculated both an ontological score based on precomputed weights of the intersecting term from the ontology and a statistical score using traditional term frequency- inverse document frequency (TF-IDF) approach. Both these scores are normalized and combined to generate the final ranking. An example application of this service to find relevant datasets for studying Hurricanes within NASA's data catalog. A hurricane ontology is used to index and rank all the data set descriptions from the metadata catalog and only the datasets that rank high are presented to the end users as contextually relevant for studying Hurricanes.

  10. Alignment-Annotator web server: rendering and annotating sequence alignments

    PubMed Central

    Gille, Christoph; Fähling, Michael; Weyand, Birgit; Wieland, Thomas; Gille, Andreas

    2014-01-01

    Alignment-Annotator is a novel web service designed to generate interactive views of annotated nucleotide and amino acid sequence alignments (i) de novo and (ii) embedded in other software. All computations are performed at server side. Interactivity is implemented in HTML5, a language native to web browsers. The alignment is initially displayed using default settings and can be modified with the graphical user interfaces. For example, individual sequences can be reordered or deleted using drag and drop, amino acid color code schemes can be applied and annotations can be added. Annotations can be made manually or imported (BioDAS servers, the UniProt, the Catalytic Site Atlas and the PDB). Some edits take immediate effect while others require server interaction and may take a few seconds to execute. The final alignment document can be downloaded as a zip-archive containing the HTML files. Because of the use of HTML the resulting interactive alignment can be viewed on any platform including Windows, Mac OS X, Linux, Android and iOS in any standard web browser. Importantly, no plugins nor Java are required and therefore Alignment-Anotator represents the first interactive browser-based alignment visualization. Availability: http://www.bioinformatics.org/strap/aa/ and http://strap.charite.de/aa/. PMID:24813445

  11. Capturing Movement

    ERIC Educational Resources Information Center

    Lord, Lynda

    2007-01-01

    The idea for the art lesson presented in this article grew out of watching the lively actions of fourth grade students. Since drawing is the author's first love, she is always looking for new ways to teach it. This time, instead of setting up a still life, she decided to teach students how to capture their actions on paper. (Contains 5 online…

  12. Laser capture.

    PubMed

    Potter, S Steven; Brunskill, Eric W

    2012-01-01

    This chapter describes detailed methods used for laser capture microdissection (LCM) of discrete subpopulations of cells. Topics covered include preparing tissue blocks, cryostat sectioning, processing slides, performing the LCM, and purification of RNA from LCM samples. Notes describe the fine points of each operation, which can often mean the difference between success and failure. PMID:22639264

  13. MICROTASK CROWDSOURCING FOR DISEASE MENTION ANNOTATION IN PUBMED ABSTRACTS

    PubMed Central

    Good, Benjamin M; Nanis, Max; Wu, Chunlei; Su, Andrew I

    2014-01-01

    Identifying concepts and relationships in biomedical text enables knowledge to be applied in computational analyses. Many biological natural language processing (BioNLP) projects attempt to address this challenge, but the state of the art still leaves much room for improvement. Progress in BioNLP research depends on large, annotated corpora for evaluating information extraction systems and training machine learning models. Traditionally, such corpora are created by small numbers of expert annotators often working over extended periods of time. Recent studies have shown that workers on microtask crowdsourcing platforms such as Amazon’s Mechanical Turk (AMT) can, in aggregate, generate high-quality annotations of biomedical text. Here, we investigated the use of the AMT in capturing disease mentions in PubMed abstracts. We used the NCBI Disease corpus as a gold standard for refining and benchmarking our crowdsourcing protocol. After several iterations, we arrived at a protocol that reproduced the annotations of the 593 documents in the ‘training set’ of this gold standard with an overall F measure of 0.872 (precision 0.862, recall 0.883). The output can also be tuned to optimize for precision (max = 0.984 when recall = 0.269) or recall (max = 0.980 when precision = 0.436). Each document was completed by 15 workers, and their annotations were merged based on a simple voting method. In total 145 workers combined to complete all 593 documents in the span of 9 days at a cost of $.066 per abstract per worker. The quality of the annotations, as judged with the F measure, increases with the number of workers assigned to each task; however minimal performance gains were observed beyond 8 workers per task. These results add further evidence that microtask crowdsourcing can be a valuable tool for generating well-annotated corpora in BioNLP. Data produced for this analysis are available at http://figshare.com/articles/Disease_Mention_Annotation

  14. Systems Theory and Communication. Annotated Bibliography.

    ERIC Educational Resources Information Center

    Covington, William G., Jr.

    This annotated bibliography presents annotations of 31 books and journal articles dealing with systems theory and its relation to organizational communication, marketing, information theory, and cybernetics. Materials were published between 1963 and 1992 and are listed alphabetically by author. (RS)

  15. Music Analysis: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Fink, Michael

    One hundred and forty citations comprise this annotated bibliography of books, articles, and selected dissertations that encompass trends in music theory and k-16 music education since the late 19th century. Special emphasis is upon writings since the 1950's. During earlier development, music analysts concentrated upon the elements of music (i.e.,…

  16. Teacher Aides; An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Marin County Public Schools, Corte Madera, CA.

    This annotated bibliography lists 40 items, published between 1966 and 1971, that have to do with teacher aides. The listing is arranged alphabetically by author. In addition to the abstract and standard bibliographic information, addresses where the material can be purchased are often included. The items cited include handbooks, research studies,…

  17. Staff Differentiation. An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Marin County Superintendent of Schools, Corte Madera, CA.

    This annotated bibliography reviews selected literature focusing on the concept of staff differentiation. Included are 62 items (dated 1966-1970), along with a list of mailing addresses where copies of individual items can be obtained. Also a list of 31 staff differentiation projects receiving financial assistance from the U.S. Office of Education…

  18. Infant Feeding: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Crowhurst, Christine Marie, Comp.; Kumer, Bonnie Lee, Comp.

    Intended for parents, health professionals and allied health workers, and others involved in caring for infants and young children, this annotated bibliography brings together in one selective listing a review of over 700 current publications related to infant feeding. Reflecting current knowledge in infant feeding, the bibliography has as its…

  19. English Language Learners: Annotated Bibliography

    ERIC Educational Resources Information Center

    Hector-Mason, Anestine; Bardack, Sarah

    2010-01-01

    This annotated bibliography represents a first step toward compiling a comprehensive overview of current research on issues related to English language learners (ELLs). It is intended to be a resource for researchers, policymakers, administrators, and educators who are engaged in efforts to bridge the divide between research, policy, and practice…

  20. Vietnamese Amerasians: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Johnson, Mark C.; And Others

    This annotated bibliography on Vietnamese Amerasians includes primary and secondary sources as well as reviews of three documentary films. Sources were selected in order to provide an overview of the historical and political context of Amerasian resettlement and a review of the scant available research on coping and adaptation with this…

  1. Radiocarbon Dating: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Fortine, Suellen

    This selective annotated bibliography covers various sources of information on the radiocarbon dating method, including journal articles, conference proceedings, and reports, reflecting the most important and useful sources of the last 25 years. The bibliography is divided into five parts--general background on radiocarbon, radiocarbon dating,…

  2. Instructional Materials Centers; Annotated Bibliography.

    ERIC Educational Resources Information Center

    Poli, Rosario, Comp.

    An annotated bibliography lists 74 articles and reports on instructional materials centers (IMC) which appeared from 1967-70. The articles deal with such topics as the purposes of an IMC, guidelines for setting up an IMC, and the relationship of an IMC to technology. Most articles deal with use of an IMC on an elementary or secondary level, but…

  3. BIBLIOTHERAPY--AN ANNOTATED BIBLIOGRAPHY.

    ERIC Educational Resources Information Center

    RIGGS, CORINNE W.

    THIS ANNOTATED BIBLIOGRAPHY ON BIBLIOTHERAPY IS COMPOSED OF 138 CITATIONS RANGING IN DATE FROM 1936 TO 1967. IT IS DESIGNED TO AID TEACHERS AND LIBRARIANS IN MODIFYING THE ATTITUDES AND BEHAVIOR OF BOYS AND GIRLS. ITS LISTINGS ARE ARRANGED ALPHABETICALLY ACCORDING TO AUTHOR UNDER THE GENERAL DIVISIONS OF BOOKS, PERIODICALS, AND UNPUBLISHED…

  4. MSDAC Resource Library Annotated Bibliography.

    ERIC Educational Resources Information Center

    Watson, Cristel; And Others

    This annotated bibliography lists books, films, filmstrips, recordings, and booklets on sex equity. Entries are arranged according to the following topics: career resources, curriculum resources, management, sex equity, sex roles, women's studies, student activities, and sex-fair fiction. Included in each entry are name of author, editor or…

  5. Teacher Evaluation: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    McKenna, Bernard H.; And Others

    In his introduction to the 86-item annotated bibliography by Mueller and Poliakoff, McKenna discusses his views on teacher evaluation and his impressions of the documents cited. He observes, in part, that the current concern is with the process of evaluation and that most researchers continue to believe that student achievement is the most…

  6. Workforce Reductions. An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Hickok, Thomas A.; Hickok, Thomas A.

    This report, which is based on a review of practitioner-oriented sources and scholarly journals, uses a three-part framework to organize annotated bibliographies that, together, list a total of 104 sources that provide the following three perspectives on work force reduction issues: organizational, organizational-individual relationship, and…

  7. Annotated Bibliography, Grades K-6.

    ERIC Educational Resources Information Center

    Massachusetts Dept. of Education, Boston. Bureau of Nutrition Education and School Food Services.

    This annotated bibliography on nutrition is for the use of teachers at the elementary grade level. It contains a list of books suitable for reading about nutrition and foods for pupils from kindergarten through the sixth grade. Films and audiovisual presentations for classroom use are also listed. The names and addresses from which these materials…

  8. Appalachian Women. An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Hamm, Mary Margo

    This bibliography compiles annotations of 178 books, journal articles, ERIC documents, and dissertations on Appalachian women and their social, cultural, and economic environment. Entries were published 1966-93 and are listed in the following categories: (1) authors and literary criticism; (2) bibliographies and resource guides; (3) economics,…

  9. Service Integration: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Chaudry, Ajay; And Others

    This annotated bibliography describes 53 books, papers, and articles written about efforts toward integrating and improving human services for children, youth, and families living in poverty. The bibliography has been developed for individuals working on and interested in service integration, including policymakers, program administrators,…

  10. Alcohol Education Materials; An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Milgram, Gail Gleason

    This 873-item annotated bibliography cites books, pamphlets, leaflets, and other materials produced for education about alcohol from 1950 to May 1973. The major part of each annotation is a brief summary of the contents. The annotation also contains a statement of orientation or type of presentation and evaluative comments. Each item is classified…

  11. Using the Gene Ontology to Annotate Key Players in Parkinson's Disease.

    PubMed

    Foulger, R E; Denny, P; Hardy, J; Martin, M J; Sawford, T; Lovering, R C

    2016-07-01

    The Gene Ontology (GO) is widely recognised as the gold standard bioinformatics resource for summarizing functional knowledge of gene products in a consistent and computable, information-rich language. GO describes cellular and organismal processes across all species, yet until now there has been a considerable gene annotation deficit within the neurological and immunological domains, both of which are relevant to Parkinson's disease. Here we introduce the Parkinson's disease GO Annotation Project, funded by Parkinson's UK and supported by the GO Consortium, which is addressing this deficit by providing GO annotation to Parkinson's-relevant human gene products, principally through expert literature curation. We discuss the steps taken to prioritise proteins, publications and cellular processes for annotation, examples of how GO annotations capture Parkinson's-relevant information, and the advantages that a topic-focused annotation approach offers to users. Building on the existing GO resource, this project collates a vast amount of Parkinson's-relevant literature into a set of high-quality annotations to be utilized by the research community. PMID:26825309

  12. Content-based histopathology image retrieval using a kernel-based semantic annotation framework.

    PubMed

    Caicedo, Juan C; González, Fabio A; Romero, Eduardo

    2011-08-01

    Large amounts of histology images are captured and archived in pathology departments due to the ever expanding use of digital microscopy. The ability to manage and access these collections of digital images is regarded as a key component of next generation medical imaging systems. This paper addresses the problem of retrieving histopathology images from a large collection using an example image as query. The proposed approach automatically annotates the images in the collection, as well as the query images, with high-level semantic concepts. This semantic representation delivers an improved retrieval performance providing more meaningful results. We model the problem of automatic image annotation using kernel methods, resulting in a unified framework that includes: (1) multiple features for image representation, (2) a feature integration and selection mechanism (3) and an automatic semantic image annotation strategy. An extensive experimental evaluation demonstrated the effectiveness of the proposed framework to build meaningful image representations for learning and useful semantic annotations for image retrieval. PMID:21296682

  13. Automatic annotation of organellar genomes with DOGMA

    SciTech Connect

    Wyman, Stacia; Jansen, Robert K.; Boore, Jeffrey L.

    2004-06-01

    Dual Organellar GenoMe Annotator (DOGMA) automates the annotation of extra-nuclear organellar (chloroplast and animal mitochondrial) genomes. It is a web-based package that allows the use of comparative BLAST searches to identify and annotate genes in a genome. DOGMA presents a list of putative genes to the user in a graphical format for viewing and editing. Annotations are stored on our password-protected server. Complete annotations can be extracted for direct submission to GenBank. Furthermore, intergenic regions of specified length can be extracted, as well the nucleotide sequences and amino acid sequences of the genes.

  14. Cancer markers: integratively annotated classification.

    PubMed

    Orsini, M; Travaglione, A; Capobianco, E

    2013-11-10

    Translational cancer genomics research aims to ensure that experimental knowledge is subject to computational analysis, and integrated with a variety of records from omics and clinical sources. The data retrieval from such sources is not trivial, due to their redundancy and heterogeneity, and the presence of false evidence. In silico marker identification, therefore, remains a complex task that is mainly motivated by the impact that target identification from the elucidation of gene co-expression dynamics and regulation mechanisms, combined with the discovery of genotype-phenotype associations, may have for clinical validation. Based on the reuse of publicly available gene expression data, our aim is to propose cancer marker classification by integrating the prediction power of multiple annotation sources. In particular, with reference to the functional annotation for colorectal markers, we indicate a classification of markers into diagnostic and prognostic classes combined with susceptibility and risk factors. PMID:23928109

  15. Annotation of rule-based models with formal semantics to enable creation, analysis, reuse and visualization

    PubMed Central

    Misirli, Goksel; Cavaliere, Matteo; Waites, William; Pocock, Matthew; Madsen, Curtis; Gilfellon, Owen; Honorato-Zimmer, Ricardo; Zuliani, Paolo; Danos, Vincent; Wipat, Anil

    2016-01-01

    Motivation: Biological systems are complex and challenging to model and therefore model reuse is highly desirable. To promote model reuse, models should include both information about the specifics of simulations and the underlying biology in the form of metadata. The availability of computationally tractable metadata is especially important for the effective automated interpretation and processing of models. Metadata are typically represented as machine-readable annotations which enhance programmatic access to information about models. Rule-based languages have emerged as a modelling framework to represent the complexity of biological systems. Annotation approaches have been widely used for reaction-based formalisms such as SBML. However, rule-based languages still lack a rich annotation framework to add semantic information, such as machine-readable descriptions, to the components of a model. Results: We present an annotation framework and guidelines for annotating rule-based models, encoded in the commonly used Kappa and BioNetGen languages. We adapt widely adopted annotation approaches to rule-based models. We initially propose a syntax to store machine-readable annotations and describe a mapping between rule-based modelling entities, such as agents and rules, and their annotations. We then describe an ontology to both annotate these models and capture the information contained therein, and demonstrate annotating these models using examples. Finally, we present a proof of concept tool for extracting annotations from a model that can be queried and analyzed in a uniform way. The uniform representation of the annotations can be used to facilitate the creation, analysis, reuse and visualization of rule-based models. Although examples are given, using specific implementations the proposed techniques can be applied to rule-based models in general. Availability and implementation: The annotation ontology for rule-based models can be found at http

  16. 27 CFR 17.165 - Receipt of raw ingredients.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Receipt of raw ingredients. 17.165 Section 17.165 Alcohol, Tobacco Products and Firearms ALCOHOL AND TOBACCO TAX AND TRADE BUREAU... PRODUCTS Records § 17.165 Receipt of raw ingredients. For raw ingredients destined to be used...

  17. 76 FR 30189 - Receipt of Application for Approval

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-05-24

    ... Fish and Wildlife Service Receipt of Application for Approval AGENCY: Fish and Wildlife Service, Interior. ACTION: Notice of receipt of application for approval; request for comment. SUMMARY: The public is invited to comment on the following application for approval to conduct certain activities...

  18. 7 CFR 735.303 - Electronic warehouse receipts.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 7 2010-01-01 2010-01-01 false Electronic warehouse receipts. 735.303 Section 735.303 Agriculture Regulations of the Department of Agriculture (Continued) FARM SERVICE AGENCY, DEPARTMENT OF... § 735.303 Electronic warehouse receipts. (a) Warehouse operators issuing EWR under the Act may issue...

  19. 7 CFR 735.303 - Electronic warehouse receipts.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 7 2011-01-01 2011-01-01 false Electronic warehouse receipts. 735.303 Section 735.303 Agriculture Regulations of the Department of Agriculture (Continued) FARM SERVICE AGENCY, DEPARTMENT OF... § 735.303 Electronic warehouse receipts. (a) Warehouse operators issuing EWR under the Act may issue...

  20. 48 CFR 315.606-1 - Receipt and initial review.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 48 Federal Acquisition Regulations System 4 2014-10-01 2014-10-01 false Receipt and initial review. 315.606-1 Section 315.606-1 Federal Acquisition Regulations System HEALTH AND HUMAN SERVICES CONTRACTING METHODS AND CONTRACT TYPES CONTRACTING BY NEGOTIATION Unsolicited Proposals 315.606-1 Receipt and initial review. (d) OPDIVs shall not...

  1. 27 CFR 40.254 - Receipt into factory.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 2 2010-04-01 2010-04-01 false Receipt into factory. 40... Operations § 40.254 Receipt into factory. A manufacturer of tobacco products may receive in bond into his factory tobacco products and may also receive into his factory tobacco products on which the tax has...

  2. 27 CFR 40.254 - Receipt into factory.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 2 2014-04-01 2014-04-01 false Receipt into factory. 40... Operations § 40.254 Receipt into factory. A manufacturer of tobacco products may receive in bond into his factory tobacco products and may also receive into his factory tobacco products on which the tax has...

  3. 27 CFR 40.254 - Receipt into factory.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 2 2012-04-01 2011-04-01 true Receipt into factory. 40... Operations § 40.254 Receipt into factory. A manufacturer of tobacco products may receive in bond into his factory tobacco products and may also receive into his factory tobacco products on which the tax has...

  4. 27 CFR 40.254 - Receipt into factory.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 2 2013-04-01 2013-04-01 false Receipt into factory. 40... Operations § 40.254 Receipt into factory. A manufacturer of tobacco products may receive in bond into his factory tobacco products and may also receive into his factory tobacco products on which the tax has...

  5. 27 CFR 40.254 - Receipt into factory.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 2 2011-04-01 2011-04-01 false Receipt into factory. 40... Operations § 40.254 Receipt into factory. A manufacturer of tobacco products may receive in bond into his factory tobacco products and may also receive into his factory tobacco products on which the tax has...

  6. 48 CFR 315.606-1 - Receipt and initial review.

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... 48 Federal Acquisition Regulations System 4 2011-10-01 2011-10-01 false Receipt and initial review. 315.606-1 Section 315.606-1 Federal Acquisition Regulations System HEALTH AND HUMAN SERVICES CONTRACTING METHODS AND CONTRACT TYPES CONTRACTING BY NEGOTIATION Unsolicited Proposals 315.606-1 Receipt and initial review. (d) OPDIVs shall not...

  7. 48 CFR 15.606-1 - Receipt and initial review.

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... 48 Federal Acquisition Regulations System 1 2011-10-01 2011-10-01 false Receipt and initial review. 15.606-1 Section 15.606-1 Federal Acquisition Regulations System FEDERAL ACQUISITION REGULATION CONTRACTING METHODS AND CONTRACT TYPES CONTRACTING BY NEGOTIATION Unsolicited Proposals 15.606-1 Receipt and initial review. (a) Before initiating...

  8. 48 CFR 15.606-1 - Receipt and initial review.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 48 Federal Acquisition Regulations System 1 2010-10-01 2010-10-01 false Receipt and initial review. 15.606-1 Section 15.606-1 Federal Acquisition Regulations System FEDERAL ACQUISITION REGULATION CONTRACTING METHODS AND CONTRACT TYPES CONTRACTING BY NEGOTIATION Unsolicited Proposals 15.606-1 Receipt and initial review. (a) Before initiating...

  9. 7 CFR 1131.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 9 2014-01-01 2013-01-01 true Reports of receipts and utilization. 1131.30 Section... AREA Order Regulating Handling Handler Reports § 1131.30 Reports of receipts and utilization. Each handler shall report monthly so that the market administrator's office receives the report on or...

  10. 7 CFR 1131.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 9 2012-01-01 2012-01-01 false Reports of receipts and utilization. 1131.30 Section... AREA Order Regulating Handling Handler Reports § 1131.30 Reports of receipts and utilization. Each handler shall report monthly so that the market administrator's office receives the report on or...

  11. 7 CFR 1006.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 9 2012-01-01 2012-01-01 false Reports of receipts and utilization. 1006.30 Section... AREA Order Regulating Handling Handler Reports § 1006.30 Reports of receipts and utilization. Each handler shall report monthly so that the market administrator's office receives the report on or...

  12. 7 CFR 1006.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 9 2013-01-01 2013-01-01 false Reports of receipts and utilization. 1006.30 Section... AREA Order Regulating Handling Handler Reports § 1006.30 Reports of receipts and utilization. Each handler shall report monthly so that the market administrator's office receives the report on or...

  13. 7 CFR 1007.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 9 2012-01-01 2012-01-01 false Reports of receipts and utilization. 1007.30 Section... AREA Order Regulating Handling Handler Reports § 1007.30 Reports of receipts and utilization. Each handler shall report monthly so that the market administrator's office receives the report on or...

  14. 7 CFR 1131.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 9 2013-01-01 2013-01-01 false Reports of receipts and utilization. 1131.30 Section... AREA Order Regulating Handling Handler Reports § 1131.30 Reports of receipts and utilization. Each handler shall report monthly so that the market administrator's office receives the report on or...

  15. 7 CFR 1007.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 9 2014-01-01 2013-01-01 true Reports of receipts and utilization. 1007.30 Section... AREA Order Regulating Handling Handler Reports § 1007.30 Reports of receipts and utilization. Each handler shall report monthly so that the market administrator's office receives the report on or...

  16. 7 CFR 1006.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 9 2014-01-01 2013-01-01 true Reports of receipts and utilization. 1006.30 Section... AREA Order Regulating Handling Handler Reports § 1006.30 Reports of receipts and utilization. Each handler shall report monthly so that the market administrator's office receives the report on or...

  17. 7 CFR 1007.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 9 2013-01-01 2013-01-01 false Reports of receipts and utilization. 1007.30 Section... AREA Order Regulating Handling Handler Reports § 1007.30 Reports of receipts and utilization. Each handler shall report monthly so that the market administrator's office receives the report on or...

  18. 7 CFR 1131.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Reports of receipts and utilization. 1131.30 Section... AREA Order Regulating Handling Handler Reports § 1131.30 Reports of receipts and utilization. Each... end of the month of fluid milk products and bulk fluid cream products; and (6) The utilization...

  19. 7 CFR 1007.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Reports of receipts and utilization. 1007.30 Section... AREA Order Regulating Handling Handler Reports § 1007.30 Reports of receipts and utilization. Each... beginning and end of the month of fluid milk products and bulk fluid cream products; and (9) The...

  20. 7 CFR 1006.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Reports of receipts and utilization. 1006.30 Section... AREA Order Regulating Handling Handler Reports § 1006.30 Reports of receipts and utilization. Each... and bulk fluid cream products; and (6) The utilization or disposition of all milk and milk...

  1. 48 CFR 15.606-1 - Receipt and initial review.

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ... 48 Federal Acquisition Regulations System 1 2013-10-01 2013-10-01 false Receipt and initial review. 15.606-1 Section 15.606-1 Federal Acquisition Regulations System FEDERAL ACQUISITION REGULATION CONTRACTING METHODS AND CONTRACT TYPES CONTRACTING BY NEGOTIATION Unsolicited Proposals 15.606-1 Receipt and initial review. (a) Before initiating...

  2. 11 CFR 300.31 - Receipt of Levin funds.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 11 Federal Elections 1 2011-01-01 2011-01-01 false Receipt of Levin funds. 300.31 Section 300.31 Federal Elections FEDERAL ELECTION COMMISSION BIPARTISAN CAMPAIGN REFORM ACT OF 2002-(BCRA) REGULATIONS NON-FEDERAL FUNDS State, District, and Local Party Committees and Organizations § 300.31 Receipt of Levin funds. (a) General rule. Levin...

  3. 27 CFR 18.56 - Receipt of concentrate.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2011-04-01 2011-04-01 false Receipt of concentrate. 18..., DEPARTMENT OF THE TREASURY LIQUORS PRODUCTION OF VOLATILE FRUIT-FLAVOR CONCENTRATE Operations § 18.56 Receipt of concentrate. (a) General. The proprietor of a concentrate plant may accept the return...

  4. 27 CFR 18.56 - Receipt of concentrate.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Receipt of concentrate. 18..., DEPARTMENT OF THE TREASURY LIQUORS PRODUCTION OF VOLATILE FRUIT-FLAVOR CONCENTRATE Operations § 18.56 Receipt of concentrate. (a) General. The proprietor of a concentrate plant may accept the return...

  5. 20 CFR 410.520 - Reductions; receipt of State benefit.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 20 Employees' Benefits 2 2010-04-01 2010-04-01 false Reductions; receipt of State benefit. 410.520 Section 410.520 Employees' Benefits SOCIAL SECURITY ADMINISTRATION FEDERAL COAL MINE HEALTH AND SAFETY ACT OF 1969, TITLE IV-BLACK LUNG BENEFITS (1969- ) Payment of Benefits § 410.520 Reductions; receipt...

  6. 20 CFR 410.520 - Reductions; receipt of State benefit.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 20 Employees' Benefits 2 2011-04-01 2011-04-01 false Reductions; receipt of State benefit. 410.520 Section 410.520 Employees' Benefits SOCIAL SECURITY ADMINISTRATION FEDERAL COAL MINE HEALTH AND SAFETY ACT OF 1969, TITLE IV-BLACK LUNG BENEFITS (1969- ) Payment of Benefits § 410.520 Reductions; receipt...

  7. 7 CFR 1124.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... the following information: (1) Product pounds, pounds of butterfat, pounds of protein, and pounds of solids-not-fat other than protein (other solids) contained in or represented by: (i) Receipts of producer... other information with respect to the receipts and utilization of skim milk, butterfat, milk...

  8. 7 CFR 1124.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... the following information: (1) Product pounds, pounds of butterfat, pounds of protein, and pounds of solids-not-fat other than protein (other solids) contained in or represented by: (i) Receipts of producer... other information with respect to the receipts and utilization of skim milk, butterfat, milk...

  9. 7 CFR 1124.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... the following information: (1) Product pounds, pounds of butterfat, pounds of protein, and pounds of solids-not-fat other than protein (other solids) contained in or represented by: (i) Receipts of producer... other information with respect to the receipts and utilization of skim milk, butterfat, milk...

  10. 26 CFR 1.351-2 - Receipt of property.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 26 Internal Revenue 4 2010-04-01 2010-04-01 false Receipt of property. 1.351-2 Section 1.351-2 Internal Revenue INTERNAL REVENUE SERVICE, DEPARTMENT OF THE TREASURY (CONTINUED) INCOME TAX (CONTINUED) INCOME TAXES Corporate Organizations and Reorganizations § 1.351-2 Receipt of property. (a) If an exchange would be within the provisions of...

  11. 42 CFR 35.51 - Manner of delivery; costs, receipts.

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 42 Public Health 1 2012-10-01 2012-10-01 false Manner of delivery; costs, receipts. 35.51 Section 35.51 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND HUMAN SERVICES MEDICAL CARE AND... of delivery; costs, receipts. (a) If a person entitled under this subpart to receive the money...

  12. 42 CFR 35.51 - Manner of delivery; costs, receipts.

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ... 42 Public Health 1 2013-10-01 2013-10-01 false Manner of delivery; costs, receipts. 35.51 Section 35.51 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND HUMAN SERVICES MEDICAL CARE AND... of delivery; costs, receipts. (a) If a person entitled under this subpart to receive the money...

  13. 42 CFR 35.51 - Manner of delivery; costs, receipts.

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... 42 Public Health 1 2011-10-01 2011-10-01 false Manner of delivery; costs, receipts. 35.51 Section 35.51 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND HUMAN SERVICES MEDICAL CARE AND... of delivery; costs, receipts. (a) If a person entitled under this subpart to receive the money...

  14. 42 CFR 35.51 - Manner of delivery; costs, receipts.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 42 Public Health 1 2010-10-01 2010-10-01 false Manner of delivery; costs, receipts. 35.51 Section 35.51 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND HUMAN SERVICES MEDICAL CARE AND... of delivery; costs, receipts. (a) If a person entitled under this subpart to receive the money...

  15. 42 CFR 35.51 - Manner of delivery; costs, receipts.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 42 Public Health 1 2014-10-01 2014-10-01 false Manner of delivery; costs, receipts. 35.51 Section 35.51 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND HUMAN SERVICES MEDICAL CARE AND... of delivery; costs, receipts. (a) If a person entitled under this subpart to receive the money...

  16. 48 CFR 1480.902 - Receipt of challenge.

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ... 48 Federal Acquisition Regulations System 5 2013-10-01 2013-10-01 false Receipt of challenge. 1480... SUPPLEMENT ACQUISITIONS UNDER THE BUY INDIAN ACT Challenges to Representation 1480.902 Receipt of challenge... CO. (b) The challenge must be in writing and must contain the basis for the challenge with...

  17. 48 CFR 1480.902 - Receipt of challenge.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 48 Federal Acquisition Regulations System 5 2014-10-01 2014-10-01 false Receipt of challenge. 1480... SUPPLEMENT ACQUISITIONS UNDER THE BUY INDIAN ACT Challenges to Representation 1480.902 Receipt of challenge... CO. (b) The challenge must be in writing and must contain the basis for the challenge with...

  18. 37 CFR 1.6 - Receipt of correspondence.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... patent application under § 1.53(d). In the event that the Office has no evidence of receipt of an...) Includes a statement which attests on a personal knowledge basis or to the satisfaction of the Director to.... In the event that the Office has no evidence of receipt of the national stage correspondence...

  19. 48 CFR 15.606-1 - Receipt and initial review.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 48 Federal Acquisition Regulations System 1 2014-10-01 2014-10-01 false Receipt and initial review. 15.606-1 Section 15.606-1 Federal Acquisition Regulations System FEDERAL ACQUISITION REGULATION CONTRACTING METHODS AND CONTRACT TYPES CONTRACTING BY NEGOTIATION Unsolicited Proposals 15.606-1 Receipt and initial review. (a) Before initiating...

  20. 32 CFR 1907.21 - Receipt, recording, and tasking.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 32 National Defense 6 2010-07-01 2010-07-01 false Receipt, recording, and tasking. 1907.21 Section 1907.21 National Defense Other Regulations Relating to National Defense CENTRAL INTELLIGENCE AGENCY... Action on Challenges § 1907.21 Receipt, recording, and tasking. The Executive Secretary of the...

  1. 32 CFR 1908.32 - Receipt, recording, and tasking.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... 32 National Defense 6 2011-07-01 2011-07-01 false Receipt, recording, and tasking. 1908.32 Section 1908.32 National Defense Other Regulations Relating to National Defense CENTRAL INTELLIGENCE AGENCY... EXECUTIVE ORDER 12958 Agency Action on Mdr Appeals § 1908.32 Receipt, recording, and tasking....

  2. 32 CFR 1907.21 - Receipt, recording, and tasking.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... 32 National Defense 6 2011-07-01 2011-07-01 false Receipt, recording, and tasking. 1907.21 Section 1907.21 National Defense Other Regulations Relating to National Defense CENTRAL INTELLIGENCE AGENCY... Action on Challenges § 1907.21 Receipt, recording, and tasking. The Executive Secretary of the...

  3. 32 CFR 1908.32 - Receipt, recording, and tasking.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 32 National Defense 6 2010-07-01 2010-07-01 false Receipt, recording, and tasking. 1908.32 Section 1908.32 National Defense Other Regulations Relating to National Defense CENTRAL INTELLIGENCE AGENCY... EXECUTIVE ORDER 12958 Agency Action on Mdr Appeals § 1908.32 Receipt, recording, and tasking....

  4. 7 CFR 984.473 - Report of walnut receipts.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 8 2013-01-01 2013-01-01 false Report of walnut receipts. 984.473 Section 984.473... AGREEMENTS AND ORDERS; FRUITS, VEGETABLES, NUTS), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Administrative Rules and Regulations Reports § 984.473 Report of walnut receipts. Each handler shall file...

  5. 7 CFR 984.73 - Reports of walnut receipts.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 8 2010-01-01 2010-01-01 false Reports of walnut receipts. 984.73 Section 984.73... Agreements and Orders; Fruits, Vegetables, Nuts), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Order Regulating Handling Reports, Books, and Other Records § 984.73 Reports of walnut receipts. Each handler...

  6. 7 CFR 984.473 - Report of walnut receipts.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 8 2014-01-01 2014-01-01 false Report of walnut receipts. 984.473 Section 984.473... AGREEMENTS AND ORDERS; FRUITS, VEGETABLES, NUTS), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Administrative Rules and Regulations Reports § 984.473 Report of walnut receipts. Each handler shall file...

  7. 7 CFR 984.73 - Reports of walnut receipts.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 8 2014-01-01 2014-01-01 false Reports of walnut receipts. 984.73 Section 984.73... AGREEMENTS AND ORDERS; FRUITS, VEGETABLES, NUTS), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Order Regulating Handling Reports, Books, and Other Records § 984.73 Reports of walnut receipts. Each handler...

  8. 7 CFR 984.73 - Reports of walnut receipts.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 8 2012-01-01 2012-01-01 false Reports of walnut receipts. 984.73 Section 984.73... Agreements and Orders; Fruits, Vegetables, Nuts), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Order Regulating Handling Reports, Books, and Other Records § 984.73 Reports of walnut receipts. Each handler...

  9. 7 CFR 984.473 - Report of walnut receipts.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 8 2012-01-01 2012-01-01 false Report of walnut receipts. 984.473 Section 984.473... Agreements and Orders; Fruits, Vegetables, Nuts), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Administrative Rules and Regulations Reports § 984.473 Report of walnut receipts. Each handler shall file...

  10. 7 CFR 984.473 - Report of walnut receipts.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 8 2010-01-01 2010-01-01 false Report of walnut receipts. 984.473 Section 984.473... Agreements and Orders; Fruits, Vegetables, Nuts), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Administrative Rules and Regulations Reports § 984.473 Report of walnut receipts. Each handler shall file...

  11. 7 CFR 984.473 - Report of walnut receipts.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 8 2011-01-01 2011-01-01 false Report of walnut receipts. 984.473 Section 984.473... Agreements and Orders; Fruits, Vegetables, Nuts), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Administrative Rules and Regulations Reports § 984.473 Report of walnut receipts. Each handler shall file...

  12. 7 CFR 984.73 - Reports of walnut receipts.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 8 2011-01-01 2011-01-01 false Reports of walnut receipts. 984.73 Section 984.73... Agreements and Orders; Fruits, Vegetables, Nuts), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Order Regulating Handling Reports, Books, and Other Records § 984.73 Reports of walnut receipts. Each handler...

  13. 7 CFR 984.73 - Reports of walnut receipts.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 8 2013-01-01 2013-01-01 false Reports of walnut receipts. 984.73 Section 984.73... AGREEMENTS AND ORDERS; FRUITS, VEGETABLES, NUTS), DEPARTMENT OF AGRICULTURE WALNUTS GROWN IN CALIFORNIA Order Regulating Handling Reports, Books, and Other Records § 984.73 Reports of walnut receipts. Each handler...

  14. 1 CFR 17.1 - Receipt and processing.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 1 General Provisions 1 2010-01-01 2010-01-01 false Receipt and processing. 17.1 Section 17.1 General Provisions ADMINISTRATIVE COMMITTEE OF THE FEDERAL REGISTER PREPARATION, TRANSMITTAL, AND PROCESSING OF DOCUMENTS FILING FOR PUBLIC INSPECTION AND PUBLICATION SCHEDULES Receipt and Processing §...

  15. 1 CFR 17.1 - Receipt and processing.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 1 General Provisions 1 2011-01-01 2011-01-01 false Receipt and processing. 17.1 Section 17.1 General Provisions ADMINISTRATIVE COMMITTEE OF THE FEDERAL REGISTER PREPARATION, TRANSMITTAL, AND PROCESSING OF DOCUMENTS FILING FOR PUBLIC INSPECTION AND PUBLICATION SCHEDULES Receipt and Processing §...

  16. 1 CFR 17.1 - Receipt and processing.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 1 General Provisions 1 2012-01-01 2012-01-01 false Receipt and processing. 17.1 Section 17.1 General Provisions ADMINISTRATIVE COMMITTEE OF THE FEDERAL REGISTER PREPARATION, TRANSMITTAL, AND PROCESSING OF DOCUMENTS FILING FOR PUBLIC INSPECTION AND PUBLICATION SCHEDULES Receipt and Processing §...

  17. 1 CFR 17.1 - Receipt and processing.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 1 General Provisions 1 2013-01-01 2012-01-01 true Receipt and processing. 17.1 Section 17.1 General Provisions ADMINISTRATIVE COMMITTEE OF THE FEDERAL REGISTER PREPARATION, TRANSMITTAL, AND PROCESSING OF DOCUMENTS FILING FOR PUBLIC INSPECTION AND PUBLICATION SCHEDULES Receipt and Processing §...

  18. 1 CFR 17.1 - Receipt and processing.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 1 General Provisions 1 2014-01-01 2012-01-01 true Receipt and processing. 17.1 Section 17.1 General Provisions ADMINISTRATIVE COMMITTEE OF THE FEDERAL REGISTER PREPARATION, TRANSMITTAL, AND PROCESSING OF DOCUMENTS FILING FOR PUBLIC INSPECTION AND PUBLICATION SCHEDULES Receipt and Processing §...

  19. 48 CFR 315.606-1 - Receipt and initial review.

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 48 Federal Acquisition Regulations System 4 2012-10-01 2012-10-01 false Receipt and initial review. 315.606-1 Section 315.606-1 Federal Acquisition Regulations System HEALTH AND HUMAN SERVICES CONTRACTING METHODS AND CONTRACT TYPES CONTRACTING BY NEGOTIATION Unsolicited Proposals 315.606-1 Receipt and initial review. (d) OPDIVs shall not...

  20. 27 CFR 17.162 - Receipt of distilled spirits.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2010-04-01 2010-04-01 false Receipt of distilled... BUREAU, DEPARTMENT OF THE TREASURY LIQUORS DRAWBACK ON TAXPAID DISTILLED SPIRITS USED IN MANUFACTURING NONBEVERAGE PRODUCTS Records § 17.162 Receipt of distilled spirits. (a) Distilled spirits received in...

  1. Quality of Computationally Inferred Gene Ontology Annotations

    PubMed Central

    Škunca, Nives; Altenhoff, Adrian; Dessimoz, Christophe

    2012-01-01

    Gene Ontology (GO) has established itself as the undisputed standard for protein function annotation. Most annotations are inferred electronically, i.e. without individual curator supervision, but they are widely considered unreliable. At the same time, we crucially depend on those automated annotations, as most newly sequenced genomes are non-model organisms. Here, we introduce a methodology to systematically and quantitatively evaluate electronic annotations. By exploiting changes in successive releases of the UniProt Gene Ontology Annotation database, we assessed the quality of electronic annotations in terms of specificity, reliability, and coverage. Overall, we not only found that electronic annotations have significantly improved in recent years, but also that their reliability now rivals that of annotations inferred by curators when they use evidence other than experiments from primary literature. This work provides the means to identify the subset of electronic annotations that can be relied upon—an important outcome given that >98% of all annotations are inferred without direct curation. PMID:22693439

  2. Computational algorithms to predict Gene Ontology annotations

    PubMed Central

    2015-01-01

    Background Gene function annotations, which are associations between a gene and a term of a controlled vocabulary describing gene functional features, are of paramount importance in modern biology. Datasets of these annotations, such as the ones provided by the Gene Ontology Consortium, are used to design novel biological experiments and interpret their results. Despite their importance, these sources of information have some known issues. They are incomplete, since biological knowledge is far from being definitive and it rapidly evolves, and some erroneous annotations may be present. Since the curation process of novel annotations is a costly procedure, both in economical and time terms, computational tools that can reliably predict likely annotations, and thus quicken the discovery of new gene annotations, are very useful. Methods We used a set of computational algorithms and weighting schemes to infer novel gene annotations from a set of known ones. We used the latent semantic analysis approach, implementing two popular algorithms (Latent Semantic Indexing and Probabilistic Latent Semantic Analysis) and propose a novel method, the Semantic IMproved Latent Semantic Analysis, which adds a clustering step on the set of considered genes. Furthermore, we propose the improvement of these algorithms by weighting the annotations in the input set. Results We tested our methods and their weighted variants on the Gene Ontology annotation sets of three model organism genes (Bos taurus, Danio rerio and Drosophila melanogaster ). The methods showed their ability in predicting novel gene annotations and the weighting procedures demonstrated to lead to a valuable improvement, although the obtained results vary according to the dimension of the input annotation set and the considered algorithm. Conclusions Out of the three considered methods, the Semantic IMproved Latent Semantic Analysis is the one that provides better results. In particular, when coupled with a proper

  3. iPad: Semantic annotation and markup of radiological images.

    PubMed

    Rubin, Daniel L; Rodriguez, Cesar; Shah, Priyanka; Beaulieu, Chris

    2008-01-01

    Radiological images contain a wealth of information,such as anatomy and pathology, which is often not explicit and computationally accessible. Information schemes are being developed to describe the semantic content of images, but such schemes can be unwieldy to operationalize because there are few tools to enable users to capture structured information easily as part of the routine research workflow. We have created iPad, an open source tool enabling researchers and clinicians to create semantic annotations on radiological images. iPad hides the complexity of the underlying image annotation information model from users, permitting them to describe images and image regions using a graphical interface that maps their descriptions to structured ontologies semi-automatically. Image annotations are saved in a variety of formats,enabling interoperability among medical records systems, image archives in hospitals, and the Semantic Web. Tools such as iPad can help reduce the burden of collecting structured information from images, and it could ultimately enable researchers and physicians to exploit images on a very large scale and glean the biological and physiological significance of image content. PMID:18999144

  4. iPad: Semantic Annotation and Markup of Radiological Images

    PubMed Central

    Rubin, Daniel L.; Rodriguez, Cesar; Shah, Priyanka; Beaulieu, Chris

    2008-01-01

    Radiological images contain a wealth of information, such as anatomy and pathology, which is often not explicit and computationally accessible. Information schemes are being developed to describe the semantic content of images, but such schemes can be unwieldy to operationalize because there are few tools to enable users to capture structured information easily as part of the routine research workflow. We have created iPad, an open source tool enabling researchers and clinicians to create semantic annotations on radiological images. iPad hides the complexity of the underlying image annotation information model from users, permitting them to describe images and image regions using a graphical interface that maps their descriptions to structured ontologies semi-automatically. Image annotations are saved in a variety of formats, enabling interoperability among medical records systems, image archives in hospitals, and the Semantic Web. Tools such as iPad can help reduce the burden of collecting structured information from images, and it could ultimately enable researchers and physicians to exploit images on a very large scale and glean the biological and physiological significance of image content. PMID:18999144

  5. TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes.

    PubMed

    Leroy, Philippe; Guilhot, Nicolas; Sakai, Hiroaki; Bernard, Aurélien; Choulet, Frédéric; Theil, Sébastien; Reboux, Sébastien; Amano, Naoki; Flutre, Timothée; Pelegrin, Céline; Ohyanagi, Hajime; Seidel, Michael; Giacomoni, Franck; Reichstadt, Mathieu; Alaux, Michael; Gicquello, Emmanuelle; Legeai, Fabrice; Cerutti, Lorenzo; Numa, Hisataka; Tanaka, Tsuyoshi; Mayer, Klaus; Itoh, Takeshi; Quesneville, Hadi; Feuillet, Catherine

    2012-01-01

    In support of the international effort to obtain a reference sequence of the bread wheat genome and to provide plant communities dealing with large and complex genomes with a versatile, easy-to-use online automated tool for annotation, we have developed the TriAnnot pipeline. Its modular architecture allows for the annotation and masking of transposable elements, the structural, and functional annotation of protein-coding genes with an evidence-based quality indexing, and the identification of conserved non-coding sequences and molecular markers. The TriAnnot pipeline is parallelized on a 712 CPU computing cluster that can run a 1-Gb sequence annotation in less than 5 days. It is accessible through a web interface for small scale analyses or through a server for large scale annotations. The performance of TriAnnot was evaluated in terms of sensitivity, specificity, and general fitness using curated reference sequence sets from rice and wheat. In less than 8 h, TriAnnot was able to predict more than 83% of the 3,748 CDS from rice chromosome 1 with a fitness of 67.4%. On a set of 12 reference Mb-sized contigs from wheat chromosome 3B, TriAnnot predicted and annotated 93.3% of the genes among which 54% were perfectly identified in accordance with the reference annotation. It also allowed the curation of 12 genes based on new biological evidences, increasing the percentage of perfect gene prediction to 63%. TriAnnot systematically showed a higher fitness than other annotation pipelines that are not improved for wheat. As it is easily adaptable to the annotation of other plant genomes, TriAnnot should become a useful resource for the annotation of large and complex genomes in the future. PMID:22645565

  6. Omics data management and annotation.

    PubMed

    Harel, Arye; Dalah, Irina; Pietrokovski, Shmuel; Safran, Marilyn; Lancet, Doron

    2011-01-01

    Technological Omics breakthroughs, including next generation sequencing, bring avalanches of data which need to undergo effective data management to ensure integrity, security, and maximal knowledge-gleaning. Data management system requirements include flexible input formats, diverse data entry mechanisms and views, user friendliness, attention to standards, hardware and software platform definition, as well as robustness. Relevant solutions elaborated by the scientific community include Laboratory Information Management Systems (LIMS) and standardization protocols facilitating data sharing and managing. In project planning, special consideration has to be made when choosing relevant Omics annotation sources, since many of them overlap and require sophisticated integration heuristics. The data modeling step defines and categorizes the data into objects (e.g., genes, articles, disorders) and creates an application flow. A data storage/warehouse mechanism must be selected, such as file-based systems and relational databases, the latter typically used for larger projects. Omics project life cycle considerations must include the definition and deployment of new versions, incorporating either full or partial updates. Finally, quality assurance (QA) procedures must validate data and feature integrity, as well as system performance expectations. We illustrate these data management principles with examples from the life cycle of the GeneCards Omics project (http://www.genecards.org), a comprehensive, widely used compendium of annotative information about human genes. For example, the GeneCards infrastructure has recently been changed from text files to a relational database, enabling better organization and views of the growing data. Omics data handling benefits from the wealth of Web-based information, the vast amount of public domain software, increasingly affordable hardware, and effective use of data management and annotation principles as outlined in this chapter

  7. Scalable Semi-Automatic Annotation for Multi-Camera Person Tracking.

    PubMed

    Niño-Castañeda, Jorge; Frías-Velázquez, Andrés; Bo, Nyan Bo; Slembrouck, Maarten; Guan, Junzhi; Debard, Glen; Vanrumste, Bart; Tuytelaars, Tinne; Philips, Wilfried

    2016-05-01

    This paper proposes a generic methodology for the semi-automatic generation of reliable position annotations for evaluating multi-camera people-trackers on large video data sets. Most of the annotation data are automatically computed, by estimating a consensus tracking result from multiple existing trackers and people detectors and classifying it as either reliable or not. A small subset of the data, composed of tracks with insufficient reliability, is verified by a human using a simple binary decision task, a process faster than marking the correct person position. The proposed framework is generic and can handle additional trackers. We present results on a data set of $sim 6$ h captured by 4 cameras, featuring a person in a holiday flat, performing activities such as walking, cooking, eating, cleaning, and watching TV. When aiming for a tracking accuracy of 60 cm, 80% of all video frames are automatically annotated. The annotations for the remaining 20% of the frames were added after human verification of an automatically selected subset of data. This involved $sim 2.4$ h of manual labor. According to a subsequent comprehensive visual inspection to judge the annotation procedure, we found 99% of the automatically annotated frames to be correct. We provide guidelines on how to apply the proposed methodology to new data sets. We also provide an exploratory study for the multi-target case, applied on the existing and new benchmark video sequences. PMID:27458637

  8. The WIPP journey to waste receipt

    SciTech Connect

    Barnes, G.J.; Whatley, M.E.

    1997-04-01

    In the early 1970s the federal government selected an area in southeastern New Mexico containing large underground salt beds as potentially suitable for radioactive waste disposal. An extensive site characterization program was initiated by the federal government. This site became the Waste Isolation Pilot Plant, better known as WIPP. It is now 1997, over two decades after the initial selection of the New Mexico site as a potential radioactive waste repository. Numerous scientific studies, construction activities, and environmental compliance documents have been completed. The US Department of Energy (DOE) has addressed all relevant issues regarding the safety of WIPP and its ability to isolate radioactive waste from the accessible environment. Throughout the last two decades up to the present time, DOE has negotiated through a political, regulatory, and legal maze with regard to WIPP. New regulations have been issued, litigation initiated, and public involvement brought to the forefront of the DOE decision-making process. All of these factors combined to bring WIPP to its present status--at the final stages of working through the licensing requirements for receipt of transuranic (TRU) waste for disposal. Throughout its history, the DOE has stayed true to Congress` mandates regarding WIPP. Steps taken have been necessary to demonstrate to Congress, the State of New Mexico, and the public in general, that the nation`s first radioactive waste repository will be safe and environmentally sound. DOE`s compliance demonstrations are presently under consideration by the cognizant regulatory agencies and DOE is closer than ever to waste receipt. This paper explores the DOE`s journey towards implementing a permanent disposal solution for defense-related TRU waste, including major Congressional mandates and other factors that contributed to program changes regarding the WIPP project.

  9. Calling on a million minds for community annotation in WikiProteins.

    PubMed

    Mons, Barend; Ashburner, Michael; Chichester, Christine; van Mulligen, Erik; Weeber, Marc; den Dunnen, Johan; van Ommen, Gert-Jan; Musen, Mark; Cockerill, Matthew; Hermjakob, Henning; Mons, Albert; Packer, Abel; Pacheco, Roberto; Lewis, Suzanna; Berkeley, Alfred; Melton, William; Barris, Nickolas; Wales, Jimmy; Meijssen, Gerard; Moeller, Erik; Roes, Peter Jan; Borner, Katy; Bairoch, Amos

    2008-01-01

    WikiProteins enables community annotation in a Wiki-based system. Extracts of major data sources have been fused into an editable environment that links out to the original sources. Data from community edits create automatic copies of the original data. Semantic technology captures concepts co-occurring in one sentence and thus potential factual statements. In addition, indirect associations between concepts have been calculated. We call on a 'million minds' to annotate a 'million concepts' and to collect facts from the literature with the reward of collaborative knowledge discovery. The system is available for beta testing at http://www.wikiprofessional.org. PMID:18507872

  10. Calling on a million minds for community annotation in WikiProteins

    PubMed Central

    Mons, Barend; Ashburner, Michael; Chichester, Christine; van Mulligen, Erik; Weeber, Marc; den Dunnen, Johan; van Ommen, Gert-Jan; Musen, Mark; Cockerill, Matthew; Hermjakob, Henning; Mons, Albert; Packer, Abel; Pacheco, Roberto; Lewis, Suzanna; Berkeley, Alfred; Melton, William; Barris, Nickolas; Wales, Jimmy; Meijssen, Gerard; Moeller, Erik; Roes, Peter Jan; Borner, Katy; Bairoch, Amos

    2008-01-01

    WikiProteins enables community annotation in a Wiki-based system. Extracts of major data sources have been fused into an editable environment that links out to the original sources. Data from community edits create automatic copies of the original data. Semantic technology captures concepts co-occurring in one sentence and thus potential factual statements. In addition, indirect associations between concepts have been calculated. We call on a 'million minds' to annotate a 'million concepts' and to collect facts from the literature with the reward of collaborative knowledge discovery. The system is available for beta testing at . PMID:18507872

  11. Microtask crowdsourcing for disease mention annotation in PubMed abstracts.

    PubMed

    Good, Benjamin M; Nanis, Max; Wu, Chunlei; Su, Andrew I

    2015-01-01

    Identifying concepts and relationships in biomedical text enables knowledge to be applied in computational analyses. Many biological natural language processing (BioNLP) projects attempt to address this challenge, but the state of the art still leaves much room for improvement. Progress in BioNLP research depends on large, annotated corpora for evaluating information extraction systems and training machine learning models. Traditionally, such corpora are created by small numbers of expert annotators often working over extended periods of time. Recent studies have shown that workers on microtask crowdsourcing platforms such as Amazon's Mechanical Turk (AMT) can, in aggregate, generate high-quality annotations of biomedical text. Here, we investigated the use of the AMT in capturing disease mentions in PubMed abstracts. We used the NCBI Disease corpus as a gold standard for refining and benchmarking our crowdsourcing protocol. After several iterations, we arrived at a protocol that reproduced the annotations of the 593 documents in the 'training set' of this gold standard with an overall F measure of 0.872 (precision 0.862, recall 0.883). The output can also be tuned to optimize for precision (max = 0.984 when recall = 0.269) or recall (max = 0.980 when precision = 0.436). Each document was completed by 15 workers, and their annotations were merged based on a simple voting method. In total 145 workers combined to complete all 593 documents in the span of 9 days at a cost of $.066 per abstract per worker. The quality of the annotations, as judged with the F measure, increases with the number of workers assigned to each task; however minimal performance gains were observed beyond 8 workers per task. These results add further evidence that microtask crowdsourcing can be a valuable tool for generating well-annotated corpora in BioNLP. Data produced for this analysis are available at http://figshare.com/articles/Disease_Mention_Annotation_with_Mechanical_Turk/1126402

  12. Capturing Callisto

    NASA Technical Reports Server (NTRS)

    2007-01-01

    The New Horizons Long Range Reconnaissance Imager (LORRI) captured these two images of Jupiter's outermost large moon, Callisto, as the spacecraft flew past Jupiter in late February. New Horizons' closest approach distance to Jupiter was 2.3 million kilometers (1.4 million miles), not far outside Callisto's orbit, which has a radius of 1.9 million kilometers (1.2 million miles). However, Callisto happened to be on the opposite side of Jupiter during the spacecraft's pass through the Jupiter system, so these images, taken from 4.7 million kilometers (3.0 million miles) and 4.2 million kilometers (2.6 million miles) away, are the closest of Callisto that New Horizons obtained.

    Callisto's ancient, crater-scarred surface makes it very different from its three more active sibling satellites, Io, Europa and Ganymede. Callisto, 4,800 kilometers (3000 miles) in diameter, displays no large-scale geological features other than impact craters, and every bright spot in these images is a crater. The largest impact feature on Callisto, the huge basin Valhalla, is visible as a bright patch at the 10 o'clock position. The craters are bright because they have excavated material relatively rich in water ice from beneath the dark, dusty material that coats most of the surface.

    The two images show essentially the same side of Callisto -- the side that faces Jupiter -- under different illumination conditions. The images accompanied scans of Callisto's infrared spectrum with New Horizons' Linear Etalon Imaging Spectral Array (LEISA). The New Horizons science team designed these scans to study how the infrared spectrum of Callisto's water ice changes as lighting and viewing conditions change, and as the ice cools through Callisto's late afternoon. The infrared spectrum of water ice depends slightly on its temperature, and a goal of New Horizons when it reaches the Pluto system (in 2015) is to use the water ice features in the spectrum of Pluto's moon Charon, and

  13. Citizen Participation in Education: Annotated Bibliography.

    ERIC Educational Resources Information Center

    Davies, Don

    The emphasis in this annotated bibliography is citizen participation in education in the areas of decision making, policy development, and school governance. The focus is on the public school and school system rather than on private and parochial schools. One hundred fifty books, parts of books, and published reports are annotated, together with…

  14. Effects of Multimedia Annotations on Vocabulary Acquisition.

    ERIC Educational Resources Information Center

    Chun, Dorothy M.; Plass, Jan L.

    1996-01-01

    Discusses studies of German students using "CyberBuch," a hypermedia application for reading German texts that contains annotations for words in the form of text, pictures, and video. The article examines incidental vocabulary learning, the effectiveness of different types of annotations for vocabulary acquisition, and the effect of look-up…

  15. Harnessing Collaborative Annotations on Online Formative Assessments

    ERIC Educational Resources Information Center

    Lin, Jian-Wei; Lai, Yuan-Cheng

    2013-01-01

    This paper harnesses collaborative annotations by students as learning feedback on online formative assessments to improve the learning achievements of students. Through the developed Web platform, students can conduct formative assessments, collaboratively annotate, and review historical records in a convenient way, while teachers can generate…

  16. Annotated Catalog of Bilingual Vocational Training Materials.

    ERIC Educational Resources Information Center

    Miranda (L.) and Associates, Bethesda, MD.

    This catalog contains annotations for 170 bilingual vocational training materials. Most of the materials are written in English, but materials written in 13 source languages and directed toward speakers of 17 target languages are provided. Annotations are provided for the following different types of documents: administrative, assessment and…

  17. Automatic multilevel medical image annotation and retrieval.

    PubMed

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

    2008-09-01

    Image retrieval at the semantic level mostly depends on image annotation or image classification. Image annotation performance largely depends on three issues: (1) automatic image feature extraction; (2) a semantic image concept modeling; (3) algorithm for semantic image annotation. To address first issue, multilevel features are extracted to construct the feature vector, which represents the contents of the image. To address second issue, domain-dependent concept hierarchy is constructed for interpretation of image semantic concepts. To address third issue, automatic multilevel code generation is proposed for image classification and multilevel image annotation. We make use of the existing image annotation to address second and third issues. Our experiments on a specific domain of X-ray images have given encouraging results. PMID:17846834

  18. 19 CFR 24.3 - Bills and accounts; receipts.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... account for money due the United States shall be rendered by an authorized Customs officer or employee on... constitute evidence of such payment to Customs. Should a payer desire evidence of receipt, both the...

  19. Receipt of the Observatory at the Orbital Processing Facility

    NASA Video Gallery

    These series of photos show the receipt of the observatory at the Orbital processing facility at VAFB. The observatory was received on April 16, 2013 and transferred to its handling fixture and the...

  20. 7 CFR 1007.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... respect to each of its pool plants, the quantities of skim milk and butterfat contained in or represented... § 1000.9(c) shall report: (1) The quantities of all skim milk and butterfat contained in receipts of...

  1. Concept annotation in the CRAFT corpus

    PubMed Central

    2012-01-01

    Background Manually annotated corpora are critical for the training and evaluation of automated methods to identify concepts in biomedical text. Results This paper presents the concept annotations of the Colorado Richly Annotated Full-Text (CRAFT) Corpus, a collection of 97 full-length, open-access biomedical journal articles that have been annotated both semantically and syntactically to serve as a research resource for the biomedical natural-language-processing (NLP) community. CRAFT identifies all mentions of nearly all concepts from nine prominent biomedical ontologies and terminologies: the Cell Type Ontology, the Chemical Entities of Biological Interest ontology, the NCBI Taxonomy, the Protein Ontology, the Sequence Ontology, the entries of the Entrez Gene database, and the three subontologies of the Gene Ontology. The first public release includes the annotations for 67 of the 97 articles, reserving two sets of 15 articles for future text-mining competitions (after which these too will be released). Concept annotations were created based on a single set of guidelines, which has enabled us to achieve consistently high interannotator agreement. Conclusions As the initial 67-article release contains more than 560,000 tokens (and the full set more than 790,000 tokens), our corpus is among the largest gold-standard annotated biomedical corpora. Unlike most others, the journal articles that comprise the corpus are drawn from diverse biomedical disciplines and are marked up in their entirety. Additionally, with a concept-annotation count of nearly 100,000 in the 67-article subset (and more than 140,000 in the full collection), the scale of conceptual markup is also among the largest of comparable corpora. The concept annotations of the CRAFT Corpus have the potential to significantly advance biomedical text mining by providing a high-quality gold standard for NLP systems. The corpus, annotation guidelines, and other associated resources are freely available at http

  2. Facilitating functional annotation of chicken microarray data

    PubMed Central

    2009-01-01

    Background Modeling results from chicken microarray studies is challenging for researchers due to little functional annotation associated with these arrays. The Affymetrix GenChip chicken genome array, one of the biggest arrays that serve as a key research tool for the study of chicken functional genomics, is among the few arrays that link gene products to Gene Ontology (GO). However the GO annotation data presented by Affymetrix is incomplete, for example, they do not show references linked to manually annotated functions. In addition, there is no tool that facilitates microarray researchers to directly retrieve functional annotations for their datasets from the annotated arrays. This costs researchers amount of time in searching multiple GO databases for functional information. Results We have improved the breadth of functional annotations of the gene products associated with probesets on the Affymetrix chicken genome array by 45% and the quality of annotation by 14%. We have also identified the most significant diseases and disorders, different types of genes, and known drug targets represented on Affymetrix chicken genome array. To facilitate functional annotation of other arrays and microarray experimental datasets we developed an Array GO Mapper (AGOM) tool to help researchers to quickly retrieve corresponding functional information for their dataset. Conclusion Results from this study will directly facilitate annotation of other chicken arrays and microarray experimental datasets. Researchers will be able to quickly model their microarray dataset into more reliable biological functional information by using AGOM tool. The disease, disorders, gene types and drug targets revealed in the study will allow researchers to learn more about how genes function in complex biological systems and may lead to new drug discovery and development of therapies. The GO annotation data generated will be available for public use via AgBase website and will be updated on regular

  3. Genome Annotation and Curation Using MAKER and MAKER-P

    PubMed Central

    Campbell, Michael S.; Holt, Carson; Moore, Barry; Yandell, Mark

    2014-01-01

    This unit describes how to use the genome annotation and curation tools MAKER and MAKER-P to annotate protein coding and non-coding RNA genes in newly assembled genomes, update/combine legacy annotations in light of new evidence, add quality metrics to annotations from other pipelines, and map existing annotations to a new assembly. MAKER and MAKER-P can rapidly annotate genomes of any size, and scale to match available computational resources. PMID:25501943

  4. 75 FR 71688 - Certain New Chemicals; Receipt and Status Information

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-11-24

    ...Under sections 5(d)(2) and 5(d)(3) of the Toxic Substances Control Act (TSCA), EPA is required to publish in the Federal Register a notice of receipt of a premanufacture notice (PMN) or an application for a test marketing exemption (TME), and to publish in the Federal Register periodic status reports on the new chemicals under review and the receipt of notices of commencement (NOC) to begin......

  5. Application of comparative biology in GO functional annotation: the mouse model.

    PubMed

    Drabkin, Harold J; Christie, Karen R; Dolan, Mary E; Hill, David P; Ni, Li; Sitnikov, Dmitry; Blake, Judith A

    2015-10-01

    The Gene Ontology (GO) is an important component of modern biological knowledge representation with great utility for computational analysis of genomic and genetic data. The Gene Ontology Consortium (GOC) consists of a large team of contributors including curation teams from most model organism database groups as well as curation teams focused on representation of data relevant to specific human diseases. Key to the generation of consistent and comprehensive annotations is the development and use of shared standards and measures of curation quality. The GOC engages all contributors to work to a defined standard of curation that is presented here in the context of annotation of genes in the laboratory mouse. Comprehensive understanding of the origin, epistemology, and coverage of GO annotations is essential for most effective use of GO resources. Here the application of comparative approaches to capturing functional data in the mouse system is described. PMID:26141960

  6. Automatic annotation of histopathological images using a latent topic model based on non-negative matrix factorization

    PubMed Central

    Cruz-Roa, Angel; Díaz, Gloria; Romero, Eduardo; González, Fabio A.

    2011-01-01

    Histopathological images are an important resource for clinical diagnosis and biomedical research. From an image understanding point of view, the automatic annotation of these images is a challenging problem. This paper presents a new method for automatic histopathological image annotation based on three complementary strategies, first, a part-based image representation, called the bag of features, which takes advantage of the natural redundancy of histopathological images for capturing the fundamental patterns of biological structures, second, a latent topic model, based on non-negative matrix factorization, which captures the high-level visual patterns hidden in the image, and, third, a probabilistic annotation model that links visual appearance of morphological and architectural features associated to 10 histopathological image annotations. The method was evaluated using 1,604 annotated images of skin tissues, which included normal and pathological architectural and morphological features, obtaining a recall of 74% and a precision of 50%, which improved a baseline annotation method based on support vector machines in a 64% and 24%, respectively. PMID:22811960

  7. Annotating spatio-temporal datasets for meaningful analysis in the Web

    NASA Astrophysics Data System (ADS)

    Stasch, Christoph; Pebesma, Edzer; Scheider, Simon

    2014-05-01

    More and more environmental datasets that vary in space and time are available in the Web. This comes along with an advantage of using the data for other purposes than originally foreseen, but also with the danger that users may apply inappropriate analysis procedures due to lack of important assumptions made during the data collection process. In order to guide towards a meaningful (statistical) analysis of spatio-temporal datasets available in the Web, we have developed a Higher-Order-Logic formalism that captures some relevant assumptions in our previous work [1]. It allows to proof on meaningful spatial prediction and aggregation in a semi-automated fashion. In this poster presentation, we will present a concept for annotating spatio-temporal datasets available in the Web with concepts defined in our formalism. Therefore, we have defined a subset of the formalism as a Web Ontology Language (OWL) pattern. It allows capturing the distinction between the different spatio-temporal variable types, i.e. point patterns, fields, lattices and trajectories, that in turn determine whether a particular dataset can be interpolated or aggregated in a meaningful way using a certain procedure. The actual annotations that link spatio-temporal datasets with the concepts in the ontology pattern are provided as Linked Data. In order to allow data producers to add the annotations to their datasets, we have implemented a Web portal that uses a triple store at the backend to store the annotations and to make them available in the Linked Data cloud. Furthermore, we have implemented functions in the statistical environment R to retrieve the RDF annotations and, based on these annotations, to support a stronger typing of spatio-temporal datatypes guiding towards a meaningful analysis in R. [1] Stasch, C., Scheider, S., Pebesma, E., Kuhn, W. (2014): "Meaningful spatial prediction and aggregation", Environmental Modelling & Software, 51, 149-165.

  8. Making web annotations persistent over time

    SciTech Connect

    Sanderson, Robert; Van De Sompel, Herbert

    2010-01-01

    As Digital Libraries (DL) become more aligned with the web architecture, their functional components need to be fundamentally rethought in terms of URIs and HTTP. Annotation, a core scholarly activity enabled by many DL solutions, exhibits a clearly unacceptable characteristic when existing models are applied to the web: due to the representations of web resources changing over time, an annotation made about a web resource today may no longer be relevant to the representation that is served from that same resource tomorrow. We assume the existence of archived versions of resources, and combine the temporal features of the emerging Open Annotation data model with the capability offered by the Memento framework that allows seamless navigation from the URI of a resource to archived versions of that resource, and arrive at a solution that provides guarantees regarding the persistence of web annotations over time. More specifically, we provide theoretical solutions and proof-of-concept experimental evaluations for two problems: reconstructing an existing annotation so that the correct archived version is displayed for all resources involved in the annotation, and retrieving all annotations that involve a given archived version of a web resource.

  9. Genotator: a workbench for sequence annotation.

    PubMed

    Harris, N L

    1997-07-01

    Sequencing centers such as the Human Genome Center at LBNL are producing an ever-increasing flood of genetic data. Annotation can greatly enhance the biological value of these sequences. Useful annotations include possible gene locations, homologies to known genes, and gene signal such as promoters and splice sites. Genotator is a workbench for automated sequence annotation and annotation browsing. The back end runs a series of sequence analysis tools on a DNA sequence, handling the various input and output formats required by the tools. Genotator currently runs five different gene-finding programs, three homology searches, and searches for promoters, splice sites, and ORFs. The results of the analyses run by Genotator can be viewed with the interactive graphical browser. The browser displays color-coded sequence annotations on a canvas that can be scrolled and zoomed, allowing the annotated sequence to be explored at multiple levels of detail. The user can view the actual DNA sequence in a separate window; when a region is selected in the map display, it is highlighted automatically in the sequence display, and vice versa. By displaying the output of all of the sequence analyses, Genotator provides an intuitive way to identify the significant regions (for example, probable exons) in a sequence. Users can interactively add personal annotations to label regions of interest. Additional capabilities of Genotator include primer design and pattern searching. PMID:9253604

  10. CoMAGC: a corpus with multi-faceted annotations of gene-cancer relations

    PubMed Central

    2013-01-01

    Background In order to access the large amount of information in biomedical literature about genes implicated in various cancers both efficiently and accurately, the aid of text mining (TM) systems is invaluable. Current TM systems do target either gene-cancer relations or biological processes involving genes and cancers, but the former type produces information not comprehensive enough to explain how a gene affects a cancer, and the latter does not provide a concise summary of gene-cancer relations. Results In this paper, we present a corpus for the development of TM systems that are specifically targeting gene-cancer relations but are still able to capture complex information in biomedical sentences. We describe CoMAGC, a corpus with multi-faceted annotations of gene-cancer relations. In CoMAGC, a piece of annotation is composed of four semantically orthogonal concepts that together express 1) how a gene changes, 2) how a cancer changes and 3) the causality between the gene and the cancer. The multi-faceted annotations are shown to have high inter-annotator agreement. In addition, we show that the annotations in CoMAGC allow us to infer the prospective roles of genes in cancers and to classify the genes into three classes according to the inferred roles. We encode the mapping between multi-faceted annotations and gene classes into 10 inference rules. The inference rules produce results with high accuracy as measured against human annotations. CoMAGC consists of 821 sentences on prostate, breast and ovarian cancers. Currently, we deal with changes in gene expression levels among other types of gene changes. The corpus is available at http://biopathway.org/CoMAGCunder the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by/2.0). Conclusions The corpus will be an important resource for the development of advanced TM systems on gene-cancer relations. PMID:24225062

  11. DANN: a deep learning approach for annotating the pathogenicity of genetic variants

    PubMed Central

    Quang, Daniel; Chen, Yifei; Xie, Xiaohui

    2015-01-01

    Summary: Annotating genetic variants, especially non-coding variants, for the purpose of identifying pathogenic variants remains a challenge. Combined annotation-dependent depletion (CADD) is an algorithm designed to annotate both coding and non-coding variants, and has been shown to outperform other annotation algorithms. CADD trains a linear kernel support vector machine (SVM) to differentiate evolutionarily derived, likely benign, alleles from simulated, likely deleterious, variants. However, SVMs cannot capture non-linear relationships among the features, which can limit performance. To address this issue, we have developed DANN. DANN uses the same feature set and training data as CADD to train a deep neural network (DNN). DNNs can capture non-linear relationships among features and are better suited than SVMs for problems with a large number of samples and features. We exploit Compute Unified Device Architecture-compatible graphics processing units and deep learning techniques such as dropout and momentum training to accelerate the DNN training. DANN achieves about a 19% relative reduction in the error rate and about a 14% relative increase in the area under the curve (AUC) metric over CADD’s SVM methodology. Availability and implementation: All data and source code are available at https://cbcl.ics.uci.edu/public_data/DANN/. Contact: xhx@ics.uci.edu PMID:25338716

  12. Pavlovian reward prediction and receipt in schizophrenia: relationship to anhedonia.

    PubMed

    Dowd, Erin C; Barch, Deanna M

    2012-01-01

    Reward processing abnormalities have been implicated in the pathophysiology of negative symptoms such as anhedonia and avolition in schizophrenia. However, studies examining neural responses to reward anticipation and receipt have largely relied on instrumental tasks, which may confound reward processing abnormalities with deficits in response selection and execution. 25 chronic, medicated outpatients with schizophrenia and 20 healthy controls underwent functional magnetic resonance imaging using a pavlovian reward prediction paradigm with no response requirements. Subjects passively viewed cues that predicted subsequent receipt of monetary reward or non-reward, and blood-oxygen-level-dependent signal was measured at the time of cue presentation and receipt. At the group level, neural responses to both reward anticipation and receipt were largely similar between groups. At the time of cue presentation, striatal anticipatory responses did not differ between patients and controls. Right anterior insula demonstrated greater activation for nonreward than reward cues in controls, and for reward than nonreward cues in patients. At the time of receipt, robust responses to receipt of reward vs. nonreward were seen in striatum, midbrain, and frontal cortex in both groups. Furthermore, both groups demonstrated responses to unexpected versus expected outcomes in cortical areas including bilateral dorsolateral prefrontal cortex. Individual difference analyses in patients revealed an association between physical anhedonia and activity in ventral striatum and ventromedial prefrontal cortex during anticipation of reward, in which greater anhedonia severity was associated with reduced activation to money versus no-money cues. In ventromedial prefrontal cortex, this relationship held among both controls and patients, suggesting a relationship between anticipatory activity and anhedonia irrespective of diagnosis. These findings suggest that in the absence of response requirements

  13. SASL: A Semantic Annotation System for Literature

    NASA Astrophysics Data System (ADS)

    Yuan, Pingpeng; Wang, Guoyin; Zhang, Qin; Jin, Hai

    Due to ambiguity, search engines for scientific literatures may not return right search results. One efficient solution to the problems is to automatically annotate literatures and attach the semantic information to them. Generally, semantic annotation requires identifying entities before attaching semantic information to them. However, due to abbreviation and other reasons, it is very difficult to identify entities correctly. The paper presents a Semantic Annotation System for Literature (SASL), which utilizes Wikipedia as knowledge base to annotate literatures. SASL mainly attaches semantic to terminology, academic institutions, conferences, and journals etc. Many of them are usually abbreviations, which induces ambiguity. Here, SASL uses regular expressions to extract the mapping between full name of entities and their abbreviation. Since full names of several entities may map to a single abbreviation, SASL introduces Hidden Markov Model to implement name disambiguation. Finally, the paper presents the experimental results, which confirm SASL a good performance.

  14. Annotation and retrieval in protein interaction databases

    NASA Astrophysics Data System (ADS)

    Cannataro, Mario; Hiram Guzzi, Pietro; Veltri, Pierangelo

    2014-06-01

    Biological databases have been developed with a special focus on the efficient retrieval of single records or the efficient computation of specialized bioinformatics algorithms against the overall database, such as in sequence alignment. The continuos production of biological knowledge spread on several biological databases and ontologies, such as Gene Ontology, and the availability of efficient techniques to handle such knowledge, such as annotation and semantic similarity measures, enable the development on novel bioinformatics applications that explicitly use and integrate such knowledge. After introducing the annotation process and the main semantic similarity measures, this paper shows how annotations and semantic similarity can be exploited to improve the extraction and analysis of biologically relevant data from protein interaction databases. As case studies, the paper presents two novel software tools, OntoPIN and CytoSeVis, both based on the use of Gene Ontology annotations, for the advanced querying of protein interaction databases and for the enhanced visualization of protein interaction networks.

  15. GRADUATE AND PROFESSIONAL EDUCATION, AN ANNOTATED BIBLIOGRAPHY.

    ERIC Educational Resources Information Center

    HEISS, ANN M.; AND OTHERS

    THIS ANNOTATED BIBLIOGRAPHY CONTAINS REFERENCES TO GENERAL GRADUATE EDUCATION AND TO EDUCATION FOR THE FOLLOWING PROFESSIONAL FIELDS--ARCHITECTURE, BUSINESS, CLINICAL PSYCHOLOGY, DENTISTRY, ENGINEERING, LAW, LIBRARY SCIENCE, MEDICINE, NURSING, SOCIAL WORK, TEACHING, AND THEOLOGY. (HW)

  16. Bisphenol A exposure via thermal paper receipts.

    PubMed

    Porras, Simo P; Heinälä, Milla; Santonen, Tiina

    2014-11-01

    Bisphenol A (BPA) has one of the highest production volumes of all chemicals worldwide. It has been widely studied because of its endocrine modulating activity. In addition to dietary intake, absorption of BPA via the skin from handling thermal papers is believed to be a relevant route of exposure. We studied BPA exposure via thermal paper receipts in simulation experiments performed by three volunteers, and examined urinary excretion of BPA. We also evaluated background BPA excretion among the Finnish working-age population. The geometric mean BPA excretion among non-occupationally exposed working-age Finns (n=121) was 2.6 μg/l, the range being 0.8-18.9 μg/l. The 95th percentile of the non-occupationally exposed people was 8 μg/l, and this was set as the reference limit for the non-occupationally exposed population. In the first simulation experiment, which was conducted under conditions representing the most likely exposure, i.e., the work of a cashier in a supermarket, BPA excretion remained below the reference limit in all participants. In the second simulation experiment, with more intensive, short-time handling of thermal paper (three times 5 min), urinary excretion also remained at or below background levels (highest value being 10.3 μg/l). The calculated maximum BPA excretion per day after handling thermal paper was less than 0.2 μg/kg of body weight, suggesting a total daily intake over 25 times lower than the European Food Safety Authority's (EFSA's) proposal for a temporary tolerable daily intake (temporary TDI) (5 μg/kg/day). PMID:25175590

  17. Genepi: a blackboard framework for genome annotation

    PubMed Central

    Descorps-Declère, Stéphane; Ziébelin, Danielle; Rechenmann, François; Viari, Alain

    2006-01-01

    Background Genome annotation can be viewed as an incremental, cooperative, data-driven, knowledge-based process that involves multiple methods to predict gene locations and structures. This process might have to be executed more than once and might be subjected to several revisions as the biological (new data) or methodological (new methods) knowledge evolves. In this context, although a lot of annotation platforms already exist, there is still a strong need for computer systems which take in charge, not only the primary annotation, but also the update and advance of the associated knowledge. In this paper, we propose to adopt a blackboard architecture for designing such a system Results We have implemented a blackboard framework (called Genepi) for developing automatic annotation systems. The system is not bound to any specific annotation strategy. Instead, the user will specify a blackboard structure in a configuration file and the system will instantiate and run this particular annotation strategy. The characteristics of this framework are presented and discussed. Specific adaptations to the classical blackboard architecture have been required, such as the description of the activation patterns of the knowledge sources by using an extended set of Allen's temporal relations. Although the system is robust enough to be used on real-size applications, it is of primary use to bioinformatics researchers who want to experiment with blackboard architectures. Conclusion In the context of genome annotation, blackboards have several interesting features related to the way methodological and biological knowledge can be updated. They can readily handle the cooperative (several methods are implied) and opportunistic (the flow of execution depends on the state of our knowledge) aspects of the annotation process. PMID:17038181

  18. The center for expanded data annotation and retrieval.

    PubMed

    Musen, Mark A; Bean, Carol A; Cheung, Kei-Hoi; Dumontier, Michel; Durante, Kim A; Gevaert, Olivier; Gonzalez-Beltran, Alejandra; Khatri, Purvesh; Kleinstein, Steven H; O'Connor, Martin J; Pouliot, Yannick; Rocca-Serra, Philippe; Sansone, Susanna-Assunta; Wiser, Jeffrey A

    2015-11-01

    The Center for Expanded Data Annotation and Retrieval is studying the creation of comprehensive and expressive metadata for biomedical datasets to facilitate data discovery, data interpretation, and data reuse. We take advantage of emerging community-based standard templates for describing different kinds of biomedical datasets, and we investigate the use of computational techniques to help investigators to assemble templates and to fill in their values. We are creating a repository of metadata from which we plan to identify metadata patterns that will drive predictive data entry when filling in metadata templates. The metadata repository not only will capture annotations specified when experimental datasets are initially created, but also will incorporate links to the published literature, including secondary analyses and possible refinements or retractions of experimental interpretations. By working initially with the Human Immunology Project Consortium and the developers of the ImmPort data repository, we are developing and evaluating an end-to-end solution to the problems of metadata authoring and management that will generalize to other data-management environments. PMID:26112029

  19. JGI Plant Genomics Gene Annotation Pipeline

    SciTech Connect

    Shu, Shengqiang; Rokhsar, Dan; Goodstein, David; Hayes, David; Mitros, Therese

    2014-07-14

    Plant genomes vary in size and are highly complex with a high amount of repeats, genome duplication and tandem duplication. Gene encodes a wealth of information useful in studying organism and it is critical to have high quality and stable gene annotation. Thanks to advancement of sequencing technology, many plant species genomes have been sequenced and transcriptomes are also sequenced. To use these vastly large amounts of sequence data to make gene annotation or re-annotation in a timely fashion, an automatic pipeline is needed. JGI plant genomics gene annotation pipeline, called integrated gene call (IGC), is our effort toward this aim with aid of a RNA-seq transcriptome assembly pipeline. It utilizes several gene predictors based on homolog peptides and transcript ORFs. See Methods for detail. Here we present genome annotation of JGI flagship green plants produced by this pipeline plus Arabidopsis and rice except for chlamy which is done by a third party. The genome annotations of these species and others are used in our gene family build pipeline and accessible via JGI Phytozome portal whose URL and front page snapshot are shown below.

  20. Can We Trust Parental Reports of Child Care Subsidy Receipt?

    PubMed Central

    Johnson, Anna D.; Herbst, Chris M.

    2013-01-01

    In recent years, research examining determinants and consequences of the means-tested child care subsidy program (the Child Care and Development Fund [CCDF]) has grown dramatically. To measure subsidy utilization, existing studies typically rely on parent-reported measures of subsidy receipt drawn from large surveys. As the research literature on child care subsidies has grown, however, so have concerns about the trustworthiness of parent-reported subsidy use. One way to assess the quality of parent-reported subsidy use is to examine its overlap with another subsidy receipt measure, drawn from a different source. The current paper uses the Fragile Families and Child Well-Being Study (FFCWS), the only existing survey data source that contains an alternate measure of subsidy receipt – based on child care provider report – which permits a comparison to parent-reported measures. We find evidence that increases our confidence in the trustworthiness of parents as accurate reporters of subsidy receipt. In recognition that neither data source reflects “true” subsidy receipt, however, we conclude with a discussion of limitations and steps for future research. PMID:23750065

  1. Changes in Adolescents’ Receipt of Sex Education, 2006–2013

    PubMed Central

    Lindberg, Laura Duberstein; Maddow-Zimet, Isaac; Boonstra, Heather

    2016-01-01

    Purpose Updated estimates of adolescents’ receipt of sex education are needed to monitor changing access to information. Methods Using nationally representative data from the 2006–2010 and 2011–2013 National Survey of Family Growth, we estimated changes over time in adolescents’ receipt of sex education from formal sources and from parents and differentials in these trends by adolescents’ gender, race/ethnicity, age, and place of residence. Results Between 2006–2010 and 2011–2013, there were significant declines in adolescent females’ receipt of formal instruction about birth control (70% to 60%), saying no to sex (89% to 82%), sexually transmitted disease (94% to 90%), and HIV/AIDS (89% to 86%). There was a significant decline in males’ receipt of instruction about birth control (61% to 55%). Declines were concentrated among adolescents living in nonmetropolitan areas. The proportion of adolescents talking with their parents about sex education topics did not change significantly. Twenty-one percent of females and 35% of males did not receive instruction about methods of birth control from either formal sources or a parent. Conclusions Declines in receipt of formal sex education and low rates of parental communication may leave adolescents without instruction, particularly in nonmetropolitan areas. More effort is needed to understand this decline and to explore adolescents’ potential other sources of reproductive health information. PMID:27032487

  2. Algae from the arid southwestern United States: an annotated bibliography

    SciTech Connect

    Thomas, W.H.; Gaines, S.R.

    1983-06-01

    Desert algae are attractive biomass producers for capturing solar energy through photosynthesis of organic matter. They are probably capable of higher yields and efficiencies of light utilization than higher plants, and are already adapted to extremes of sunlight intensity, salinity and temperature such as are found in the desert. This report consists of an annotated bibliography of the literature on algae from the arid southwestern United States. It was prepared in anticipation of efforts to isolate desert algae and study their yields in the laboratory. These steps are necessary prior to setting up outdoor algal culture ponds. Desert areas are attractive for such applications because land, sunlight, and, to some extent, water resources are abundant there. References are sorted by state.

  3. IFA - INTELLIGENT FRONT ANNOTATION PROGRAM

    NASA Technical Reports Server (NTRS)

    Burke, G. R.

    1994-01-01

    An important aspect of an ASIC (Application Specific Integrated Circuit) design process is verification. The design must not only be functionally accurate, but it must also maintain the correct timing. After a circuit has been laid out, one can utilize the Back Annotation (BA) method to simulate the design and obtain an accurate estimate of performance. However, this can lead to major design changes. It is therefore preferable to eliminate potential problems early in this process. IFA, the Intelligent Front Annotation program, assists in verifying the timing of the ASIC early in the design process. Many difficulties can arise during ASIC design. In a synchronous design, both long path and short path problems can be present. In modern ASIC technologies, the delay through a gate is very dependent on loading. This loading has two main components, the capacitance of the gates being driven and the capacitance of the metal tracks (wires). When using GaAs gate arrays, the metal line capacitance is often the dominating factor. Additionally, the RC delay through the wire itself is significant in sub-micron technologies. Since the wire lengths are unknown before place and route of the entire chip, this would seem to postpone any realistic timing verification until towards the end of the design process, obviously an undesirable situation. The IFA program estimates the delays in an ASIC before layout. Currently the program is designed for Vitesse GaAs gate arrays and, for input, requires the expansion file which is output by the program GED; however, the algorithm is appropriate for many different ASIC types and CAE platforms. IFA is especially useful for devices whose delay is extremely dependent on the interconnection wiring. It estimates the length of the interconnects using information supplied by the user and information in the netlist. The resulting wire lengths are also used to constrain the Place and Route program, ensuring reasonable results. IFA takes locality into

  4. The Annotation of RNA Motifs

    PubMed Central

    2002-01-01

    The recent deluge of new RNA structures, including complete atomic-resolution views of both subunits of the ribosome, has on the one hand literally overwhelmed our individual abilities to comprehend the diversity of RNA structure, and on the other hand presented us with new opportunities for comprehensive use of RNA sequences for comparative genetic, evolutionary and phylogenetic studies. Two concepts are key to understanding RNA structure: hierarchical organization of global structure and isostericity of local interactions. Global structure changes extremely slowly, as it relies on conserved long-range tertiary interactions. Tertiary RNA–RNA and quaternary RNA–protein interactions are mediated by RNA motifs, defined as recurrent and ordered arrays of non-Watson–Crick base-pairs. A single RNA motif comprises a family of sequences, all of which can fold into the same three-dimensional structure and can mediate the same interaction(s). The chemistry and geometry of base pairing constrain the evolution of motifs in such a way that random mutations that occur within motifs are accepted or rejected insofar as they can mediate a similar ordered array of interactions. The steps involved in the analysis and annotation of RNA motifs in 3D structures are: (a) decomposition of each motif into non-Watson–Crick base-pairs; (b) geometric classification of each basepair; (c) identification of isosteric substitutions for each basepair by comparison to isostericity matrices; (d) alignment of homologous sequences using the isostericity matrices to identify corresponding positions in the crystal structure; (e) acceptance or rejection of the null hypothesis that the motif is conserved. PMID:18629252

  5. Annotated checklist of Georgia birds

    USGS Publications Warehouse

    Beaton, G.; Sykes, P.W., Jr.; Parrish, J.W., Jr.

    2003-01-01

    This edition of the checklist includes 446 species, of which 407 are on the Regular Species List, 8 on the Provisional, and 31 on the Hypothetical. This new publication has been greatly expanded and much revised over the previous checklist (GOS Occasional Publ. No. 10, 1986, 48 pp., 6x9 inches) to a 7x10-inch format with an extensive Literature Cited section added, 22 species added to the Regular List, 2 to the Provisional List, and 9 to the Hypothetical List. Each species account is much more comprehensive over all previous editions of the checklist. Among some of the new features are citations for sources of most information used, high counts of individuals for each species on the Regular List, extreme dates of occurrence within physiographic regions, a list of abbreviations and acronyms, and for each species the highest form of verifiable documentation given with its repository institution with a catalog number. This checklist is helpful for anyone working with birds in the Southeastern United States or birding in that region. Sykes' contribution to this fifth edition of the Annotated Checklist of Georgia Birds includes: suggestion of the large format and spiral binding, use of Richard A. Parks' painting of the Barn Owl on the front cover, use of literature citations throughout, and inclusion of high counts for each species. Sykes helped plan all phases of the publication, wrote about 90% of the Introduction and 84 species accounts (Osprey through Red Phalarope), designed the four maps in the introduction section and format for the Literature Cited, and with Giff Beaton designed the layout of the title page.

  6. GO annotation in InterPro: why stability does not indicate accuracy in a sea of changing annotations

    PubMed Central

    Sangrador-Vegas, Amaia; Mitchell, Alex L.; Chang, Hsin-Yu; Yong, Siew-Yit; Finn, Robert D.

    2016-01-01

    The removal of annotation from biological databases is often perceived as an indicator of erroneous annotation. As a corollary, annotation stability is considered to be a measure of reliability. However, diverse data-driven events can affect the stability of annotations in both primary protein sequence databases and the protein family databases that are built upon the sequence databases and used to help annotate them. Here, we describe some of these events and their consequences for the InterPro database, and demonstrate that annotation removal or reassignment is not always linked to incorrect annotation by the curator. Database URL: http://www.ebi.ac.uk/interpro PMID:26994912

  7. Annotated chemical patent corpus: a gold standard for text mining.

    PubMed

    Akhondi, Saber A; Klenner, Alexander G; Tyrchan, Christian; Manchala, Anil K; Boppana, Kiran; Lowe, Daniel; Zimmermann, Marc; Jagarlapudi, Sarma A R P; Sayle, Roger; Kors, Jan A; Muresan, Sorel

    2014-01-01

    Exploring the chemical and biological space covered by patent applications is crucial in early-stage medicinal chemistry activities. Patent analysis can provide understanding of compound prior art, novelty checking, validation of biological assays, and identification of new starting points for chemical exploration. Extracting chemical and biological entities from patents through manual extraction by expert curators can take substantial amount of time and resources. Text mining methods can help to ease this process. To validate the performance of such methods, a manually annotated patent corpus is essential. In this study we have produced a large gold standard chemical patent corpus. We developed annotation guidelines and selected 200 full patents from the World Intellectual Property Organization, United States Patent and Trademark Office, and European Patent Office. The patents were pre-annotated automatically and made available to four independent annotator groups each consisting of two to ten annotators. The annotators marked chemicals in different subclasses, diseases, targets, and modes of action. Spelling mistakes and spurious line break due to optical character recognition errors were also annotated. A subset of 47 patents was annotated by at least three annotator groups, from which harmonized annotations and inter-annotator agreement scores were derived. One group annotated the full set. The patent corpus includes 400,125 annotations for the full set and 36,537 annotations for the harmonized set. All patents and annotated entities are publicly available at www.biosemantics.org. PMID:25268232

  8. 24 CFR 1710.118 - Receipt, agent certification and cancellation page.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    .... Carbon paper may be inserted between the two so that after the purchaser has signed the receipt and the...) The date of Report appearing on the receipt shall be the same as that appearing on the cover sheet...

  9. Non-Formal Education and Radio: A Selected, Annotated Bibliography. Annotated Bibliography #14.

    ERIC Educational Resources Information Center

    Vergeldt, Vicki; And Others

    Materials concerning the use of radio and mass communications for non-formal education and development are listed in a selected annotated bibliography, intended for those actively involved in non-formal education and development. Three sections contain annotated entries (which range from 1972-1983), each of which includes source information and…

  10. MixtureTree annotator: a program for automatic colorization and visual annotation of MixtureTree.

    PubMed

    Chen, Shu-Chuan; Ogata, Aaron

    2015-01-01

    The MixtureTree Annotator, written in JAVA, allows the user to automatically color any phylogenetic tree in Newick format generated from any phylogeny reconstruction program and output the Nexus file. By providing the ability to automatically color the tree by sequence name, the MixtureTree Annotator provides a unique advantage over any other programs which perform a similar function. In addition, the MixtureTree Annotator is the only package that can efficiently annotate the output produced by MixtureTree with mutation information and coalescent time information. In order to visualize the resulting output file, a modified version of FigTree is used. Certain popular methods, which lack good built-in visualization tools, for example, MEGA, Mesquite, PHY-FI, TreeView, treeGraph and Geneious, may give results with human errors due to either manually adding colors to each node or with other limitations, for example only using color based on a number, such as branch length, or by taxonomy. In addition to allowing the user to automatically color any given Newick tree by sequence name, the MixtureTree Annotator is the only method that allows the user to automatically annotate the resulting tree created by the MixtureTree program. The MixtureTree Annotator is fast and easy-to-use, while still allowing the user full control over the coloring and annotating process. PMID:25826378

  11. SM4 Realtime {AT/FT} and Simulation Data Receipt

    NASA Astrophysics Data System (ADS)

    Chapman, George

    2009-07-01

    THIS IS NOT AN EXECUTABLE PROGRAM. It exists ONLY to handle the receipt and processing of science data commanded in realtime during the servicing mission {e.g. Functional Test}. During Servicing Missions new instruments are given aliveness and functional tests {AT/FT} while still in the shuttle bay. The FT usually consists of a small sampling of exposures commanded in realtime. Since the exposures are not SMS based the ground system has no knowledge of them and they cannot be received and processed by OPUS. This "dummy" proposal is used to make the ground system aware of the non-SMS based exposures hence allowing receipt and processing.

  12. Applying Content Management to Automated Provenance Capture

    SciTech Connect

    Schuchardt, Karen L.; Gibson, Tara D.; Stephan, Eric G.; Chin, George

    2008-04-10

    Workflows and data pipelines are becoming increasingly valuable in both computational and experimen-tal sciences. These automated systems are capable of generating significantly more data within the same amount of time than their manual counterparts. Automatically capturing and recording data prove-nance and annotation as part of these workflows is critical for data management, verification, and dis-semination. Our goal in addressing the provenance challenge was to develop and end-to-end system that demonstrates real-time capture, persistent content management, and ad-hoc searches of both provenance and metadata using open source software and standard protocols. We describe our prototype, which extends the Kepler workflow tools for the execution environment, the Scientific Annotation Middleware (SAM) content management software for data services, and an existing HTTP-based query protocol. Our implementation offers several unique capabilities, and through the use of standards, is able to pro-vide access to the provenance record to a variety of commonly available client tools.

  13. 48 CFR 15.201 - Exchanges with industry before receipt of proposals.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... Receipt of Proposals and Information 15.201 Exchanges with industry before receipt of proposals. (a) Exchanges of information among all interested parties, from the earliest identification of a requirement through receipt of proposals, are encouraged. Any exchange of information must be consistent...

  14. 10 CFR 34.63 - Records of receipt and transfer of sealed sources.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 10 Energy 1 2013-01-01 2013-01-01 false Records of receipt and transfer of sealed sources. 34.63 Section 34.63 Energy NUCLEAR REGULATORY COMMISSION LICENSES FOR INDUSTRIAL RADIOGRAPHY AND RADIATION... receipt and transfer of sealed sources. (a) Each licensee shall maintain records showing the receipts...

  15. 10 CFR 34.63 - Records of receipt and transfer of sealed sources.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 10 Energy 1 2014-01-01 2014-01-01 false Records of receipt and transfer of sealed sources. 34.63 Section 34.63 Energy NUCLEAR REGULATORY COMMISSION LICENSES FOR INDUSTRIAL RADIOGRAPHY AND RADIATION... receipt and transfer of sealed sources. (a) Each licensee shall maintain records showing the receipts...

  16. 10 CFR 34.63 - Records of receipt and transfer of sealed sources.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 10 Energy 1 2010-01-01 2010-01-01 false Records of receipt and transfer of sealed sources. 34.63 Section 34.63 Energy NUCLEAR REGULATORY COMMISSION LICENSES FOR INDUSTRIAL RADIOGRAPHY AND RADIATION... receipt and transfer of sealed sources. (a) Each licensee shall maintain records showing the receipts...

  17. 10 CFR 34.63 - Records of receipt and transfer of sealed sources.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 10 Energy 1 2012-01-01 2012-01-01 false Records of receipt and transfer of sealed sources. 34.63 Section 34.63 Energy NUCLEAR REGULATORY COMMISSION LICENSES FOR INDUSTRIAL RADIOGRAPHY AND RADIATION... receipt and transfer of sealed sources. (a) Each licensee shall maintain records showing the receipts...

  18. 10 CFR 34.63 - Records of receipt and transfer of sealed sources.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 10 Energy 1 2011-01-01 2011-01-01 false Records of receipt and transfer of sealed sources. 34.63 Section 34.63 Energy NUCLEAR REGULATORY COMMISSION LICENSES FOR INDUSTRIAL RADIOGRAPHY AND RADIATION... receipt and transfer of sealed sources. (a) Each licensee shall maintain records showing the receipts...

  19. 15 CFR 904.102 - Procedures upon receipt of a NOVA.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 15 Commerce and Foreign Trade 3 2012-01-01 2012-01-01 false Procedures upon receipt of a NOVA. 904... PROCEDURES Civil Penalties § 904.102 Procedures upon receipt of a NOVA. (a) The respondent has 30 days from receipt of the NOVA in which to respond. During this time the respondent may: (1) Accept the penalty...

  20. 15 CFR 904.102 - Procedures upon receipt of a NOVA.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 15 Commerce and Foreign Trade 3 2014-01-01 2014-01-01 false Procedures upon receipt of a NOVA. 904... PROCEDURES Civil Penalties § 904.102 Procedures upon receipt of a NOVA. (a) The respondent has 30 days from receipt of the NOVA in which to respond. During this time the respondent may: (1) Accept the penalty...

  1. 15 CFR 904.102 - Procedures upon receipt of a NOVA.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 15 Commerce and Foreign Trade 3 2011-01-01 2011-01-01 false Procedures upon receipt of a NOVA. 904... PROCEDURES Civil Penalties § 904.102 Procedures upon receipt of a NOVA. (a) The respondent has 30 days from receipt of the NOVA in which to respond. During this time the respondent may: (1) Accept the penalty...

  2. 15 CFR 904.102 - Procedures upon receipt of a NOVA.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 15 Commerce and Foreign Trade 3 2013-01-01 2013-01-01 false Procedures upon receipt of a NOVA. 904... PROCEDURES Civil Penalties § 904.102 Procedures upon receipt of a NOVA. (a) The respondent has 30 days from receipt of the NOVA in which to respond. During this time the respondent may: (1) Accept the penalty...

  3. 15 CFR 904.102 - Procedures upon receipt of a NOVA.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 15 Commerce and Foreign Trade 3 2010-01-01 2010-01-01 false Procedures upon receipt of a NOVA. 904... PROCEDURES Civil Penalties § 904.102 Procedures upon receipt of a NOVA. (a) The respondent has 30 days from receipt of the NOVA in which to respond. During this time the respondent may: (1) Accept the penalty...

  4. 40 CFR 66.51 - Action upon receipt of penalty calculation.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 40 Protection of Environment 16 2013-07-01 2013-07-01 false Action upon receipt of penalty calculation. 66.51 Section 66.51 Protection of Environment ENVIRONMENTAL PROTECTION AGENCY (CONTINUED) AIR... Calculation § 66.51 Action upon receipt of penalty calculation. (a) Within thirty days after receipt of...

  5. 21 CFR 203.60 - Request and receipt forms, reports, and records.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 21 Food and Drugs 4 2012-04-01 2012-04-01 false Request and receipt forms, reports, and records. 203.60 Section 203.60 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) DRUGS: GENERAL PRESCRIPTION DRUG MARKETING Request and Receipt Forms, Reports, and Records § 203.60 Request and receipt...

  6. 21 CFR 203.60 - Request and receipt forms, reports, and records.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 21 Food and Drugs 4 2013-04-01 2013-04-01 false Request and receipt forms, reports, and records. 203.60 Section 203.60 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) DRUGS: GENERAL PRESCRIPTION DRUG MARKETING Request and Receipt Forms, Reports, and Records § 203.60 Request and receipt...

  7. 7 CFR 1.13 - Date of receipt of requests or appeals.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 1 2010-01-01 2010-01-01 false Date of receipt of requests or appeals. 1.13 Section 1.13 Agriculture Office of the Secretary of Agriculture ADMINISTRATIVE REGULATIONS Official Records § 1.13 Date of receipt of requests or appeals. The date of receipt of a request or appeal shall be...

  8. 7 CFR 1.13 - Date of receipt of requests or appeals.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 1 2013-01-01 2013-01-01 false Date of receipt of requests or appeals. 1.13 Section 1.13 Agriculture Office of the Secretary of Agriculture ADMINISTRATIVE REGULATIONS Official Records § 1.13 Date of receipt of requests or appeals. The date of receipt of a request or appeal shall be...

  9. 41 CFR 102-118.225 - What constitutes final receipt of shipment?

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... receipt of shipment? 102-118.225 Section 102-118.225 Public Contracts and Property Management Federal... Retirement) § 102-118.225 What constitutes final receipt of shipment? Final receipt of the shipment occurs... indicating delivery and/or explaining any delay, loss, damage, or shrinkage of shipment....

  10. 48 CFR 52.247-14 - Contractor Responsibility for Receipt of Shipment.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... for Receipt of Shipment. 52.247-14 Section 52.247-14 Federal Acquisition Regulations System FEDERAL... Provisions and Clauses 52.247-14 Contractor Responsibility for Receipt of Shipment. As prescribed in 47.207-5... transportation-related services: Contractor Responsibility for Receipt of Shipment (APR 1984) The...

  11. 48 CFR 1415.201 - Exchanges with industry before receipt of proposals.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 48 Federal Acquisition Regulations System 5 2010-10-01 2010-10-01 false Exchanges with industry before receipt of proposals. 1415.201 Section 1415.201 Federal Acquisition Regulations System DEPARTMENT... Receipt of Proposals and Information 1415.201 Exchanges with industry before receipt of proposals. (a)...

  12. 11 CFR 102.8 - Receipt of contributions (2 U.S.C. 432(b)).

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... with 11 CFR 100.12, and the date of receipt of the contribution. Date of receipt shall be the date such... the contribution, the identification of the contributor in accordance with 11 CFR 100.12, and the date... the contribution. (c) The provisions of 11 CFR 102.8 concerning receipt of contributions for...

  13. 27 CFR 22.113 - Receipt of tax-free alcohol.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2013-04-01 2013-04-01 false Receipt of tax-free... BUREAU, DEPARTMENT OF THE TREASURY ALCOHOL DISTRIBUTION AND USE OF TAX-FREE ALCOHOL Withdrawal and Receipt of Tax-Free Alcohol § 22.113 Receipt of tax-free alcohol. (a) When tax-free alcohol is...

  14. 27 CFR 22.113 - Receipt of tax-free alcohol.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2014-04-01 2014-04-01 false Receipt of tax-free... BUREAU, DEPARTMENT OF THE TREASURY ALCOHOL DISTRIBUTION AND USE OF TAX-FREE ALCOHOL Withdrawal and Receipt of Tax-Free Alcohol § 22.113 Receipt of tax-free alcohol. (a) When tax-free alcohol is...

  15. 27 CFR 22.113 - Receipt of tax-free alcohol.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 27 Alcohol, Tobacco Products and Firearms 1 2012-04-01 2012-04-01 false Receipt of tax-free... BUREAU, DEPARTMENT OF THE TREASURY LIQUORS DISTRIBUTION AND USE OF TAX-FREE ALCOHOL Withdrawal and Receipt of Tax-Free Alcohol § 22.113 Receipt of tax-free alcohol. (a) When tax-free alcohol is...

  16. Gene and alternative splicing annotation with AIR

    PubMed Central

    Florea, Liliana; Di Francesco, Valentina; Miller, Jason; Turner, Russell; Yao, Alison; Harris, Michael; Walenz, Brian; Mobarry, Clark; Merkulov, Gennady V.; Charlab, Rosane; Dew, Ian; Deng, Zuoming; Istrail, Sorin; Li, Peter; Sutton, Granger

    2005-01-01

    Designing effective and accurate tools for identifying the functional and structural elements in a genome remains at the frontier of genome annotation owing to incompleteness and inaccuracy of the data, limitations in the computational models, and shifting paradigms in genomics, such as alternative splicing. We present a methodology for the automated annotation of genes and their alternatively spliced mRNA transcripts based on existing cDNA and protein sequence evidence from the same species or projected from a related species using syntenic mapping information. At the core of the method is the splice graph, a compact representation of a gene, its exons, introns, and alternatively spliced isoforms. The putative transcripts are enumerated from the graph and assigned confidence scores based on the strength of sequence evidence, and a subset of the high-scoring candidates are selected and promoted into the annotation. The method is highly selective, eliminating the unlikely candidates while retaining 98% of the high-quality mRNA evidence in well-formed transcripts, and produces annotation that is measurably more accurate than some evidence-based gene sets. The process is fast, accurate, and fully automated, and combines the traditionally distinct gene annotation and alternative splicing detection processes in a comprehensive and systematic way, thus considerably aiding in the ensuing manual curation efforts. PMID:15632090

  17. Real-time computerized annotation of pictures.

    PubMed

    Li, Jia; Wang, James Z

    2008-06-01

    Developing effective methods for automated annotation of digital pictures continues to challenge computer scientists. The capability of annotating pictures by computers can lead to breakthroughs in a wide range of applications, including Web image search, online picture-sharing communities, and scientific experiments. In this work, the authors developed new optimization and estimation techniques to address two fundamental problems in machine learning. These new techniques serve as the basis for the Automatic Linguistic Indexing of Pictures - Real Time (ALIPR) system of fully automatic and high speed annotation for online pictures. In particular, the D2-clustering method, in the same spirit as k-means for vectors, is developed to group objects represented by bags of weighted vectors. Moreover, a generalized mixture modeling technique (kernel smoothing as a special case) for non-vector data is developed using the novel concept of Hypothetical Local Mapping (HLM). ALIPR has been tested by thousands of pictures from an Internet photo-sharing site, unrelated to the source of those pictures used in the training process. Its performance has also been studied at an online demo site where arbitrary users provide pictures of their choices and indicate the correctness of each annotation word. The experimental results show that a single computer processor can suggest annotation terms in real-time and with good accuracy. PMID:18421105

  18. Pathway Analysis Software: Annotation Errors and Solutions

    PubMed Central

    Henderson-MacLennan, Nicole K.; Papp, Jeanette C.; Talbot, C. Conover; McCabe, Edward R.B.; Presson, Angela P.

    2010-01-01

    Genetic databases contain a variety of annotation errors that often go unnoticed due to the large size of modern genetic data sets. Interpretation of these data sets requires bioinformatics tools that may contribute to this problem. While providing gene symbol annotations for identifiers (IDs) such as microarray probeset, RefSeq, GenBank and Entrez Gene is seemingly trivial, the accuracy is fundamental to any subsequent conclusions. We examine gene symbol annotations and results from three commercial pathway analysis software (PAS) packages: Ingenuity Pathways Analysis, GeneGO and Pathway Studio. We compare gene symbol annotations and canonical pathway results over time and among different input ID types. We find that PAS results can be affected by variation in gene symbol annotations across software releases and the input ID type analyzed. As a result, we offer suggestions for using commercial PAS and reporting microarray results to improve research quality. We propose a wiki type website to facilitate communication of bioinformatics software problems within the scientific community. PMID:20663702

  19. Automated analysis and annotation of basketball video

    NASA Astrophysics Data System (ADS)

    Saur, Drew D.; Tan, Yap-Peng; Kulkarni, Sanjeev R.; Ramadge, Peter J.

    1997-01-01

    Automated analysis and annotation of video sequences are important for digital video libraries, content-based video browsing and data mining projects. A successful video annotation system should provide users with useful video content summary in a reasonable processing time. Given the wide variety of video genres available today, automatically extracting meaningful video content for annotation still remains hard by using current available techniques. However, a wide range video has inherent structure such that some prior knowledge about the video content can be exploited to improve our understanding of the high-level video semantic content. In this paper, we develop tools and techniques for analyzing structured video by using the low-level information available directly from MPEG compressed video. Being able to work directly in the video compressed domain can greatly reduce the processing time and enhance storage efficiency. As a testbed, we have developed a basketball annotation system which combines the low-level information extracted from MPEG stream with the prior knowledge of basketball video structure to provide high level content analysis, annotation and browsing for events such as wide- angle and close-up views, fast breaks, steals, potential shots, number of possessions and possession times. We expect our approach can also be extended to structured video in other domains.

  20. MPEG-7 based video annotation and browsing

    NASA Astrophysics Data System (ADS)

    Hoeynck, Michael; Auweiler, Thorsten; Wellhausen, Jens

    2003-11-01

    The huge amount of multimedia data produced worldwide requires annotation in order to enable universal content access and to provide content-based search-and-retrieval functionalities. Since manual video annotation can be time consuming, automatic annotation systems are required. We review recent approaches to content-based indexing and annotation of videos for different kind of sports and describe our approach to automatic annotation of equestrian sports videos. We especially concentrate on MPEG-7 based feature extraction and content description, where we apply different visual descriptors for cut detection. Further, we extract the temporal positions of single obstacles on the course by analyzing MPEG-7 edge information. Having determined single shot positions as well as the visual highlights, the information is jointly stored with meta-textual information in an MPEG-7 description scheme. Based on this information, we generate content summaries which can be utilized in a user-interface in order to provide content-based access to the video stream, but further for media browsing on a streaming server.

  1. Quantitative measures for the management and comparison of annotated genomes

    PubMed Central

    Eilbeck, Karen; Moore, Barry; Holt, Carson; Yandell, Mark

    2009-01-01

    Background The ever-increasing number of sequenced and annotated genomes has made management of their annotations a significant undertaking, especially for large eukaryotic genomes containing many thousands of genes. Typically, changes in gene and transcript numbers are used to summarize changes from release to release, but these measures say nothing about changes to individual annotations, nor do they provide any means to identify annotations in need of manual review. Results In response, we have developed a suite of quantitative measures to better characterize changes to a genome's annotations between releases, and to prioritize problematic annotations for manual review. We have applied these measures to the annotations of five eukaryotic genomes over multiple releases – H. sapiens, M. musculus, D. melanogaster, A. gambiae, and C. elegans. Conclusion Our results provide the first detailed, historical overview of how these genomes' annotations have changed over the years, and demonstrate the usefulness of these measures for genome annotation management. PMID:19236712

  2. Quantifying Variability of Manual Annotation in Cryo-Electron Tomograms.

    PubMed

    Hecksel, Corey W; Darrow, Michele C; Dai, Wei; Galaz-Montoya, Jesús G; Chin, Jessica A; Mitchell, Patrick G; Chen, Shurui; Jakana, Jemba; Schmid, Michael F; Chiu, Wah

    2016-06-01

    Although acknowledged to be variable and subjective, manual annotation of cryo-electron tomography data is commonly used to answer structural questions and to create a "ground truth" for evaluation of automated segmentation algorithms. Validation of such annotation is lacking, but is critical for understanding the reproducibility of manual annotations. Here, we used voxel-based similarity scores for a variety of specimens, ranging in complexity and segmented by several annotators, to quantify the variation among their annotations. In addition, we have identified procedures for merging annotations to reduce variability, thereby increasing the reliability of manual annotation. Based on our analyses, we find that it is necessary to combine multiple manual annotations to increase the confidence level for answering structural questions. We also make recommendations to guide algorithm development for automated annotation of features of interest. PMID:27225525

  3. Corpus annotation for mining biomedical events from literature

    PubMed Central

    Kim, Jin-Dong; Ohta, Tomoko; Tsujii, Jun'ichi

    2008-01-01

    Background Advanced Text Mining (TM) such as semantic enrichment of papers, event or relation extraction, and intelligent Question Answering have increasingly attracted attention in the bio-medical domain. For such attempts to succeed, text annotation from the biological point of view is indispensable. However, due to the complexity of the task, semantic annotation has never been tried on a large scale, apart from relatively simple term annotation. Results We have completed a new type of semantic annotation, event annotation, which is an addition to the existing annotations in the GENIA corpus. The corpus has already been annotated with POS (Parts of Speech), syntactic trees, terms, etc. The new annotation was made on half of the GENIA corpus, consisting of 1,000 Medline abstracts. It contains 9,372 sentences in which 36,114 events are identified. The major challenges during event annotation were (1) to design a scheme of annotation which meets specific requirements of text annotation, (2) to achieve biology-oriented annotation which reflect biologists' interpretation of text, and (3) to ensure the homogeneity of annotation quality across annotators. To meet these challenges, we introduced new concepts such as Single-facet Annotation and Semantic Typing, which have collectively contributed to successful completion of a large scale annotation. Conclusion The resulting event-annotated corpus is the largest and one of the best in quality among similar annotation efforts. We expect it to become a valuable resource for NLP (Natural Language Processing)-based TM in the bio-medical domain. PMID:18182099

  4. Video Screen Capture Basics

    ERIC Educational Resources Information Center

    Dunbar, Laura

    2014-01-01

    This article is an introduction to video screen capture. Basic information of two software programs, QuickTime for Mac and BlueBerry Flashback Express for PC, are also discussed. Practical applications for video screen capture are given.

  5. Critical Assessment of Function Annotation Meeting, 2011

    SciTech Connect

    Friedberg, Iddo

    2015-01-21

    The Critical Assessment of Function Annotation meeting was held July 14-15, 2011 at the Austria Conference Center in Vienna, Austria. There were 73 registered delegates at the meeting. We thank the DOE for this award. It helped us organize and support a scientific meeting AFP 2011 as a special interest group (SIG) meeting associated with the ISMB 2011 conference. The conference was held in Vienna, Austria, in July 2011. The AFP SIG was held on July 15-16, 2011 (immediately preceding the conference). The meeting consisted of two components, the first being a series of talks (invited and contributed) and discussion sections dedicated to protein function research, with an emphasis on the theory and practice of computational methods utilized in functional annotation. The second component provided a large-scale assessment of computational methods through participation in the Critical Assessment of Functional Annotation (CAFA).

  6. 26 CFR 1.199-3 - Domestic production gross receipts.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 26 Internal Revenue 3 2013-04-01 2013-04-01 false Domestic production gross receipts. 1.199-3 Section 1.199-3 Internal Revenue INTERNAL REVENUE SERVICE, DEPARTMENT OF THE TREASURY (CONTINUED) INCOME TAX (CONTINUED) INCOME TAXES (CONTINUED) Itemized Deductions for Individuals and Corporations (continued) § 1.199-3 Domestic production...

  7. 26 CFR 1.199-3 - Domestic production gross receipts.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... States as well as the MPGE or production activities or direct labor and overhead of the unrelated person... members (as well as the previous MPGE or production activities of any other EAG partnerships owned by... 26 Internal Revenue 3 2010-04-01 2010-04-01 false Domestic production gross receipts....

  8. 26 CFR 1.199-3 - Domestic production gross receipts.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... States as well as the MPGE or production activities or direct labor and overhead of the unrelated person... members (as well as the previous MPGE or production activities of any other EAG partnerships owned by... 26 Internal Revenue 3 2011-04-01 2011-04-01 false Domestic production gross receipts....

  9. 26 CFR 1.199-3 - Domestic production gross receipts.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 26 Internal Revenue 3 2014-04-01 2014-04-01 false Domestic production gross receipts. 1.199-3 Section 1.199-3 Internal Revenue INTERNAL REVENUE SERVICE, DEPARTMENT OF THE TREASURY (CONTINUED) INCOME TAX (CONTINUED) INCOME TAXES (CONTINUED) Itemized Deductions for Individuals and Corporations (continued) § 1.199-3 Domestic production...

  10. 26 CFR 1.199-3 - Domestic production gross receipts.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 26 Internal Revenue 3 2012-04-01 2012-04-01 false Domestic production gross receipts. 1.199-3 Section 1.199-3 Internal Revenue INTERNAL REVENUE SERVICE, DEPARTMENT OF THE TREASURY (CONTINUED) INCOME TAX (CONTINUED) INCOME TAXES (CONTINUED) Itemized Deductions for Individuals and Corporations (continued) § 1.199-3 Domestic production...

  11. 32 CFR 1802.21 - Receipt, recording, and tasking.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... 32 National Defense 6 2011-07-01 2011-07-01 false Receipt, recording, and tasking. 1802.21 Section 1802.21 National Defense Other Regulations Relating to National Defense NATIONAL COUNTERINTELLIGENCE CENTER CHALLENGES TO CLASSIFICATION OF DOCUMENTS BY AUTHORIZED HOLDERS PURSUANT TO SECTION 1.9...

  12. 32 CFR 1802.21 - Receipt, recording, and tasking.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... 32 National Defense 6 2012-07-01 2012-07-01 false Receipt, recording, and tasking. 1802.21 Section 1802.21 National Defense Other Regulations Relating to National Defense NATIONAL COUNTERINTELLIGENCE CENTER CHALLENGES TO CLASSIFICATION OF DOCUMENTS BY AUTHORIZED HOLDERS PURSUANT TO SECTION 1.9...

  13. 32 CFR 1802.21 - Receipt, recording, and tasking.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 32 National Defense 6 2010-07-01 2010-07-01 false Receipt, recording, and tasking. 1802.21 Section 1802.21 National Defense Other Regulations Relating to National Defense NATIONAL COUNTERINTELLIGENCE CENTER CHALLENGES TO CLASSIFICATION OF DOCUMENTS BY AUTHORIZED HOLDERS PURSUANT TO SECTION 1.9...

  14. 32 CFR 1802.21 - Receipt, recording, and tasking.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... 32 National Defense 6 2014-07-01 2014-07-01 false Receipt, recording, and tasking. 1802.21 Section 1802.21 National Defense Other Regulations Relating to National Defense NATIONAL COUNTERINTELLIGENCE CENTER CHALLENGES TO CLASSIFICATION OF DOCUMENTS BY AUTHORIZED HOLDERS PURSUANT TO SECTION 1.9...

  15. 32 CFR 1802.21 - Receipt, recording, and tasking.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 32 National Defense 6 2013-07-01 2013-07-01 false Receipt, recording, and tasking. 1802.21 Section 1802.21 National Defense Other Regulations Relating to National Defense NATIONAL COUNTERINTELLIGENCE CENTER CHALLENGES TO CLASSIFICATION OF DOCUMENTS BY AUTHORIZED HOLDERS PURSUANT TO SECTION 1.9...

  16. 77 FR 143 - Receipt of Request for Action

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-01-03

    ... COMMISSION Receipt of Request for Action Notice is hereby given that by petition dated April 13, 2011, Paul... action to immediately suspend the operating licenses of General Electric boiling water reactors with Mark... ``petitioners.'' In their petition, the petitioners request: enforcement action to ensure that the public...

  17. 76 FR 72009 - Receipt of Request for Action

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-11-21

    ... COMMISSION Receipt of Request for Action Notice is hereby given that by petition dated July 29, 2011, David...) take action to issue a Demand for Information (DFI) of all boiling-water reactor nuclear power reactors... of Nuclear Reactor Regulation (NRR). As provided by Section 2.206, appropriate action will be...

  18. 7 CFR 1126.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... pool plant operator shall report for each of its operations the following information: (1) Product... paragraph; and (4) Such other information with respect to the receipts and utilization of skim milk... route disposition in the marketing area. (c) Each handler described in § 1000.9(c) shall report: (1)...

  19. 7 CFR 1030.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... information: (1) Product pounds, pounds of butterfat, pounds of protein, pounds of solids-not-fat other than... report: (1) The product pounds, pounds of butterfat, pounds of protein, pounds of solids-not-fat other... pursuant to this paragraph; and (4) Such other information with respect to the receipts and utilization...

  20. 7 CFR 1030.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... information: (1) Product pounds, pounds of butterfat, pounds of protein, pounds of solids-not-fat other than... report: (1) The product pounds, pounds of butterfat, pounds of protein, pounds of solids-not-fat other... pursuant to this paragraph; and (4) Such other information with respect to the receipts and utilization...

  1. 7 CFR 1126.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... pool plant operator shall report for each of its operations the following information: (1) Product... paragraph; and (4) Such other information with respect to the receipts and utilization of skim milk... route disposition in the marketing area. (c) Each handler described in § 1000.9(c) shall report: (1)...

  2. 77 FR 39442 - Receipts-Based, Small Business Size Standard

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-07-03

    ... July 18, 2008 (73 FR 41237), to account for inflation. DATES: Submit comments by August 2, 2012...; ] NUCLEAR REGULATORY COMMISSION 10 CFR Parts 2 and 171 RIN 3150-AJ14 Receipts-Based, Small Business Size... licensee as a ``small entity'' under the Regulatory Flexibility Act of 1980, as amended. The NRC...

  3. 15 CFR 2016.1 - Action following receipt of petitions.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 15 Commerce and Foreign Trade 3 2010-01-01 2010-01-01 false Action following receipt of petitions. 2016.1 Section 2016.1 Commerce and Foreign Trade Regulations Relating to Foreign Trade Agreements... COUNTRY ELIGIBILITY OR DUTY-FREE TREATMENT UNDER THE ANDEAN TRADE PREFERENCE ACT (ATPA), AS AMENDED §...

  4. 10 CFR 603.900 - Receipt of final performance report.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 10 Energy 4 2010-01-01 2010-01-01 false Receipt of final performance report. 603.900 Section 603.900 Energy DEPARTMENT OF ENERGY (CONTINUED) ASSISTANCE REGULATIONS TECHNOLOGY INVESTMENT AGREEMENTS Award Terms Related to Other Administrative Matters Financial and Programmatic Reporting §...

  5. 10 CFR 603.900 - Receipt of final performance report.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 10 Energy 4 2011-01-01 2011-01-01 false Receipt of final performance report. 603.900 Section 603.900 Energy DEPARTMENT OF ENERGY (CONTINUED) ASSISTANCE REGULATIONS TECHNOLOGY INVESTMENT AGREEMENTS Award Terms Related to Other Administrative Matters Financial and Programmatic Reporting §...

  6. 27 CFR 31.155 - Records of receipt.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    .... This record must show, at a minimum, the following: (1) Name and address of consignor; (2) Date of receipt, including date of inventory for recorded gains; (3) Brand name; (4) Name of producer or bottler... identifying the producer or bottler with the brand name; (5) Kind of spirits. However, this may be omitted...

  7. 27 CFR 31.155 - Records of receipt.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    .... This record must show, at a minimum, the following: (1) Name and address of consignor; (2) Date of receipt, including date of inventory for recorded gains; (3) Brand name; (4) Name of producer or bottler... identifying the producer or bottler with the brand name; (5) Kind of spirits. However, this may be omitted...

  8. 5 CFR 838.134 - Receipt of multiple court orders.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 5 Administrative Personnel 2 2014-01-01 2014-01-01 false Receipt of multiple court orders. 838.134 Section 838.134 Administrative Personnel OFFICE OF PERSONNEL MANAGEMENT (CONTINUED) CIVIL SERVICE REGULATIONS (CONTINUED) COURT ORDERS AFFECTING RETIREMENT BENEFITS Court Orders Generally Procedures Applicable to All Court Orders § 838.134...

  9. 20 CFR 655.23 - Receipt and processing of applications.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... issue a RFI to the employer. The CO will issue the written RFI within 7 calendar days of the receipt of the application, and send it by means normally assuring next-day delivery. (2) The RFI must: (i... calendar days from the date of the written RFI, by which the supplemental information and...

  10. 7 CFR 981.72 - Reports of receipts.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... AND ORDERS; FRUITS, VEGETABLES, NUTS), DEPARTMENT OF AGRICULTURE ALMONDS GROWN IN CALIFORNIA Order Regulating Handling Records and Reports § 981.72 Reports of receipts. Each handler receiving almonds for his... for all almonds included in such report. The Board, after checking such reports in such manner as...

  11. 7 CFR 981.72 - Reports of receipts.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... and Orders; Fruits, Vegetables, Nuts), DEPARTMENT OF AGRICULTURE ALMONDS GROWN IN CALIFORNIA Order Regulating Handling Records and Reports § 981.72 Reports of receipts. Each handler receiving almonds for his... for all almonds included in such report. The Board, after checking such reports in such manner as...

  12. 7 CFR 981.72 - Reports of receipts.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... and Orders; Fruits, Vegetables, Nuts), DEPARTMENT OF AGRICULTURE ALMONDS GROWN IN CALIFORNIA Order Regulating Handling Records and Reports § 981.72 Reports of receipts. Each handler receiving almonds for his... for all almonds included in such report. The Board, after checking such reports in such manner as...

  13. 7 CFR 981.72 - Reports of receipts.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... AND ORDERS; FRUITS, VEGETABLES, NUTS), DEPARTMENT OF AGRICULTURE ALMONDS GROWN IN CALIFORNIA Order Regulating Handling Records and Reports § 981.72 Reports of receipts. Each handler receiving almonds for his... for all almonds included in such report. The Board, after checking such reports in such manner as...

  14. 7 CFR 981.72 - Reports of receipts.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... and Orders; Fruits, Vegetables, Nuts), DEPARTMENT OF AGRICULTURE ALMONDS GROWN IN CALIFORNIA Order Regulating Handling Records and Reports § 981.72 Reports of receipts. Each handler receiving almonds for his... for all almonds included in such report. The Board, after checking such reports in such manner as...

  15. 7 CFR 1001.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... pounds, pounds of butterfat, pounds of protein, and pounds of nonfat solids other than protein (other... receipts and utilization of skim milk, butterfat, milk protein, and other nonfat solids as the market... report: (1) The product pounds, pounds of butterfat, pounds of protein, and the pounds of...

  16. 7 CFR 1032.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... the following information: (1) Product pounds, pounds of butterfat, pounds of protein, pounds of solids-not-fat other than protein (other solids), and the value of the somatic cell adjustment pursuant... with respect to the receipts and utilization of skim milk, butterfat, milk protein, other nonfat...

  17. 7 CFR 1001.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... pounds, pounds of butterfat, pounds of protein, and pounds of nonfat solids other than protein (other... receipts and utilization of skim milk, butterfat, milk protein, and other nonfat solids as the market... report: (1) The product pounds, pounds of butterfat, pounds of protein, and the pounds of...

  18. 7 CFR 1033.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... the following information: (1) Product pounds, pounds of butterfat, pounds of protein, pounds of solids-not-fat other than protein (other solids), and the value of the somatic cell adjustment pursuant... with respect to the receipts and utilization of skim milk, butterfat, milk protein, other nonfat...

  19. 7 CFR 1001.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... pounds, pounds of butterfat, pounds of protein, and pounds of nonfat solids other than protein (other... receipts and utilization of skim milk, butterfat, milk protein, and other nonfat solids as the market... report: (1) The product pounds, pounds of butterfat, pounds of protein, and the pounds of...

  20. 7 CFR 1032.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... the following information: (1) Product pounds, pounds of butterfat, pounds of protein, pounds of solids-not-fat other than protein (other solids), and the value of the somatic cell adjustment pursuant... with respect to the receipts and utilization of skim milk, butterfat, milk protein, other nonfat...

  1. 7 CFR 1033.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... the following information: (1) Product pounds, pounds of butterfat, pounds of protein, pounds of solids-not-fat other than protein (other solids), and the value of the somatic cell adjustment pursuant... with respect to the receipts and utilization of skim milk, butterfat, milk protein, other nonfat...

  2. 76 FR 14985 - Endangered Species; Receipt of Applications for Permit

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-03-18

    ... Species Applicant: Tom Stehn, Whooping Crane Recovery Plan Coordinator, U.S. Fish and Wildlife Service... Fish and Wildlife Service Endangered Species; Receipt of Applications for Permit AGENCY: Fish and... certain activities with endangered species. With some exceptions, the Endangered Species Act...

  3. 78 FR 56924 - Receipt of Applications for Endangered Species Permits

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-09-16

    ... the purpose of conducting presence/absence/population surveys and assisting in species recovery... Fish and Wildlife Service Receipt of Applications for Endangered Species Permits AGENCY: Fish and... public to comment on the following applications to conduct certain activities with endangered...

  4. 75 FR 31812 - Receipt of Applications for Endangered Species Permits

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-06-04

    ... recovery efforts, Alabama beach mouse (Peromyscus polionotus ammobates), and three species of sea turtles... Fish and Wildlife Service Receipt of Applications for Endangered Species Permits AGENCY: Fish and... public to comment on the following applications to conduct certain activities with ] endangered...

  5. 77 FR 40375 - Receipt of Applications for Endangered Species Permits

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-07-09

    ... (Nicrophorus americanus) for the purpose of scientific study and species recovery efforts. These activities... Fish and Wildlife Service Receipt of Applications for Endangered Species Permits AGENCY: Fish and... public to comment on the following applications to conduct certain activities with endangered...

  6. 29 CFR 1640.5 - Date of receipt.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... Relating to Labor (Continued) EQUAL EMPLOYMENT OPPORTUNITY COMMISSION PROCEDURES FOR COORDINATING THE INVESTIGATION OF COMPLAINTS OR CHARGES OF EMPLOYMENT DISCRIMINATION BASED ON DISABILITY SUBJECT TO THE AMERICANS WITH DISABILITIES ACT AND SECTION 504 OF THE REHABILITATION ACT OF 1973 § 1640.5 Date of receipt....

  7. Grade Retention, Postsecondary Education, and Public Aid Receipt

    ERIC Educational Resources Information Center

    Ou, Suh-Ruu; Reynolds, Arthur J.

    2010-01-01

    Using data from the Chicago Longitudinal Study (CLS), an ongoing investigation of a panel of low-income minority children growing up in an inner city, this study investigated whether retention is associated with participation in postsecondary education and public aid receipt. The study sample included 1,367 participants whose data were available…

  8. 15 CFR 2016.1 - Action following receipt of petitions.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 15 Commerce and Foreign Trade 3 2014-01-01 2014-01-01 false Action following receipt of petitions. 2016.1 Section 2016.1 Commerce and Foreign Trade Regulations Relating to Foreign Trade Agreements... COUNTRY ELIGIBILITY OR DUTY-FREE TREATMENT UNDER THE ANDEAN TRADE PREFERENCE ACT (ATPA), AS AMENDED §...

  9. 15 CFR 2016.1 - Action following receipt of petitions.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 15 Commerce and Foreign Trade 3 2013-01-01 2013-01-01 false Action following receipt of petitions. 2016.1 Section 2016.1 Commerce and Foreign Trade Regulations Relating to Foreign Trade Agreements... COUNTRY ELIGIBILITY OR DUTY-FREE TREATMENT UNDER THE ANDEAN TRADE PREFERENCE ACT (ATPA), AS AMENDED §...

  10. 15 CFR 2016.1 - Action following receipt of petitions.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 15 Commerce and Foreign Trade 3 2011-01-01 2011-01-01 false Action following receipt of petitions. 2016.1 Section 2016.1 Commerce and Foreign Trade Regulations Relating to Foreign Trade Agreements... COUNTRY ELIGIBILITY OR DUTY-FREE TREATMENT UNDER THE ANDEAN TRADE PREFERENCE ACT (ATPA), AS AMENDED §...

  11. 15 CFR 2016.1 - Action following receipt of petitions.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 15 Commerce and Foreign Trade 3 2012-01-01 2012-01-01 false Action following receipt of petitions. 2016.1 Section 2016.1 Commerce and Foreign Trade Regulations Relating to Foreign Trade Agreements... COUNTRY ELIGIBILITY OR DUTY-FREE TREATMENT UNDER THE ANDEAN TRADE PREFERENCE ACT (ATPA), AS AMENDED §...

  12. 27 CFR 19.312 - Receipt of materials.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ..., DEPARTMENT OF THE TREASURY LIQUORS DISTILLED SPIRITS PLANTS Production § 19.312 Receipt of materials. The... provided in subpart W of this part. Fermented material (except apple cider exempt from tax under 26 U.S.C. 5042(a)(1)) to be used in the production of spirits shall be produced on the bonded premises where...

  13. 7 CFR 1005.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 9 2012-01-01 2012-01-01 false Reports of receipts and utilization. 1005.30 Section 1005.30 Agriculture Regulations of the Department of Agriculture (Continued) AGRICULTURAL MARKETING SERVICE (Marketing Agreements and Orders; Milk), DEPARTMENT OF AGRICULTURE MILK IN THE...

  14. 7 CFR 1005.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 9 2014-01-01 2013-01-01 true Reports of receipts and utilization. 1005.30 Section 1005.30 Agriculture Regulations of the Department of Agriculture (Continued) AGRICULTURAL MARKETING SERVICE (MARKETING AGREEMENTS AND ORDERS; MILK), DEPARTMENT OF AGRICULTURE MILK IN THE...

  15. 7 CFR 1005.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 9 2013-01-01 2013-01-01 false Reports of receipts and utilization. 1005.30 Section 1005.30 Agriculture Regulations of the Department of Agriculture (Continued) AGRICULTURAL MARKETING SERVICE (MARKETING AGREEMENTS AND ORDERS; MILK), DEPARTMENT OF AGRICULTURE MILK IN THE...

  16. 7 CFR 1005.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Reports of receipts and utilization. 1005.30 Section 1005.30 Agriculture Regulations of the Department of Agriculture (Continued) AGRICULTURAL MARKETING SERVICE (Marketing Agreements and Orders; Milk), DEPARTMENT OF AGRICULTURE MILK IN THE...

  17. 7 CFR 1005.30 - Reports of receipts and utilization.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 9 2011-01-01 2011-01-01 false Reports of receipts and utilization. 1005.30 Section 1005.30 Agriculture Regulations of the Department of Agriculture (Continued) AGRICULTURAL MARKETING SERVICE (Marketing Agreements and Orders; Milk), DEPARTMENT OF AGRICULTURE MILK IN THE...

  18. 26 CFR 1.451-2 - Constructive receipt of income.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 1232(a)(3) apply. See § 1.1232-3A. Accrued interest on unwithdrawn insurance policy dividends is gross... corporation does not constitute receipt. In the case of interest, dividends, or other earnings (whether or not... can be shown that there are no funds available for payment of the interest during such year....

  19. 26 CFR 1.451-2 - Constructive receipt of income.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... unwithdrawn insurance policy dividends is gross income to the taxpayer for the first taxable year during which... of the corporation does not constitute receipt. In the case of interest, dividends, or other earnings... the interest during such year. Dividends on corporate stock are constructively received...

  20. Annotating images by mining image search results.

    PubMed

    Wang, Xin-Jing; Zhang, Lei; Li, Xirong; Ma, Wei-Ying

    2008-11-01

    Although it has been studied for years by the computer vision and machine learning communities, image annotation is still far from practical. In this paper, we propose a novel attempt at model-free image annotation, which is a data-driven approach that annotates images by mining their search results. Some 2.4 million images with their surrounding text are collected from a few photo forums to support this approach. The entire process is formulated in a divide-and-conquer framework where a query keyword is provided along with the uncaptioned image to improve both the effectiveness and efficiency. This is helpful when the collected data set is not dense everywhere. In this sense, our approach contains three steps: 1) the search process to discover visually and semantically similar search results, 2) the mining process to identify salient terms from textual descriptions of the search results, and 3) the annotation rejection process to filter out noisy terms yielded by Step 2. To ensure real-time annotation, two key techniques are leveraged-one is to map the high-dimensional image visual features into hash codes, the other is to implement it as a distributed system, of which the search and mining processes are provided as Web services. As a typical result, the entire process finishes in less than 1 second. Since no training data set is required, our approach enables annotating with unlimited vocabulary and is highly scalable and robust to outliers. Experimental results on both real Web images and a benchmark image data set show the effectiveness and efficiency of the proposed algorithm. It is also worth noting that, although the entire approach is illustrated within the divide-and conquer framework, a query keyword is not crucial to our current implementation. We provide experimental results to prove this. PMID:18787241

  1. A Machine Learning Approach for Accurate Annotation of Noncoding RNAs

    PubMed Central

    Liu, Chunmei; Wang, Zhi

    2016-01-01

    Searching genomes to locate noncoding RNA genes with known secondary structure is an important problem in bioinformatics. In general, the secondary structure of a searched noncoding RNA is defined with a structure model constructed from the structural alignment of a set of sequences from its family. Computing the optimal alignment between a sequence and a structure model is the core part of an algorithm that can search genomes for noncoding RNAs. In practice, a single structure model may not be sufficient to capture all crucial features important for a noncoding RNA family. In this paper, we develop a novel machine learning approach that can efficiently search genomes for noncoding RNAs with high accuracy. During the search procedure, a sequence segment in the searched genome sequence is processed and a feature vector is extracted to represent it. Based on the feature vector, a classifier is used to determine whether the sequence segment is the searched ncRNA or not. Our testing results show that this approach is able to efficiently capture crucial features of a noncoding RNA family. Compared with existing search tools, it significantly improves the accuracy of genome annotation. PMID:26357266

  2. Use of Gene Ontology Annotation to understand the peroxisome proteome in humans

    PubMed Central

    Mutowo-Meullenet, Prudence; Huntley, Rachael P.; Dimmer, Emily C.; Alam-Faruque, Yasmin; Sawford, Tony; Jesus Martin, Maria; O’Donovan, Claire; Apweiler, Rolf

    2013-01-01

    The Gene Ontology (GO) is the de facto standard for the functional description of gene products, providing a consistent, information-rich terminology applicable across species and information repositories. The UniProt Consortium uses both manual and automatic GO annotation approaches to curate UniProt Knowledgebase (UniProtKB) entries. The selection of a protein set prioritized for manual annotation has implications for the characteristics of the information provided to users working in a specific field or interested in particular pathways or processes. In this article, we describe an organelle-focused, manual curation initiative targeting proteins from the human peroxisome. We discuss the steps taken to define the peroxisome proteome and the challenges encountered in defining the boundaries of this protein set. We illustrate with the use of examples how GO annotations now capture cell and tissue type information and the advantages that such an annotation approach provides to users. Database URL: http://www.ebi.ac.uk/GOA/ and http://www.uniprot.org PMID:23327938

  3. Improving Automated Annotation of Benthic Survey Images Using Wide-band Fluorescence.

    PubMed

    Beijbom, Oscar; Treibitz, Tali; Kline, David I; Eyal, Gal; Khen, Adi; Neal, Benjamin; Loya, Yossi; Mitchell, B Greg; Kriegman, David

    2016-01-01

    Large-scale imaging techniques are used increasingly for ecological surveys. However, manual analysis can be prohibitively expensive, creating a bottleneck between collected images and desired data-products. This bottleneck is particularly severe for benthic surveys, where millions of images are obtained each year. Recent automated annotation methods may provide a solution, but reflectance images do not always contain sufficient information for adequate classification accuracy. In this work, the FluorIS, a low-cost modified consumer camera, was used to capture wide-band wide-field-of-view fluorescence images during a field deployment in Eilat, Israel. The fluorescence images were registered with standard reflectance images, and an automated annotation method based on convolutional neural networks was developed. Our results demonstrate a 22% reduction of classification error-rate when using both images types compared to only using reflectance images. The improvements were large, in particular, for coral reef genera Platygyra, Acropora and Millepora, where classification recall improved by 38%, 33%, and 41%, respectively. We conclude that convolutional neural networks can be used to combine reflectance and fluorescence imagery in order to significantly improve automated annotation accuracy and reduce the manual annotation bottleneck. PMID:27021133

  4. Improving Automated Annotation of Benthic Survey Images Using Wide-band Fluorescence

    PubMed Central

    Beijbom, Oscar; Treibitz, Tali; Kline, David I.; Eyal, Gal; Khen, Adi; Neal, Benjamin; Loya, Yossi; Mitchell, B. Greg; Kriegman, David

    2016-01-01

    Large-scale imaging techniques are used increasingly for ecological surveys. However, manual analysis can be prohibitively expensive, creating a bottleneck between collected images and desired data-products. This bottleneck is particularly severe for benthic surveys, where millions of images are obtained each year. Recent automated annotation methods may provide a solution, but reflectance images do not always contain sufficient information for adequate classification accuracy. In this work, the FluorIS, a low-cost modified consumer camera, was used to capture wide-band wide-field-of-view fluorescence images during a field deployment in Eilat, Israel. The fluorescence images were registered with standard reflectance images, and an automated annotation method based on convolutional neural networks was developed. Our results demonstrate a 22% reduction of classification error-rate when using both images types compared to only using reflectance images. The improvements were large, in particular, for coral reef genera Platygyra, Acropora and Millepora, where classification recall improved by 38%, 33%, and 41%, respectively. We conclude that convolutional neural networks can be used to combine reflectance and fluorescence imagery in order to significantly improve automated annotation accuracy and reduce the manual annotation bottleneck. PMID:27021133

  5. Improving Automated Annotation of Benthic Survey Images Using Wide-band Fluorescence

    NASA Astrophysics Data System (ADS)

    Beijbom, Oscar; Treibitz, Tali; Kline, David I.; Eyal, Gal; Khen, Adi; Neal, Benjamin; Loya, Yossi; Mitchell, B. Greg; Kriegman, David

    2016-03-01

    Large-scale imaging techniques are used increasingly for ecological surveys. However, manual analysis can be prohibitively expensive, creating a bottleneck between collected images and desired data-products. This bottleneck is particularly severe for benthic surveys, where millions of images are obtained each year. Recent automated annotation methods may provide a solution, but reflectance images do not always contain sufficient information for adequate classification accuracy. In this work, the FluorIS, a low-cost modified consumer camera, was used to capture wide-band wide-field-of-view fluorescence images during a field deployment in Eilat, Israel. The fluorescence images were registered with standard reflectance images, and an automated annotation method based on convolutional neural networks was developed. Our results demonstrate a 22% reduction of classification error-rate when using both images types compared to only using reflectance images. The improvements were large, in particular, for coral reef genera Platygyra, Acropora and Millepora, where classification recall improved by 38%, 33%, and 41%, respectively. We conclude that convolutional neural networks can be used to combine reflectance and fluorescence imagery in order to significantly improve automated annotation accuracy and reduce the manual annotation bottleneck.

  6. Solar Tutorial and Annotation Resource (STAR)

    NASA Astrophysics Data System (ADS)

    Showalter, C.; Rex, R.; Hurlburt, N. E.; Zita, E. J.

    2009-12-01

    We have written a software suite designed to facilitate solar data analysis by scientists, students, and the public, anticipating enormous datasets from future instruments. Our “STAR" suite includes an interactive learning section explaining 15 classes of solar events. Users learn software tools that exploit humans’ superior ability (over computers) to identify many events. Annotation tools include time slice generation to quantify loop oscillations, the interpolation of event shapes using natural cubic splines (for loops, sigmoids, and filaments) and closed cubic splines (for coronal holes). Learning these tools in an environment where examples are provided prepares new users to comfortably utilize annotation software with new data. Upon completion of our tutorial, users are presented with media of various solar events and asked to identify and annotate the images, to test their mastery of the system. Goals of the project include public input into the data analysis of very large datasets from future solar satellites, and increased public interest and knowledge about the Sun. In 2010, the Solar Dynamics Observatory (SDO) will be launched into orbit. SDO’s advancements in solar telescope technology will generate a terabyte per day of high-quality data, requiring innovation in data management. While major projects develop automated feature recognition software, so that computers can complete much of the initial event tagging and analysis, still, that software cannot annotate features such as sigmoids, coronal magnetic loops, coronal dimming, etc., due to large amounts of data concentrated in relatively small areas. Previously, solar physicists manually annotated these features, but with the imminent influx of data it is unrealistic to expect specialized researchers to examine every image that computers cannot fully process. A new approach is needed to efficiently process these data. Providing analysis tools and data access to students and the public have proven

  7. Capture Their Attention: Capturing Lessons Using Screen Capture Software

    ERIC Educational Resources Information Center

    Drumheller, Kristina; Lawler, Gregg

    2011-01-01

    When students miss classes for university activities such as athletic and academic events, they inevitably miss important class material. Students can get notes from their peers or visit professors to find out what they missed, but when students miss new and challenging material these steps are sometimes not enough. Screen capture and recording…

  8. Cryogenic Carbon Capture

    SciTech Connect

    2010-07-15

    IMPACCT Project: SES is developing a process to capture CO2 from the exhaust gas of coal-fired power plants by desublimation - the conversion of a gas to a solid. Capturing CO2 as a solid and delivering it as a liquid avoids the large energy cost of CO2 gas compression. SES’ capture technology facilitates the prudent use of available energy resources. Coal is our most abundant energy resource and is an excellent fuel for baseline power production. SES capture technology can capture 99% of the CO2 emissions in addition to a wide range of other pollutants more efficiently and at lower costs than existing capture technologies. SES’ capture technology can be readily added to our existing energy infrastructure.

  9. Computer systems for annotation of single molecule fragments

    DOEpatents

    Schwartz, David Charles; Severin, Jessica

    2016-07-19

    There are provided computer systems for visualizing and annotating single molecule images. Annotation systems in accordance with this disclosure allow a user to mark and annotate single molecules of interest and their restriction enzyme cut sites thereby determining the restriction fragments of single nucleic acid molecules. The markings and annotations may be automatically generated by the system in certain embodiments and they may be overlaid translucently onto the single molecule images. An image caching system may be implemented in the computer annotation systems to reduce image processing time. The annotation systems include one or more connectors connecting to one or more databases capable of storing single molecule data as well as other biomedical data. Such diverse array of data can be retrieved and used to validate the markings and annotations. The annotation systems may be implemented and deployed over a computer network. They may be ergonomically optimized to facilitate user interactions.

  10. Food for Thought: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Bennett, Susan G., Ed.

    Most of the 24 books reviewed in this annotated bibliography concern writing and are recent publications (1980-1985). Titles and authors are as follows: "Teacher" (Sylvia Ashton-Warner); "What Did I Write? Beginning Writing Behavior" (Marie M. Clay); "Composing: Writing as a Self-Creating Process" (William E. Coles); "Right Brain...Write On!…

  11. Skin Cancer Education Materials: Selected Annotations.

    ERIC Educational Resources Information Center

    National Cancer Inst. (NIH), Bethesda, MD.

    This annotated bibliography presents 85 entries on a variety of approaches to cancer education. The entries are grouped under three broad headings, two of which contain smaller sub-divisions. The first heading, Public Education, contains prevention and general information, and non-print materials. The second heading, Professional Education,…

  12. A Partially Annotated Political Communication Bibliography.

    ERIC Educational Resources Information Center

    Thornton, Barbara C.

    This 63-page annotated bibliography contains available materials in the area of political communication, a relatively new field of political science. Political communication includes facets of the election process and interaction between political parties and the voter. A variety of materials dating from 1960 to 1972 include books, pamphlets,…

  13. Annotated Psychodynamic Bibliography for Residents in Psychiatry

    PubMed Central

    CALIGOR, EVE

    1996-01-01

    The author provides an annotated bibliography to introduce psychodynamic psychotherapy and psychoanalysis to residents in psychiatry. The emphasis of the selection is on relevance to practice. The entries are grouped by topic, levels of difficulty are noted, and readings are identified as being of either current or historic relevance. PMID:22700303

  14. Staff Differentiation; An Annotated Bibliography Addendum.

    ERIC Educational Resources Information Center

    Marin County Public Schools, Corte Madera, CA.

    Differentiated staffing has emphasized development of teacher leadership roles, the importance of shared decision making in schools, and the constructive ways in which paid instructional aides and volunteer aides can support the professional teaching staff. Eighteen annotated bibliographic citations concerning the various aspects of differentiated…

  15. Revenue Producing Athletes: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Ervin, Leroy; And Others

    An annotated bibliography on revenue producing sports is presented, with attention to: Proposition 48, exploitation of athletes, legal proceedings, research related to athletes and academic performance, psychological characteristics of athletes, and counseling programs for athletes. Introductions to each of the six topics are included. The section…

  16. Intellectual Freedom and Censorship: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Hoffmann, Frank

    Intended to act as a general introduction for high school and college students, this book presents an annotated bibliography of books, periodical articles, legal materials, and other documents dealing with the subject of intellectual freedom and censorship. The book is divided into five parts: (1) "The Theoretical Foundations of Censorship and…

  17. Annotated Bibliography of EDGE2D Use

    SciTech Connect

    J.D. Strachan and G. Corrigan

    2005-06-24

    This annotated bibliography is intended to help EDGE2D users, and particularly new users, find existing published literature that has used EDGE2D. Our idea is that a person can find existing studies which may relate to his intended use, as well as gain ideas about other possible applications by scanning the attached tables.

  18. Research: Annotated Bibliography of New Canadian Studies.

    ERIC Educational Resources Information Center

    Toronto Board of Education (Ontario). Research Dept.

    This annotated bibliography of twenty-one research reports that provide knowledge about various cultures and educational experiences of the major ethnic groups in the Toronto schools is designed to present information for not only special English teachers, but other school personnel as well. The bibliography consists of reports that aim to: 1)…

  19. Alaskan Rural Justice: A Selected Annotated Bibliography.

    ERIC Educational Resources Information Center

    Alaska Judicial Council, Anchorage.

    This annotated bibliography lists approximately 300 documents and source materials directly or indirectly related to the problem of access to justice in rural Alaska. Written materials about the state's history, geography, economics, and culture have often touched upon the justice system and its role in the development of the state. Other works…

  20. Women and World Development: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Buvinic, Mayra; And Others

    This annotated bibliography focuses on the effects of socioeconomic development and cultural change on women and on women's reactions to these changes. It is an expanded version of one which was prepared for the American Association of Science Seminar on Women in Development held in Mexico City in June 1975. The objectives were to disseminate this…

  1. An Annotated Bibliography of Small Town Research.

    ERIC Educational Resources Information Center

    Smith, Suzanne M.

    The purpose of this annotated bibliography is to list books, articles, and bulletins (written from 1900 to 1968) related to small towns in the United States. The work contributes to the project "Population Changes in Small Towns," sponsored by the Division of Social Sciences of the National Science Foundation and by the University of Wisconsin…

  2. Human object annotation for surveillance video forensics

    NASA Astrophysics Data System (ADS)

    Fraz, Muhammad; Zafar, Iffat; Tzanidou, Giounona; Edirisinghe, Eran A.; Sarfraz, Muhammad Saquib

    2013-10-01

    A system that can automatically annotate surveillance video in a manner useful for locating a person with a given description of clothing is presented. Each human is annotated based on two appearance features: primary colors of clothes and the presence of text/logos on clothes. The annotation occurs after a robust foreground extraction stage employing a modified Gaussian mixture model-based approach. The proposed pipeline consists of a preprocessing stage where color appearance of an image is improved using a color constancy algorithm. In order to annotate color information for human clothes, we use the color histogram feature in HSV space and find local maxima to extract dominant colors for different parts of a segmented human object. To detect text/logos on clothes, we begin with the extraction of connected components of enhanced horizontal, vertical, and diagonal edges in the frames. These candidate regions are classified as text or nontext on the basis of their local energy-based shape histogram features. Further, to detect humans, a novel technique has been proposed that uses contourlet transform-based local binary pattern (CLBP) features. In the proposed method, we extract the uniform direction invariant LBP feature descriptor for contourlet transformed high-pass subimages from vertical and diagonal directional bands. In the final stage, extracted CLBP descriptors are classified by a trained support vector machine. Experimental results illustrate the superiority of our method on large-scale surveillance video data.

  3. Chemical Principles Revisited: Annotating Reaction Equations.

    ERIC Educational Resources Information Center

    Tykodi, R. J.

    1987-01-01

    Urges chemistry teachers to have students annotate the chemical reactions in aqueous-solutions that they see in their textbooks and witness in the laboratory. Suggests this will help students recognize the reaction type more readily. Examples are given for gas formation, precipitate formation, redox interaction, acid-base interaction, and…

  4. Librarian-Teacher Partnerships: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Avino, Catherine

    This annotated list of 23 journal articles and documents provided focuses on faculty-librarian collaboration in bibliographic instruction (BI) at academic libraries. Topics including the following: BI for developmental and English-as-a-Second-Language (ESL) students; faculty and librarian collaboration on the design of BI assignments; the teaching…

  5. Music, Higher Education, and Technology. Annotated Bibliography.

    ERIC Educational Resources Information Center

    Reitenour, Steve

    An annotated bibliography on music, higher education, and technology includes 27 journal articles and 6 books, most dated 1980 or later. The following topics are covered: resource groups with expertise in the music educational application of computers, manufacturers dealing with educational technology products, information on the National…

  6. Labor and Migration; An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Brooks, Thomas R.

    This annotated bibliography is intended to contribute toward an understanding of labor and migration, both of which have helped to shape our nation. A total of 131 works, including a few periodicals and newspapers, focus on immigration and internal migration as it affects organized and unorganized labor. (BH)

  7. An Annotated Publications List on Homelessness.

    ERIC Educational Resources Information Center

    Tutunjian, Beth Ann

    This annotated publications list on homelessness contains citations for 19 publications, most of which deal with problems of alcohol or drug abuse among homeless persons. Citations are listed alphabetically by author and cover the topics of homelessness and alcoholism, drug abuse, public policy, research methodologies, mental illness, alcohol- and…

  8. La Mujer Chicana: An Annotated Bibliography, 1976.

    ERIC Educational Resources Information Center

    Chapa, Evey, Ed.; And Others

    Intended to provide interested persons, researchers, and educators with information about "la mujer Chicana", this annotated bibliography cites 320 materials published between 1916 and 1975, with the majority being between 1960 and 1975. The 12 sections cover the following subject areas: Chicana publications; Chicana feminism and "el movimiento";…

  9. An Annotated Bibliography of Nonsexist Resources.

    ERIC Educational Resources Information Center

    Miles Coll., Eutaw, AL. West Alabama Curriculum and Materials Resource Center.

    The result of a thorough search, review, and compilation of resources on women's equity, the annotated bibliography represents a sample of print materials, games and kits, photos and posters, and audiovisual aids now available on sexism that should prove useful to counselors, instructors, school administrators, parents, and elementary and…

  10. Communication and Sexuality: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Buley, Jerry, Comp.; And Others

    The entries in this annotated bibliography represent books, educational journals, dissertations, popular magazines, and research studies that deal with the topic of communication and sexuality. Arranged alphabetically by author and also indexed according to subject matter, the titles span a variety of topics, including the following: sex and…

  11. SEF Annotated Bibliography on Informal Education.

    ERIC Educational Resources Information Center

    Metropolitan Toronto School Board (Ontario). Study of Educational Facilities.

    This bibliography on informal education grew out of a concern to understand the kinds of programs possible in open plan schools. The annotations are reading notes generally more descriptive than evaluative. Citations are grouped under nine headings: (1) general, (2) description of British informal education by British writers, (3) description of…

  12. Teleconferencing, an annotated bibliography, volume 3

    NASA Technical Reports Server (NTRS)

    Shervis, K.

    1971-01-01

    In this annotated and indexed listing of works on teleconferencing, emphasis has been placed upon teleconferencing as real-time, two way audio communication with or without visual aids. However, works on the use of television in two-way or multiway nets, data transmission, regional communications networks and on telecommunications in general are also included.

  13. An Annotated Bibliography of Migrant Related Materials.

    ERIC Educational Resources Information Center

    Florida Atlantic Univ., Boca Raton.

    Over 1,000 annotated entries in this bibliography present a wide variety of materials related to the teaching and understanding of the migrant and culturally deprived student. Materials are divided into 6 major content areas: (1) health, (2) information on migrants and culturally disadvantaged, (3) curriculum materials, (4) guidance, (5)…

  14. Annotated bibliography of psychomotor testing. Technical report

    SciTech Connect

    Ervin, C.

    1987-03-01

    An annotated bibliography of 67 publications in the field of psychomotor testing has been prepared. The collection includes technical reports, journal articles, presented at scientific meetings, books and conference proceedings. The publications were assembled as preliminary work in the development of a dexterity test battery designed to measure the effects of chemical-defense-treatment drugs.

  15. Sexually Transmitted Diseases: A Selective, Annotated Bibliography.

    ERIC Educational Resources Information Center

    Planned Parenthood Federation of America, Inc., New York, NY. Education Dept.

    This document contains a reference sheet and an annotated bibliography concerned with sexually transmitted diseases (STD). The reference sheet provides a brief, accurate overview of STDs which includes both statistical and background information. The bibliography contains 83 entries, listed alphabetically, that deal with STDs. Books and articles…

  16. Genome Annotation of Five Mycoplasma canis Strains

    PubMed Central

    May, M.; Michaels, D. L.; Barbet, A. F.

    2012-01-01

    To understand its potential to cause invasive disease, the genome of Mycoplasma canis strain PG14T from a dog's throat was compared to those of isolates from the genital tract or brain of dogs. The average nucleotide identity between strain pairs is 98%, and their genome annotations are similar. PMID:22815452

  17. Document Delivery: An Annotated Selective Bibliography.

    ERIC Educational Resources Information Center

    Khalil, Mounir A.; Katz, Suzanne R.

    1992-01-01

    Presents a selective annotated bibliography of 61 items that deal with topics related to document delivery, including networks; hypertext; interlibrary loan; computer security; electronic publishing; copyright; online catalogs; resource sharing; electronic mail; electronic libraries; optical character recognition; microcomputers; liability issues;…

  18. SPEED READING--AN ANNOTATED BIBLIOGRAPHY.

    ERIC Educational Resources Information Center

    BERGER, ALLEN

    APPROXIMATELY 125 REFERENCES TO SPEED READING APPEARING DURING THE PAST 40 YEARS ARE INCLUDED IN THIS ANNOTATED BIBLIOGRAPHY. THEY ARE GROUPED INTO THE CATEGORIES OF TACHISTOSCOPIC AND CONTROLLED PACING, PAPERBACK SCANNING, RETENTION OF GAINS, FLEXIBILITY, PERCEPTION, PROCESSING INFORMATION, SEX DIFFERENCES, AND MEASUREMENT. MORE THAN 35 JOURNALS…

  19. INDIVIDUALIZED READING--AN ANNOTATED BIBLIOGRAPHY.

    ERIC Educational Resources Information Center

    SARTAIN, HARRY

    THIS ANNOTATED BIBLIOGRAPHY ON INDIVIDUALIZED READING IS COMPOSED OF 62 CITATIONS RANGING IN DATE FROM 1952 TO 1964. MAJOR EMPHASIS IS PLACED ON RECENT BOOKS AND WIDELY CIRCULATED PERIODICALS WHICH ARE EASILY ACCESSIBLE. LISTINGS REPRESENT VARIED PRACTICES AND POINTS OF VIEW. THEY INCLUDE ARGUMENTS FOR AND AGAINST INDIVIDUALIZED READING,…

  20. READABILITY AND READING--AN ANNOTATED BIBLIOGRAPHY.

    ERIC Educational Resources Information Center

    DALE, EDGAR; SEELS, BARBARA

    THIS ANNOTATED BIBLIOGRAPHY COVERS THE FIELD OF READABILITY AND READING. THE SELECTED WORKS ARE ORGANIZED INTO NINE SECTIONS--(1) GENERAL REFERENCES ON READABILITY, (2) MEASURING OF READABILITY, (3) READABILITY AND SENTENCE STRUCTURE, (4) READABILITY AND VOCABULARY, (5) READABILITY AND LITERARY STYLE, (6) READABILITY IN SUBJECT AREA MATERIALS, (7)…

  1. Annotated Bibliography of Literature on Narcotic Addiction.

    ERIC Educational Resources Information Center

    Bowden, R. Renee

    Nearly 150 abstracts have been included in this annotated bibliography; its purpose has been to scan the voluminous number of documents on the problem of drug addiction in order to summarize the present state of knowledge on narcotic addiction and on methods for its treatment and control. The literature reviewed has been divided into the following…

  2. Studies of Scientific Disciplines. An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Weisz, Diane; Kruytbosch, Carlos

    Provided in this bibliography are annotated lists of social studies of science literature, arranged alphabetically by author in 13 disciplinary areas. These areas include astronomy; general biology; biochemistry and molecular biology; biomedicine; chemistry; earth and space sciences; economics; engineering; mathematics; physics; political science;…

  3. The Mentally Retarded Offender: Annotated Bibliography.

    ERIC Educational Resources Information Center

    Schilit, Jeffrey; And Others

    An annotated bibliography of approximately 150 books and articles on the mentally retarded offender as well as 30 nonannotated entries are provided. Topics covered include such areas as characteristics of mentally retarded delinquents, rehabilitation of the retarded offender, community services for retarded persons, rights of the mentally…

  4. Health Economics Research: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Dillard, Carole D.; And Others

    This annotated bibliography lists books and journal articles published since 1976 which deal with health economics and which are based on health services research supported by the National Center for Health Services Research (NCHSR). Articles prepared by NCHSR staff are listed as intramural. All other articles cite the NCHSR grant or contract…

  5. Food Habits: A Selected Annotated Bibliography

    ERIC Educational Resources Information Center

    Wilson, Christine S.

    1973-01-01

    This is a selective annotated bibliography of material on food habits and factors affecting them, published during the period 1928-1972. References are mainly in English, although a few in European languages are included, and represent information primarily from scholarly and professional journals. Entries are organized by subject and author. (LK)

  6. Higher Education Literature: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    White, Jane N., Ed.; Burnett, Collins W., Ed.

    An annotated bibliography on higher education is presented that is limited to programs and phenomena in two- and four-year accredited degree-granting colleges and universities. The following sections and topics are covered: (1) Historical Background and Nature and Scope of American Higher Education (ancient, medieval, and U.S. education,…

  7. Annotation Technologies: A Software and Research Review.

    ERIC Educational Resources Information Center

    Wolfe, Joanna

    2002-01-01

    Describes a range of currently available and developing technologies for creating and presenting annotations, glosses, and other comments on digital documents. Discusses the potential applications of these tools for providing feedback to student writers, supporting extended group discussions around digital texts, and facilitating research and…

  8. Law in the Classroom. An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Carsello, Carmen J.

    An annotated bibliography of some 236 items relevant to discussions of school law, from novels to government-published law and court reports. The material is listed alphabetically by author within each document type (books; periodicals; documents; monographs and special reports; law reports; digests; newsletters; dictionaries, directories, and…

  9. Children and Poetry: A Selective, Annotated Bibliography.

    ERIC Educational Resources Information Center

    Haviland, Virginia; Smith, William Jay

    This annotated bibliography of over 120 books was compiled to call attention to poetry for children that is both pleasing and rewarding. Omitted are traditional materials such as Mother Goose rhymes, textbooks, and collections designed especially for the classroom. Sample illustrations from the books noted and lines from poems are reproduced…

  10. Evaluating Image Browsers Using Structured Annotation.

    ERIC Educational Resources Information Center

    Muller, Wolfgang; Marchand-Mailet, Stephane; Muller, Henning; Squire, David McG.; Pun, Thierry

    2001-01-01

    Addresses the problem of benchmarking image browsers. Existence of different search paradigms for image browsers makes it difficult to compare them. Currently, the only admissible evaluation method involves conducting large-scale user studies. An automatic image browser benchmark is proposed that uses structured text annotation of the image…

  11. Annotated Bibliography of Products/Materials.

    ERIC Educational Resources Information Center

    Lee, Carolyn S., Comp.; Jennings, Mark B., Comp.; Mayo, Linda P., Comp.; Young, Debra A., Comp.

    This document, which is intended for teachers, program directors, researchers, businesspeople, and students, is an annotated bibliography of more than 600 programs and resources that were developed with funds from the Office of Vocational and Adult Education in fiscal years 1987-1998. The document is divided into two parts. Part 1 is a summary of…

  12. Organizational and Intercultural Communication: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Constantinides, Helen; St. Amant, Kirk; Kampf, Connie

    2001-01-01

    Presents a 27-item annotated bibliography that overviews theories of organization from the viewpoint of culture, using five themes of organizational research as a framework. Notes that each section introduces specific theories of international, intercultural, or organizational communication, building upon them through a series of related articles,…

  13. Science Fiction Criticism: An Annotated Checklist.

    ERIC Educational Resources Information Center

    Clareson, Thomas

    An expansion of the list published in "Extrapolation" between May 1970 and May 1971, this book contains approximately 800 entries of science fiction criticism. Divided into special categories, all items are annotated and explicitly discuss science fiction. The nine categories of science fiction criticism are Literary Studies; Book Reviews; the…

  14. Teachers and Research: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Griffee, Dale T.

    The annotated bibliography consists of reviews, of three to seven paragraphs each, of nine books focusing on classroom research and the teacher's role in conducting and publishing it. Eight of the books relate specifically to research on English-as-a-Second-Language teaching and learning. Each review provides basic bibliographic information,…

  15. The Alaska Eskimos. A Selected, Annotated Bibliography.

    ERIC Educational Resources Information Center

    Hippler, Arthur E.; Wood, John R.

    This annotated bibliography, containing approximately 732 entries, provides a general overview of English literature concerning Alaska Eskimos and cities. Although the earliest date of publication is 1843, the majority of the works have been done since 1900; there are no entries published later than 1975. Section I lists the works alphabetically…

  16. Counseling American Indians: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Tisdale, Elizabeth; Thomason, Timothy C.

    This bibliography presents 75 annotated entries on counseling and psychotherapy with American Indians. Entries include journal articles, books, book chapters, newspaper and newsletter articles, and conference papers, published 1964-96. Topics covered include counseling approaches and techniques, mental health services for Native Americans,…

  17. Realistic Portrayal of Aging. An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Dodson, Anita E.; Hause, Judith B.

    This annotated bibliography cites selected reading materials for all age levels that present aging and the aged realistically with a full range of human behaviors. The listing is meant to serve as a resource to educators who wish to develop positive attitudes in children and in adolescents about the elderly and about themselves. Educators should…

  18. Suggested Books for Children: An Annotated Bibliography

    ERIC Educational Resources Information Center

    NHSA Dialog, 2008

    2008-01-01

    This article provides an annotated bibliography of various children's books. It includes listings of books that illustrate the dynamic relationships within the natural environment, economic context, racial and cultural identities, cross-group similarities and differences, gender, different abilities and stories of injustice and resistance.

  19. Greeks in Canada (an Annotated Bibliography).

    ERIC Educational Resources Information Center

    Bombas, Leonidas C.

    This bibliography on Greeks in Canada includes annotated references to both published and (mostly) unpublished works. Among the 70 entries (arranged in alphabetical order by author) are articles, reports, papers, and theses that deal either exclusively with or include a separate section on Greeks in the various Canadian provinces. (GC)

  20. Multicultural Education: A Selected Annotated Bibliography.

    ERIC Educational Resources Information Center

    Mathieson, Moira B.; Tatis, Rita M.

    This annotated bibliography lists 70 documents dealing with cultural differences and cross-cultural educational problems on the elementary-secondary-collegiate level and does not include material on the economically disadvantaged or inner city problems as such. The first section reports citations drawn from Research in Education and the…

  1. Environment and the Community: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Department of Housing and Urban Development, Washington, DC.

    Three hundred and nine citations of books, reports, and articles dating from 1964 to 1971 are included in this annotated bibliography, intended as a selection tool for concerned citizens, architects, builders, and city planners emphasizing the environment of American cities and communities. It is topically arranged into sixteen broad sections with…

  2. Project for Global Education: Annotated Bibliography.

    ERIC Educational Resources Information Center

    Institute for World Order, New York, NY.

    Over 260 books, textbooks, articles, pamphlets, periodicals, films, and multi-media packages appropriate for the analysis of global issues at the college level are briefly annotated. Entries include classic books and articles as well as a number of recent (1976-1981) publications. The purpose is to assist students and educators in developing a…

  3. Annotated Bibliography of Autism 1943-1983.

    ERIC Educational Resources Information Center

    Tari, Andor J.; And Others

    The annotated bibliography of over 1,200 citations published between 1943 and 1983 is intended as a comprehensive reference guide to the scientific study of infantile autism. After a search of the literature was conducted, the information was organized by format and subject, first for journal articles (19 topics are concerned with general…

  4. Kwanzaa: A Selective Annotated Bibliography for Teachers.

    ERIC Educational Resources Information Center

    Dupree, Sandra K., Comp.; Gillum, Holly A., Comp.

    This annotated bibliography about Kwanzaa, an end-of-the-year holiday that emphasizes an appreciation for the culture of African Americans, aims to provide ready access to information for classroom teachers. Noting that Kwanzaa (celebrated from December 26 to January 1) is an important cultural event, the bibliography states that the festival…

  5. College Students in Transition: An Annotated Bibliography

    ERIC Educational Resources Information Center

    Foote, Stephanie M., Ed.; Hinkle, Sara M., Ed.; Kranzow, Jeannine, Ed.; Pistilli, Matthew D., Ed.; Miles, LaTonya Rease, Ed.; Simmons, Jannell G., Ed.

    2013-01-01

    The transition from high school to college is an important milestone, but it is only one of many steps in the journey through higher education. This volume is an annotated bibliography of the emerging literature examining the many other transitions students make beyond the first year, including the sophomore year, the transfer experience, and the…

  6. Selected Annotated Bibliography on Costume History.

    ERIC Educational Resources Information Center

    Weisfeld, Zelma H.

    This annotated bibliography, designed for secondary and postsecondary teachers and practitioners of theatre costuming, contains a basic listing of recent and reprinted works on costume history. Most of the books included in this bibliography are in print, are easily obtainable, and contain reproductions of contemporary art and garments.…

  7. Health Communication and Literacy: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Beveridge, Jennifer

    This annotated bibliography lists publications and World Wide Web sites dealing with health communication and literacy. The 51 publications, which were all published between 1982 and 1998, contain information about and/or for use in the following areas: assessment, assessment tools, elderly adults, empowerment, maternal and child health, patient…

  8. Measures of Infant Development: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Guthrie, P. D.; Horne, Eleanor V.

    Annotations of tests measuring motor development, cognitive growth, intelligence, mental health, social maturity, and concept attainment in infants from birth to 24 months of age are presented. Information is given concerning test purpose; intended groups; test subdivisions or tested skills, behaviors, or competencies; administration; scoring;…

  9. Teaching Family History: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Mintz, Steven

    2001-01-01

    Provides an annotated bibliography on teaching family history, organized by eight approaches to the topic: (1) chronological; (2) multicultural families (comparative); (3) the life-cycle (4) gender; (5) impact of major historical events on families; (6) family and public policy; (7) family rituals; and (8) genealogical. (CMK)

  10. The Career Education Resource Center Annotated Catalog.

    ERIC Educational Resources Information Center

    Lawhead, Jeanie; And Others

    This catalog provides an annotated list of the career education materials which may be borrowed for previewing from the Career Education Resource Center in Colorado. Covering materials of interest to educators in kindergarten through postsecondary programs, the catalog includes items produced by classroom teachers, commercial publishers, business…

  11. Sex and Proxemics: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Nelson, Audrey A.

    This annotated bibliography focuses on the sex differences and similarities in two proxemic variables, physical distance and orientation of the body. The majority of the more than 90 titles, dating from 1965 to the present, are selected from the following sources: dissertation abstracts, social-psychology journals, communication journals, and…

  12. Reflective Annotations: On Becoming a Scholar

    ERIC Educational Resources Information Center

    Alexander, Mark; Taylor, Caroline; Greenberger, Scott; Watts, Margie; Balch, Riann

    2012-01-01

    This article presents the authors' reflective annotations on becoming a scholar. This paper begins with a discussion on socialization for teaching, followed by a discussion on socialization for service and sense of belonging. Then, it describes how the doctoral process evolves. Finally, it talks about adult learners who pursue doctoral education.

  13. Nutrition & Adolescent Pregnancy: A Selected Annotated Bibliography.

    ERIC Educational Resources Information Center

    National Agricultural Library (USDA), Washington, DC.

    This annotated bibliography on nutrition and adolescent pregnancy is intended to be a source of technical assistance for nurses, nutritionists, physicians, educators, social workers, and other personnel concerned with improving the health of teenage mothers and their babies. It is divided into two major sections. The first section lists selected…

  14. Statistical mechanics of ontology based annotations

    NASA Astrophysics Data System (ADS)

    Hoyle, David C.; Brass, Andrew

    2016-01-01

    We present a statistical mechanical theory of the process of annotating an object with terms selected from an ontology. The term selection process is formulated as an ideal lattice gas model, but in a highly structured inhomogeneous field. The model enables us to explain patterns recently observed in real-world annotation data sets, in terms of the underlying graph structure of the ontology. By relating the external field strengths to the information content of each node in the ontology graph, the statistical mechanical model also allows us to propose a number of practical metrics for assessing the quality of both the ontology, and the annotations that arise from its use. Using the statistical mechanical formalism we also study an ensemble of ontologies of differing size and complexity; an analysis not readily performed using real data alone. Focusing on regular tree ontology graphs we uncover a rich set of scaling laws describing the growth in the optimal ontology size as the number of objects being annotated increases. In doing so we provide a further possible measure for assessment of ontologies.

  15. Automating Ontological Annotation with WordNet

    SciTech Connect

    Sanfilippo, Antonio P.; Tratz, Stephen C.; Gregory, Michelle L.; Chappell, Alan R.; Whitney, Paul D.; Posse, Christian; Paulson, Patrick R.; Baddeley, Bob L.; Hohimer, Ryan E.; White, Amanda M.

    2006-01-22

    Semantic Web applications require robust and accurate annotation tools that are capable of automating the assignment of ontological classes to words in naturally occurring text (ontological annotation). Most current ontologies do not include rich lexical databases and are therefore not easily integrated with word sense disambiguation algorithms that are needed to automate ontological annotation. WordNet provides a potentially ideal solution to this problem as it offers a highly structured lexical conceptual representation that has been extensively used to develop word sense disambiguation algorithms. However, WordNet has not been designed as an ontology, and while it can be easily turned into one, the result of doing this would present users with serious practical limitations due to the great number of concepts (synonym sets) it contains. Moreover, mapping WordNet to an existing ontology may be difficult and requires substantial labor. We propose to overcome these limitations by developing an analytical platform that (1) provides a WordNet-based ontology offering a manageable and yet comprehensive set of concept classes, (2) leverages the lexical richness of WordNet to give an extensive characterization of concept class in terms of lexical instances, and (3) integrates a class recognition algorithm that automates the assignment of concept classes to words in naturally occurring text. The ensuing framework makes available an ontological annotation platform that can be effectively integrated with intelligence analysis systems to facilitate evidence marshaling and sustain the creation and validation of inference models.

  16. Ontological Annotation with WordNet

    SciTech Connect

    Sanfilippo, Antonio P.; Tratz, Stephen C.; Gregory, Michelle L.; Chappell, Alan R.; Whitney, Paul D.; Posse, Christian; Paulson, Patrick R.; Baddeley, Bob; Hohimer, Ryan E.; White, Amanda M.

    2006-06-06

    Semantic Web applications require robust and accurate annotation tools that are capable of automating the assignment of ontological classes to words in naturally occurring text (ontological annotation). Most current ontologies do not include rich lexical databases and are therefore not easily integrated with word sense disambiguation algorithms that are needed to automate ontological annotation. WordNet provides a potentially ideal solution to this problem as it offers a highly structured lexical conceptual representation that has been extensively used to develop word sense disambiguation algorithms. However, WordNet has not been designed as an ontology, and while it can be easily turned into one, the result of doing this would present users with serious practical limitations due to the great number of concepts (synonym sets) it contains. Moreover, mapping WordNet to an existing ontology may be difficult and requires substantial labor. We propose to overcome these limitations by developing an analytical platform that (1) provides a WordNet-based ontology offering a manageable and yet comprehensive set of concept classes, (2) leverages the lexical richness of WordNet to give an extensive characterization of concept class in terms of lexical instances, and (3) integrates a class recognition algorithm that automates the assignment of concept classes to words in naturally occurring text. The ensuing framework makes available an ontological annotation platform that can be effectively integrated with intelligence analysis systems to facilitate evidence marshaling and sustain the creation and validation of inference models.

  17. MEETING: Chlamydomonas Annotation Jamboree - October 2003

    SciTech Connect

    Grossman, Arthur R

    2007-04-13

    Shotgun sequencing of the nuclear genome of Chlamydomonas reinhardtii (Chlamydomonas throughout) was performed at an approximate 10X coverage by JGI. Roughly half of the genome is now contained on 26 scaffolds, all of which are at least 1.6 Mb, and the coverage of the genome is ~95%. There are now over 200,000 cDNA sequence reads that we have generated as part of the Chlamydomonas genome project (Grossman, 2003; Shrager et al., 2003; Grossman et al. 2007; Merchant et al., 2007); other sequences have also been generated by the Kasuza sequence group (Asamizu et al., 1999; Asamizu et al., 2000) or individual laboratories that have focused on specific genes. Shrager et al. (2003) placed the reads into distinct contigs (an assemblage of reads with overlapping nucleotide sequences), and contigs that group together as part of the same genes have been designated ACEs (assembly of contigs generated from EST information). All of the reads have also been mapped to the Chlamydomonas nuclear genome and the cDNAs and their corresponding genomic sequences have been reassembled, and the resulting assemblage is called an ACEG (an Assembly of contiguous EST sequences supported by genomic sequence) (Jain et al., 2007). Most of the unique genes or ACEGs are also represented by gene models that have been generated by the Joint Genome Institute (JGI, Walnut Creek, CA). These gene models have been placed onto the DNA scaffolds and are presented as a track on the Chlamydomonas genome browser associated with the genome portal (http://genome.jgi-psf.org/Chlre3/Chlre3.home.html). Ultimately, the meeting grant awarded by DOE has helped enormously in the development of an annotation pipeline (a set of guidelines used in the annotation of genes) and resulted in high quality annotation of over 4,000 genes; the annotators were from both Europe and the USA. Some of the people who led the annotation initiative were Arthur Grossman, Olivier Vallon, and Sabeeha Merchant (with many individual

  18. ePIANNO: ePIgenomics ANNOtation tool.

    PubMed

    Liu, Chia-Hsin; Ho, Bing-Ching; Chen, Chun-Ling; Chang, Ya-Hsuan; Hsu, Yi-Chiung; Li, Yu-Cheng; Yuan, Shin-Sheng; Huang, Yi-Huan; Chang, Chi-Sheng; Li, Ker-Chau; Chen, Hsuan-Yu

    2016-01-01

    Recently, with the development of next generation sequencing (NGS), the combination of chromatin immunoprecipitation (ChIP) and NGS, namely ChIP-seq, has become a powerful technique to capture potential genomic binding sites of regulatory factors, histone modifications and chromatin accessible regions. For most researchers, additional information including genomic variations on the TF binding site, allele frequency of variation between different populations, variation associated disease, and other neighbour TF binding sites are essential to generate a proper hypothesis or a meaningful conclusion. Many ChIP-seq datasets had been deposited on the public domain to help researchers make new discoveries. However, researches are often intimidated by the complexity of data structure and largeness of data volume. Such information would be more useful if they could be combined or downloaded with ChIP-seq data. To meet such demands, we built a webtool: ePIgenomic ANNOtation tool (ePIANNO, http://epianno.stat.sinica.edu.tw/index.html). ePIANNO is a web server that combines SNP information of populations (1000 Genomes Project) and gene-disease association information of GWAS (NHGRI) with ChIP-seq (hmChIP, ENCODE, and ROADMAP epigenomics) data. ePIANNO has a user-friendly website interface allowing researchers to explore, navigate, and extract data quickly. We use two examples to demonstrate how users could use functions of ePIANNO webserver to explore useful information about TF related genomic variants. Users could use our query functions to search target regions, transcription factors, or annotations. ePIANNO may help users to generate hypothesis or explore potential biological functions for their studies. PMID:26859295

  19. ePIANNO: ePIgenomics ANNOtation tool

    PubMed Central

    Chang, Ya-Hsuan; Hsu, Yi-Chiung; Li, Yu-Cheng; Yuan, Shin-Sheng; Huang, Yi-Huan; Chang, Chi-Sheng; Li, Ker-Chau; Chen, Hsuan-Yu

    2016-01-01

    Recently, with the development of next generation sequencing (NGS), the combination of chromatin immunoprecipitation (ChIP) and NGS, namely ChIP-seq, has become a powerful technique to capture potential genomic binding sites of regulatory factors, histone modifications and chromatin accessible regions. For most researchers, additional information including genomic variations on the TF binding site, allele frequency of variation between different populations, variation associated disease, and other neighbour TF binding sites are essential to generate a proper hypothesis or a meaningful conclusion. Many ChIP-seq datasets had been deposited on the public domain to help researchers make new discoveries. However, researches are often intimidated by the complexity of data structure and largeness of data volume. Such information would be more useful if they could be combined or downloaded with ChIP-seq data. To meet such demands, we built a webtool: ePIgenomic ANNOtation tool (ePIANNO, http://epianno.stat.sinica.edu.tw/index.html). ePIANNO is a web server that combines SNP information of populations (1000 Genomes Project) and gene-disease association information of GWAS (NHGRI) with ChIP-seq (hmChIP, ENCODE, and ROADMAP epigenomics) data. ePIANNO has a user-friendly website interface allowing researchers to explore, navigate, and extract data quickly. We use two examples to demonstrate how users could use functions of ePIANNO webserver to explore useful information about TF related genomic variants. Users could use our query functions to search target regions, transcription factors, or annotations. ePIANNO may help users to generate hypothesis or explore potential biological functions for their studies. PMID:26859295

  20. Functional Annotation Analytics of Rhodopseudomonas palustris Genomes

    PubMed Central

    Simmons, Shaneka S.; Isokpehi, Raphael D.; Brown, Shyretha D.; McAllister, Donee L.; Hall, Charnia C.; McDuffy, Wanaki M.; Medley, Tamara L.; Udensi, Udensi K.; Rajnarayanan, Rajendram V.; Ayensu, Wellington K.; Cohly, Hari H.P.

    2011-01-01

    Rhodopseudomonas palustris, a nonsulphur purple photosynthetic bacteria, has been extensively investigated for its metabolic versatility including ability to produce hydrogen gas from sunlight and biomass. The availability of the finished genome sequences of six R. palustris strains (BisA53, BisB18, BisB5, CGA009, HaA2 and TIE-1) combined with online bioinformatics software for integrated analysis presents new opportunities to determine the genomic basis of metabolic versatility and ecological lifestyles of the bacteria species. The purpose of this investigation was to compare the functional annotations available for multiple R. palustris genomes to identify annotations that can be further investigated for strain-specific or uniquely shared phenotypic characteristics. A total of 2,355 protein family Pfam domain annotations were clustered based on presence or absence in the six genomes. The clustering process identified groups of functional annotations including those that could be verified as strain-specific or uniquely shared phenotypes. For example, genes encoding water/glycerol transport were present in the genome sequences of strains CGA009 and BisB5, but absent in strains BisA53, BisB18, HaA2 and TIE-1. Protein structural homology modeling predicted that the two orthologous 240 aa R. palustris aquaporins have water-specific transport function. Based on observations in other microbes, the presence of aquaporin in R. palustris strains may improve freeze tolerance in natural conditions of rapid freezing such as nitrogen fixation at low temperatures where access to liquid water is a limiting factor for nitrogenase activation. In the case of adaptive loss of aquaporin genes, strains may be better adapted to survive in conditions of high-sugar content such as fermentation of biomass for biohydrogen production. Finally, web-based resources were developed to allow for interactive, user-defined selection of the relationship between protein family annotations and the R

  1. VideoANT: Extending Online Video Annotation beyond Content Delivery

    ERIC Educational Resources Information Center

    Hosack, Bradford

    2010-01-01

    This paper expands the boundaries of video annotation in education by outlining the need for extended interaction in online video use, identifying the challenges faced by existing video annotation tools, and introducing Video-ANT, a tool designed to create text-based annotations integrated within the time line of a video hosted online. Several…

  2. The Father's Role in Family Systems: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Wisconsin Univ., Madison. School of Family Resources and Consumer Sciences.

    This bibliography contains more than 400 annotated references on the topic of the father's role in family systems. In addition to the standard bibliographic citation, each entry includes an annotation which summarizes, discusses, or evaluates the item. The annotations range in length from a few sentences to several paragraphs. An alpha-numeric…

  3. RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes

    SciTech Connect

    Brettin, Thomas; Davis, James J.; Disz, Terry; Edwards, Robert A.; Gerdes, Svetlana; Olsen, Gary J.; Olson, Robert; Overbeek, Ross; Parrello, Bruce; Pusch, Gordon D.; Shukla, Maulik; Thomason, III, James A.; Stevens, Rick; Vonstein, Veronika; Wattam, Alice R.; Xia, Fangfang

    2015-02-10

    The RAST (Rapid Annotation using Subsystem Technology) annotation engine was built in 2008 to annotate bacterial and archaeal genomes. It works by offering a standard software pipeline for identifying genomic features (i.e., protein-encoding genes and RNA) and annotating their functions. Recently, in order to make RAST a more useful research tool and to keep pace with advancements in bioinformatics, it has become desirable to build a version of RAST that is both customizable and extensible. In this paper, we describe the RAST tool kit (RASTtk), a modular version of RAST that enables researchers to build custom annotation pipelines. RASTtk offers a choice of software for identifying and annotating genomic features as well as the ability to add custom features to an annotation job. RASTtk also accommodates the batch submission of genomes and the ability to customize annotation protocols for batch submissions. This is the first major software restructuring of RAST since its inception.

  4. RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes

    PubMed Central

    Brettin, Thomas; Davis, James J.; Disz, Terry; Edwards, Robert A.; Gerdes, Svetlana; Olsen, Gary J.; Olson, Robert; Overbeek, Ross; Parrello, Bruce; Pusch, Gordon D.; Shukla, Maulik; Thomason, James A.; Stevens, Rick; Vonstein, Veronika; Wattam, Alice R.; Xia, Fangfang

    2015-01-01

    The RAST (Rapid Annotation using Subsystem Technology) annotation engine was built in 2008 to annotate bacterial and archaeal genomes. It works by offering a standard software pipeline for identifying genomic features (i.e., protein-encoding genes and RNA) and annotating their functions. Recently, in order to make RAST a more useful research tool and to keep pace with advancements in bioinformatics, it has become desirable to build a version of RAST that is both customizable and extensible. In this paper, we describe the RAST tool kit (RASTtk), a modular version of RAST that enables researchers to build custom annotation pipelines. RASTtk offers a choice of software for identifying and annotating genomic features as well as the ability to add custom features to an annotation job. RASTtk also accommodates the batch submission of genomes and the ability to customize annotation protocols for batch submissions. This is the first major software restructuring of RAST since its inception. PMID:25666585

  5. Overriding auditory attentional capture.

    PubMed

    Dalton, Polly; Lavie, Nilli

    2007-02-01

    Attentional capture by color singletons during shape search can be eliminated when the target is not a feature singleton (Bacon & Egeth, 1994). This suggests that a "singleton detection" search strategy must be adopted for attentional capture to occur. Here we find similar effects on auditory attentional capture. Irrelevant high-intensity singletons interfered with an auditory search task when the target itself was also a feature singleton. However, singleton interference was eliminated when the target was not a singleton (i.e., when nontargets were made heterogeneous, or when more than one target sound was presented). These results suggest that auditory attentional capture depends on the observer's attentional set, as does visual attentional capture. The suggestion that hearing might act as an early warning system that would always be tuned to unexpected unique stimuli must therefore be modified to accommodate these strategy-dependent capture effects. PMID:17557587

  6. Testing the Capture Magnet

    NASA Technical Reports Server (NTRS)

    2004-01-01

    This image of a model capture magnet was taken after an experiment in a Mars simulation chamber at the University of Aarhus, Denmark. It has some dust on it, but not as much as that on the Mars Exploration Rover Spirit's capture magnet. The capture and filter magnets on both Mars Exploration Rovers were delivered by the magnetic properties team at the Center for Planetary Science, Copenhagen, Denmark.

  7. The National Cancer Informatics Program (NCIP) Annotation and Image Markup (AIM) Foundation model.

    PubMed

    Mongkolwat, Pattanasak; Kleper, Vladimir; Talbot, Skip; Rubin, Daniel

    2014-12-01

    Knowledge contained within in vivo imaging annotated by human experts or computer programs is typically stored as unstructured text and separated from other associated information. The National Cancer Informatics Program (NCIP) Annotation and Image Markup (AIM) Foundation information model is an evolution of the National Institute of Health's (NIH) National Cancer Institute's (NCI) Cancer Bioinformatics Grid (caBIG®) AIM model. The model applies to various image types created by various techniques and disciplines. It has evolved in response to the feedback and changing demands from the imaging community at NCI. The foundation model serves as a base for other imaging disciplines that want to extend the type of information the model collects. The model captures physical entities and their characteristics, imaging observation entities and their characteristics, markups (two- and three-dimensional), AIM statements, calculations, image source, inferences, annotation role, task context or workflow, audit trail, AIM creator details, equipment used to create AIM instances, subject demographics, and adjudication observations. An AIM instance can be stored as a Digital Imaging and Communications in Medicine (DICOM) structured reporting (SR) object or Extensible Markup Language (XML) document for further processing and analysis. An AIM instance consists of one or more annotations and associated markups of a single finding along with other ancillary information in the AIM model. An annotation describes information about the meaning of pixel data in an image. A markup is a graphical drawing placed on the image that depicts a region of interest. This paper describes fundamental AIM concepts and how to use and extend AIM for various imaging disciplines. PMID:24934452

  8. Spatial capture-recapture

    USGS Publications Warehouse

    Royle, J. Andrew; Chandler, Richard B.; Sollmann, Rahel; Gardner, Beth

    2013-01-01

    Spatial Capture-Recapture provides a revolutionary extension of traditional capture-recapture methods for studying animal populations using data from live trapping, camera trapping, DNA sampling, acoustic sampling, and related field methods. This book is a conceptual and methodological synthesis of spatial capture-recapture modeling. As a comprehensive how-to manual, this reference contains detailed examples of a wide range of relevant spatial capture-recapture models for inference about population size and spatial and temporal variation in demographic parameters. Practicing field biologists studying animal populations will find this book to be a useful resource, as will graduate students and professionals in ecology, conservation biology, and fisheries and wildlife management.

  9. Annotations and the Collaborative Digital Library: Effects of an Aligned Annotation Interface on Student Argumentation and Reading Strategies

    ERIC Educational Resources Information Center

    Wolfe, Joanna

    2008-01-01

    Recent research on annotation interfaces provides provocative evidence that anchored, annotation-based discussion environments may lead to better conversations about a text. However, annotation interfaces raise complicated tradeoffs regarding screen real estate and positioning. It is argued that solving this screen real estate problem requires…

  10. Net receipts sharing and transfer of federal mineral responsibilities

    SciTech Connect

    McCannon, S. )

    1992-12-01

    Two interrelated issues - the policy of net receipt sharing and the [open quotes]Mineral Royalty Transfer Study[close quotes] that was submitted to Congress in June of this year by the Minerals Management Service of the Department of Interior are discussed. The 1993 Interior Appropriations Act, P.L. 102-381, which was signed by the president on October 5, 1992, includes a provision that, in addition to costing states $37.5 million has a few other problems: It may be illegal, it flies in the face of the Mineral Leasing Act, it sets a frightening precedent, it is bad public policy and it ignores the substantial contribution of states to federal mineral development. This provision is known as net receipt sharing. The advantages and disadvantages of this Act are discussed.

  11. 75 FR 57770 - Certain New Chemicals; Receipt and Status Information

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-09-22

    ...Section 5 of the Toxic Substances Control Act (TSCA) requires any person who intends to manufacture (defined by statute to include import) a new chemical (i.e., a chemical not on the TSCA Inventory) to notify EPA and comply with the statutory provisions pertaining to the manufacture of new chemicals. Under sections 5(d)(2) and 5(d)(3) of TSCA, EPA is required to publish a notice of receipt of......

  12. 75 FR 60444 - Certain New Chemicals; Receipt and Status Information

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-09-30

    ...Section 5 of the Toxic Substances Control Act (TSCA) requires any person who intends to manufacture (defined by statute to include import) a new chemical (i.e., a chemical not on the TSCA Inventory) to notify EPA and comply with the statutory provisions pertaining to the manufacture of new chemicals. Under sections 5(d)(2) and 5(d)(3) of TSCA, EPA is required to publish a notice of receipt of......

  13. 75 FR 39520 - Certain New Chemicals; Receipt and Status Information

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-07-09

    ...Section 5 of the Toxic Substances Control Act (TSCA) requires any person who intends to manufacture (defined by statute to include import) a new chemical (i.e., a chemical not on the TSCA Inventory) to notify EPA and comply with the statutory provisions pertaining to the manufacture of new chemicals. Under sections 5(d)(2) and 5(d)(3) of TSCA, EPA is required to publish a notice of receipt of......

  14. 75 FR 11414 - Certain New Chemicals; Receipt and Status Information

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-03-10

    ...Section 5 of the Toxic Substances Control Act (TSCA) requires any person who intends to manufacture (defined by statute to include import) a new chemical (i.e., a chemical not on the TSCA Inventory) to notify EPA and comply with the statutory provisions pertaining to the manufacture of new chemicals. Under sections 5(d)(2) and 5(d)(3) of TSCA, EPA is required to publish a notice of receipt of......

  15. 75 FR 11403 - Certain New Chemicals; Receipt and Status Information

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-03-10

    ...Section 5 of the Toxic Substances Control Act (TSCA) requires any person who intends to manufacture (defined by statute to include import) a new chemical (i.e., a chemical not on the TSCA Inventory) to notify EPA and comply with the statutory provisions pertaining to the manufacture of new chemicals. Under sections 5(d)(2) and 5(d)(3) of TSCA, EPA is required to publish a notice of receipt of......

  16. 75 FR 32754 - Certain New Chemicals; Receipt and Status Information

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-06-09

    ...Section 5 of the Toxic Substances Control Act (TSCA) requires any person who intends to manufacture (defined by statute to include import) a new chemical (i.e., a chemical not on the TSCA Inventory) to notify EPA and comply with the statutory provisions pertaining to the manufacture of new chemicals. Under sections 5(d)(2) and 5(d)(3) of TSCA, EPA is required to publish a notice of receipt of......

  17. Biases in the Experimental Annotations of Protein Function and Their Effect on Our Understanding of Protein Function Space

    PubMed Central

    Schnoes, Alexandra M.; Ream, David C.; Thorman, Alexander W.; Babbitt, Patricia C.; Friedberg, Iddo

    2013-01-01

    The ongoing functional annotation of proteins relies upon the work of curators to capture experimental findings from scientific literature and apply them to protein sequence and structure data. However, with the increasing use of high-throughput experimental assays, a small number of experimental studies dominate the functional protein annotations collected in databases. Here, we investigate just how prevalent is the “few articles - many proteins” phenomenon. We examine the experimentally validated annotation of proteins provided by several groups in the GO Consortium, and show that the distribution of proteins per published study is exponential, with 0.14% of articles providing the source of annotations for 25% of the proteins in the UniProt-GOA compilation. Since each of the dominant articles describes the use of an assay that can find only one function or a small group of functions, this leads to substantial biases in what we know about the function of many proteins. Mass-spectrometry, microscopy and RNAi experiments dominate high throughput experiments. Consequently, the functional information derived from these experiments is mostly of the subcellular location of proteins, and of the participation of proteins in embryonic developmental pathways. For some organisms, the information provided by different studies overlap by a large amount. We also show that the information provided by high throughput experiments is less specific than those provided by low throughput experiments. Given the experimental techniques available, certain biases in protein function annotation due to high-throughput experiments are unavoidable. Knowing that these biases exist and understanding their characteristics and extent is important for database curators, developers of function annotation programs, and anyone who uses protein function annotation data to plan experiments. PMID:23737737

  18. TRANSPORTATION CASK RECEIPT AND RETURN FACILITY WORKER DOSE ASSESSMENT

    SciTech Connect

    V. Arakali

    2005-02-24

    The purpose of this design calculation is to estimate radiation doses received by personnel working in the Transportation Cask Receipt and Return Facility (TCRRF) of the repository including the personnel at the security gate and cask staging areas. This calculation is required to support the preclosure safety analysis (PCSA) to ensure that the predicted doses are within the regulatory limits prescribed by the U.S. Nuclear Regulatory Commission (NRC). The Cask Receipt and Return Facility receives NRC licensed transportation casks loaded with spent nuclear fuel (SNF) and high-level radioactive waste (HLW). The TCRRF operation starts with the receipt, inspection, and survey of the casks at the security gate and the staging areas, and proceeds to the process facilities. The transportation casks arrive at the site via rail cars or trucks under the guidance of the national transportation system. This calculation was developed by the Environmental and Nuclear Engineering organization and is intended solely for the use of Design and Engineering in work regarding facility design. Environmental and Nuclear Engineering personnel should be consulted before using this calculation for purposes other than those stated herein or for use by individuals other than authorized personnel in the Environmental and Nuclear Engineering organization.

  19. Cadec: A corpus of adverse drug event annotations.

    PubMed

    Karimi, Sarvnaz; Metke-Jimenez, Alejandro; Kemp, Madonna; Wang, Chen

    2015-06-01

    CSIRO Adverse Drug Event Corpus (Cadec) is a new rich annotated corpus of medical forum posts on patient-reported Adverse Drug Events (ADEs). The corpus is sourced from posts on social media, and contains text that is largely written in colloquial language and often deviates from formal English grammar and punctuation rules. Annotations contain mentions of concepts such as drugs, adverse effects, symptoms, and diseases linked to their corresponding concepts in controlled vocabularies, i.e., SNOMED Clinical Terms and MedDRA. The quality of the annotations is ensured by annotation guidelines, multi-stage annotations, measuring inter-annotator agreement, and final review of the annotations by a clinical terminologist. This corpus is useful for studies in the area of information extraction, or more generally text mining, from social media to detect possible adverse drug reactions from direct patient reports. The corpus is publicly available at https://data.csiro.au.(1). PMID:25817970

  20. Automated annotation of microbial proteomes in SWISS-PROT.

    PubMed

    Gattiker, Alexandre; Michoud, Karine; Rivoire, Catherine; Auchincloss, Andrea H; Coudert, Elisabeth; Lima, Tania; Kersey, Paul; Pagni, Marco; Sigrist, Christian J A; Lachaize, Corinne; Veuthey, Anne Lise; Gasteiger, Elisabeth; Bairoch, Amos

    2003-02-01

    Large-scale sequencing of prokaryotic genomes demands the automation of certain annotation tasks currently manually performed in the production of the SWISS-PROT protein knowledgebase. The HAMAP project, or 'High-quality Automated and Manual Annotation of microbial Proteomes', aims to integrate manual and automatic annotation methods in order to enhance the speed of the curation process while preserving the quality of the database annotation. Automatic annotation is only applied to entries that belong to manually defined orthologous families and to entries with no identifiable similarities (ORFans). Many checks are enforced in order to prevent the propagation of wrong annotation and to spot problematic cases, which are channelled to manual curation. The results of this annotation are integrated in SWISS-PROT, and a website is provided at http://www.expasy.org/sprot/hamap/. PMID:12798039

  1. Intelsat VI Capture Attempt

    NASA Technical Reports Server (NTRS)

    1992-01-01

    The first single crewmember EVA capture attempt of the Intelsat VI as seen from Endeavour's aft flight deck windows. EVA Mission Specialist Pierre Thuot standing on the Remote Manipulator System (RMS) end effector platform, with the satellite capture bar attempting to attach it to the free floating communications satellite.

  2. Demonstrating carbon capture

    SciTech Connect

    Qader, A.; Hooper, B.; Stevens, G.

    2009-11-15

    Australia is at the forefront of advancing CCS technology. The CO2CRC's H3 (Post-combustion) and Mulgrave (pre-combustion) capture projects are outlined. The capture technologies for these 2 demonstration projects are described. 1 map., 2 photos.

  3. Analysis and Annotation of Nucleic Acid Sequence

    SciTech Connect

    States, David J.

    2004-07-28

    The aims of this project were to develop improved methods for computational genome annotation and to apply these methods to improve the annotation of genomic sequence data with a specific focus on human genome sequencing. The project resulted in a substantial body of published work. Notable contributions of this project were the identification of basecalling and lane tracking as error processes in genome sequencing and contributions to improved methods for these steps in genome sequencing. This technology improved the accuracy and throughput of genome sequence analysis. Probabilistic methods for physical map construction were developed. Improved methods for sequence alignment, alternative splicing analysis, promoter identification and NF kappa B response gene prediction were also developed.

  4. Analysis and Annotation of Nucleic Acid Sequence

    SciTech Connect

    David J. States

    1998-08-01

    The aims of this project were to develop improved methods for computational genome annotation and to apply these methods to improve the annotation of genomic sequence data with a specific focus on human genome sequencing. The project resulted in a substantial body of published work. Notable contributions of this project were the identification of basecalling and lane tracking as error processes in genome sequencing and contributions to improved methods for these steps in genome sequencing. This technology improved the accuracy and throughput of genome sequence analysis. Probabilistic methods for physical map construction were developed. Improved methods for sequence alignment, alternative splicing analysis, promoter identification and NF kappa B response gene prediction were also developed.

  5. Cognition inspired framework for indoor scene annotation

    NASA Astrophysics Data System (ADS)

    Ye, Zhipeng; Liu, Peng; Zhao, Wei; Tang, Xianglong

    2015-09-01

    We present a simple yet effective scene annotation framework based on a combination of bag-of-visual words (BoVW), three-dimensional scene structure estimation, scene context, and cognitive theory. From a macroperspective, the proposed cognition-based hybrid motivation framework divides the annotation problem into empirical inference and real-time classification. Inspired by the inference ability of human beings, common objects of indoor scenes are defined for experience-based inference, while in the real-time classification stage, an improved BoVW-based multilayer abstract semantics labeling method is proposed by introducing abstract semantic hierarchies to narrow the semantic gap and improve the performance of object categorization. The proposed framework was evaluated on a variety of common data sets and experimental results proved its effectiveness.

  6. Annotating Large Genomes With Exact Word Matches

    PubMed Central

    Healy, John; Thomas, Elizabeth E.; Schwartz, Jacob T.; Wigler, Michael

    2003-01-01

    We have developed a tool for rapidly determining the number of exact matches of any word within large, internally repetitive genomes or sets of genomes. Thus we can readily annotate any sequence, including the entire human genome, with the counts of its constituent words. We create a Burrows-Wheeler transform of the genome, which together with auxiliary data structures facilitating counting, can reside in about one gigabyte of RAM. Our original interest was motivated by oligonucleotide probe design, and we describe a general protocol for defining unique hybridization probes. But our method also has applications for the analysis of genome structure and assembly. We demonstrate the identification of chromosome-specific repeats, and outline a general procedure for finding undiscovered repeats. We also illustrate the changing contents of the human genome assemblies by comparing the annotations built from different genome freezes. PMID:12975312

  7. Deburring: an annotated bibliography. Volume VI

    SciTech Connect

    Gillespie, L.K.

    1980-07-01

    An annotated summary of 138 articles and publications on burrs, burr prevention and deburring is presented. Thirty-seven deburring processes are listed. Entries cited include English, Russian, French, Japanese, and German language articles. Entries are indexed by deburring processes, author, and language. Indexes also indicate which references discuss equipment and tooling, how to use a proces economics, burr properties, and how to design to minimize burr problems. Research studies are identified as are the materials deburred.

  8. Effective function annotation through catalytic residue conservation.

    PubMed

    George, Richard A; Spriggs, Ruth V; Bartlett, Gail J; Gutteridge, Alex; MacArthur, Malcolm W; Porter, Craig T; Al-Lazikani, Bissan; Thornton, Janet M; Swindells, Mark B

    2005-08-30

    Because of the extreme impact of genome sequencing projects, protein sequences without accompanying experimental data now dominate public databases. Homology searches, by providing an opportunity to transfer functional information between related proteins, have become the de facto way to address this. Although a single, well annotated, close relationship will often facilitate sufficient annotation, this situation is not always the case, particularly if mutations are present in important functional residues. When only distant relationships are available, the transfer of function information is more tenuous, and the likelihood of encountering several well annotated proteins with different functions is increased. The consequence for a researcher is a range of candidate functions with little way of knowing which, if any, are correct. Here, we address the problem directly by introducing a computational approach to accurately identify and segregate related proteins into those with a functional similarity and those where function differs. This approach should find a wide range of applications, including the interpretation of genomics/proteomics data and the prioritization of targets for high-throughput structure determination. The method is generic, but here we concentrate on enzymes and apply high-quality catalytic site data. In addition to providing a series of comprehensive benchmarks to show the overall performance of our approach, we illustrate its utility with specific examples that include the correct identification of haptoglobin as a nonenzymatic relative of trypsin, discrimination of acid-d-amino acid ligases from a much larger ligase pool, and the successful annotation of BioH, a structural genomics target. PMID:16037208

  9. Jannovar: a java library for exome annotation.

    PubMed

    Jäger, Marten; Wang, Kai; Bauer, Sebastian; Smedley, Damian; Krawitz, Peter; Robinson, Peter N

    2014-05-01

    Transcript-based annotation and pedigree analysis are two basic steps in the computational analysis of whole-exome sequencing experiments in genetic diagnostics and disease-gene discovery projects. Here, we present Jannovar, a stand-alone Java application as well as a Java library designed to be used in larger software frameworks for exome and genome analysis. Jannovar uses an interval tree to identify all transcripts affected by a given variant, and provides Human Genome Variation Society-compliant annotations both for variants affecting coding sequences and splice junctions as well as untranslated regions and noncoding RNA transcripts. Jannovar can also perform family-based pedigree analysis with Variant Call Format (VCF) files with data from members of a family segregating a Mendelian disorder. Using a desktop computer, Jannovar requires a few seconds to annotate a typical VCF file with exome data. Jannovar is freely available under the BSD2 license. Source code as well as the Java application and library file can be downloaded from http://compbio.charite.de (with tutorial) and https://github.com/charite/jannovar. PMID:24677618

  10. UCSC Data Integrator and Variant Annotation Integrator

    PubMed Central

    Hinrichs, Angie S.; Raney, Brian J.; Speir, Matthew L.; Rhead, Brooke; Casper, Jonathan; Karolchik, Donna; Kuhn, Robert M.; Rosenbloom, Kate R.; Zweig, Ann S.; Haussler, David; Kent, W. James

    2016-01-01

    Summary: Two new tools on the UCSC Genome Browser web site provide improved ways of combining information from multiple datasets, optionally including the user's own custom track data and/or data from track hubs. The Data Integrator combines columns from multiple data tracks, showing all items from the first track along with overlapping items from the other tracks. The Variant Annotation Integrator is tailored to adding functional annotations to variant calls; it offers a more restricted set of underlying data tracks but adds predictions of each variant's consequences for any overlapping or nearby gene transcript. When available, it optionally adds additional annotations including effect prediction scores from dbNSFP for missense mutations, ENCODE regulatory summary tracks and conservation scores. Availability and implementation: The web tools are freely available at http://genome.ucsc.edu/ and the underlying database is available for download at http://hgdownload.cse.ucsc.edu/. The software (written in C and Javascript) is available from https://genome-store.ucsc.edu/ and is freely available for academic and non-profit usage; commercial users must obtain a license. Contact: angie@soe.ucsc.edu Supplementary information: Supplementary data are available at Bioinformatics online. PMID:26740527

  11. CART—a chemical annotation retrieval toolkit

    PubMed Central

    Deghou, Samy; Zeller, Georg; Iskar, Murat; Driessen, Marja; Castillo, Mercedes; van Noort, Vera; Bork, Peer

    2016-01-01

    Motivation: Data on bioactivities of drug-like chemicals are rapidly accumulating in public repositories, creating new opportunities for research in computational systems pharmacology. However, integrative analysis of these data sets is difficult due to prevailing ambiguity between chemical names and identifiers and a lack of cross-references between databases. Results: To address this challenge, we have developed CART, a Chemical Annotation Retrieval Toolkit. As a key functionality, it matches an input list of chemical names into a comprehensive reference space to assign unambiguous chemical identifiers. In this unified space, bioactivity annotations can be easily retrieved from databases covering a wide variety of chemical effects on biological systems. Subsequently, CART can determine annotations enriched in the input set of chemicals and display these in tabular format and interactive network visualizations, thereby facilitating integrative analysis of chemical bioactivity data. Availability and Implementation: CART is available as a Galaxy web service (cart.embl.de). Source code and an easy-to-install command line tool can also be obtained from the web site. Contact: bork@embl.de Supplementary information: Supplementary data are available at Bioinformatics online. PMID:27256313

  12. Video data annotation, archiving, and access

    NASA Astrophysics Data System (ADS)

    Wilkin, D.; Connor, J.; Stout, N. J.; Walz, K.; Schlining, K.; Graybeal, J.

    2002-12-01

    Scientifically useful, high-quality video data can be challenging to integrate with other data, and to analyze and archive for use in ocean science. The Monterey Bay Aquarium Research Institute (MBARI) uses high-resolution video equipment to record over 300 remotely operated vehicle dives per year. Over the past 14 years, 13,000 videotapes have been archived and maintained as a centralized institutional resource. MBARI has developed a set of software applications to annotate and access video data. Users can identify the location of video sequences using a data query component; complex queries can be made by constraining temporal, spatial, or physical parameters (e.g., season, location, or depth). The applications reference a knowledge base of over 3,000 biological, geological and technical terms, providing consistent hierarchical information about objects and associated descriptions for annotating video at sea or on shore. The annotation, knowledge base, and query components together provide a comprehensive video archive software system that can be applied to a variety of scientific disciplines. Also in development, using the XML data format, is an interactive reference interface to explore MBARI's deep-sea knowledge base. When complete, the full software system will be disseminated to the research community via the web or CD, to help meet the challenges inherent in archiving video data.

  13. Analysis of a Receipt-Free Auction Protocol in the Applied Pi Calculus

    NASA Astrophysics Data System (ADS)

    Dong, Naipeng; Jonker, Hugo; Pang, Jun

    We formally study two privacy-type properties for online auction protocols: bidding-price-secrecy and receipt-freeness. These properties are formalised as observational equivalences in the applied π calculus. We analyse the receipt-free auction protocol by Abe and Suzuki. Bidding-price-secrecy of the protocol is verified using ProVerif, whereas receipt-freeness of the protocol is proved manually.

  14. 27 CFR 555.26 - Prohibited shipment, transportation, receipt, possession, or distribution of explosive materials.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... present in the United States in cooperation with the Director of Central Intelligence, and the shipment... cooperation with the Director of Central Intelligence, and the shipment, transportation, receipt,...

  15. 27 CFR 555.26 - Prohibited shipment, transportation, receipt, possession, or distribution of explosive materials.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... present in the United States in cooperation with the Director of Central Intelligence, and the shipment... cooperation with the Director of Central Intelligence, and the shipment, transportation, receipt,...

  16. 27 CFR 555.26 - Prohibited shipment, transportation, receipt, possession, or distribution of explosive materials.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... present in the United States in cooperation with the Director of Central Intelligence, and the shipment... cooperation with the Director of Central Intelligence, and the shipment, transportation, receipt,...

  17. Using language to learn structured appearance models for image annotation.

    PubMed

    Jamieson, Michael; Fazly, Afsaneh; Stevenson, Suzanne; Dickinson, Sven; Wachsmuth, Sven

    2010-01-01

    Given an unstructured collection of captioned images of cluttered scenes featuring a variety of objects, our goal is to simultaneously learn the names and appearances of the objects. Only a small fraction of local features within any given image are associated with a particular caption word, and captions may contain irrelevant words not associated with any image object. We propose a novel algorithm that uses the repetition of feature neighborhoods across training images and a measure of correspondence with caption words to learn meaningful feature configurations (representing named objects). We also introduce a graph-based appearance model that captures some of the structure of an object by encoding the spatial relationships among the local visual features. In an iterative procedure, we use language (the words) to drive a perceptual grouping process that assembles an appearance model for a named object. Results of applying our method to three data sets in a variety of conditions demonstrate that, from complex, cluttered, real-world scenes with noisy captions, we can learn both the names and appearances of objects, resulting in a set of models invariant to translation, scale, orientation, occlusion, and minor changes in viewpoint or articulation. These named models, in turn, are used to automatically annotate new, uncaptioned images, thereby facilitating keyword-based image retrieval. PMID:19926905

  18. IMPACCT: Carbon Capture Technology

    SciTech Connect

    2012-01-01

    IMPACCT Project: IMPACCT’s 15 projects seek to develop technologies for existing coal-fired power plants that will lower the cost of carbon capture. Short for “Innovative Materials and Processes for Advanced Carbon Capture Technologies,” the IMPACCT Project is geared toward minimizing the cost of removing carbon dioxide (CO2) from coal-fired power plant exhaust by developing materials and processes that have never before been considered for this application. Retrofitting coal-fired power plants to capture the CO2 they produce would enable greenhouse gas reductions without forcing these plants to close, shifting away from the inexpensive and abundant U.S. coal supply.

  19. Genome-wide metabolic (re-) annotation of Kluyveromyces lactis

    PubMed Central

    2012-01-01

    Background Even before having its genome sequence published in 2004, Kluyveromyces lactis had long been considered a model organism for studies in genetics and physiology. Research on Kluyveromyces lactis is quite advanced and this yeast species is one of the few with which it is possible to perform formal genetic analysis. Nevertheless, until now, no complete metabolic functional annotation has been performed to the proteins encoded in the Kluyveromyces lactis genome. Results In this work, a new metabolic genome-wide functional re-annotation of the proteins encoded in the Kluyveromyces lactis genome was performed, resulting in the annotation of 1759 genes with metabolic functions, and the development of a methodology supported by merlin (software developed in-house). The new annotation includes novelties, such as the assignment of transporter superfamily numbers to genes identified as transporter proteins. Thus, the genes annotated with metabolic functions could be exclusively enzymatic (1410 genes), transporter proteins encoding genes (301 genes) or have both metabolic activities (48 genes). The new annotation produced by this work largely surpassed the Kluyveromyces lactis currently available annotations. A comparison with KEGG’s annotation revealed a match with 844 (~90%) of the genes annotated by KEGG, while adding 850 new gene annotations. Moreover, there are 32 genes with annotations different from KEGG. Conclusions The methodology developed throughout this work can be used to re-annotate any yeast or, with a little tweak of the reference organism, the proteins encoded in any sequenced genome. The new annotation provided by this study offers basic knowledge which might be useful for the scientific community working on this model yeast, because new functions have been identified for the so-called metabolic genes. Furthermore, it served as the basis for the reconstruction of a compartmentalized, genome-scale metabolic model of Kluyveromyces lactis, which is

  20. Semi-automatic conversion of BioProp semantic annotation to PASBio annotation

    PubMed Central

    Tsai, Richard Tzong-Han; Dai, Hong-Jie; Huang, Chi-Hsin; Hsu, Wen-Lian

    2008-01-01

    Background Semantic role labeling (SRL) is an important text analysis technique. In SRL, sentences are represented by one or more predicate-argument structures (PAS). Each PAS is composed of a predicate (verb) and several arguments (noun phrases, adverbial phrases, etc.) with different semantic roles, including main arguments (agent or patient) as well as adjunct arguments (time, manner, or location). PropBank is the most widely used PAS corpus and annotation format in the newswire domain. In the biomedical field, however, more detailed and restrictive PAS annotation formats such as PASBio are popular. Unfortunately, due to the lack of an annotated PASBio corpus, no publicly available machine-learning (ML) based SRL systems based on PASBio have been developed. In previous work, we constructed a biomedical corpus based on the PropBank standard called BioProp, on which we developed an ML-based SRL system, BIOSMILE. In this paper, we aim to build a system to convert BIOSMILE's BioProp annotation output to PASBio annotation. Our system consists of BIOSMILE in combination with a BioProp-PASBio rule-based converter, and an additional semi-automatic rule generator. Results Our first experiment evaluated our rule-based converter's performance independently from BIOSMILE performance. The converter achieved an F-score of 85.29%. The second experiment evaluated combined system (BIOSMILE + rule-based converter). The system achieved an F-score of 69.08% for PASBio's 29 verbs. Conclusion Our approach allows PAS conversion between BioProp and PASBio annotation using BIOSMILE alongside our newly developed semi-automatic rule generator and rule-based converter. Our system can match the performance of other state-of-the-art domain-specific ML-based SRL systems and can be easily customized for PASBio application development. PMID:19091017

  1. Annotation and visualization of endogenous retroviral sequences using the Distributed Annotation System (DAS) and eBioX

    PubMed Central

    Martínez Barrio, Álvaro; Lagercrantz, Erik; Sperber, Göran O; Blomberg, Jonas; Bongcam-Rudloff, Erik

    2009-01-01

    Background The Distributed Annotation System (DAS) is a widely used network protocol for sharing biological information. The distributed aspects of the protocol enable the use of various reference and annotation servers for connecting biological sequence data to pertinent annotations in order to depict an integrated view of the data for the final user. Results An annotation server has been devised to provide information about the endogenous retroviruses detected and annotated by a specialized in silico tool called RetroTector. We describe the procedure to implement the DAS 1.5 protocol commands necessary for constructing the DAS annotation server. We use our server to exemplify those steps. Data distribution is kept separated from visualization which is carried out by eBioX, an easy to use open source program incorporating multiple bioinformatics utilities. Some well characterized endogenous retroviruses are shown in two different DAS clients. A rapid analysis of areas free from retroviral insertions could be facilitated by our annotations. Conclusion The DAS protocol has shown to be advantageous in the distribution of endogenous retrovirus data. The distributed nature of the protocol is also found to aid in combining annotation and visualization along a genome in order to enhance the understanding of ERV contribution to its evolution. Reference and annotation servers are conjointly used by eBioX to provide visualization of ERV annotations as well as other data sources. Our DAS data source can be found in the central public DAS service repository, , or at . PMID:19534743

  2. Protein Sequence Annotation Tool (PSAT): A centralized web-based meta-server for high-throughput sequence annotations

    DOE PAGESBeta

    Leung, Elo; Huang, Amy; Cadag, Eithon; Montana, Aldrin; Soliman, Jan Lorenz; Zhou, Carol L. Ecale

    2016-01-20

    In this study, we introduce the Protein Sequence Annotation Tool (PSAT), a web-based, sequence annotation meta-server for performing integrated, high-throughput, genome-wide sequence analyses. Our goals in building PSAT were to (1) create an extensible platform for integration of multiple sequence-based bioinformatics tools, (2) enable functional annotations and enzyme predictions over large input protein fasta data sets, and (3) provide a web interface for convenient execution of the tools. In this paper, we demonstrate the utility of PSAT by annotating the predicted peptide gene products of Herbaspirillum sp. strain RV1423, importing the results of PSAT into EC2KEGG, and using the resultingmore » functional comparisons to identify a putative catabolic pathway, thereby distinguishing RV1423 from a well annotated Herbaspirillum species. This analysis demonstrates that high-throughput enzyme predictions, provided by PSAT processing, can be used to identify metabolic potential in an otherwise poorly annotated genome. Lastly, PSAT is a meta server that combines the results from several sequence-based annotation and function prediction codes, and is available at http://psat.llnl.gov/psat/. PSAT stands apart from other sequencebased genome annotation systems in providing a high-throughput platform for rapid de novo enzyme predictions and sequence annotations over large input protein sequence data sets in FASTA. PSAT is most appropriately applied in annotation of large protein FASTA sets that may or may not be associated with a single genome.« less

  3. Factors affecting receipt of chemotherapy in women with breast cancer

    PubMed Central

    Morimoto, Libby; Coalson, Jenna; Mowat, Fionna; O’Malley, Cynthia

    2010-01-01

    Aims: To review literature describing factors associated with receipt of chemotherapy for breast cancer, to better understand what factors are most relevant to women’s health and whether health disparities are apparent, and to assess how these factors might affect observational studies and outcomes research. Patterns of care for metastatic breast cancer, for which no standard-of-care exists, were of particular interest. Methods: Relevant studies written in English, Italian, French, or Spanish, published in 2000 or later, were identified through MEDLINE and reviewed. Review articles and clinical trials were excluded; all observational studies and surveys were considered. Articles were reviewed for any discussion of patient characteristics, hospital/physician/insurance characteristics, psychosocial characteristics, and clinical characteristics affecting receipt of chemotherapy by breast cancer patients. Results: In general, factors associated with increased likelihood of receiving chemotherapy included younger age, being Caucasian, having good general health and few co-morbidities, having more severe clinical disease, having responded well to previous treatment, and having breast cancer that is estrogen- or progesterone-receptor-negative. Many of the clinical factors found to increase the likelihood of receiving chemotherapy were consistent with current oncology guidelines. Of the relevant 19 studies identified, only six (32%) reported data specific to metastatic cancer; most studies aggregated women with stage I–IV for purposes of analysis. Conclusion: Studies of patterns of care in breast cancer treatment can help identify challenges in health care provided to particular subgroups of women and can aid researchers in designing studies that account for such factors in clinical and outcomes research. Although scarce, studies evaluating only women with metastatic breast cancer indicate that factors affecting decisions related to receipt of chemotherapy are similar

  4. Receipt of reward leads to altered estimation of effort

    PubMed Central

    Pooresmaeili, Arezoo; Wannig, Aurel; Dolan, Raymond J.

    2015-01-01

    Effort and reward jointly shape many human decisions. Errors in predicting the required effort needed for a task can lead to suboptimal behavior. Here, we show that effort estimations can be biased when retrospectively reestimated following receipt of a rewarding outcome. These biases depend on the contingency between reward and task difficulty and are stronger for highly contingent rewards. Strikingly, the observed pattern accords with predictions from Bayesian cue integration, indicating humans deploy an adaptive and rational strategy to deal with inconsistencies between the efforts they expend and the ensuing rewards. PMID:26460026

  5. Genomic Data and Annotation from the SEED

    DOE Data Explorer

    Fonstein, Michael; Kogan, Yakov; Osterman, Andrei; Overbeek, Ross; Vonstein, Veronika The Fellowship for Interpretation of Genomes (FIG)

    The SEED Project is a cooperative effort to annotate ever-expanding genomic data so researchers can conduct effective comparative analyses of genomes. Launched in 2003 by the Fellowship for Interpretation of Genomes (FIG), the project is one of several initiatives in ongoing development of data curation systems. SEED is designed to be used by scientists from numerous centers and with varied research objectives. As such, several institutions have since joined FIG in a consortium, including the University of Chicago, DOE’s Argonne National Laboratory (ANL), the University of Illinois at Urbana-Champaign, and others. As one example, ANL has used SEED to develop the National Microbial Pathogen Data Resource. Other agencies and institutions have used the project to discover genome components and clarify gene functions such as metabolism. SEED also has enabled researchers to conduct comparative analyses of closely related genomes and has supported derivation of stoichiometric models to understand metabolic processes. The SEED Project has been extended to support metagenomic samples and concomitant analytical tools. Moreover, the number of genomes being introduced into SEED is growing very rapidly. Building a framework to support this growth while providing highly accurate annotations is centrally important to SEED. The project’s subsystem-based annotation strategy has become the technological foundation for addressing these challenges.(copied from Appendix 7 of Systems Biology Knowledgebase for a New Era in Biology, A Genomics:GTL Report from the May 2008 Workshop, DOE/SC-0113, Grequrick, S; Fredrickson, J.K.; Stevens, R., Pub March 1, 2009.)

  6. Annotated bibliography of Software Engineering Laboratory literature

    NASA Technical Reports Server (NTRS)

    Morusiewicz, Linda; Valett, Jon D.

    1991-01-01

    An annotated bibliography of technical papers, documents, and memorandums produced by or related to the Software Engineering Laboratory is given. More than 100 publications are summarized. These publications cover many areas of software engineering and range from research reports to software documentation. All materials have been grouped into eight general subject areas for easy reference: The Software Engineering Laboratory; The Software Engineering Laboratory: Software Development Documents; Software Tools; Software Models; Software Measurement; Technology Evaluations; Ada Technology; and Data Collection. Subject and author indexes further classify these documents by specific topic and individual author.

  7. Annotated bibliography of Software Engineering Laboratory literature

    NASA Technical Reports Server (NTRS)

    Morusiewicz, Linda; Valett, Jon

    1993-01-01

    This document is an annotated bibliography of technical papers, documents, and memorandums produced by or related to the Software Engineering Laboratory. Nearly 200 publications are summarized. These publications cover many areas of software engineering and range from research reports to software documentation. This document has been updated and reorganized substantially since the original version (SEL-82-006, November 1982). All materials have been grouped into eight general subject areas for easy reference: the Software Engineering Laboratory; the Software Engineering Laboratory: software development documents; software tools; software models; software measurement; technology evaluations; Ada technology; and data collection. This document contains an index of these publications classified by individual author.

  8. Film annotation system for a space experiment

    NASA Technical Reports Server (NTRS)

    Browne, W. R.; Johnson, S. S.

    1989-01-01

    This microprocessor system was designed to control and annotate a Nikon 35 mm camera for the purpose of obtaining photographs and data at predefined time intervals. The single STD BUSS interface card was designed in such a way as to allow it to be used in either a stand alone application with minimum features or installed in a STD BUSS computer allowing for maximum features. This control system also allows the exposure of twenty eight alpha/numeric characters across the bottom of each photograph. The data contains such information as camera identification, frame count, user defined text, and time to .01 second.

  9. Annotations in Refseq (GSC8 Meeting)

    ScienceCinema

    Tatusova, Tatiana

    2011-04-28

    The Genomic Standards Consortium was formed in September 2005. It is an international, open-membership working body which promotes standardization in the description of genomes and the exchange and integration of genomic data. The 2009 meeting was an activity of a five-year funding "Research Coordination Network" from the National Science Foundation and was organized held at the DOE Joint Genome Institute with organizational support provided by the JGI and by the University of California - San Diego. Tatiana Tatusova of NCBI discusses "Annotations in Refseq" at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 10, 2009.

  10. Expressed sequence tags: analysis and annotation.

    PubMed

    Parkinson, John; Blaxter, Mark

    2004-01-01

    Expressed sequence tags (ESTs) present a special set of problems for bioinformatic analysis. They are partial and error-prone, and large datasets can have significant internal redundancy. To facilitate analysis of small EST datasets from in-house projects, we present an integrated "pipeline" of tools that take EST data from sequence trace to database submission. These tools also can be used to provide clustering of ESTs into putative genes and to annotate these genes with preliminary sequence similarity searches. The systems are written to use the public-domain LINUX environment and other openly available analytical tools. PMID:15153624

  11. Annotated bibliography of Software Engineering Laboratory literature

    NASA Technical Reports Server (NTRS)

    1985-01-01

    An annotated bibliography of technical papers, documents, and memorandums produced by or related to the Software Engineering Laboratory is presented. More than 100 publications are summarized. These publications are summarized. These publications cover many areas of software engineering and range from research reports to software documentation. This document has been updated and reorganized substantially since the original version (SEL-82-006, November 1982). All materials are grouped into five general subject areas for easy reference: (1) the software engineering laboratory; (2) software tools; (3) models and measures; (4) technology evaluations; and (5) data collection. An index further classifies these documents by specific topic.

  12. Annotated bibliography of software engineering laboratory literature

    NASA Technical Reports Server (NTRS)

    Buhler, Melanie; Valett, Jon

    1989-01-01

    An annotated bibliography is presented of technical papers, documents, and memorandums produced by or related to the Software Engineering Laboratory. The bibliography was updated and reorganized substantially since the original version (SEL-82-006, November 1982). All materials were grouped into eight general subject areas for easy reference: (1) The Software Engineering Laboratory; (2) The Software Engineering Laboratory: Software Development Documents; (3) Software Tools; (4) Software Models; (5) Software Measurement; (6) Technology Evaluations; (7) Ada Technology; and (8) Data Collection. Subject and author indexes further classify these documents by specific topic and individual author.

  13. Annotated bibliography of software engineering laboratory literature

    NASA Technical Reports Server (NTRS)

    Groves, Paula; Valett, Jon

    1990-01-01

    An annotated bibliography of technical papers, documents, and memorandums produced by or related to the Software Engineering Laboratory is given. More than 100 publications are summarized. These publications cover many areas of software engineering and range from research reports to software documentation. This document has been updated and reorganized substantially since the original version (SEL-82-006, November 1982). All materials have been grouped into eight general subject areas for easy reference: the Software Engineering Laboratory; the Software Engineering Laboratory-software development documents; software tools; software models; software measurement; technology evaluations; Ada technology; and data collection. Subject and author indexes further classify these documents by specific topic and individual author.

  14. Human disturbances of waterfowl: an annotated bibliography

    USGS Publications Warehouse

    Dahlgren, R.B.; Korschgen, C.E.

    1992-01-01

    The expansion of outdoor recreation greatly increased the interaction between the public, waterfowl, and waterfowl habitat. The effects of these interactions on waterfowl habitats are visible and obvious, whereas the effects of interactions that disrupt the normal behavior of waterfowl are subtle and often overlooked, but perhaps no less harmful than destruction of habitat. Resource managers and administrators require information on the types, magnitude, and effects of disturbances from human contact with wildlife. This bibliography contains annotations for 211 articles with information about effects of human disturbances on waterfowl. Indexes are provided by subject or key words, geographic locations, species of waterfowl, and authors.

  15. Human disturbances of waterfowl: An annotated bibliography

    USGS Publications Warehouse

    Dahlgren, R.B.; Korschgen, C.E.

    1992-01-01

    The expansion of outdoor recreation greatly increased the interaction between the public, waterfowl, and waterfowl habitat. The effects of these interactions on waterfowl habitats are visible and obvious, whereas the effects of interactions that disrupt the normal behavior of waterfowl are subtle and often overlooked, but perhaps no less harmful than destruction of habitat. Resource managers and administrators require information on the types, magnitude, and effect of disturbances from human contact with wildlife. This bibliography contains annotations for 211 articles with information about effects of human disturbances on waterfowl. Indexes are provided by subject or key words, geographic locations, species of waterfowl, and authors.

  16. Annotations in Refseq (GSC8 Meeting)

    SciTech Connect

    Tatusova, Tatiana

    2009-09-10

    The Genomic Standards Consortium was formed in September 2005. It is an international, open-membership working body which promotes standardization in the description of genomes and the exchange and integration of genomic data. The 2009 meeting was an activity of a five-year funding "Research Coordination Network" from the National Science Foundation and was organized held at the DOE Joint Genome Institute with organizational support provided by the JGI and by the University of California - San Diego. Tatiana Tatusova of NCBI discusses "Annotations in Refseq" at the Genomic Standards Consortium's 8th meeting at the DOE JGI in Walnut Creek, Calif. on Sept. 10, 2009.

  17. Literacy and Basic Education: A Selected, Annotated Bibliography. Annotated Bibliography #3.

    ERIC Educational Resources Information Center

    Michigan State Univ., East Lansing. Non-Formal Education Information Center.

    A selected annotated bibliography on literacy and basic education, including contributions from practitioners in the worldwide non-formal education network and compiled for them, has three interrelated themes: integration of literacy programs with broader development efforts; the learner-centered or "psycho-social" approach to literacy, often with…

  18. Projects, Training, and Strategies for Generating Income: A Selected Annotated Bibliography. Annotated Bibliography #4.

    ERIC Educational Resources Information Center

    Michigan State Univ., East Lansing. Non-Formal Education Information Center.

    A selected annotated bibliography on projects, training, and strategies for generating income, intended for persons actively engaged in non-formal education for development, reflects a growing number of projects on income generation by and for women's groups, and a reliance upon indigenous associations and group action. Documents dating from 1969…

  19. Correction of the Caulobacter crescentus NA1000 Genome Annotation

    PubMed Central

    Ely, Bert; Scott, LaTia Etheredge

    2014-01-01

    Bacterial genome annotations are accumulating rapidly in the GenBank database and the use of automated annotation technologies to create these annotations has become the norm. However, these automated methods commonly result in a small, but significant percentage of genome annotation errors. To improve accuracy and reliability, we analyzed the Caulobacter crescentus NA1000 genome utilizing computer programs Artemis and MICheck to manually examine the third codon position GC content, alignment to a third codon position GC frame plot peak, and matches in the GenBank database. We identified 11 new genes, modified the start site of 113 genes, and changed the reading frame of 38 genes that had been incorrectly annotated. Furthermore, our manual method of identifying protein-coding genes allowed us to remove 112 non-coding regions that had been designated as coding regions. The improved NA1000 genome annotation resulted in a reduction in the use of rare codons since noncoding regions with atypical codon usage were removed from the annotation and 49 new coding regions were added to the annotation. Thus, a more accurate codon usage table was generated as well. These results demonstrate that a comparison of the location of peaks third codon position GC content to the location of protein coding regions could be used to verify the annotation of any genome that has a GC content that is greater than 60%. PMID:24621776

  20. Gene Ontology annotation quality analysis in model eukaryotes

    PubMed Central

    Buza, Teresia J.; McCarthy, Fiona M.; Wang, Nan; Bridges, Susan M.; Burgess, Shane C.

    2008-01-01

    Functional analysis using the Gene Ontology (GO) is crucial for array analysis, but it is often difficult for researchers to assess the amount and quality of GO annotations associated with different sets of gene products. In many cases the source of the GO annotations and the date the GO annotations were last updated is not apparent, further complicating a researchers’ ability to assess the quality of the GO data provided. Moreover, GO biocurators need to ensure that the GO quality is maintained and optimal for the functional processes that are most relevant for their research community. We report the GO Annotation Quality (GAQ) score, a quantitative measure of GO quality that includes breadth of GO annotation, the level of detail of annotation and the type of evidence used to make the annotation. As a case study, we apply the GAQ scoring method to a set of diverse eukaryotes and demonstrate how the GAQ score can be used to track changes in GO annotations over time and to assess the quality of GO annotations available for specific biological processes. The GAQ score also allows researchers to quantitatively assess the functional data available for their experimental systems (arrays or databases). PMID:18187504

  1. A Framework for Comparing Phenotype Annotations of Orthologous Genes

    PubMed Central

    Bodenreider, Olivier; Burgun, Anita

    2015-01-01

    Objectives Animal models are a key resource for the investigation of human diseases. In contrast to functional annotation, phenotype annotation is less standard, and comparing phenotypes across species remains challenging. The objective of this paper is to propose a framework for comparing phenotype annotations of orthologous genes based on the Medical Subject Headings (MeSH) indexing of biomedical articles in which these genes are discussed. Methods 17,769 pairs of orthologous genes (mouse and human) are downloaded from the Mouse Genome Informatics (MGI) system and linked to biomedical articles through Entrez Gene. MeSH index terms corresponding to diseases are extracted from Medline. Results 11,111 pairs of genes exhibited at least one phenotype annotation for each gene in the pair. Among these, 81% have at least one phenotype annotation in common, 80% have at least one annotation specific to the human gene and 84% have at least one annotation specific to the mouse gene. Four disease categories represent 54% of all phenotype annotations. Conclusions This framework supports the curation of phenotype annotation and the generation of research hypotheses based on comparative studies. PMID:20841896

  2. Learning from partially annotated OPT images by contextual relevance ranking.

    PubMed

    Li, Wenqi; Zhang, Jianguo; Zheng, Wei-Shi; Coats, Maria; Carey, Frank A; McKenna, Stephen J

    2013-01-01

    Annotations delineating regions of interest can provide valuable information for training medical image classification and segmentation methods. However the process of obtaining annotations is tedious and time-consuming, especially for high-resolution volumetric images. In this paper we present a novel learning framework to reduce the requirement of manual annotations while achieving competitive classification performance. The approach is evaluated on a dataset with 59 3D optical projection tomography images of colorectal polyps. The results show that the proposed method can robustly infer patterns from partially annotated images with low computational cost. PMID:24505790

  3. Interactive annotation of textures in thoracic CT scans

    NASA Astrophysics Data System (ADS)

    Kockelkorn, Thessa T. J. P.; de Jong, Pim A.; Gietema, Hester A.; Grutters, Jan C.; Prokop, Mathias; van Ginneken, Bram

    2010-03-01

    This study describes a system for interactive annotation of thoracic CT scans. Lung volumes in these scans are segmented and subdivided into roughly spherical volumes of interest (VOIs) with homogeneous texture using a clustering procedure. For each 3D VOI, 72 features are calculated. The observer inspects the scan to determine which textures are present and annotates, with mouse clicks, several VOIs of each texture. Based on these annotations, a k-nearest-neighbor classifier is trained, which classifies all remaining VOIs in the scan. The algorithm then presents a slice with suggested annotations to the user, in which the user can correct mistakes. The classifier is retrained, taking into account these new annotations, and the user is presented another slice for correction. This process continues until at least 50% of all lung voxels in the scan have been classified. The remaining VOIs are classified automatically. In this way, the entire lung volume is annotated. The system has been applied to scans of patients with usual and non-specific interstitial pneumonia. The results of interactive annotation are compared to a setup in which the user annotates all predefined VOIs manually. The interactive system is 3.7 times as fast as complete manual annotation of VOIs and differences between the methods are similar to interobserver variability. This is a first step towards precise volumetric quantitation of texture patterns in thoracic CT in clinical research and in clinical practice.

  4. The UniProt-GO Annotation database in 2011.

    PubMed

    Dimmer, Emily C; Huntley, Rachael P; Alam-Faruque, Yasmin; Sawford, Tony; O'Donovan, Claire; Martin, Maria J; Bely, Benoit; Browne, Paul; Mun Chan, Wei; Eberhardt, Ruth; Gardner, Michael; Laiho, Kati; Legge, Duncan; Magrane, Michele; Pichler, Klemens; Poggioli, Diego; Sehra, Harminder; Auchincloss, Andrea; Axelsen, Kristian; Blatter, Marie-Claude; Boutet, Emmanuel; Braconi-Quintaje, Silvia; Breuza, Lionel; Bridge, Alan; Coudert, Elizabeth; Estreicher, Anne; Famiglietti, Livia; Ferro-Rojas, Serenella; Feuermann, Marc; Gos, Arnaud; Gruaz-Gumowski, Nadine; Hinz, Ursula; Hulo, Chantal; James, Janet; Jimenez, Silvia; Jungo, Florence; Keller, Guillaume; Lemercier, Phillippe; Lieberherr, Damien; Masson, Patrick; Moinat, Madelaine; Pedruzzi, Ivo; Poux, Sylvain; Rivoire, Catherine; Roechert, Bernd; Schneider, Michael; Stutz, Andre; Sundaram, Shyamala; Tognolli, Michael; Bougueleret, Lydie; Argoud-Puy, Ghislaine; Cusin, Isabelle; Duek-Roggli, Paula; Xenarios, Ioannis; Apweiler, Rolf

    2012-01-01

    The GO annotation dataset provided by the UniProt Consortium (GOA: http://www.ebi.ac.uk/GOA) is a comprehensive set of evidenced-based associations between terms from the Gene Ontology resource and UniProtKB proteins. Currently supplying over 100 million annotations to 11 million proteins in more than 360,000 taxa, this resource has increased 2-fold over the last 2 years and has benefited from a wealth of checks to improve annotation correctness and consistency as well as now supplying a greater information content enabled by GO Consortium annotation format developments. Detailed, manual GO annotations obtained from the curation of peer-reviewed papers are directly contributed by all UniProt curators and supplemented with manual and electronic annotations from 36 model organism and domain-focused scientific resources. The inclusion of high-quality, automatic annotation predictions ensures the UniProt GO annotation dataset supplies functional information to a wide range of proteins, including those from poorly characterized, non-model organism species. UniProt GO annotations are freely available in a range of formats accessible by both file downloads and web-based views. In addition, the introduction of a new, normalized file format in 2010 has made for easier handling of the complete UniProt-GOA data set. PMID:22123736

  5. African American Literature, 1989-94: An Annotated Bibliography.

    ERIC Educational Resources Information Center

    Miller, R. Baxter; Butts, Tracy; Jones, Sharon

    1997-01-01

    Contains an annotated bibliography of African American literature (published between 1989 and 1994), including anthologies, fiction, poetry, drama, criticism, cultural studies, biography, interviews, and letters. (TB)

  6. The UniProt-GO Annotation database in 2011

    PubMed Central

    Dimmer, Emily C.; Huntley, Rachael P.; Alam-Faruque, Yasmin; Sawford, Tony; O'Donovan, Claire; Martin, Maria J.; Bely, Benoit; Browne, Paul; Mun Chan, Wei; Eberhardt, Ruth; Gardner, Michael; Laiho, Kati; Legge, Duncan; Magrane, Michele; Pichler, Klemens; Poggioli, Diego; Sehra, Harminder; Auchincloss, Andrea; Axelsen, Kristian; Blatter, Marie-Claude; Boutet, Emmanuel; Braconi-Quintaje, Silvia; Breuza, Lionel; Bridge, Alan; Coudert, Elizabeth; Estreicher, Anne; Famiglietti, Livia; Ferro-Rojas, Serenella; Feuermann, Marc; Gos, Arnaud; Gruaz-Gumowski, Nadine; Hinz, Ursula; Hulo, Chantal; James, Janet; Jimenez, Silvia; Jungo, Florence; Keller, Guillaume; Lemercier, Phillippe; Lieberherr, Damien; Masson, Patrick; Moinat, Madelaine; Pedruzzi, Ivo; Poux, Sylvain; Rivoire, Catherine; Roechert, Bernd; Schneider, Michael; Stutz, Andre; Sundaram, Shyamala; Tognolli, Michael; Bougueleret, Lydie; Argoud-Puy, Ghislaine; Cusin, Isabelle; Duek- Roggli, Paula; Xenarios, Ioannis; Apweiler, Rolf

    2012-01-01

    The GO annotation dataset provided by the UniProt Consortium (GOA: http://www.ebi.ac.uk/GOA) is a comprehensive set of evidenced-based associations between terms from the Gene Ontology resource and UniProtKB proteins. Currently supplying over 100 million annotations to 11 million proteins in more than 360 000 taxa, this resource has increased 2-fold over the last 2 years and has benefited from a wealth of checks to improve annotation correctness and consistency as well as now supplying a greater information content enabled by GO Consortium annotation format developments. Detailed, manual GO annotations obtained from the curation of peer-reviewed papers are directly contributed by all UniProt curators and supplemented with manual and electronic annotations from 36 model organism and domain-focused scientific resources. The inclusion of high-quality, automatic annotation predictions ensures the UniProt GO annotation dataset supplies functional information to a wide range of proteins, including those from poorly characterized, non-model organism species. UniProt GO annotations are freely available in a range of formats accessible by both file downloads and web-based views. In addition, the introduction of a new, normalized file format in 2010 has made for easier handling of the complete UniProt-GOA data set. PMID:22123736

  7. A Novel Approach to Semantic and Coreference Annotation at LLNL

    SciTech Connect

    Firpo, M

    2005-02-04

    A case is made for the importance of high quality semantic and coreference annotation. The challenges of providing such annotation are described. Asperger's Syndrome is introduced, and the connections are drawn between the needs of text annotation and the abilities of persons with Asperger's Syndrome to meet those needs. Finally, a pilot program is recommended wherein semantic annotation is performed by people with Asperger's Syndrome. The primary points embodied in this paper are as follows: (1) Document annotation is essential to the Natural Language Processing (NLP) projects at Lawrence Livermore National Laboratory (LLNL); (2) LLNL does not currently have a system in place to meet its need for text annotation; (3) Text annotation is challenging for a variety of reasons, many related to its very rote nature; (4) Persons with Asperger's Syndrome are particularly skilled at rote verbal tasks, and behavioral experts agree that they would excel at text annotation; and (6) A pilot study is recommend in which two to three people with Asperger's Syndrome annotate documents and then the quality and throughput of their work is evaluated relative to that of their neuro-typical peers.

  8. Towards a Library of Standard Operating Procedures (SOPs) for (meta)genomic annotation

    SciTech Connect

    Kyrpides, Nikos; Angiuoli, Samuel V.; Cochrane, Guy; Field, Dawn; Garrity, George; Gussman, Aaron; Kodira, Chinnappa D.; Klimke, William; Kyrpides, Nikos; Madupu, Ramana; Markowitz, Victor; Tatusova, Tatiana; Thomson, Nick; White, Owen

    2008-04-01

    Genome annotations describe the features of genomes and accompany sequences in genome databases. The methodologies used to generate genome annotation are diverse and typically vary amongst groups. Descriptions of the annotation procedure are helpful in interpreting genome annotation data. Standard Operating Procedures (SOPs) for genome annotation describe the processes that generate genome annotations. Some groups are currently documenting procedures but standards are lacking for structure and content of annotation SOPs. In addition, there is no central repository to store and disseminate procedures and protocols for genome annotation. We highlight the importance of SOPs for genome annotation and endorse a central online repository of SOPs.

  9. 11 CFR 9008.53 - Receipts and disbursements of municipal funds.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... (including reporting requirements) set forth at 11 CFR 9008.9 for convention committees. (b) Receipt and use... listed in 11 CFR 9008.52(b). ... Committees and Municipal Funds Representing a Convention City § 9008.53 Receipts and disbursements...

  10. 11 CFR 9008.53 - Receipts and disbursements of municipal funds.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... (including reporting requirements) set forth at 11 CFR 9008.9 for convention committees. (b) Receipt and use... listed in 11 CFR 9008.52(b). ... Committees and Municipal Funds Representing a Convention City § 9008.53 Receipts and disbursements...

  11. 11 CFR 9008.53 - Receipts and disbursements of municipal funds.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... (including reporting requirements) set forth at 11 CFR 9008.9 for convention committees. (b) Receipt and use... listed in 11 CFR 9008.52(b). ... Committees and Municipal Funds Representing a Convention City § 9008.53 Receipts and disbursements...

  12. 7 CFR 735.401 - Electronic warehouse receipt and USWA electronic document providers.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 7 2012-01-01 2012-01-01 false Electronic warehouse receipt and USWA electronic... UNITED STATES WAREHOUSE ACT Electronic Providers § 735.401 Electronic warehouse receipt and USWA electronic document providers. (a) To establish a USWA-authorized system to issue and transfer EWR's and...

  13. 7 CFR 735.401 - Electronic warehouse receipt and USWA electronic document providers.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 7 2013-01-01 2013-01-01 false Electronic warehouse receipt and USWA electronic... UNITED STATES WAREHOUSE ACT Electronic Providers § 735.401 Electronic warehouse receipt and USWA electronic document providers. (a) To establish a USWA-authorized system to issue and transfer EWR's and...

  14. 7 CFR 735.401 - Electronic warehouse receipt and USWA electronic document providers.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 7 2014-01-01 2014-01-01 false Electronic warehouse receipt and USWA electronic... UNITED STATES WAREHOUSE ACT Electronic Providers § 735.401 Electronic warehouse receipt and USWA electronic document providers. (a) To establish a USWA-authorized system to issue and transfer EWR's and...

  15. 7 CFR 735.401 - Electronic warehouse receipt and USWA electronic document providers.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 7 2011-01-01 2011-01-01 false Electronic warehouse receipt and USWA electronic... UNITED STATES WAREHOUSE ACT Electronic Providers § 735.401 Electronic warehouse receipt and USWA electronic document providers. (a) To establish a USWA-authorized system to issue and transfer EWR's and...

  16. 7 CFR 735.401 - Electronic warehouse receipt and USWA electronic document providers.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 7 2010-01-01 2010-01-01 false Electronic warehouse receipt and USWA electronic... UNITED STATES WAREHOUSE ACT Electronic Providers § 735.401 Electronic warehouse receipt and USWA electronic document providers. (a) To establish a USWA-authorized system to issue and transfer EWR's and...

  17. 40 CFR 123.42 - Receipt and use of Federal information.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... 40 Protection of Environment 22 2014-07-01 2013-07-01 true Receipt and use of Federal information. 123.42 Section 123.42 Protection of Environment ENVIRONMENTAL PROTECTION AGENCY (CONTINUED) WATER PROGRAMS STATE PROGRAM REQUIREMENTS Transfer of Information and Permit Review § 123.42 Receipt and use of Federal information. Upon approving a...

  18. 48 CFR 315.201 - Exchanges with industry before receipt of proposals.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 48 Federal Acquisition Regulations System 4 2014-10-01 2014-10-01 false Exchanges with industry before receipt of proposals. 315.201 Section 315.201 Federal Acquisition Regulations System HEALTH AND HUMAN SERVICES CONTRACTING METHODS AND CONTRACT TYPES CONTRACTING BY NEGOTIATION Solicitation and Receipt of Proposals and Information...

  19. 26 CFR 1.924(a)-1T - Temporary regulations; definition of foreign trading gross receipts.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... consent of each member small FSC to the apportionment plan for the taxable year shall be signified by... year in which the property is shipped to the purchaser, gross receipts from the sale do not constitute foreign trading gross receipts for any taxable year of the corporation. (c) Leases of export...

  20. 26 CFR 1.924(a)-1T - Temporary regulations; definition of foreign trading gross receipts.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... consent of each member small FSC to the apportionment plan for the taxable year shall be signified by... year in which the property is shipped to the purchaser, gross receipts from the sale do not constitute foreign trading gross receipts for any taxable year of the corporation. (c) Leases of export...