Brad T Sherman

Summary

Affiliation: National Institutes of Health
Country: USA

Publications

  1. pdf DAVID: Database for Annotation, Visualization, and Integrated Discovery
    Glynn Dennis
    Science Applications International Corporation Frederick, Clinical Services Program, Laboratory of Immunopathogenesis and Bioinformatics, National Cancer Institute at Frederick, MD 21702, USA
    Genome Biol 4:P3. 2003
  2. pmc DAVID Bioinformatics Resources: expanded annotation database and novel algorithms to better extract biology from large gene lists
    Da Wei Huang
    Laboratory of Immunopathogenesis and Bioinformatics, SAIC Frederick, Inc, National Cancer Institute at Frederick, MD 21702, USA
    Nucleic Acids Res 35:W169-75. 2007
  3. pmc Gene duplications in prokaryotes can be associated with environmental adaptation
    Marit S Bratlie
    Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway
    BMC Genomics 11:588. 2010
  4. pmc Pre-gastrula expression of zebrafish extraembryonic genes
    Sung Kook Hong
    Medical Genetics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA
    BMC Dev Biol 10:42. 2010
  5. pmc EMAAS: an extensible grid-based rich internet application for microarray data analysis and management
    G Barton
    Division of Molecular Biosciences, Faculty of Natural Sciences, Centre for Bioinformatics, Imperial College, London, UK
    BMC Bioinformatics 9:493. 2008
  6. pmc DAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput gene functional analysis
    Brad T Sherman
    Laboratory of Immunopathogenesis and Bioinformatics, Clinical Services Program, SAIC Frederick, Inc, National Cancer Institute at Frederick, Frederick, MD 21702, USA
    BMC Bioinformatics 8:426. 2007
  7. pmc The DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists
    Da Wei Huang
    Laboratory of Immunopathogenesis and Bioinformatics, Clinical Services Program, SAIC Frederick, Inc, National Cancer Institute at Frederick, Frederick, MD 21702, USA
    Genome Biol 8:R183. 2007
  8. doi request reprint Extracting biological meaning from large gene lists with DAVID
    Da Wei Huang
    National Cancer Institute at Frederick, Frederick, Maryland, USA
    Curr Protoc Bioinformatics . 2009
  9. pmc DAVID-WS: a stateful web service to facilitate gene/protein list analysis
    Xiaoli Jiao
    Laboratory of Immunopathogenesis and Bioinformatics, National Cancer Institute at Frederick, Frederick, MD 21702, USA
    Bioinformatics 28:1805-6. 2012
  10. pmc Identifying biological themes within lists of genes with EASE
    Douglas A Hosack
    Laboratory of Immunopathogenesis and Bioinformatics, PO Box B, SAIC Frederick, Inc, Frederick, MD 21702, USA
    Genome Biol 4:R70. 2003

Collaborators

Detail Information

Publications12

  1. pdf DAVID: Database for Annotation, Visualization, and Integrated Discovery
    Glynn Dennis
    Science Applications International Corporation Frederick, Clinical Services Program, Laboratory of Immunopathogenesis and Bioinformatics, National Cancer Institute at Frederick, MD 21702, USA
    Genome Biol 4:P3. 2003
    ..A more judicious approach is to provide query-based access to an integrated database that disseminates biologically rich information across large datasets and displays graphic summaries of functional information...
  2. pmc DAVID Bioinformatics Resources: expanded annotation database and novel algorithms to better extract biology from large gene lists
    Da Wei Huang
    Laboratory of Immunopathogenesis and Bioinformatics, SAIC Frederick, Inc, National Cancer Institute at Frederick, MD 21702, USA
    Nucleic Acids Res 35:W169-75. 2007
    ..With DAVID (http://david.niaid.nih.gov), investigators gain more power to interpret the biological mechanisms associated with large gene lists...
  3. pmc Gene duplications in prokaryotes can be associated with environmental adaptation
    Marit S Bratlie
    Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway
    BMC Genomics 11:588. 2010
    ..The aim of our analysis is to investigate the properties of paralog-forming genes in prokaryotes, and to analyse the role of these retained paralogs by relating gene properties to life style of the corresponding prokaryotes...
  4. pmc Pre-gastrula expression of zebrafish extraembryonic genes
    Sung Kook Hong
    Medical Genetics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA
    BMC Dev Biol 10:42. 2010
    ..The yolk syncytial layer initially forms below the margin, in a domain called the external yolk syncytial layer (E-YSL)...
  5. pmc EMAAS: an extensible grid-based rich internet application for microarray data analysis and management
    G Barton
    Division of Molecular Biosciences, Faculty of Natural Sciences, Centre for Bioinformatics, Imperial College, London, UK
    BMC Bioinformatics 9:493. 2008
    ..Our aim was to develop a distributed e-support system for microarray data analysis and management...
  6. pmc DAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput gene functional analysis
    Brad T Sherman
    Laboratory of Immunopathogenesis and Bioinformatics, Clinical Services Program, SAIC Frederick, Inc, National Cancer Institute at Frederick, Frederick, MD 21702, USA
    BMC Bioinformatics 8:426. 2007
    ..Thus, a highly centralized and ready-to-use gene-annotation knowledgebase is in demand for high throughput gene functional analysis...
  7. pmc The DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists
    Da Wei Huang
    Laboratory of Immunopathogenesis and Bioinformatics, Clinical Services Program, SAIC Frederick, Inc, National Cancer Institute at Frederick, Frederick, MD 21702, USA
    Genome Biol 8:R183. 2007
    ..It is a powerful method to group functionally related genes and terms into a manageable number of biological modules for efficient interpretation of gene lists in a network context...
  8. doi request reprint Extracting biological meaning from large gene lists with DAVID
    Da Wei Huang
    National Cancer Institute at Frederick, Frederick, Maryland, USA
    Curr Protoc Bioinformatics . 2009
    ..This unit will describe step-by-step procedures to use DAVID tools, as well as a brief rationale and key parameters in the DAVID analysis...
  9. pmc DAVID-WS: a stateful web service to facilitate gene/protein list analysis
    Xiaoli Jiao
    Laboratory of Immunopathogenesis and Bioinformatics, National Cancer Institute at Frederick, Frederick, MD 21702, USA
    Bioinformatics 28:1805-6. 2012
    ..DAVID-WS (web service) has been developed to automate user tasks by providing stateful web services to access DAVID programmatically without the need for human interactions...
  10. pmc Identifying biological themes within lists of genes with EASE
    Douglas A Hosack
    Laboratory of Immunopathogenesis and Bioinformatics, PO Box B, SAIC Frederick, Inc, Frederick, MD 21702, USA
    Genome Biol 4:R70. 2003
    ..EASE is a powerful tool for rapidly converting the results of functional genomics studies from 'genes' to 'themes'...
  11. doi request reprint Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
    Da Wei Huang
    Laboratory of Immunopathogenesis and Bioinformatics, Clinical Services Program, SAIC Frederick Inc, National Cancer Institute at Frederick, Frederick, Maryland 21702, USA
    Nat Protoc 4:44-57. 2009
    ..By following this protocol, investigators are able to gain an in-depth understanding of the biological themes in lists of genes that are enriched in genome-scale studies...
  12. pmc Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
    Da Wei Huang
    Laboratory of Immunopathogenesis and Bioinformatics, Clinical Services Program, SAIC Frederick, Inc, National Cancer Institute at Frederick, Frederick, MD 21702, USA
    Nucleic Acids Res 37:1-13. 2009
    ....