GREAT improves functional interpretation of cis-regulatory regions View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2010-05

AUTHORS

Cory Y McLean, Dave Bristor, Michael Hiller, Shoa L Clarke, Bruce T Schaar, Craig B Lowe, Aaron M Wenger, Gill Bejerano

ABSTRACT

We developed the Genomic Regions Enrichment of Annotations Tool (GREAT) to analyze the functional significance of cis-regulatory regions identified by localized measurements of DNA binding events across an entire genome. Whereas previous methods took into account only binding proximal to genes, GREAT is able to properly incorporate distal binding sites and control for false positives using a binomial test over the input genomic regions. GREAT incorporates annotations from 20 ontologies and is available as a web application. Applying GREAT to data sets from chromatin immunoprecipitation coupled with massively parallel sequencing (ChIP-seq) of multiple transcription-associated factors, including SRF, NRSF, GABP, Stat3 and p300 in different developmental contexts, we recover many functions of these factors that are missed by existing gene-based tools, and we generate testable hypotheses. The utility of GREAT is not limited to ChIP-seq, as it could also be applied to open chromatin, localized epigenomic markers and similar functional data sets, as well as comparative genomics sets. More... »

PAGES

495

References to SciGraph publications

  • 2000-05. Gene Ontology: tool for the unification of biology in NATURE GENETICS
  • 2008-11. An integrated software system for analyzing ChIP-chip and ChIP-seq data in NATURE BIOTECHNOLOGY
  • 2010-01. Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells in NATURE GENETICS
  • 2001-06. Genetics of craniofacial development and malformation in NATURE REVIEWS GENETICS
  • 2008-12. Design and analysis of ChIP-seq experiments for DNA-binding proteins in NATURE BIOTECHNOLOGY
  • 2006-01. Microarray data analysis: from disarray to consolidation and consensus in NATURE REVIEWS GENETICS
  • 2003-02. Pattern formation: old models out on a limb in NATURE REVIEWS GENETICS
  • 2006-05. A distal enhancer and an ultraconserved exon are derived from a novel retroposon in NATURE
  • 2007-01. SRF is a nuclear repressor of Smad3-mediated TGF-β signaling in ONCOGENE
  • 2007-08. ChIP-seq: welcome to the new frontier in NATURE METHODS
  • 2001-02. Neural plate patterning: Upstream and downstream of the isthmic organizer in NATURE REVIEWS NEUROSCIENCE
  • 2009-01. PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls in NATURE BIOTECHNOLOGY
  • 2006-12. cPath: open source software for collecting, storing, and querying biological pathways in BMC BIOINFORMATICS
  • 2007-07. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project in NATURE
  • 2009-02. ChIP-seq accurately predicts tissue-specific activity of enhancers in NATURE
  • 2008-04. Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids in NATURE GENETICS
  • 2009-10. ChIP–seq: advantages and challenges of a maturing technology in NATURE REVIEWS GENETICS
  • 2008-09. Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data in NATURE METHODS
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nbt.1630

    DOI

    http://dx.doi.org/10.1038/nbt.1630

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1023421025

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/20436461


    Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
    Incoming Citations Browse incoming citations for this publication using opencitations.net

    JSON-LD is the canonical representation for SciGraph data.

    TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

    [
      {
        "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
        "about": [
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0604", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Genetics", 
            "type": "DefinedTerm"
          }, 
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Biological Sciences", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Animals", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Chromatin Immunoprecipitation", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Data Mining", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Databases, Genetic", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "E1A-Associated p300 Protein", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Genome", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Genomics", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Humans", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Jurkat Cells", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Mice", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Protein Binding", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Regulatory Elements, Transcriptional", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Serum Response Factor", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Software", 
            "type": "DefinedTerm"
          }
        ], 
        "author": [
          {
            "affiliation": {
              "alternateName": "Stanford University", 
              "id": "https://www.grid.ac/institutes/grid.168010.e", 
              "name": [
                "Department of Computer Science, Stanford University, Stanford, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "McLean", 
            "givenName": "Cory Y", 
            "id": "sg:person.01127430011.25", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01127430011.25"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Stanford University", 
              "id": "https://www.grid.ac/institutes/grid.168010.e", 
              "name": [
                "Department of Computer Science, Stanford University, Stanford, California, USA.", 
                "Department of Developmental Biology, Stanford University, Stanford, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Bristor", 
            "givenName": "Dave", 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Stanford University", 
              "id": "https://www.grid.ac/institutes/grid.168010.e", 
              "name": [
                "Department of Developmental Biology, Stanford University, Stanford, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Hiller", 
            "givenName": "Michael", 
            "id": "sg:person.0624077563.24", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0624077563.24"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Stanford University", 
              "id": "https://www.grid.ac/institutes/grid.168010.e", 
              "name": [
                "Department of Genetics, Stanford University, Stanford, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Clarke", 
            "givenName": "Shoa L", 
            "id": "sg:person.0776571131.70", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0776571131.70"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Stanford University", 
              "id": "https://www.grid.ac/institutes/grid.168010.e", 
              "name": [
                "Department of Developmental Biology, Stanford University, Stanford, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Schaar", 
            "givenName": "Bruce T", 
            "id": "sg:person.01304565413.15", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01304565413.15"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "University of California, Santa Cruz", 
              "id": "https://www.grid.ac/institutes/grid.205975.c", 
              "name": [
                "Center for Biomolecular Science and Engineering, University of California Santa Cruz, Santa Cruz, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Lowe", 
            "givenName": "Craig B", 
            "id": "sg:person.01112215062.32", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01112215062.32"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Stanford University", 
              "id": "https://www.grid.ac/institutes/grid.168010.e", 
              "name": [
                "Department of Computer Science, Stanford University, Stanford, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Wenger", 
            "givenName": "Aaron M", 
            "id": "sg:person.01230602047.13", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01230602047.13"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Stanford University", 
              "id": "https://www.grid.ac/institutes/grid.168010.e", 
              "name": [
                "Department of Computer Science, Stanford University, Stanford, California, USA.", 
                "Department of Developmental Biology, Stanford University, Stanford, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Bejerano", 
            "givenName": "Gill", 
            "id": "sg:person.0677005046.22", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0677005046.22"
            ], 
            "type": "Person"
          }
        ], 
        "citation": [
          {
            "id": "https://doi.org/10.1016/s0959-437x(98)80069-5", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1000101601"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1128/mcb.15.11.5975", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1001195994"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/ng.113", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1002249517", 
              "https://doi.org/10.1038/ng.113"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1146/annurev.cellbio.17.1.87", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1002302887"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gkm415", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1003264848"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature05874", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1005913886", 
              "https://doi.org/10.1038/nature05874"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nrg2641", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1006115199", 
              "https://doi.org/10.1038/nrg2641"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nrg2641", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1006115199", 
              "https://doi.org/10.1038/nrg2641"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1126/science.1181369", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1007401642"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1126/science.1181369", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1007401642"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/hmg/ddg180", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1008338421"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/35053516", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1009729377", 
              "https://doi.org/10.1038/35053516"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/35053516", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1009729377", 
              "https://doi.org/10.1038/35053516"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/s0092-8674(03)00310-6", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1011398902"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/j.cell.2008.04.043", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1011546580"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/emboj/19.18.4955", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1011793173"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/s0065-2660(07)00006-5", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1014138830"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1101/gr.076117.108", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1014201375"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nrg1749", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1017349746", 
              "https://doi.org/10.1038/nrg1749"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nrg1749", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1017349746", 
              "https://doi.org/10.1038/nrg1749"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2105-7-497", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1018353192", 
              "https://doi.org/10.1186/1471-2105-7-497"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1126/science.1141319", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1018702276"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nrg1001", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1018812708", 
              "https://doi.org/10.1038/nrg1001"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nrg1001", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1018812708", 
              "https://doi.org/10.1038/nrg1001"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature07730", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1021031479", 
              "https://doi.org/10.1038/nature07730"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1126/science.1098119", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1022514256"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1101/gr.229102", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1022792016"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature04696", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1027944303", 
              "https://doi.org/10.1038/nature04696"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature04696", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1027944303", 
              "https://doi.org/10.1038/nature04696"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature04696", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1027944303", 
              "https://doi.org/10.1038/nature04696"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt.1508", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1028515757", 
              "https://doi.org/10.1038/nbt.1508"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.0611223104", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1028702517"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1074/jbc.275.17.12941", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1029068596"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/j.neuroscience.2006.07.007", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1029660441"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1152/ajpcell.00386.2006", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1030062242"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1101/gr.5571506", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1034278222"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gkm1005", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037194306"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nmeth.1246", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037362623", 
              "https://doi.org/10.1038/nmeth.1246"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/ng.496", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037625384", 
              "https://doi.org/10.1038/ng.496"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.0506580102", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037705714"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.0506580102", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037705714"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gkm961", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1038250419"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/bioinformatics/btl048", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1039821503"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/35076601", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1040585763", 
              "https://doi.org/10.1038/35076601"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/35076601", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1040585763", 
              "https://doi.org/10.1038/35076601"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/75556", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044135237", 
              "https://doi.org/10.1038/75556"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/75556", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044135237", 
              "https://doi.org/10.1038/75556"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/sj.onc.1209774", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044728705", 
              "https://doi.org/10.1038/sj.onc.1209774"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/sj.onc.1209774", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044728705", 
              "https://doi.org/10.1038/sj.onc.1209774"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1046/j.1432-1327.2002.02797.x", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1045533926"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1146/annurev.genom.7.080505.115623", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1047886041"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/bioinformatics/btp043", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1048899415"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/s0092-8674(02)00801-2", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050275686"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/bioinformatics/bti565", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050298763"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gkn886", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050768707"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gkp536", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050917758"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nmeth0807-613", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1051261645", 
              "https://doi.org/10.1038/nmeth0807-613"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt.1505", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1051483764", 
              "https://doi.org/10.1038/nbt.1505"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt.1518", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1052955805", 
              "https://doi.org/10.1038/nbt.1518"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1089/omi.2006.10.398", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1059303657"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://app.dimensions.ai/details/publication/pub.1075087245", 
            "type": "CreativeWork"
          }
        ], 
        "datePublished": "2010-05", 
        "datePublishedReg": "2010-05-01", 
        "description": "We developed the Genomic Regions Enrichment of Annotations Tool (GREAT) to analyze the functional significance of cis-regulatory regions identified by localized measurements of DNA binding events across an entire genome. Whereas previous methods took into account only binding proximal to genes, GREAT is able to properly incorporate distal binding sites and control for false positives using a binomial test over the input genomic regions. GREAT incorporates annotations from 20 ontologies and is available as a web application. Applying GREAT to data sets from chromatin immunoprecipitation coupled with massively parallel sequencing (ChIP-seq) of multiple transcription-associated factors, including SRF, NRSF, GABP, Stat3 and p300 in different developmental contexts, we recover many functions of these factors that are missed by existing gene-based tools, and we generate testable hypotheses. The utility of GREAT is not limited to ChIP-seq, as it could also be applied to open chromatin, localized epigenomic markers and similar functional data sets, as well as comparative genomics sets.", 
        "genre": "research_article", 
        "id": "sg:pub.10.1038/nbt.1630", 
        "inLanguage": [
          "en"
        ], 
        "isAccessibleForFree": true, 
        "isFundedItemOf": [
          {
            "id": "sg:grant.2527964", 
            "type": "MonetaryGrant"
          }
        ], 
        "isPartOf": [
          {
            "id": "sg:journal.1115214", 
            "issn": [
              "1087-0156", 
              "1546-1696"
            ], 
            "name": "Nature Biotechnology", 
            "type": "Periodical"
          }, 
          {
            "issueNumber": "5", 
            "type": "PublicationIssue"
          }, 
          {
            "type": "PublicationVolume", 
            "volumeNumber": "28"
          }
        ], 
        "name": "GREAT improves functional interpretation of cis-regulatory regions", 
        "pagination": "495", 
        "productId": [
          {
            "name": "readcube_id", 
            "type": "PropertyValue", 
            "value": [
              "6f95a8769dd1963c65a445082e7cf62330c68737ae2af35c929ae937995946a6"
            ]
          }, 
          {
            "name": "pubmed_id", 
            "type": "PropertyValue", 
            "value": [
              "20436461"
            ]
          }, 
          {
            "name": "nlm_unique_id", 
            "type": "PropertyValue", 
            "value": [
              "9604648"
            ]
          }, 
          {
            "name": "doi", 
            "type": "PropertyValue", 
            "value": [
              "10.1038/nbt.1630"
            ]
          }, 
          {
            "name": "dimensions_id", 
            "type": "PropertyValue", 
            "value": [
              "pub.1023421025"
            ]
          }
        ], 
        "sameAs": [
          "https://doi.org/10.1038/nbt.1630", 
          "https://app.dimensions.ai/details/publication/pub.1023421025"
        ], 
        "sdDataset": "articles", 
        "sdDatePublished": "2019-04-10T14:49", 
        "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
        "sdPublisher": {
          "name": "Springer Nature - SN SciGraph project", 
          "type": "Organization"
        }, 
        "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000001_0000000264/records_8663_00000435.jsonl", 
        "type": "ScholarlyArticle", 
        "url": "https://www.nature.com/articles/nbt.1630"
      }
    ]
     

    Download the RDF metadata as:  json-ld nt turtle xml License info

    HOW TO GET THIS DATA PROGRAMMATICALLY:

    JSON-LD is a popular format for linked data which is fully compatible with JSON.

    curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1038/nbt.1630'

    N-Triples is a line-based linked data format ideal for batch operations.

    curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/nbt.1630'

    Turtle is a human-readable linked data format.

    curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/nbt.1630'

    RDF/XML is a standard XML format for linked data.

    curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/nbt.1630'


     

    This table displays all metadata directly associated to this object as RDF triples.

    347 TRIPLES      21 PREDICATES      93 URIs      35 LITERALS      23 BLANK NODES

    Subject Predicate Object
    1 sg:pub.10.1038/nbt.1630 schema:about N017148e50cdd43f9aeb874ce3a97ef38
    2 N054129a543944393ab47d55514e557f8
    3 N163ca0bbba4c4b8ea8df1dcc5c36f77e
    4 N1c1e0570e55d418892ebbed839f1d69a
    5 N43d47eb0ca7c4351a934c11ad0facd90
    6 N45337ab5ac764828b7864cef6bb7c6de
    7 N524fcb9720c04504978ac1dbd8b803a6
    8 N70520849671c43c091249ac5a4bb6645
    9 N9f0d7a776af648f7939b0df3df999cb1
    10 Nb5d68e587fad45409166bed5b524a293
    11 Nb7f66197856c41e78bfe0aab300eb69a
    12 Nce29e98beb34440b836c33accbe1f0ee
    13 Ndb9eeb94795045f6bef701d5218fd24a
    14 Ndf3ac5a321184995bdc00310b5c47658
    15 anzsrc-for:06
    16 anzsrc-for:0604
    17 schema:author Nda96c1a323794cabbc08f15a27fe559b
    18 schema:citation sg:pub.10.1038/35053516
    19 sg:pub.10.1038/35076601
    20 sg:pub.10.1038/75556
    21 sg:pub.10.1038/nature04696
    22 sg:pub.10.1038/nature05874
    23 sg:pub.10.1038/nature07730
    24 sg:pub.10.1038/nbt.1505
    25 sg:pub.10.1038/nbt.1508
    26 sg:pub.10.1038/nbt.1518
    27 sg:pub.10.1038/ng.113
    28 sg:pub.10.1038/ng.496
    29 sg:pub.10.1038/nmeth.1246
    30 sg:pub.10.1038/nmeth0807-613
    31 sg:pub.10.1038/nrg1001
    32 sg:pub.10.1038/nrg1749
    33 sg:pub.10.1038/nrg2641
    34 sg:pub.10.1038/sj.onc.1209774
    35 sg:pub.10.1186/1471-2105-7-497
    36 https://app.dimensions.ai/details/publication/pub.1075087245
    37 https://doi.org/10.1016/j.cell.2008.04.043
    38 https://doi.org/10.1016/j.neuroscience.2006.07.007
    39 https://doi.org/10.1016/s0065-2660(07)00006-5
    40 https://doi.org/10.1016/s0092-8674(02)00801-2
    41 https://doi.org/10.1016/s0092-8674(03)00310-6
    42 https://doi.org/10.1016/s0959-437x(98)80069-5
    43 https://doi.org/10.1046/j.1432-1327.2002.02797.x
    44 https://doi.org/10.1073/pnas.0506580102
    45 https://doi.org/10.1073/pnas.0611223104
    46 https://doi.org/10.1074/jbc.275.17.12941
    47 https://doi.org/10.1089/omi.2006.10.398
    48 https://doi.org/10.1093/bioinformatics/bti565
    49 https://doi.org/10.1093/bioinformatics/btl048
    50 https://doi.org/10.1093/bioinformatics/btp043
    51 https://doi.org/10.1093/emboj/19.18.4955
    52 https://doi.org/10.1093/hmg/ddg180
    53 https://doi.org/10.1093/nar/gkm1005
    54 https://doi.org/10.1093/nar/gkm415
    55 https://doi.org/10.1093/nar/gkm961
    56 https://doi.org/10.1093/nar/gkn886
    57 https://doi.org/10.1093/nar/gkp536
    58 https://doi.org/10.1101/gr.076117.108
    59 https://doi.org/10.1101/gr.229102
    60 https://doi.org/10.1101/gr.5571506
    61 https://doi.org/10.1126/science.1098119
    62 https://doi.org/10.1126/science.1141319
    63 https://doi.org/10.1126/science.1181369
    64 https://doi.org/10.1128/mcb.15.11.5975
    65 https://doi.org/10.1146/annurev.cellbio.17.1.87
    66 https://doi.org/10.1146/annurev.genom.7.080505.115623
    67 https://doi.org/10.1152/ajpcell.00386.2006
    68 schema:datePublished 2010-05
    69 schema:datePublishedReg 2010-05-01
    70 schema:description We developed the Genomic Regions Enrichment of Annotations Tool (GREAT) to analyze the functional significance of cis-regulatory regions identified by localized measurements of DNA binding events across an entire genome. Whereas previous methods took into account only binding proximal to genes, GREAT is able to properly incorporate distal binding sites and control for false positives using a binomial test over the input genomic regions. GREAT incorporates annotations from 20 ontologies and is available as a web application. Applying GREAT to data sets from chromatin immunoprecipitation coupled with massively parallel sequencing (ChIP-seq) of multiple transcription-associated factors, including SRF, NRSF, GABP, Stat3 and p300 in different developmental contexts, we recover many functions of these factors that are missed by existing gene-based tools, and we generate testable hypotheses. The utility of GREAT is not limited to ChIP-seq, as it could also be applied to open chromatin, localized epigenomic markers and similar functional data sets, as well as comparative genomics sets.
    71 schema:genre research_article
    72 schema:inLanguage en
    73 schema:isAccessibleForFree true
    74 schema:isPartOf N6446a860606e4a3d982aca628f552295
    75 Nfc5f8294ac3e4b54aa12d85a7d0b8fc0
    76 sg:journal.1115214
    77 schema:name GREAT improves functional interpretation of cis-regulatory regions
    78 schema:pagination 495
    79 schema:productId N20eee2cd52664b3594c22c851b49d24b
    80 N24215f72cf044c418d87627a5b085587
    81 N418241c6db8c440399541f99a10f893a
    82 N65f441e083b5496caf2fcee69ec1a8be
    83 Nf96af80635264259aa845cdba675e7f3
    84 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023421025
    85 https://doi.org/10.1038/nbt.1630
    86 schema:sdDatePublished 2019-04-10T14:49
    87 schema:sdLicense https://scigraph.springernature.com/explorer/license/
    88 schema:sdPublisher Ndf233ab2ce244a949504e35caf9cf8a3
    89 schema:url https://www.nature.com/articles/nbt.1630
    90 sgo:license sg:explorer/license/
    91 sgo:sdDataset articles
    92 rdf:type schema:ScholarlyArticle
    93 N017148e50cdd43f9aeb874ce3a97ef38 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    94 schema:name Genomics
    95 rdf:type schema:DefinedTerm
    96 N054129a543944393ab47d55514e557f8 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    97 schema:name Animals
    98 rdf:type schema:DefinedTerm
    99 N163ca0bbba4c4b8ea8df1dcc5c36f77e schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    100 schema:name Jurkat Cells
    101 rdf:type schema:DefinedTerm
    102 N1c1e0570e55d418892ebbed839f1d69a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    103 schema:name Serum Response Factor
    104 rdf:type schema:DefinedTerm
    105 N20a001848d5e484abc0b5a17ac114c9f rdf:first Nb1f2d1328aaf4d78be03575779fad4a7
    106 rdf:rest N58286f911bca4dc68d906e63908aac64
    107 N20eee2cd52664b3594c22c851b49d24b schema:name readcube_id
    108 schema:value 6f95a8769dd1963c65a445082e7cf62330c68737ae2af35c929ae937995946a6
    109 rdf:type schema:PropertyValue
    110 N24215f72cf044c418d87627a5b085587 schema:name doi
    111 schema:value 10.1038/nbt.1630
    112 rdf:type schema:PropertyValue
    113 N3aaf8745780c44b1bf1da6fb42c8e328 rdf:first sg:person.01304565413.15
    114 rdf:rest N881b80d0cebc4fb99cde17c0092432e3
    115 N418241c6db8c440399541f99a10f893a schema:name pubmed_id
    116 schema:value 20436461
    117 rdf:type schema:PropertyValue
    118 N43d47eb0ca7c4351a934c11ad0facd90 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    119 schema:name Genome
    120 rdf:type schema:DefinedTerm
    121 N45337ab5ac764828b7864cef6bb7c6de schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    122 schema:name Data Mining
    123 rdf:type schema:DefinedTerm
    124 N524fcb9720c04504978ac1dbd8b803a6 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    125 schema:name Mice
    126 rdf:type schema:DefinedTerm
    127 N58286f911bca4dc68d906e63908aac64 rdf:first sg:person.0624077563.24
    128 rdf:rest N872166f3eef4454eaa83d39265676e62
    129 N5cfbf1c0d4fc4675af451a847be9f246 rdf:first sg:person.01230602047.13
    130 rdf:rest Nc598ccab38fa495e90c5a88cff965fb3
    131 N6446a860606e4a3d982aca628f552295 schema:issueNumber 5
    132 rdf:type schema:PublicationIssue
    133 N65f441e083b5496caf2fcee69ec1a8be schema:name dimensions_id
    134 schema:value pub.1023421025
    135 rdf:type schema:PropertyValue
    136 N70520849671c43c091249ac5a4bb6645 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    137 schema:name Software
    138 rdf:type schema:DefinedTerm
    139 N872166f3eef4454eaa83d39265676e62 rdf:first sg:person.0776571131.70
    140 rdf:rest N3aaf8745780c44b1bf1da6fb42c8e328
    141 N881b80d0cebc4fb99cde17c0092432e3 rdf:first sg:person.01112215062.32
    142 rdf:rest N5cfbf1c0d4fc4675af451a847be9f246
    143 N9f0d7a776af648f7939b0df3df999cb1 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    144 schema:name Databases, Genetic
    145 rdf:type schema:DefinedTerm
    146 Nb1f2d1328aaf4d78be03575779fad4a7 schema:affiliation https://www.grid.ac/institutes/grid.168010.e
    147 schema:familyName Bristor
    148 schema:givenName Dave
    149 rdf:type schema:Person
    150 Nb5d68e587fad45409166bed5b524a293 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    151 schema:name Humans
    152 rdf:type schema:DefinedTerm
    153 Nb7f66197856c41e78bfe0aab300eb69a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    154 schema:name Regulatory Elements, Transcriptional
    155 rdf:type schema:DefinedTerm
    156 Nc598ccab38fa495e90c5a88cff965fb3 rdf:first sg:person.0677005046.22
    157 rdf:rest rdf:nil
    158 Nce29e98beb34440b836c33accbe1f0ee schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    159 schema:name E1A-Associated p300 Protein
    160 rdf:type schema:DefinedTerm
    161 Nda96c1a323794cabbc08f15a27fe559b rdf:first sg:person.01127430011.25
    162 rdf:rest N20a001848d5e484abc0b5a17ac114c9f
    163 Ndb9eeb94795045f6bef701d5218fd24a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    164 schema:name Chromatin Immunoprecipitation
    165 rdf:type schema:DefinedTerm
    166 Ndf233ab2ce244a949504e35caf9cf8a3 schema:name Springer Nature - SN SciGraph project
    167 rdf:type schema:Organization
    168 Ndf3ac5a321184995bdc00310b5c47658 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    169 schema:name Protein Binding
    170 rdf:type schema:DefinedTerm
    171 Nf96af80635264259aa845cdba675e7f3 schema:name nlm_unique_id
    172 schema:value 9604648
    173 rdf:type schema:PropertyValue
    174 Nfc5f8294ac3e4b54aa12d85a7d0b8fc0 schema:volumeNumber 28
    175 rdf:type schema:PublicationVolume
    176 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
    177 schema:name Biological Sciences
    178 rdf:type schema:DefinedTerm
    179 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
    180 schema:name Genetics
    181 rdf:type schema:DefinedTerm
    182 sg:grant.2527964 http://pending.schema.org/fundedItem sg:pub.10.1038/nbt.1630
    183 rdf:type schema:MonetaryGrant
    184 sg:journal.1115214 schema:issn 1087-0156
    185 1546-1696
    186 schema:name Nature Biotechnology
    187 rdf:type schema:Periodical
    188 sg:person.01112215062.32 schema:affiliation https://www.grid.ac/institutes/grid.205975.c
    189 schema:familyName Lowe
    190 schema:givenName Craig B
    191 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01112215062.32
    192 rdf:type schema:Person
    193 sg:person.01127430011.25 schema:affiliation https://www.grid.ac/institutes/grid.168010.e
    194 schema:familyName McLean
    195 schema:givenName Cory Y
    196 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01127430011.25
    197 rdf:type schema:Person
    198 sg:person.01230602047.13 schema:affiliation https://www.grid.ac/institutes/grid.168010.e
    199 schema:familyName Wenger
    200 schema:givenName Aaron M
    201 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01230602047.13
    202 rdf:type schema:Person
    203 sg:person.01304565413.15 schema:affiliation https://www.grid.ac/institutes/grid.168010.e
    204 schema:familyName Schaar
    205 schema:givenName Bruce T
    206 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01304565413.15
    207 rdf:type schema:Person
    208 sg:person.0624077563.24 schema:affiliation https://www.grid.ac/institutes/grid.168010.e
    209 schema:familyName Hiller
    210 schema:givenName Michael
    211 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0624077563.24
    212 rdf:type schema:Person
    213 sg:person.0677005046.22 schema:affiliation https://www.grid.ac/institutes/grid.168010.e
    214 schema:familyName Bejerano
    215 schema:givenName Gill
    216 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0677005046.22
    217 rdf:type schema:Person
    218 sg:person.0776571131.70 schema:affiliation https://www.grid.ac/institutes/grid.168010.e
    219 schema:familyName Clarke
    220 schema:givenName Shoa L
    221 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0776571131.70
    222 rdf:type schema:Person
    223 sg:pub.10.1038/35053516 schema:sameAs https://app.dimensions.ai/details/publication/pub.1009729377
    224 https://doi.org/10.1038/35053516
    225 rdf:type schema:CreativeWork
    226 sg:pub.10.1038/35076601 schema:sameAs https://app.dimensions.ai/details/publication/pub.1040585763
    227 https://doi.org/10.1038/35076601
    228 rdf:type schema:CreativeWork
    229 sg:pub.10.1038/75556 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044135237
    230 https://doi.org/10.1038/75556
    231 rdf:type schema:CreativeWork
    232 sg:pub.10.1038/nature04696 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027944303
    233 https://doi.org/10.1038/nature04696
    234 rdf:type schema:CreativeWork
    235 sg:pub.10.1038/nature05874 schema:sameAs https://app.dimensions.ai/details/publication/pub.1005913886
    236 https://doi.org/10.1038/nature05874
    237 rdf:type schema:CreativeWork
    238 sg:pub.10.1038/nature07730 schema:sameAs https://app.dimensions.ai/details/publication/pub.1021031479
    239 https://doi.org/10.1038/nature07730
    240 rdf:type schema:CreativeWork
    241 sg:pub.10.1038/nbt.1505 schema:sameAs https://app.dimensions.ai/details/publication/pub.1051483764
    242 https://doi.org/10.1038/nbt.1505
    243 rdf:type schema:CreativeWork
    244 sg:pub.10.1038/nbt.1508 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028515757
    245 https://doi.org/10.1038/nbt.1508
    246 rdf:type schema:CreativeWork
    247 sg:pub.10.1038/nbt.1518 schema:sameAs https://app.dimensions.ai/details/publication/pub.1052955805
    248 https://doi.org/10.1038/nbt.1518
    249 rdf:type schema:CreativeWork
    250 sg:pub.10.1038/ng.113 schema:sameAs https://app.dimensions.ai/details/publication/pub.1002249517
    251 https://doi.org/10.1038/ng.113
    252 rdf:type schema:CreativeWork
    253 sg:pub.10.1038/ng.496 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037625384
    254 https://doi.org/10.1038/ng.496
    255 rdf:type schema:CreativeWork
    256 sg:pub.10.1038/nmeth.1246 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037362623
    257 https://doi.org/10.1038/nmeth.1246
    258 rdf:type schema:CreativeWork
    259 sg:pub.10.1038/nmeth0807-613 schema:sameAs https://app.dimensions.ai/details/publication/pub.1051261645
    260 https://doi.org/10.1038/nmeth0807-613
    261 rdf:type schema:CreativeWork
    262 sg:pub.10.1038/nrg1001 schema:sameAs https://app.dimensions.ai/details/publication/pub.1018812708
    263 https://doi.org/10.1038/nrg1001
    264 rdf:type schema:CreativeWork
    265 sg:pub.10.1038/nrg1749 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017349746
    266 https://doi.org/10.1038/nrg1749
    267 rdf:type schema:CreativeWork
    268 sg:pub.10.1038/nrg2641 schema:sameAs https://app.dimensions.ai/details/publication/pub.1006115199
    269 https://doi.org/10.1038/nrg2641
    270 rdf:type schema:CreativeWork
    271 sg:pub.10.1038/sj.onc.1209774 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044728705
    272 https://doi.org/10.1038/sj.onc.1209774
    273 rdf:type schema:CreativeWork
    274 sg:pub.10.1186/1471-2105-7-497 schema:sameAs https://app.dimensions.ai/details/publication/pub.1018353192
    275 https://doi.org/10.1186/1471-2105-7-497
    276 rdf:type schema:CreativeWork
    277 https://app.dimensions.ai/details/publication/pub.1075087245 schema:CreativeWork
    278 https://doi.org/10.1016/j.cell.2008.04.043 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011546580
    279 rdf:type schema:CreativeWork
    280 https://doi.org/10.1016/j.neuroscience.2006.07.007 schema:sameAs https://app.dimensions.ai/details/publication/pub.1029660441
    281 rdf:type schema:CreativeWork
    282 https://doi.org/10.1016/s0065-2660(07)00006-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014138830
    283 rdf:type schema:CreativeWork
    284 https://doi.org/10.1016/s0092-8674(02)00801-2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050275686
    285 rdf:type schema:CreativeWork
    286 https://doi.org/10.1016/s0092-8674(03)00310-6 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011398902
    287 rdf:type schema:CreativeWork
    288 https://doi.org/10.1016/s0959-437x(98)80069-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000101601
    289 rdf:type schema:CreativeWork
    290 https://doi.org/10.1046/j.1432-1327.2002.02797.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1045533926
    291 rdf:type schema:CreativeWork
    292 https://doi.org/10.1073/pnas.0506580102 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037705714
    293 rdf:type schema:CreativeWork
    294 https://doi.org/10.1073/pnas.0611223104 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028702517
    295 rdf:type schema:CreativeWork
    296 https://doi.org/10.1074/jbc.275.17.12941 schema:sameAs https://app.dimensions.ai/details/publication/pub.1029068596
    297 rdf:type schema:CreativeWork
    298 https://doi.org/10.1089/omi.2006.10.398 schema:sameAs https://app.dimensions.ai/details/publication/pub.1059303657
    299 rdf:type schema:CreativeWork
    300 https://doi.org/10.1093/bioinformatics/bti565 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050298763
    301 rdf:type schema:CreativeWork
    302 https://doi.org/10.1093/bioinformatics/btl048 schema:sameAs https://app.dimensions.ai/details/publication/pub.1039821503
    303 rdf:type schema:CreativeWork
    304 https://doi.org/10.1093/bioinformatics/btp043 schema:sameAs https://app.dimensions.ai/details/publication/pub.1048899415
    305 rdf:type schema:CreativeWork
    306 https://doi.org/10.1093/emboj/19.18.4955 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011793173
    307 rdf:type schema:CreativeWork
    308 https://doi.org/10.1093/hmg/ddg180 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008338421
    309 rdf:type schema:CreativeWork
    310 https://doi.org/10.1093/nar/gkm1005 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037194306
    311 rdf:type schema:CreativeWork
    312 https://doi.org/10.1093/nar/gkm415 schema:sameAs https://app.dimensions.ai/details/publication/pub.1003264848
    313 rdf:type schema:CreativeWork
    314 https://doi.org/10.1093/nar/gkm961 schema:sameAs https://app.dimensions.ai/details/publication/pub.1038250419
    315 rdf:type schema:CreativeWork
    316 https://doi.org/10.1093/nar/gkn886 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050768707
    317 rdf:type schema:CreativeWork
    318 https://doi.org/10.1093/nar/gkp536 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050917758
    319 rdf:type schema:CreativeWork
    320 https://doi.org/10.1101/gr.076117.108 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014201375
    321 rdf:type schema:CreativeWork
    322 https://doi.org/10.1101/gr.229102 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022792016
    323 rdf:type schema:CreativeWork
    324 https://doi.org/10.1101/gr.5571506 schema:sameAs https://app.dimensions.ai/details/publication/pub.1034278222
    325 rdf:type schema:CreativeWork
    326 https://doi.org/10.1126/science.1098119 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022514256
    327 rdf:type schema:CreativeWork
    328 https://doi.org/10.1126/science.1141319 schema:sameAs https://app.dimensions.ai/details/publication/pub.1018702276
    329 rdf:type schema:CreativeWork
    330 https://doi.org/10.1126/science.1181369 schema:sameAs https://app.dimensions.ai/details/publication/pub.1007401642
    331 rdf:type schema:CreativeWork
    332 https://doi.org/10.1128/mcb.15.11.5975 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001195994
    333 rdf:type schema:CreativeWork
    334 https://doi.org/10.1146/annurev.cellbio.17.1.87 schema:sameAs https://app.dimensions.ai/details/publication/pub.1002302887
    335 rdf:type schema:CreativeWork
    336 https://doi.org/10.1146/annurev.genom.7.080505.115623 schema:sameAs https://app.dimensions.ai/details/publication/pub.1047886041
    337 rdf:type schema:CreativeWork
    338 https://doi.org/10.1152/ajpcell.00386.2006 schema:sameAs https://app.dimensions.ai/details/publication/pub.1030062242
    339 rdf:type schema:CreativeWork
    340 https://www.grid.ac/institutes/grid.168010.e schema:alternateName Stanford University
    341 schema:name Department of Computer Science, Stanford University, Stanford, California, USA.
    342 Department of Developmental Biology, Stanford University, Stanford, California, USA.
    343 Department of Genetics, Stanford University, Stanford, California, USA.
    344 rdf:type schema:Organization
    345 https://www.grid.ac/institutes/grid.205975.c schema:alternateName University of California, Santa Cruz
    346 schema:name Center for Biomolecular Science and Engineering, University of California Santa Cruz, Santa Cruz, California, USA.
    347 rdf:type schema:Organization
     




    Preview window. Press ESC to close (or click here)


    ...