Ontology type: schema:ScholarlyArticle Open Access: True
2010-05-02
AUTHORSCory Y McLean, Dave Bristor, Michael Hiller, Shoa L Clarke, Bruce T Schaar, Craig B Lowe, Aaron M Wenger, Gill Bejerano
ABSTRACTChIP-Seq data are usually analyzed with approaches developed for microarrays, which only consider binding events within a few kilobases of a gene. McLean et al. present an algorithm that takes into account more distant events, thereby improving functional annotation of regulatory regions.
PAGES495-501
http://scigraph.springernature.com/pub.10.1038/nbt.1630
DOIhttp://dx.doi.org/10.1038/nbt.1630
DIMENSIONShttps://app.dimensions.ai/details/publication/pub.1023421025
PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/20436461
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/2008/06",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Biological Sciences",
"type": "DefinedTerm"
},
{
"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"
},
{
"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": "Department of Computer Science, Stanford University, Stanford, California, USA",
"id": "http://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": "Department of Developmental Biology, Stanford University, Stanford, California, USA",
"id": "http://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": "Department of Developmental Biology, Stanford University, Stanford, California, USA",
"id": "http://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": "Department of Genetics, Stanford University, Stanford, California, USA",
"id": "http://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": "Department of Developmental Biology, Stanford University, Stanford, California, USA",
"id": "http://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": "Center for Biomolecular Science and Engineering, University of California Santa Cruz, Santa Cruz, California, USA",
"id": "http://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": "Department of Computer Science, Stanford University, Stanford, California, USA",
"id": "http://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.012106407613.52",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012106407613.52"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Department of Developmental Biology, Stanford University, Stanford, California, USA",
"id": "http://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": "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.10.1038/75556",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1044135237",
"https://doi.org/10.1038/75556"
],
"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/nature04696",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1027944303",
"https://doi.org/10.1038/nature04696"
],
"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": "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": "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": "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/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/ng.113",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1002249517",
"https://doi.org/10.1038/ng.113"
],
"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/nrg2641",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1006115199",
"https://doi.org/10.1038/nrg2641"
],
"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.10.1038/35076601",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1040585763",
"https://doi.org/10.1038/35076601"
],
"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/nbt.1518",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1052955805",
"https://doi.org/10.1038/nbt.1518"
],
"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/nature07730",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1021031479",
"https://doi.org/10.1038/nature07730"
],
"type": "CreativeWork"
}
],
"datePublished": "2010-05-02",
"datePublishedReg": "2010-05-02",
"description": "ChIP-Seq data are usually analyzed with approaches developed for microarrays, which only consider binding events within a few kilobases of a gene. McLean et al. present an algorithm that takes into account more distant events, thereby improving functional annotation of regulatory regions.",
"genre": "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",
"publisher": "Springer Nature",
"type": "Periodical"
},
{
"issueNumber": "5",
"type": "PublicationIssue"
},
{
"type": "PublicationVolume",
"volumeNumber": "28"
}
],
"keywords": [
"microarrays",
"events",
"ChIP-seq data",
"data",
"approach",
"kilobases",
"genes",
"account",
"distant events",
"functional annotation",
"annotation",
"regulatory region",
"region",
"functional interpretation",
"interpretation",
"cis-regulatory regions",
"algorithm",
"Great"
],
"name": "GREAT improves functional interpretation of cis-regulatory regions",
"pagination": "495-501",
"productId": [
{
"name": "dimensions_id",
"type": "PropertyValue",
"value": [
"pub.1023421025"
]
},
{
"name": "doi",
"type": "PropertyValue",
"value": [
"10.1038/nbt.1630"
]
},
{
"name": "pubmed_id",
"type": "PropertyValue",
"value": [
"20436461"
]
}
],
"sameAs": [
"https://doi.org/10.1038/nbt.1630",
"https://app.dimensions.ai/details/publication/pub.1023421025"
],
"sdDataset": "articles",
"sdDatePublished": "2022-05-20T07:26",
"sdLicense": "https://scigraph.springernature.com/explorer/license/",
"sdPublisher": {
"name": "Springer Nature - SN SciGraph project",
"type": "Organization"
},
"sdSource": "s3://com-springernature-scigraph/baseset/20220519/entities/gbq_results/article/article_513.jsonl",
"type": "ScholarlyArticle",
"url": "https://doi.org/10.1038/nbt.1630"
}
]
Download the RDF metadata as: json-ld nt turtle xml License info
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.
265 TRIPLES
22 PREDICATES
76 URIs
50 LITERALS
21 BLANK NODES