{"id":"https://openalex.org/W2131459659","doi":"https://doi.org/10.1093/bioinformatics/btq047","title":"A link between H3K27me3 mark and exon length in the gene promoters of pluripotent and differentiated cells","display_name":"A link between H3K27me3 mark and exon length in the gene promoters of pluripotent and differentiated cells","publication_year":2010,"publication_date":"2010-02-09","ids":{"openalex":"https://openalex.org/W2131459659","doi":"https://doi.org/10.1093/bioinformatics/btq047","mag":"2131459659","pmid":"https://pubmed.ncbi.nlm.nih.gov/20147304"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btq047","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq047","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031520395","display_name":"Liang Chen","orcid":"https://orcid.org/0000-0001-6644-477X"},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Liang Chen","raw_affiliation_strings":["Molecular and Computational Biology, Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089, USA","Molecular and Computational Biology, Department of Biological Sciences,University of Southern California, Los Angeles, CA 90089, USA"],"affiliations":[{"raw_affiliation_string":"Molecular and Computational Biology, Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089, USA","institution_ids":["https://openalex.org/I1174212"]},{"raw_affiliation_string":"Molecular and Computational Biology, Department of Biological Sciences,University of Southern California, Los Angeles, CA 90089, USA","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5031520395"],"corresponding_institution_ids":["https://openalex.org/I1174212"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.1355,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.55073599,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"26","issue":"7","first_page":"855","last_page":"859"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10269","display_name":"Epigenetics and DNA Methylation","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10269","display_name":"Epigenetics and DNA Methylation","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T13157","display_name":"Cancer-related gene regulation","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/h3k4me3","display_name":"H3K4me3","score":0.8342289328575134},{"id":"https://openalex.org/keywords/histone-h3","display_name":"Histone H3","score":0.6294641494750977},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.5915209054946899},{"id":"https://openalex.org/keywords/histone-methylation","display_name":"Histone methylation","score":0.5877910852432251},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5721838474273682},{"id":"https://openalex.org/keywords/exon","display_name":"Exon","score":0.5297879576683044},{"id":"https://openalex.org/keywords/histone","display_name":"Histone","score":0.5209335684776306},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4820578992366791},{"id":"https://openalex.org/keywords/epigenomics","display_name":"Epigenomics","score":0.4532337188720703},{"id":"https://openalex.org/keywords/histone-code","display_name":"Histone code","score":0.42498427629470825},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3146052956581116},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.2954564094543457},{"id":"https://openalex.org/keywords/nucleosome","display_name":"Nucleosome","score":0.2019498348236084},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.161848247051239}],"concepts":[{"id":"https://openalex.org/C2780914512","wikidata":"https://www.wikidata.org/wiki/Q25323943","display_name":"H3K4me3","level":5,"score":0.8342289328575134},{"id":"https://openalex.org/C2776745794","wikidata":"https://www.wikidata.org/wiki/Q24777451","display_name":"Histone H3","level":4,"score":0.6294641494750977},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.5915209054946899},{"id":"https://openalex.org/C22709980","wikidata":"https://www.wikidata.org/wiki/Q4117777","display_name":"Histone methylation","level":5,"score":0.5877910852432251},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5721838474273682},{"id":"https://openalex.org/C36823959","wikidata":"https://www.wikidata.org/wiki/Q373027","display_name":"Exon","level":3,"score":0.5297879576683044},{"id":"https://openalex.org/C64927066","wikidata":"https://www.wikidata.org/wiki/Q36293","display_name":"Histone","level":3,"score":0.5209335684776306},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4820578992366791},{"id":"https://openalex.org/C121912465","wikidata":"https://www.wikidata.org/wiki/Q3589153","display_name":"Epigenomics","level":5,"score":0.4532337188720703},{"id":"https://openalex.org/C10058791","wikidata":"https://www.wikidata.org/wiki/Q910897","display_name":"Histone code","level":5,"score":0.42498427629470825},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3146052956581116},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.2954564094543457},{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.2019498348236084},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.161848247051239}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005091","descriptor_name":"Exons","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005091","descriptor_name":"Exons","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005091","descriptor_name":"Exons","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018899","descriptor_name":"CpG Islands","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018899","descriptor_name":"CpG Islands","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018899","descriptor_name":"CpG Islands","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D039904","descriptor_name":"Pluripotent Stem Cells","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D039904","descriptor_name":"Pluripotent Stem Cells","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D039904","descriptor_name":"Pluripotent Stem Cells","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D039904","descriptor_name":"Pluripotent Stem Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D039904","descriptor_name":"Pluripotent Stem Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D039904","descriptor_name":"Pluripotent Stem Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btq047","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq047","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:20147304","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20147304","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:europepmc.org:2077183","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2844989","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1853430408","display_name":null,"funder_award_id":"P50 HG 002790","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":20,"referenced_works":["https://openalex.org/W1964188377","https://openalex.org/W1978104691","https://openalex.org/W1994288562","https://openalex.org/W1999491723","https://openalex.org/W2011181841","https://openalex.org/W2011480379","https://openalex.org/W2015416439","https://openalex.org/W2017840637","https://openalex.org/W2028104082","https://openalex.org/W2046357669","https://openalex.org/W2049598074","https://openalex.org/W2060337750","https://openalex.org/W2067563155","https://openalex.org/W2087693130","https://openalex.org/W2118681186","https://openalex.org/W2133938268","https://openalex.org/W2153392439","https://openalex.org/W2155453721","https://openalex.org/W2161224111","https://openalex.org/W2180301259"],"related_works":["https://openalex.org/W1968514469","https://openalex.org/W2002676132","https://openalex.org/W2165207473","https://openalex.org/W2056228735","https://openalex.org/W2082626462","https://openalex.org/W2033441226","https://openalex.org/W3091707841","https://openalex.org/W1980999513","https://openalex.org/W2519280707","https://openalex.org/W2966258113"],"abstract_inverted_index":{"We":[0,17],"conducted":[1],"a":[2],"reanalysis":[3],"of":[4,62,80],"genome-wide":[5],"histone":[6,24,63,81,90],"H3":[7,25,64],"tail":[8],"methylation":[9],"data":[10],"in":[11,36,76,95],"mammalian":[12],"pluripotent":[13],"and":[14,72,92],"differentiated":[15],"cells.":[16],"show":[18],"that":[19],"the":[20,37,60,73,77,87],"promoters":[21],"marked":[22],"with":[23],"lysine":[26,65],"27":[27],"trimethylation":[28,67],"(H3K27me3)":[29],"tend":[30],"to":[31,45],"have":[32],"more":[33],"exonic":[34],"positions":[35],"promoter":[38,96],"regions.":[39,97],"However,":[40],"this":[41],"is":[42,57],"not":[43],"due":[44],"any":[46],"preferential":[47],"marking":[48],"on":[49],"exons":[50,94],"over":[51],"introns":[52],"by":[53],"H3K27me3.":[54],"The":[55],"relationship":[56],"also":[58],"independent":[59],"status":[61],"4":[66],"(H3K4me3)":[68],"mark,":[69],"CpG":[70],"content":[71],"platforms":[74],"used":[75],"high-throughput":[78],"profiling":[79],"modifications.":[82],"It":[83],"provides":[84],"evidence":[85],"for":[86],"link":[88],"between":[89],"modifications":[91],"transcribed":[93]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
