{"id":"https://openalex.org/W190157419","doi":"https://doi.org/10.1096/fasebj.23.1_supplement.316.2","title":"Promoter\u2010proximal pausing of Pol II enhances gene expression","display_name":"Promoter\u2010proximal pausing of Pol II enhances gene expression","publication_year":2009,"publication_date":"2009-04-01","ids":{"openalex":"https://openalex.org/W190157419","doi":"https://doi.org/10.1096/fasebj.23.1_supplement.316.2","mag":"190157419"},"language":"en","primary_location":{"id":"doi:10.1096/fasebj.23.1_supplement.316.2","doi":"https://doi.org/10.1096/fasebj.23.1_supplement.316.2","is_oa":false,"landing_page_url":"https://doi.org/10.1096/fasebj.23.1_supplement.316.2","pdf_url":null,"source":{"id":"https://openalex.org/S25293849","display_name":"The FASEB Journal","issn_l":"0892-6638","issn":["0892-6638","1530-6860"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-c","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The FASEB Journal","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref"],"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/A5073767577","display_name":"Karen Adelman","orcid":"https://orcid.org/0000-0001-5364-334X","observed_orcids":["https://orcid.org/0000-0001-5364-334X"]},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210095140","display_name":"National Institute of Environmental Health Sciences","ror":"https://ror.org/00j4k1h63","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210095140"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Karen Adelman","raw_affiliation_strings":["Laboratory of Molecular Carcinogenesis NIEHS/NIH Research Triangle Park NC"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Carcinogenesis NIEHS/NIH Research Triangle Park NC","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210095140"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065394141","display_name":"Daniel A. Gilchrist","orcid":"https://orcid.org/0000-0003-1668-2790","observed_orcids":["https://orcid.org/0000-0003-1668-2790"]},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210095140","display_name":"National Institute of Environmental Health Sciences","ror":"https://ror.org/00j4k1h63","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210095140"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniel Gilchrist","raw_affiliation_strings":["Laboratory of Molecular Carcinogenesis NIEHS/NIH Research Triangle Park NC"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Carcinogenesis NIEHS/NIH Research Triangle Park NC","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210095140"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033602624","display_name":"Sergei Nechaev","orcid":"https://orcid.org/0000-0002-0803-7188","observed_orcids":["https://orcid.org/0000-0002-0803-7188"]},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210095140","display_name":"National Institute of Environmental Health Sciences","ror":"https://ror.org/00j4k1h63","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210095140"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sergei Nechaev","raw_affiliation_strings":["Laboratory of Molecular Carcinogenesis NIEHS/NIH Research Triangle Park NC"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Carcinogenesis NIEHS/NIH Research Triangle Park NC","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210095140"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5110621413","display_name":"Gilberto dos Santos","orcid":"https://orcid.org/0000-0003-3507-8273","observed_orcids":["https://orcid.org/0000-0003-3507-8273"]},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210095140","display_name":"National Institute of Environmental Health Sciences","ror":"https://ror.org/00j4k1h63","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210095140"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gilberto Dos Santos","raw_affiliation_strings":["Laboratory of Molecular Carcinogenesis NIEHS/NIH Research Triangle Park NC"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Carcinogenesis NIEHS/NIH Research Triangle Park NC","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210095140"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3740,"currency":"USD","value_usd":3740},"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.01740286,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":95},"biblio":{"volume":"23","issue":"S1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9984999895095825,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9984999895095825,"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/T12820","display_name":"Chromatin Remodeling and Cancer","score":0.00019999999494757503,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":9.999999747378752e-05,"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/rna-polymerase-ii","display_name":"RNA polymerase II","score":0.7850000262260437},{"id":"https://openalex.org/keywords/promoter-proximal-pausing","display_name":"promoter-proximal pausing","score":0.9419999718666077},{"id":"https://openalex.org/keywords/negative-elongation-factor","display_name":"NELF","score":0.8479999899864197},{"id":"https://openalex.org/keywords/transcriptional-pausing","display_name":"transcriptional pausing","score":0.6729999780654907},{"id":"https://openalex.org/keywords/nucleosome-occupancy","display_name":"nucleosome occupancy","score":0.8529999852180481},{"id":"https://openalex.org/keywords/chromatin-structure","display_name":"chromatin structure","score":0.878000020980835},{"id":"https://openalex.org/keywords/gene-activation","display_name":"gene activation","score":0.753000020980835},{"id":"https://openalex.org/keywords/drosophila","display_name":"Drosophila","score":0.7490000128746033},{"id":"https://openalex.org/keywords/rnai-knockdown","display_name":"RNAi knockdown","score":0.6710000038146973},{"id":"https://openalex.org/keywords/basal-gene-expression","display_name":"basal gene expression","score":0.5370000004768372}],"concepts":[{"id":"https://openalex.org/C64350747","wikidata":"https://www.wikidata.org/wiki/Q15334993","display_name":"RNA polymerase II","level":5,"score":0.8218600153923035},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.6998240947723389},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.5908522605895996},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.5658228993415833},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5375468730926514},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5361428260803223},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.4988710880279541},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.44372284412384033},{"id":"https://openalex.org/C70916841","wikidata":"https://www.wikidata.org/wiki/Q3501658","display_name":"RNA polymerase III","level":5,"score":0.4222184419631958},{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.4146909713745117},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.4048755168914795},{"id":"https://openalex.org/C153911025","wikidata":"https://www.wikidata.org/wiki/Q7202","display_name":"Molecular biology","level":1,"score":0.4032503366470337},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3812991976737976},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.3217371702194214},{"id":"https://openalex.org/C2776449523","wikidata":"https://www.wikidata.org/wiki/Q272631","display_name":"RNA polymerase","level":4,"score":0.27724361419677734},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1096/fasebj.23.1_supplement.316.2","doi":"https://doi.org/10.1096/fasebj.23.1_supplement.316.2","is_oa":false,"landing_page_url":"https://doi.org/10.1096/fasebj.23.1_supplement.316.2","pdf_url":null,"source":{"id":"https://openalex.org/S25293849","display_name":"The FASEB Journal","issn_l":"0892-6638","issn":["0892-6638","1530-6860"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-c","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The FASEB Journal","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2166971561","https://openalex.org/W4402225711","https://openalex.org/W4392095268","https://openalex.org/W1967483196","https://openalex.org/W7163193652","https://openalex.org/W3111322498","https://openalex.org/W2074014487","https://openalex.org/W2161929259","https://openalex.org/W2945278782","https://openalex.org/W6958934345"],"abstract_inverted_index":{"Recent":[0],"work":[1],"from":[2],"our":[3],"lab":[4],"and":[5,42,103,197,199],"others":[6],"has":[7,156],"revealed":[8],"that":[9,37,51,87,127,139,150,169],"many":[10],"genes":[11,50],"in":[12,54,88],"higher":[13],"eukaryotes":[14],"are":[15,52],"regulated":[16],"at":[17],"a":[18,29,76,109,114,123,189,201,210],"step":[19],"after":[20],"recruitment":[21],"of":[22,48,63,79,130,152,164,172,182],"RNA":[23],"polymerase":[24],"II":[25,39,68,98,132,147,174,196,207],"(Pol":[26],"II)":[27],"to":[28,59,90],"gene's":[30,115],"promoter.":[31,116],"In":[32],"particular,":[33],"we":[34,84],"have":[35,85],"found":[36],"Pol":[38,67,97,131,146,173,195,206],"initiates":[40],"transcription":[41,124,135],"then":[43],"pauses":[44],"during":[45,133],"early":[46,134],"elongation":[47],"Drosophila":[49],"involved":[53],"development":[55],"or":[56,214],"the":[57,165,183],"response":[58],"environmental":[60],"signals.":[61],"Release":[62],"this":[64,153],"promoter\u2010proximally":[65,95,144],"paused":[66,96,145,194,205],"occurs":[69],"quickly":[70],"upon":[71],"gene":[72,93,105,161,211],"activation,":[73,94],"allowing":[74],"for":[75,212],"rapid":[77,92],"induction":[78],"transcription.":[80],"As":[81],"described":[82],"below,":[83],"discovered":[86],"addition":[89],"facilitating":[91],"can":[99,208],"enhance":[100],"both":[101],"basal":[102],"induced":[104],"expression":[106],"by":[107,178],"maintaining":[108],"permissive":[110],"chromatin":[111],"architecture":[112],"around":[113],"The":[117],"Negative":[118],"Elongation":[119],"Factor":[120],"(NELF)":[121],"is":[122,176],"regulatory":[125],"complex":[126],"induces":[128],"pausing":[129,175],"elongation.":[136],"We":[137],"report":[138],"RNAi":[140],"against":[141],"NELF":[142],"decreases":[143],"and,":[148],"surprisingly,":[149],"knock\u2010down":[151],"\"negative\"":[154],"factor":[155],"largely":[157],"negative":[158],"effects":[159],"on":[160],"expression.":[162],"Investigation":[163],"down\u2010regulated":[166],"promoters":[167],"shows":[168],"significant":[170],"loss":[171],"accompanied":[177],"increased":[179],"nucleosome":[180],"occupancy":[181],"promoter":[184],"region.":[185],"These":[186],"results":[187],"indicate":[188],"dynamic,":[190],"antagonistic":[191],"relationship":[192],"between":[193],"nucleosomes,":[198],"reveal":[200],"mechanism":[202],"through":[203],"which":[204],"poise":[209],"further":[213],"future":[215],"induction.":[216]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-11-03T10:50:19.383937","created_date":"2016-06-24T00:00:00"}