{"id":"https://openalex.org/W4295298585","doi":"https://doi.org/10.1371/journal.pcbi.1010152","title":"A transcriptional cycling model recapitulates chromatin-dependent features of noisy inducible transcription","display_name":"A transcriptional cycling model recapitulates chromatin-dependent features of noisy inducible transcription","publication_year":2022,"publication_date":"2022-09-09","ids":{"openalex":"https://openalex.org/W4295298585","doi":"https://doi.org/10.1371/journal.pcbi.1010152","pmid":"https://pubmed.ncbi.nlm.nih.gov/36084132"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1010152","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010152","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010152&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010152&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5043932417","display_name":"M. Elise Bullock","orcid":"https://orcid.org/0000-0002-7876-4938"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"M. Elise Bullock","raw_affiliation_strings":["Department of Biomedical Engineering, Yale University, New Haven, Connecticut, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-7876-4938","affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Yale University, New Haven, Connecticut, United States of America","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058432863","display_name":"Nataly Moreno-Martinez","orcid":"https://orcid.org/0000-0001-9087-0058"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nataly Moreno-Martinez","raw_affiliation_strings":["Department of Biomedical Engineering, Yale University, New Haven, Connecticut, United States of America"],"raw_orcid":"https://orcid.org/0000-0001-9087-0058","affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Yale University, New Haven, Connecticut, United States of America","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040553377","display_name":"Kathryn Miller\u2010Jensen","orcid":"https://orcid.org/0000-0002-7233-0100"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Kathryn Miller-Jensen","raw_affiliation_strings":["Department of Biomedical Engineering, Yale University, New Haven, Connecticut, United States of America","Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut, United States of America","Systems Biology Institute, Yale University, New Haven, Connecticut, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-7233-0100","affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Yale University, New Haven, Connecticut, United States of America","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut, United States of America","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Systems Biology Institute, Yale University, New Haven, Connecticut, United States of America","institution_ids":["https://openalex.org/I32971472"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5040553377"],"corresponding_institution_ids":["https://openalex.org/I32971472"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.868,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.71473275,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"18","issue":"9","first_page":"e1010152","last_page":"e1010152"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9994999766349792,"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":0.9994999766349792,"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/T10604","display_name":"RNA Research and Splicing","score":0.9983000159263611,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9945999979972839,"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/chromatin","display_name":"Chromatin","score":0.7860894799232483},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.6686907410621643},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6347503066062927},{"id":"https://openalex.org/keywords/transcription","display_name":"Transcription (linguistics)","score":0.5830097794532776},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.5440099239349365},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.5281943082809448},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.45496731996536255},{"id":"https://openalex.org/keywords/transcriptional-regulation","display_name":"Transcriptional regulation","score":0.43621203303337097},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.43304795026779175},{"id":"https://openalex.org/keywords/chia-pet","display_name":"ChIA-PET","score":0.4284704327583313},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4145227074623108},{"id":"https://openalex.org/keywords/rna-polymerase-ii","display_name":"RNA polymerase II","score":0.4136790931224823},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3885185718536377}],"concepts":[{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.7860894799232483},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.6686907410621643},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6347503066062927},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.5830097794532776},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.5440099239349365},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.5281943082809448},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.45496731996536255},{"id":"https://openalex.org/C27153228","wikidata":"https://www.wikidata.org/wiki/Q3787274","display_name":"Transcriptional regulation","level":4,"score":0.43621203303337097},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.43304795026779175},{"id":"https://openalex.org/C67258246","wikidata":"https://www.wikidata.org/wiki/Q5065897","display_name":"ChIA-PET","level":5,"score":0.4284704327583313},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4145227074623108},{"id":"https://openalex.org/C64350747","wikidata":"https://www.wikidata.org/wiki/Q15334993","display_name":"RNA polymerase II","level":5,"score":0.4136790931224823},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3885185718536377},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015533","descriptor_name":"Transcriptional Activation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015533","descriptor_name":"Transcriptional Activation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015533","descriptor_name":"Transcriptional Activation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016328","descriptor_name":"NF-kappa B","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016328","descriptor_name":"NF-kappa B","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016328","descriptor_name":"NF-kappa B","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016328","descriptor_name":"NF-kappa B","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016328","descriptor_name":"NF-kappa B","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016328","descriptor_name":"NF-kappa B","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017735","descriptor_name":"Virus Latency","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017735","descriptor_name":"Virus Latency","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017735","descriptor_name":"Virus Latency","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1010152","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010152","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010152&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:36084132","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36084132","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:5c4a8159dee8441c800daa6195a293f9","is_oa":true,"landing_page_url":"https://doaj.org/article/5c4a8159dee8441c800daa6195a293f9","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 18, Iss 9, p e1010152 (2022)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9491597","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9491597","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1010152","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010152","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010152&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2564921798","display_name":null,"funder_award_id":"CBET-1454301","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5338067976","display_name":null,"funder_award_id":"T32EB019941","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5749445366","display_name":null,"funder_award_id":"1454301","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7763162588","display_name":null,"funder_award_id":"CBET-1454301","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8665577033","display_name":null,"funder_award_id":"T32EB019941","funder_id":"https://openalex.org/F4320306080","funder_display_name":"Foundation for the National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306080","display_name":"Foundation for the National Institutes of Health","ror":"https://ror.org/00k86s890"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337390","display_name":"Division of Chemical, Bioengineering, Environmental, and Transport Systems","ror":"https://ror.org/0471zv972"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4295298585.pdf","grobid_xml":"https://content.openalex.org/works/W4295298585.grobid-xml"},"referenced_works_count":89,"referenced_works":["https://openalex.org/W1951126150","https://openalex.org/W1964660012","https://openalex.org/W1968263458","https://openalex.org/W1972658532","https://openalex.org/W1973462980","https://openalex.org/W1976714996","https://openalex.org/W1983498205","https://openalex.org/W1985567287","https://openalex.org/W1997817740","https://openalex.org/W2005361347","https://openalex.org/W2013166361","https://openalex.org/W2014017310","https://openalex.org/W2014731896","https://openalex.org/W2021058886","https://openalex.org/W2024791006","https://openalex.org/W2033363753","https://openalex.org/W2038890616","https://openalex.org/W2038894647","https://openalex.org/W2042001563","https://openalex.org/W2044377993","https://openalex.org/W2051598492","https://openalex.org/W2053002159","https://openalex.org/W2054054692","https://openalex.org/W2064921763","https://openalex.org/W2067938485","https://openalex.org/W2075251971","https://openalex.org/W2075865654","https://openalex.org/W2079713056","https://openalex.org/W2080252570","https://openalex.org/W2087004443","https://openalex.org/W2088493593","https://openalex.org/W2094863064","https://openalex.org/W2103018966","https://openalex.org/W2105512180","https://openalex.org/W2108141605","https://openalex.org/W2110488501","https://openalex.org/W2114870653","https://openalex.org/W2118623812","https://openalex.org/W2121490181","https://openalex.org/W2122774148","https://openalex.org/W2131534552","https://openalex.org/W2135229538","https://openalex.org/W2138776564","https://openalex.org/W2139250164","https://openalex.org/W2139833144","https://openalex.org/W2140485864","https://openalex.org/W2144100406","https://openalex.org/W2151294425","https://openalex.org/W2155418451","https://openalex.org/W2171228793","https://openalex.org/W2171280873","https://openalex.org/W2171327609","https://openalex.org/W2171618714","https://openalex.org/W2300489152","https://openalex.org/W2303100661","https://openalex.org/W2345585090","https://openalex.org/W2409087583","https://openalex.org/W2411288489","https://openalex.org/W2491614679","https://openalex.org/W2615878271","https://openalex.org/W2621895366","https://openalex.org/W2743033273","https://openalex.org/W2763578259","https://openalex.org/W2767212349","https://openalex.org/W2782697209","https://openalex.org/W2787185499","https://openalex.org/W2810696621","https://openalex.org/W2885906426","https://openalex.org/W2900890569","https://openalex.org/W2904827199","https://openalex.org/W2906180136","https://openalex.org/W2923740976","https://openalex.org/W2949339049","https://openalex.org/W2950828601","https://openalex.org/W2951941730","https://openalex.org/W2952205279","https://openalex.org/W2976826970","https://openalex.org/W2984521288","https://openalex.org/W2989796412","https://openalex.org/W3046663842","https://openalex.org/W3080636052","https://openalex.org/W3108552876","https://openalex.org/W3111923719","https://openalex.org/W3128111751","https://openalex.org/W3128560630","https://openalex.org/W3185999759","https://openalex.org/W3190167386","https://openalex.org/W3202392980","https://openalex.org/W3216552758"],"related_works":["https://openalex.org/W2039269859","https://openalex.org/W3183610476","https://openalex.org/W4205601555","https://openalex.org/W421311755","https://openalex.org/W2581702729","https://openalex.org/W2912720016","https://openalex.org/W2508466941","https://openalex.org/W2791405408","https://openalex.org/W3102681775","https://openalex.org/W3145419749"],"abstract_inverted_index":{"Activation":[0],"of":[1,22,34,52,64,76,166,192,219,228,275],"gene":[2,35,150,238],"expression":[3,36,151,222,239],"in":[4,10,149,164,184,245,268],"response":[5],"to":[6,145,225,260],"environmental":[7],"cues":[8],"results":[9],"substantial":[11],"phenotypic":[12,162],"heterogeneity":[13],"between":[14],"cells":[15],"that":[16,73,110,223,263],"can":[17,257],"impact":[18],"a":[19,102,124,226,276],"wide":[20],"range":[21,127],"outcomes":[23],"including":[24],"differentiation,":[25],"viral":[26,243],"activation,":[27,201,244],"and":[28,67,116,135,175,241],"drug":[29],"resistance.":[30],"An":[31],"important":[32],"source":[33],"noise":[37,82,152,271],"is":[38],"transcriptional":[39,58,81,99,103,265],"bursting,":[40,266],"or":[41,190],"the":[42,62,74,86,91,140,178,185,193,216,232],"process":[43],"by":[44,60,177],"which":[45],"transcripts":[46],"are":[47],"produced":[48],"during":[49],"infrequent":[50],"bursts":[51],"promoter":[53,108,157],"activity.":[54],"Chromatin":[55],"accessibility":[56],"impacts":[57],"bursting":[59],"regulating":[61],"assembly":[63],"transcription":[65,179,183],"factor":[66,180],"polymerase":[68,114,141],"complexes":[69],"on":[70,80,85],"promoters,":[71],"suggesting":[72],"effect":[75],"an":[77],"activating":[78],"signal":[79],"will":[83],"depend":[84],"initial":[87,156],"chromatin":[88,112,133,173],"state":[89],"at":[90,171],"promoter.":[92],"To":[93],"explore":[94],"this":[95,121],"possibility,":[96],"we":[97],"simulated":[98],"activation":[100,165],"using":[101],"cycling":[104],"model":[105,122,160,186],"with":[106,131,247],"three":[107],"states":[109],"represent":[111],"remodeling,":[113],"binding":[115],"pause":[117,142],"release.":[118],"We":[119],"initiated":[120],"over":[123],"large":[125],"parameter":[126,233],"representing":[128],"target":[129,269],"genes":[130],"different":[132,172,209],"environments,":[134],"found":[136],"that,":[137],"upon":[138],"increasing":[139,188],"release":[143],"rate":[144],"activate":[146],"transcription,":[147],"changes":[148],"varied":[153],"significantly":[154],"across":[155],"states.":[158],"This":[159,250],"captured":[161],"differences":[163],"latent":[167,210],"HIV":[168,211,220],"viruses":[169],"integrated":[170],"locations":[174],"mediated":[176],"NF-\u03baB.":[181],"Activating":[182],"via":[187],"one":[189],"more":[191],"transcript":[194,205],"production":[195],"rates,":[196],"as":[197,213,215],"occurs":[198],"following":[199,273],"NF-\u03baB":[200],"reproduced":[202],"experimentally":[203],"measured":[204],"distributions":[206],"for":[207],"four":[208],"viruses,":[212],"well":[214],"bimodal":[217],"pattern":[218],"protein":[221],"leads":[224],"subset":[227],"reactivated":[229],"virus.":[230],"Importantly,":[231],"'activation":[234],"path'":[235],"differentially":[236],"affected":[237],"noise,":[240],"ultimately":[242],"line":[246],"experimental":[248],"observations.":[249],"work":[251],"demonstrates":[252],"how":[253],"upstream":[254,278],"signaling":[255],"pathways":[256],"be":[258],"connected":[259],"biological":[261],"processes":[262],"underlie":[264],"resulting":[267],"gene-specific":[270],"profiles":[272],"stimulation":[274],"single":[277],"pathway.":[279]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}