{"id":"https://openalex.org/W2068415520","doi":"https://doi.org/10.1371/journal.pgen.1002614","title":"Probing the Informational and Regulatory Plasticity of a Transcription Factor DNA\u2013Binding Domain","display_name":"Probing the Informational and Regulatory Plasticity of a Transcription Factor DNA\u2013Binding Domain","publication_year":2012,"publication_date":"2012-03-29","ids":{"openalex":"https://openalex.org/W2068415520","doi":"https://doi.org/10.1371/journal.pgen.1002614","mag":"2068415520","pmid":"https://pubmed.ncbi.nlm.nih.gov/22496663","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/3315485"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pgen.1002614","doi":"https://doi.org/10.1371/journal.pgen.1002614","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pgen.1002614","pdf_url":"https://journals.plos.org/plosgenetics/article/file?id=10.1371/journal.pgen.1002614&type=printable","source":{"id":"https://openalex.org/S103870658","display_name":"PLoS Genetics","issn_l":"1553-7390","issn":["1553-7390","1553-7404"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","oarl","poland-140","russia-white-list-1","vabb-shw"],"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 Genetics","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/plosgenetics/article/file?id=10.1371/journal.pgen.1002614&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5002622771","display_name":"Ryan K. Shultzaberger","orcid":"https://orcid.org/0000-0002-4586-0659","observed_orcids":["https://orcid.org/0000-0002-4586-0659"]},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ryan K. Shultzaberger","raw_affiliation_strings":["Department of Molecular and Cell Biology, University of California Berkeley, Berkeley, California, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular and Cell Biology, University of California Berkeley, Berkeley, California, United States of America","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087352392","display_name":"Sebastian J. Maerkl","orcid":"https://orcid.org/0000-0003-1917-5268","observed_orcids":["https://orcid.org/0000-0003-1917-5268"]},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Sebastian J. Maerkl","raw_affiliation_strings":["School of Engineering, Institute of Bioengineering, Ecole Polytechnique Federale de Lausanne (EPFL), Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Engineering, Institute of Bioengineering, Ecole Polytechnique Federale de Lausanne (EPFL), Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109437687","display_name":"Jack F. Kirsch","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jack F. Kirsch","raw_affiliation_strings":["Department of Molecular and Cell Biology, University of California Berkeley, Berkeley, California, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular and Cell Biology, University of California Berkeley, Berkeley, California, United States of America","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068063822","display_name":"Michael B. Eisen","orcid":"https://orcid.org/0000-0002-7528-738X","observed_orcids":["https://orcid.org/0000-0002-7528-738X"]},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]},{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Michael B. Eisen","raw_affiliation_strings":["Department of Genome Sciences, Genomic Division, Ernest Orlando Lawrence Berkeley National Lab, Berkeley, California, United States of America","Department of Molecular and Cell Biology, University of California Berkeley, Berkeley, California, United States of America","Howard Hughes Medical Institute, University of California Berkeley, Berkeley, California, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genome Sciences, Genomic Division, Ernest Orlando Lawrence Berkeley National Lab, Berkeley, California, United States of America","institution_ids":["https://openalex.org/I148283060"]},{"raw_affiliation_string":"Department of Molecular and Cell Biology, University of California Berkeley, Berkeley, California, United States of America","institution_ids":["https://openalex.org/I95457486"]},{"raw_affiliation_string":"Howard Hughes Medical Institute, University of California Berkeley, Berkeley, California, United States of America","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I95457486"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5068063822"],"corresponding_institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I148283060","https://openalex.org/I95457486"],"apc_list":{"value":3043,"currency":"USD","value_usd":3043},"apc_paid":{"value":3043,"currency":"USD","value_usd":3043},"fwci":1.7257,"has_fulltext":true,"cited_by_count":26,"citation_normalized_percentile":{"value":0.84212341,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":98},"biblio":{"volume":"8","issue":"3","first_page":"e1002614","last_page":"e1002614"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.5454000234603882,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.5454000234603882,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.30300000309944153,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.03539999946951866,"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/transcription-factor-evolution","display_name":"transcription factor evolution","score":0.800000011920929},{"id":"https://openalex.org/keywords/dna-binding-domain","display_name":"DNA-binding domain","score":0.7770000100135803},{"id":"https://openalex.org/keywords/kahramanmaras","display_name":"Kahramanmara\u015f","score":0.7919999957084656},{"id":"https://openalex.org/keywords/helix-turn-helix","display_name":"helix-turn-helix","score":0.8880000114440918},{"id":"https://openalex.org/keywords/in-vivo-selection","display_name":"in vivo selection","score":0.6980000138282776},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.8199999928474426},{"id":"https://openalex.org/keywords/transcriptional-regulation","display_name":"transcriptional regulation","score":0.6869999766349792},{"id":"https://openalex.org/keywords/binding-affinity","display_name":"binding affinity","score":0.6620000004768372},{"id":"https://openalex.org/keywords/transcriptional-regulatory-networks","display_name":"transcriptional regulatory networks","score":0.6290000081062317},{"id":"https://openalex.org/keywords/adaptive-evolution","display_name":"adaptive evolution","score":0.3499999940395355}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7904218435287476},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.7325875163078308},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.6094692349433899},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5716028809547424},{"id":"https://openalex.org/C3662595","wikidata":"https://www.wikidata.org/wiki/Q5205743","display_name":"DNA binding site","level":5,"score":0.5609085559844971},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.501549482345581},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.4967222809791565},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.45885777473449707},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.44088178873062134},{"id":"https://openalex.org/C94966510","wikidata":"https://www.wikidata.org/wiki/Q2252764","display_name":"DNA-binding protein","level":4,"score":0.4328681230545044},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.37839674949645996},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.3124036192893982},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.15124019980430603},{"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":[{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D019077","descriptor_name":"Helix-Turn-Helix Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":11,"locations":[{"id":"doi:10.1371/journal.pgen.1002614","doi":"https://doi.org/10.1371/journal.pgen.1002614","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pgen.1002614","pdf_url":"https://journals.plos.org/plosgenetics/article/file?id=10.1371/journal.pgen.1002614&type=printable","source":{"id":"https://openalex.org/S103870658","display_name":"PLoS Genetics","issn_l":"1553-7390","issn":["1553-7390","1553-7404"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","oarl","poland-140","russia-white-list-1","vabb-shw"],"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 Genetics","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3315485","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3315485","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,"listed_in":[],"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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Genet","raw_type":"Text"},{"id":"pmid:22496663","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22496663","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,"listed_in":[],"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 genetics","raw_type":"Journal Article"},{"id":"pmh:oai:osti.gov:1627295","doi":null,"is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1627295","pdf_url":"https://www.osti.gov/servlets/purl/1627295","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"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":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.259.2854","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.259.2854","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://infoscience.epfl.ch/record/176972/files/journal.pgen.1002614%20%281%29.pdf","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:6d7ffe701564450b81f475328a66a884","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/6d7ffe701564450b81f475328a66a884","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Genetics, Vol 8, Iss 3, p e1002614 (2012)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/127007","doi":null,"is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Probing_the_Informational_and_Regulatory_Plasticity_of_a_Transcription_Factor_DNA_Binding_Domain/127007","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"},{"id":"pmh:oai:infoscience.epfl.ch:176972","doi":null,"is_oa":true,"landing_page_url":"http://infoscience.epfl.ch/record/176972","pdf_url":null,"source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I5124864","host_organization_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","host_organization_lineage":["https://openalex.org/I5124864"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:infoscience.epfl.ch:186641","doi":null,"is_oa":true,"landing_page_url":"http://infoscience.epfl.ch/record/186641","pdf_url":null,"source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I5124864","host_organization_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","host_organization_lineage":["https://openalex.org/I5124864"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:infoscience.tind.io:176972","doi":null,"is_oa":true,"landing_page_url":"https://infoscience.epfl.ch/record/176972/files/journal.pgen.1002614%20%281%29.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I5124864","host_organization_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","host_organization_lineage":["https://openalex.org/I5124864"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"research article"},{"id":"pmh:oai:infoscience.tind.io:186641","doi":null,"is_oa":true,"landing_page_url":"http://infoscience.epfl.ch/record/186641","pdf_url":null,"source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I5124864","host_organization_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","host_organization_lineage":["https://openalex.org/I5124864"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pgen.1002614","doi":"https://doi.org/10.1371/journal.pgen.1002614","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pgen.1002614","pdf_url":"https://journals.plos.org/plosgenetics/article/file?id=10.1371/journal.pgen.1002614&type=printable","source":{"id":"https://openalex.org/S103870658","display_name":"PLoS Genetics","issn_l":"1553-7390","issn":["1553-7390","1553-7404"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","oarl","poland-140","russia-white-list-1","vabb-shw"],"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 Genetics","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G1160406927","display_name":null,"funder_award_id":"GM35393","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G1947459853","display_name":"Molecular Evolution of Pyridoxal Phoshate Enzymes","funder_award_id":"R01GM035393","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G610203076","display_name":null,"funder_award_id":"HG002779","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G8453335849","display_name":"Modeling the Evolution and Function of Drosophila cis-Regulatory Modules","funder_award_id":"R01HG002779","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"}],"funders":[{"id":"https://openalex.org/F4320306082","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2068415520.pdf","grobid_xml":"https://content.openalex.org/works/W2068415520.grobid-xml"},"referenced_works_count":54,"referenced_works":["https://openalex.org/W1484958055","https://openalex.org/W1513616826","https://openalex.org/W1965160406","https://openalex.org/W1971945312","https://openalex.org/W1976551196","https://openalex.org/W1990201002","https://openalex.org/W1992837017","https://openalex.org/W1995875735","https://openalex.org/W1999027354","https://openalex.org/W2011282682","https://openalex.org/W2022891974","https://openalex.org/W2026979173","https://openalex.org/W2032975481","https://openalex.org/W2038012561","https://openalex.org/W2038282326","https://openalex.org/W2040061014","https://openalex.org/W2041404167","https://openalex.org/W2041877620","https://openalex.org/W2054735322","https://openalex.org/W2055043387","https://openalex.org/W2068872007","https://openalex.org/W2073734048","https://openalex.org/W2074703985","https://openalex.org/W2080537888","https://openalex.org/W2080782737","https://openalex.org/W2082682118","https://openalex.org/W2089391825","https://openalex.org/W2091607609","https://openalex.org/W2097654910","https://openalex.org/W2099035403","https://openalex.org/W2100305057","https://openalex.org/W2120900302","https://openalex.org/W2122452605","https://openalex.org/W2124735489","https://openalex.org/W2126450280","https://openalex.org/W2128969076","https://openalex.org/W2132256310","https://openalex.org/W2135713546","https://openalex.org/W2137015675","https://openalex.org/W2140158396","https://openalex.org/W2140754446","https://openalex.org/W2140841500","https://openalex.org/W2144175569","https://openalex.org/W2150926065","https://openalex.org/W2151907070","https://openalex.org/W2153530880","https://openalex.org/W2154100003","https://openalex.org/W2157664391","https://openalex.org/W2165392091","https://openalex.org/W2166277117","https://openalex.org/W2166884322","https://openalex.org/W2168190245","https://openalex.org/W2169636286","https://openalex.org/W2593075177"],"related_works":["https://openalex.org/W2089391825","https://openalex.org/W1964022294","https://openalex.org/W7097018738","https://openalex.org/W2122452605","https://openalex.org/W2908212329","https://openalex.org/W2952895003","https://openalex.org/W2041096569","https://openalex.org/W2593075177","https://openalex.org/W7096336700","https://openalex.org/W2153530880"],"abstract_inverted_index":{"Transcription":[0],"factors":[1,84],"have":[2,14],"two":[3],"functional":[4],"constraints":[5],"on":[6,57],"their":[7,10],"evolution:":[8],"(1)":[9],"binding":[11,117,142,159,183,206],"sites":[12,33,118],"must":[13,30],"enough":[15],"information":[16,208],"to":[17,86,103,130,136,171],"be":[18,213],"distinguishable":[19],"from":[20],"all":[21],"other":[22],"sequences":[23],"in":[24,67,96,100,126],"the":[25,40,49,53,62,71,107,138,141,149,152,161,175,189],"genome,":[26],"and":[27,73,81,135,163,181,192,210,227],"(2)":[28],"they":[29],"bind":[31,113],"these":[32,88,197],"with":[34,119,215],"an":[35,95],"affinity":[36],"that":[37,112,201,220],"appropriately":[38],"modulates":[39],"rate":[41],"of":[42,52,76,106,116,122,140,151,169,174,194,196,205],"transcription.":[43],"Since":[44],"both":[45,157],"are":[46,80,224],"determined":[47],"by":[48],"biophysical":[50],"properties":[51,75],"DNA-binding":[54],"domain,":[55,143],"selection":[56,98],"one":[58],"will":[59],"ultimately":[60],"affect":[61],"other.":[63],"We":[64,199],"were":[65,146],"interested":[66],"understanding":[68],"how":[69,82],"plastic":[70],"informational":[72],"regulatory":[74,222],"a":[77,165,182,202,216],"transcription":[78,83,109],"factor":[79,110],"evolve":[85],"balance":[87],"constraints.":[89],"To":[90],"study":[91],"this,":[92],"we":[93,187],"developed":[94],"vivo":[97],"system":[99],"Escherichia":[101],"coli":[102],"identify":[104,131],"variants":[105],"helix-turn-helix":[108],"MarA":[111],"different":[114],"sets":[115],"varying":[120],"degrees":[121],"degeneracy.":[123],"Unlike":[124],"previous":[125],"vitro":[127],"methods":[128],"used":[129],"novel":[132],"DNA":[133],"binders":[134],"probe":[137],"plasticity":[139],"our":[144],"selections":[145],"done":[147],"within":[148,160],"context":[150],"initiation":[153],"complex,":[154],"selecting":[155],"for":[156,164],"specific":[158],"genome":[162],"physiologically":[166],"significant":[167],"strength":[168],"interaction":[170],"maintain":[172],"function":[173],"factor.":[176],"Using":[177],"MITOMI,":[178],"quantitative":[179],"PCR,":[180],"site":[184],"fitness":[185,193],"assay,":[186],"characterized":[188],"binding,":[190],"function,":[191],"some":[195],"variants.":[198],"observed":[200],"large":[203],"range":[204],"preferences,":[207],"contents,":[209],"activities":[211],"could":[212],"accessed":[214],"few":[217],"mutations,":[218],"suggesting":[219],"transcriptional":[221],"networks":[223],"highly":[225],"adaptable":[226],"expandable.":[228]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":3},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":4},{"year":2012,"cited_by_count":2}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2016-06-24T00:00:00"}
