{"id":"https://openalex.org/W2109383935","doi":"https://doi.org/10.1186/1471-2105-6-237","title":"Measuring similarities between transcription factor binding sites","display_name":"Measuring similarities between transcription factor binding sites","publication_year":2005,"publication_date":"2005-09-28","ids":{"openalex":"https://openalex.org/W2109383935","doi":"https://doi.org/10.1186/1471-2105-6-237","mag":"2109383935","pmid":"https://pubmed.ncbi.nlm.nih.gov/16191190"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-6-237","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-6-237","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-6-237","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-6-237","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021607152","display_name":"Szymon M. Kie\u0142basa","orcid":"https://orcid.org/0000-0003-2805-6535"},"institutions":[{"id":"https://openalex.org/I39343248","display_name":"Humboldt-Universit\u00e4t zu Berlin","ror":"https://ror.org/01hcx6992","country_code":"DE","type":"education","lineage":["https://openalex.org/I39343248"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Szymon M Kielbasa","raw_affiliation_strings":["Institute for Theoretical Biology, Humboldt University, Invalidenstrasse 43, D-10115 Berlin, Germany. s.kielbasa@biologie.hu-berlin.de","Institute for Theoretical Biology Humboldt University, Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Theoretical Biology, Humboldt University, Invalidenstrasse 43, D-10115 Berlin, Germany. s.kielbasa@biologie.hu-berlin.de","institution_ids":["https://openalex.org/I39343248"]},{"raw_affiliation_string":"Institute for Theoretical Biology Humboldt University, Berlin, Germany","institution_ids":["https://openalex.org/I39343248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059875969","display_name":"Didier Gonze","orcid":"https://orcid.org/0000-0002-9800-2412"},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]},{"id":"https://openalex.org/I39343248","display_name":"Humboldt-Universit\u00e4t zu Berlin","ror":"https://ror.org/01hcx6992","country_code":"DE","type":"education","lineage":["https://openalex.org/I39343248"]}],"countries":["BE","DE"],"is_corresponding":false,"raw_author_name":"Didier Gonze","raw_affiliation_strings":["Institute for Theoretical Biology, Humboldt University, Invalidenstra\u00dfe 43, D-10115, Berlin, Germany","Unit\u00e9 de Chronobiologie Th\u00e9orique, Universit\u00e9 Libre de Bruxelles, CP 231, Campus Plaine, Bvd du Triomphe, B-1050, Bruxelles, Belgium","Institute for Theoretical Biology, Humboldt University, Berlin, Germany","Unit\u00e9 de Chronobiologie Th\u00e9orique, Universit\u00e9 Libre de Bruxelles, Bruxelles, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Theoretical Biology, Humboldt University, Invalidenstra\u00dfe 43, D-10115, Berlin, Germany","institution_ids":["https://openalex.org/I39343248"]},{"raw_affiliation_string":"Unit\u00e9 de Chronobiologie Th\u00e9orique, Universit\u00e9 Libre de Bruxelles, CP 231, Campus Plaine, Bvd du Triomphe, B-1050, Bruxelles, Belgium","institution_ids":["https://openalex.org/I132053463"]},{"raw_affiliation_string":"Institute for Theoretical Biology, Humboldt University, Berlin, Germany","institution_ids":["https://openalex.org/I39343248"]},{"raw_affiliation_string":"Unit\u00e9 de Chronobiologie Th\u00e9orique, Universit\u00e9 Libre de Bruxelles, Bruxelles, Belgium","institution_ids":["https://openalex.org/I132053463"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054779878","display_name":"Hanspeter Herzel","orcid":"https://orcid.org/0000-0003-0414-7889"},"institutions":[{"id":"https://openalex.org/I39343248","display_name":"Humboldt-Universit\u00e4t zu Berlin","ror":"https://ror.org/01hcx6992","country_code":"DE","type":"education","lineage":["https://openalex.org/I39343248"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Hanspeter Herzel","raw_affiliation_strings":["Institute for Theoretical Biology, Humboldt University, Invalidenstra\u00dfe 43, D-10115, Berlin, Germany","Institute for Theoretical Biology Humboldt University, Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Theoretical Biology, Humboldt University, Invalidenstra\u00dfe 43, D-10115, Berlin, Germany","institution_ids":["https://openalex.org/I39343248"]},{"raw_affiliation_string":"Institute for Theoretical Biology Humboldt University, Berlin, Germany","institution_ids":["https://openalex.org/I39343248"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5021607152"],"corresponding_institution_ids":["https://openalex.org/I39343248"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":2.3729,"has_fulltext":true,"cited_by_count":68,"citation_normalized_percentile":{"value":0.88483035,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"6","issue":"1","first_page":"237","last_page":"237"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9883000254631042,"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":0.9883000254631042,"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/T10268","display_name":"Developmental Biology and Gene Regulation","score":0.0020000000949949026,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.0012000000569969416,"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","display_name":"Transcription factor","score":0.6637006402015686},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6119861006736755},{"id":"https://openalex.org/keywords/dna-binding-site","display_name":"DNA binding site","score":0.5845252275466919},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.5480518341064453},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5212464928627014},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4918396472930908},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.34592264890670776},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.33900266885757446},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20336464047431946},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.1847563087940216},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.16979077458381653}],"concepts":[{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.6637006402015686},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6119861006736755},{"id":"https://openalex.org/C3662595","wikidata":"https://www.wikidata.org/wiki/Q5205743","display_name":"DNA binding site","level":5,"score":0.5845252275466919},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5480518341064453},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5212464928627014},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4918396472930908},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.34592264890670776},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.33900266885757446},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20336464047431946},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.1847563087940216},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.16979077458381653}],"mesh":[{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002940","descriptor_name":"Circadian Rhythm","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002940","descriptor_name":"Circadian Rhythm","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002940","descriptor_name":"Circadian Rhythm","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D024721","descriptor_name":"E-Box Elements","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D024721","descriptor_name":"E-Box Elements","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D024721","descriptor_name":"E-Box Elements","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051792","descriptor_name":"Basic Helix-Loop-Helix Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D051792","descriptor_name":"Basic Helix-Loop-Helix Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D051792","descriptor_name":"Basic Helix-Loop-Helix Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D056930","descriptor_name":"ARNTL Transcription Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056930","descriptor_name":"ARNTL Transcription Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056930","descriptor_name":"ARNTL Transcription Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-6-237","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-6-237","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-6-237","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:16191190","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16191190","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:dipot.ulb.ac.be:2013/148273","is_oa":true,"landing_page_url":"http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/148273","pdf_url":null,"source":{"id":"https://openalex.org/S4306401063","display_name":"D\u00e9p\u00f4t institutionnel de l'Universit\u00e9 libre de Bruxelles (Universit\u00e9 Libre de Bruxelles)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I132053463","host_organization_name":"Universit\u00e9 Libre de Bruxelles","host_organization_lineage":["https://openalex.org/I132053463"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC bioinformatics, 6","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:85e4efee538c4516b856dce9beca409e","is_oa":true,"landing_page_url":"https://doaj.org/article/85e4efee538c4516b856dce9beca409e","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,"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":"BMC Bioinformatics, Vol 6, Iss 1, p 237 (2005)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:1261160","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1261160","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-6-237","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-6-237","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-6-237","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W2109383935.pdf"},"referenced_works_count":43,"referenced_works":["https://openalex.org/W1590648220","https://openalex.org/W1654008137","https://openalex.org/W1965280193","https://openalex.org/W1985648059","https://openalex.org/W1987122345","https://openalex.org/W1997179110","https://openalex.org/W1998543872","https://openalex.org/W2003967338","https://openalex.org/W2008491350","https://openalex.org/W2008900336","https://openalex.org/W2009132775","https://openalex.org/W2027662098","https://openalex.org/W2064879068","https://openalex.org/W2065793682","https://openalex.org/W2068140368","https://openalex.org/W2074703985","https://openalex.org/W2084620487","https://openalex.org/W2086067859","https://openalex.org/W2088348233","https://openalex.org/W2093387961","https://openalex.org/W2094036688","https://openalex.org/W2101025813","https://openalex.org/W2118628540","https://openalex.org/W2119085844","https://openalex.org/W2120900302","https://openalex.org/W2123490534","https://openalex.org/W2130919037","https://openalex.org/W2132348994","https://openalex.org/W2142563745","https://openalex.org/W2144710927","https://openalex.org/W2146202528","https://openalex.org/W2149769193","https://openalex.org/W2150081842","https://openalex.org/W2150612336","https://openalex.org/W2154074258","https://openalex.org/W2166277117","https://openalex.org/W2166429927","https://openalex.org/W2166527221","https://openalex.org/W2166898290","https://openalex.org/W2168157737","https://openalex.org/W2168341106","https://openalex.org/W2423314859","https://openalex.org/W4248318091"],"related_works":["https://openalex.org/W2415545834","https://openalex.org/W2379997263","https://openalex.org/W1557222478","https://openalex.org/W2367493320","https://openalex.org/W2112717966","https://openalex.org/W2131580913","https://openalex.org/W2125854412","https://openalex.org/W3083097828","https://openalex.org/W2796029694","https://openalex.org/W2499916532"],"abstract_inverted_index":{"BACKGROUND:":[0],"Collections":[1],"of":[2,19,27,80,100,109,114,119],"transcription":[3,28],"factor":[4,29],"binding":[5,30,117],"profiles":[6,22,40],"(Transfac,":[7],"Jaspar)":[8],"are":[9,84],"essential":[10],"to":[11,35,73,90,123],"identify":[12,36],"regulatory":[13,95],"elements":[14],"in":[15],"DNA":[16],"sequences.":[17],"Subsets":[18],"highly":[20,81],"similar":[21,39,82],"complicate":[23],"large":[24],"scale":[25],"analysis":[26],"sites.":[31],"RESULTS:":[32],"We":[33,63],"propose":[34],"and":[37,53,71,76,86,113],"group":[38],"using":[41],"two":[42],"independent":[43],"similarity":[44],"measures:":[45],"chi2":[46],"distances":[47],"between":[48,56],"position":[49,57],"frequency":[50],"matrices":[51,59,83,108],"(PFMs)":[52],"correlation":[54],"coefficients":[55],"weight":[58],"(PWMs)":[60],"scores.":[61],"CONCLUSION:":[62],"show":[64],"that":[65],"these":[66],"measures":[67,102],"complement":[68],"each":[69],"other":[70],"allow":[72],"associate":[74],"Jaspar":[75],"Transfac":[77],"matrices.":[78],"Clusters":[79],"identified":[85],"can":[87],"be":[88],"used":[89],"optimise":[91],"the":[92,98,101,124],"search":[93],"for":[94],"elements.":[96],"Moreover,":[97],"application":[99],"is":[103],"illustrated":[104],"by":[105],"assigning":[106],"E-box":[107],"a":[110],"SELEX":[111],"experiment":[112],"experimentally":[115],"characterised":[116],"sites":[118],"circadian":[120],"clock":[121],"genes":[122],"Myc-Max":[125],"cluster.":[126]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":3},{"year":2013,"cited_by_count":5},{"year":2012,"cited_by_count":3}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
