{"id":"https://openalex.org/W2115769169","doi":"https://doi.org/10.1093/nar/gki378","title":"CONREAL web server: identification and visualization of conserved transcription factor binding sites","display_name":"CONREAL web server: identification and visualization of conserved transcription factor binding sites","publication_year":2005,"publication_date":"2005-06-26","ids":{"openalex":"https://openalex.org/W2115769169","doi":"https://doi.org/10.1093/nar/gki378","mag":"2115769169","pmid":"https://pubmed.ncbi.nlm.nih.gov/15980509"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gki378","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gki378","pdf_url":"https://academic.oup.com/nar/article-pdf/33/suppl_2/W447/7622604/gki378.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/33/suppl_2/W447/7622604/gki378.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008179774","display_name":"Eug\u00e8ne Berezikov","orcid":"https://orcid.org/0000-0002-1145-2884"},"institutions":[{"id":"https://openalex.org/I4210115206","display_name":"Hubrecht Institute for Developmental Biology and Stem Cell Research","ror":"https://ror.org/023qc4a07","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1322597698","https://openalex.org/I4210115206"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"E. Berezikov","raw_affiliation_strings":["Hubrecht Laboratory, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands. berezikov@niob.knaw.nl","Hubrecht Laboratory  Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Hubrecht Laboratory, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands. berezikov@niob.knaw.nl","institution_ids":["https://openalex.org/I4210115206"]},{"raw_affiliation_string":"Hubrecht Laboratory  Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands","institution_ids":["https://openalex.org/I4210115206"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050979301","display_name":"Victor Guryev","orcid":"https://orcid.org/0000-0002-5810-6022"},"institutions":[{"id":"https://openalex.org/I4210115206","display_name":"Hubrecht Institute for Developmental Biology and Stem Cell Research","ror":"https://ror.org/023qc4a07","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1322597698","https://openalex.org/I4210115206"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"V. Guryev","raw_affiliation_strings":["Hubrecht Laboratory  Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Hubrecht Laboratory  Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands","institution_ids":["https://openalex.org/I4210115206"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072084304","display_name":"Edwin Cuppen","orcid":"https://orcid.org/0000-0002-0400-9542"},"institutions":[{"id":"https://openalex.org/I4210115206","display_name":"Hubrecht Institute for Developmental Biology and Stem Cell Research","ror":"https://ror.org/023qc4a07","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1322597698","https://openalex.org/I4210115206"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"E. Cuppen","raw_affiliation_strings":["Hubrecht Laboratory  Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Hubrecht Laboratory  Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands","institution_ids":["https://openalex.org/I4210115206"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5008179774"],"corresponding_institution_ids":["https://openalex.org/I4210115206"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":8.0528,"has_fulltext":true,"cited_by_count":104,"citation_normalized_percentile":{"value":0.98377656,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"33","issue":"Web Server","first_page":"W447","last_page":"W450"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9990000128746033,"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":0.9990000128746033,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9983999729156494,"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":0.9941999912261963,"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/biology","display_name":"Biology","score":0.8315294981002808},{"id":"https://openalex.org/keywords/conserved-sequence","display_name":"Conserved sequence","score":0.7033632397651672},{"id":"https://openalex.org/keywords/dna-binding-site","display_name":"DNA binding site","score":0.6498596668243408},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.6368528008460999},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.6069929003715515},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5947351455688477},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5602065920829773},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.557877779006958},{"id":"https://openalex.org/keywords/footprinting","display_name":"Footprinting","score":0.49800658226013184},{"id":"https://openalex.org/keywords/binding-site","display_name":"Binding site","score":0.4780759811401367},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4532836079597473},{"id":"https://openalex.org/keywords/dna-footprinting","display_name":"DNA footprinting","score":0.446048378944397},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.4378000497817993},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.4227410852909088},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.4210051894187927},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.41948699951171875},{"id":"https://openalex.org/keywords/sequence-database","display_name":"Sequence database","score":0.41888517141342163},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4123196303844452},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2551949918270111},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.23662421107292175},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.19656658172607422},{"id":"https://openalex.org/keywords/dna-binding-protein","display_name":"DNA-binding protein","score":0.18902277946472168},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.16492703557014465},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.15219780802726746},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.12868919968605042}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8315294981002808},{"id":"https://openalex.org/C199216141","wikidata":"https://www.wikidata.org/wiki/Q4995178","display_name":"Conserved sequence","level":4,"score":0.7033632397651672},{"id":"https://openalex.org/C3662595","wikidata":"https://www.wikidata.org/wiki/Q5205743","display_name":"DNA binding site","level":5,"score":0.6498596668243408},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.6368528008460999},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.6069929003715515},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5947351455688477},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5602065920829773},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.557877779006958},{"id":"https://openalex.org/C2778021871","wikidata":"https://www.wikidata.org/wiki/Q648006","display_name":"Footprinting","level":4,"score":0.49800658226013184},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.4780759811401367},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4532836079597473},{"id":"https://openalex.org/C22427896","wikidata":"https://www.wikidata.org/wiki/Q4493748","display_name":"DNA footprinting","level":5,"score":0.446048378944397},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.4378000497817993},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.4227410852909088},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.4210051894187927},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.41948699951171875},{"id":"https://openalex.org/C41584329","wikidata":"https://www.wikidata.org/wiki/Q175902","display_name":"Sequence database","level":3,"score":0.41888517141342163},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4123196303844452},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2551949918270111},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.23662421107292175},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.19656658172607422},{"id":"https://openalex.org/C94966510","wikidata":"https://www.wikidata.org/wiki/Q2252764","display_name":"DNA-binding protein","level":4,"score":0.18902277946472168},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.16492703557014465},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.15219780802726746},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.12868919968605042},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C58226133","wikidata":"https://www.wikidata.org/wiki/Q1324199","display_name":"Pulmonary surfactant","level":2,"score":0.0},{"id":"https://openalex.org/C55352822","wikidata":"https://www.wikidata.org/wiki/Q5558978","display_name":"Gibbs isotherm","level":3,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","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":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gki378","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gki378","pdf_url":"https://academic.oup.com/nar/article-pdf/33/suppl_2/W447/7622604/gki378.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:15980509","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15980509","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":"Nucleic acids research","raw_type":null},{"id":"pmh:knaw:oai:pure.knaw.nl:publications/5beeaa83-fc24-426d-a67e-59c028dfe40c","is_oa":true,"landing_page_url":"https://pure.knaw.nl/portal/en/publications/5beeaa83-fc24-426d-a67e-59c028dfe40c","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"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":"Nucleic Acids Research, 33(Web Server issue), 447 - 450. Oxford University Press","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:155168","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1160139","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gki378","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gki378","pdf_url":"https://academic.oup.com/nar/article-pdf/33/suppl_2/W447/7622604/gki378.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2115769169.pdf","grobid_xml":"https://content.openalex.org/works/W2115769169.grobid-xml"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W2004232360","https://openalex.org/W2057998009","https://openalex.org/W2084620487","https://openalex.org/W2095824228","https://openalex.org/W2103465619","https://openalex.org/W2110291136","https://openalex.org/W2155237411","https://openalex.org/W2158356009","https://openalex.org/W2166898290","https://openalex.org/W4248160505"],"related_works":["https://openalex.org/W2035953360","https://openalex.org/W2359735815","https://openalex.org/W1488292500","https://openalex.org/W4200378786","https://openalex.org/W2019624648","https://openalex.org/W3107479402","https://openalex.org/W4388367524","https://openalex.org/W2160413464","https://openalex.org/W2513012002","https://openalex.org/W1500873035"],"abstract_inverted_index":{"The":[0,47,88],"use":[1],"of":[2,15,29,67],"orthologous":[3,71],"sequences":[4],"and":[5,17,43,64],"phylogenetic":[6],"footprinting":[7],"approaches":[8],"have":[9,23],"become":[10],"popular":[11],"for":[12,26],"the":[13,27],"recognition":[14,45],"conserved":[16,30,68],"potentially":[18],"functional":[19],"sequences.":[20,46],"Several":[21],"algorithms":[22,77],"been":[24],"developed":[25],"identification":[28],"transcription":[31],"factor":[32],"binding":[33],"sites":[34],"(TFBSs),":[35],"which":[36],"are":[37],"characterized":[38],"by":[39,81],"their":[40],"relatively":[41],"short":[42],"degenerative":[44],"CONREAL":[48],"(conserved":[49],"regulatory":[50],"elements":[51],"anchored":[52],"alignment)":[53],"web":[54],"server":[55],"provides":[56],"a":[57],"versatile":[58],"interface":[59,89],"to":[60],"CONREAL-,":[61],"LAGAN-,":[62],"BLASTZ-":[63],"AVID-based":[65],"predictions":[66],"TFBSs":[69],"in":[70],"promoters.":[72],"Comparative":[73],"analysis":[74],"using":[75],"different":[76],"can":[78],"be":[79],"started":[80],"keyword":[82],"without":[83],"any":[84],"prior":[85],"sequence":[86],"retrieval.":[87],"is":[90],"available":[91],"at":[92],"http://conreal.niob.knaw.nl.":[93]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"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":3},{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":5},{"year":2012,"cited_by_count":6}],"updated_date":"2026-03-10T16:38:18.471706","created_date":"2025-10-10T00:00:00"}