{"id":"https://openalex.org/W1602081395","doi":"https://doi.org/10.1007/978-3-540-79450-9_21","title":"Identification of Transcription Factor Binding Sites in Promoter Regions by Modularity Analysis of the Motif Co-occurrence Graph","display_name":"Identification of Transcription Factor Binding Sites in Promoter Regions by Modularity Analysis of the Motif Co-occurrence Graph","publication_year":2008,"publication_date":"2008-04-29","ids":{"openalex":"https://openalex.org/W1602081395","doi":"https://doi.org/10.1007/978-3-540-79450-9_21","mag":"1602081395"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-540-79450-9_21","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-540-79450-9_21","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"book-chapter","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110540557","display_name":"Alexandre P. Francisco","orcid":"https://orcid.org/0000-0003-4852-1641"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]},{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]}],"countries":["PT"],"is_corresponding":true,"raw_author_name":"Alexandre P. Francisco","raw_affiliation_strings":["INESC-ID/IST, Technical University of Lisbon, Portugal","INESC ID, IST, Technical University of Lisbon, Portugal"],"affiliations":[{"raw_affiliation_string":"INESC-ID/IST, Technical University of Lisbon, Portugal","institution_ids":["https://openalex.org/I121345201","https://openalex.org/I141596103"]},{"raw_affiliation_string":"INESC ID, IST, Technical University of Lisbon, Portugal","institution_ids":["https://openalex.org/I141596103"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001327675","display_name":"Arlindo L. Oliveira","orcid":"https://orcid.org/0000-0001-8638-5594"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]},{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Arlindo L. Oliveira","raw_affiliation_strings":["INESC-ID/IST, Technical University of Lisbon, Portugal","INESC ID, IST, Technical University of Lisbon, Portugal"],"affiliations":[{"raw_affiliation_string":"INESC-ID/IST, Technical University of Lisbon, Portugal","institution_ids":["https://openalex.org/I121345201","https://openalex.org/I141596103"]},{"raw_affiliation_string":"INESC ID, IST, Technical University of Lisbon, Portugal","institution_ids":["https://openalex.org/I141596103"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083766796","display_name":"Ana T. Freitas","orcid":"https://orcid.org/0000-0002-2997-5990"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]},{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Ana T. Freitas","raw_affiliation_strings":["INESC-ID/IST, Technical University of Lisbon, Portugal","INESC ID, IST, Technical University of Lisbon, Portugal"],"affiliations":[{"raw_affiliation_string":"INESC-ID/IST, Technical University of Lisbon, Portugal","institution_ids":["https://openalex.org/I121345201","https://openalex.org/I141596103"]},{"raw_affiliation_string":"INESC ID, IST, Technical University of Lisbon, Portugal","institution_ids":["https://openalex.org/I141596103"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5110540557"],"corresponding_institution_ids":["https://openalex.org/I121345201","https://openalex.org/I141596103"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.10048802,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"220","last_page":"231"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9987999796867371,"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":0.9987999796867371,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9927999973297119,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9664999842643738,"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/motif","display_name":"Motif (music)","score":0.8347363471984863},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.6199549436569214},{"id":"https://openalex.org/keywords/sequence-motif","display_name":"Sequence motif","score":0.5618577003479004},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.48967888951301575},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4644045829772949},{"id":"https://openalex.org/keywords/structural-motif","display_name":"Structural motif","score":0.42864561080932617},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2944619953632355},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.24777552485466003},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2325822114944458},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1453978717327118}],"concepts":[{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.8347363471984863},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.6199549436569214},{"id":"https://openalex.org/C117745874","wikidata":"https://www.wikidata.org/wiki/Q901612","display_name":"Sequence motif","level":3,"score":0.5618577003479004},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.48967888951301575},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4644045829772949},{"id":"https://openalex.org/C132677234","wikidata":"https://www.wikidata.org/wiki/Q3273544","display_name":"Structural motif","level":2,"score":0.42864561080932617},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2944619953632355},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.24777552485466003},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2325822114944458},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1453978717327118},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/978-3-540-79450-9_21","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-540-79450-9_21","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":29,"referenced_works":["https://openalex.org/W1486659038","https://openalex.org/W1580213736","https://openalex.org/W1592870802","https://openalex.org/W1966902958","https://openalex.org/W1969836426","https://openalex.org/W1971421925","https://openalex.org/W1990987722","https://openalex.org/W1992758160","https://openalex.org/W1998300401","https://openalex.org/W2012597404","https://openalex.org/W2028904582","https://openalex.org/W2047940964","https://openalex.org/W2054984882","https://openalex.org/W2065635150","https://openalex.org/W2073850887","https://openalex.org/W2080498142","https://openalex.org/W2084908610","https://openalex.org/W2089458547","https://openalex.org/W2090769878","https://openalex.org/W2095293504","https://openalex.org/W2096210973","https://openalex.org/W2103447044","https://openalex.org/W2119791629","https://openalex.org/W2119804413","https://openalex.org/W2125954247","https://openalex.org/W2130097356","https://openalex.org/W2144070387","https://openalex.org/W2752885492","https://openalex.org/W3145128584"],"related_works":["https://openalex.org/W2073661767","https://openalex.org/W2143211236","https://openalex.org/W2380185347","https://openalex.org/W2368410102","https://openalex.org/W2044328609","https://openalex.org/W2370034659","https://openalex.org/W4400799920","https://openalex.org/W2012993128","https://openalex.org/W2103777723","https://openalex.org/W2610941444"],"abstract_inverted_index":null,"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
