{"id":"https://openalex.org/W2158100548","doi":"https://doi.org/10.1093/bioinformatics/btn094","title":"ChIPCodis: mining complex regulatory systems in yeast by concurrent enrichment analysis of chip-on-chip data","display_name":"ChIPCodis: mining complex regulatory systems in yeast by concurrent enrichment analysis of chip-on-chip data","publication_year":2008,"publication_date":"2008-03-12","ids":{"openalex":"https://openalex.org/W2158100548","doi":"https://doi.org/10.1093/bioinformatics/btn094","mag":"2158100548","pmid":"https://pubmed.ncbi.nlm.nih.gov/18339638"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btn094","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn094","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/9/1208/49046752/bioinformatics_24_9_1208.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/24/9/1208/49046752/bioinformatics_24_9_1208.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5025784970","display_name":"Federico Abascal","orcid":"https://orcid.org/0000-0002-6201-1587"},"institutions":[{"id":"https://openalex.org/I121748325","display_name":"Universidad Complutense de Madrid","ror":"https://ror.org/02p0gd045","country_code":"ES","type":"education","lineage":["https://openalex.org/I121748325"]},{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Federico Abascal","raw_affiliation_strings":["1 BioComputing Unit, National Center of Biotechnology (CSIC), 2Integromics SL, Madrid and 3Computer Architecture Department. Facultad de CC F\u00edsicas. Universidad Complutense de Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"1 BioComputing Unit, National Center of Biotechnology (CSIC), 2Integromics SL, Madrid and 3Computer Architecture Department. Facultad de CC F\u00edsicas. Universidad Complutense de Madrid, Spain","institution_ids":["https://openalex.org/I4210104776","https://openalex.org/I121748325"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079394518","display_name":"Pedro Carmona\u2010S\u00e1ez","orcid":"https://orcid.org/0000-0002-6173-7255"},"institutions":[{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]},{"id":"https://openalex.org/I121748325","display_name":"Universidad Complutense de Madrid","ror":"https://ror.org/02p0gd045","country_code":"ES","type":"education","lineage":["https://openalex.org/I121748325"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Pedro Carmona-Saez","raw_affiliation_strings":["1 BioComputing Unit, National Center of Biotechnology (CSIC), 2Integromics SL, Madrid and 3Computer Architecture Department. Facultad de CC F\u00edsicas. Universidad Complutense de Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"1 BioComputing Unit, National Center of Biotechnology (CSIC), 2Integromics SL, Madrid and 3Computer Architecture Department. Facultad de CC F\u00edsicas. Universidad Complutense de Madrid, Spain","institution_ids":["https://openalex.org/I4210104776","https://openalex.org/I121748325"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046960969","display_name":"J.M. Carazo","orcid":"https://orcid.org/0000-0003-0788-8447"},"institutions":[{"id":"https://openalex.org/I121748325","display_name":"Universidad Complutense de Madrid","ror":"https://ror.org/02p0gd045","country_code":"ES","type":"education","lineage":["https://openalex.org/I121748325"]},{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jose-Maria Carazo","raw_affiliation_strings":["1 BioComputing Unit, National Center of Biotechnology (CSIC), 2Integromics SL, Madrid and 3Computer Architecture Department. Facultad de CC F\u00edsicas. Universidad Complutense de Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"1 BioComputing Unit, National Center of Biotechnology (CSIC), 2Integromics SL, Madrid and 3Computer Architecture Department. Facultad de CC F\u00edsicas. Universidad Complutense de Madrid, Spain","institution_ids":["https://openalex.org/I4210104776","https://openalex.org/I121748325"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072639458","display_name":"Alberto Pascual-Montano","orcid":null},"institutions":[{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]},{"id":"https://openalex.org/I121748325","display_name":"Universidad Complutense de Madrid","ror":"https://ror.org/02p0gd045","country_code":"ES","type":"education","lineage":["https://openalex.org/I121748325"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Alberto Pascual-Montano","raw_affiliation_strings":["1 BioComputing Unit, National Center of Biotechnology (CSIC), 2Integromics SL, Madrid and 3Computer Architecture Department. Facultad de CC F\u00edsicas. Universidad Complutense de Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"1 BioComputing Unit, National Center of Biotechnology (CSIC), 2Integromics SL, Madrid and 3Computer Architecture Department. Facultad de CC F\u00edsicas. Universidad Complutense de Madrid, Spain","institution_ids":["https://openalex.org/I4210104776","https://openalex.org/I121748325"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5072639458"],"corresponding_institution_ids":["https://openalex.org/I121748325","https://openalex.org/I4210104776"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.3467,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.80243962,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"24","issue":"9","first_page":"1208","last_page":"1209"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10497","display_name":"Fungal and yeast genetics research","score":0.9987000226974487,"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/T10497","display_name":"Fungal and yeast genetics research","score":0.9987000226974487,"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":0.9804999828338623,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9775999784469604,"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/chip","display_name":"Chip","score":0.7175701856613159},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.62563556432724},{"id":"https://openalex.org/keywords/yeast","display_name":"Yeast","score":0.5251540541648865},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.42893803119659424},{"id":"https://openalex.org/keywords/embedded-system","display_name":"Embedded system","score":0.34380847215652466},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16214153170585632},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10571998357772827},{"id":"https://openalex.org/keywords/telecommunications","display_name":"Telecommunications","score":0.0808122456073761}],"concepts":[{"id":"https://openalex.org/C165005293","wikidata":"https://www.wikidata.org/wiki/Q1074500","display_name":"Chip","level":2,"score":0.7175701856613159},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.62563556432724},{"id":"https://openalex.org/C2779222958","wikidata":"https://www.wikidata.org/wiki/Q45422","display_name":"Yeast","level":2,"score":0.5251540541648865},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.42893803119659424},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.34380847215652466},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16214153170585632},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10571998357772827},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0808122456073761}],"mesh":[{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"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":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","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":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btn094","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn094","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/9/1208/49046752/bioinformatics_24_9_1208.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:18339638","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18339638","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:digital.csic.es:10261/8684","is_oa":false,"landing_page_url":"http://hdl.handle.net/10261/8684","pdf_url":null,"source":{"id":"https://openalex.org/S4306401639","display_name":"DIGITAL.CSIC (Spanish National Research Council (CSIC))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I134820265","host_organization_name":"Consejo Superior de Investigaciones Cient\u00edficas","host_organization_lineage":["https://openalex.org/I134820265"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Art\u00edculo"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btn094","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn094","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/9/1208/49046752/bioinformatics_24_9_1208.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.7099999785423279,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321837","display_name":"Ministerio de Econom\u00eda y Competitividad","ror":"https://ror.org/034900433"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2158100548.pdf","grobid_xml":"https://content.openalex.org/works/W2158100548.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W1644724366","https://openalex.org/W1997921822","https://openalex.org/W2009001778","https://openalex.org/W2011282682","https://openalex.org/W2041476574","https://openalex.org/W2077941487","https://openalex.org/W2080498142","https://openalex.org/W2084833542","https://openalex.org/W2090730621","https://openalex.org/W2104488717","https://openalex.org/W2109619915","https://openalex.org/W2125508747","https://openalex.org/W2126602684","https://openalex.org/W2166574880","https://openalex.org/W2167190345","https://openalex.org/W4212987372","https://openalex.org/W6660723967"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W261727187","https://openalex.org/W4240624121","https://openalex.org/W2124768480","https://openalex.org/W1985900993","https://openalex.org/W2385199909","https://openalex.org/W4234489124","https://openalex.org/W2390279801","https://openalex.org/W191878457","https://openalex.org/W2358668433"],"abstract_inverted_index":{"http://chipcodis.dacya.ucm.es":[0]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
