{"id":"https://openalex.org/W2124300909","doi":"https://doi.org/10.1109/cibcb.2008.4675769","title":"Reassessing the limit of data integration for the prediction of protein-protein interactions in Saccharomyces cerevisiae","display_name":"Reassessing the limit of data integration for the prediction of protein-protein interactions in Saccharomyces cerevisiae","publication_year":2008,"publication_date":"2008-09-01","ids":{"openalex":"https://openalex.org/W2124300909","doi":"https://doi.org/10.1109/cibcb.2008.4675769","mag":"2124300909"},"language":"en","primary_location":{"id":"doi:10.1109/cibcb.2008.4675769","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2008.4675769","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology","raw_type":"proceedings-article"},"type":"conference-paper","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/A5024303177","display_name":"Fiona Browne","orcid":"https://orcid.org/0000-0003-0443-4730"},"institutions":[{"id":"https://openalex.org/I138801177","display_name":"University of Ulster","ror":"https://ror.org/01yp9g959","country_code":"GB","type":"education","lineage":["https://openalex.org/I138801177"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Fiona Browne","raw_affiliation_strings":["School of Computing and Mathematics, University of Ulster, UK","Sch. of Comput. & Math., Univ. of Ulster, Belfast"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing and Mathematics, University of Ulster, UK","institution_ids":["https://openalex.org/I138801177"]},{"raw_affiliation_string":"Sch. of Comput. & Math., Univ. of Ulster, Belfast","institution_ids":["https://openalex.org/I138801177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100379058","display_name":"Haiying Wang","orcid":"https://orcid.org/0000-0001-8358-9065"},"institutions":[{"id":"https://openalex.org/I138801177","display_name":"University of Ulster","ror":"https://ror.org/01yp9g959","country_code":"GB","type":"education","lineage":["https://openalex.org/I138801177"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Haiying Wang","raw_affiliation_strings":["School of Computing and Mathematics, University of Ulster, UK","Sch. of Comput. & Math., Univ. of Ulster, Belfast"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing and Mathematics, University of Ulster, UK","institution_ids":["https://openalex.org/I138801177"]},{"raw_affiliation_string":"Sch. of Comput. & Math., Univ. of Ulster, Belfast","institution_ids":["https://openalex.org/I138801177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024401909","display_name":"Huiru Zheng","orcid":"https://orcid.org/0000-0001-7648-8709"},"institutions":[{"id":"https://openalex.org/I138801177","display_name":"University of Ulster","ror":"https://ror.org/01yp9g959","country_code":"GB","type":"education","lineage":["https://openalex.org/I138801177"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Huiru Zheng","raw_affiliation_strings":["School of Computing and Mathematics, University of Ulster, UK","Sch. of Comput. & Math., Univ. of Ulster, Belfast"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing and Mathematics, University of Ulster, UK","institution_ids":["https://openalex.org/I138801177"]},{"raw_affiliation_string":"Sch. of Comput. & Math., Univ. of Ulster, Belfast","institution_ids":["https://openalex.org/I138801177"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050612781","display_name":"Francisco Azuaje","orcid":"https://orcid.org/0000-0002-9207-9072"},"institutions":[{"id":"https://openalex.org/I138801177","display_name":"University of Ulster","ror":"https://ror.org/01yp9g959","country_code":"GB","type":"education","lineage":["https://openalex.org/I138801177"]},{"id":"https://openalex.org/I4405259354","display_name":"Centre de Recherche Public de la Sant\u00e9","ror":"https://ror.org/02485re30","country_code":"LU","type":"nonprofit","lineage":["https://openalex.org/I4405259354"]}],"countries":["GB","LU"],"is_corresponding":false,"raw_author_name":"Francisco Azuaje","raw_affiliation_strings":["Research Centre for Public Health CRP-Sant\u00e9, Luxembourg","Sch. of Comput. & Math., Univ. of Ulster, Belfast"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Centre for Public Health CRP-Sant\u00e9, Luxembourg","institution_ids":["https://openalex.org/I4405259354"]},{"raw_affiliation_string":"Sch. of Comput. & Math., Univ. of Ulster, Belfast","institution_ids":["https://openalex.org/I138801177"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"14","issue":null,"first_page":"128","last_page":"135"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9994999766349792,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9994999766349792,"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":0.9865999817848206,"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/T10497","display_name":"Fungal and yeast genetics research","score":0.9817000031471252,"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/receiver-operating-characteristic","display_name":"Receiver operating characteristic","score":0.721327006816864},{"id":"https://openalex.org/keywords/classifier","display_name":"Classifier (UML)","score":0.6209354400634766},{"id":"https://openalex.org/keywords/false-positive-rate","display_name":"False positive rate","score":0.5956154465675354},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5837218165397644},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5426507592201233},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.5084163546562195},{"id":"https://openalex.org/keywords/naive-bayes-classifier","display_name":"Naive Bayes classifier","score":0.502903163433075},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.4811598062515259},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4479958415031433},{"id":"https://openalex.org/keywords/saccharomyces-cerevisiae","display_name":"Saccharomyces cerevisiae","score":0.44739970564842224},{"id":"https://openalex.org/keywords/data-integration","display_name":"Data integration","score":0.4110277593135834},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.39293110370635986},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3815174698829651},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3668324947357178},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.29687178134918213},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20144692063331604},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.16657209396362305},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.12185904383659363}],"concepts":[{"id":"https://openalex.org/C58471807","wikidata":"https://www.wikidata.org/wiki/Q327120","display_name":"Receiver operating characteristic","level":2,"score":0.721327006816864},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.6209354400634766},{"id":"https://openalex.org/C95922358","wikidata":"https://www.wikidata.org/wiki/Q5432725","display_name":"False positive rate","level":2,"score":0.5956154465675354},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5837218165397644},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5426507592201233},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.5084163546562195},{"id":"https://openalex.org/C52001869","wikidata":"https://www.wikidata.org/wiki/Q812530","display_name":"Naive Bayes classifier","level":3,"score":0.502903163433075},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.4811598062515259},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4479958415031433},{"id":"https://openalex.org/C2777576037","wikidata":"https://www.wikidata.org/wiki/Q719725","display_name":"Saccharomyces cerevisiae","level":3,"score":0.44739970564842224},{"id":"https://openalex.org/C72634772","wikidata":"https://www.wikidata.org/wiki/Q386824","display_name":"Data integration","level":2,"score":0.4110277593135834},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.39293110370635986},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3815174698829651},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3668324947357178},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.29687178134918213},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20144692063331604},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.16657209396362305},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12185904383659363},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cibcb.2008.4675769","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2008.4675769","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":23,"referenced_works":["https://openalex.org/W1966701961","https://openalex.org/W1976526581","https://openalex.org/W2021025020","https://openalex.org/W2065304353","https://openalex.org/W2077159940","https://openalex.org/W2088216962","https://openalex.org/W2101181377","https://openalex.org/W2103017472","https://openalex.org/W2104315543","https://openalex.org/W2113019448","https://openalex.org/W2113654464","https://openalex.org/W2117569775","https://openalex.org/W2133138357","https://openalex.org/W2137786672","https://openalex.org/W2142460132","https://openalex.org/W2149310258","https://openalex.org/W2155440340","https://openalex.org/W2156223899","https://openalex.org/W2164954378","https://openalex.org/W2167869241","https://openalex.org/W4236956086","https://openalex.org/W6641809775","https://openalex.org/W6677602965"],"related_works":["https://openalex.org/W4388853415","https://openalex.org/W4315558101","https://openalex.org/W4385649027","https://openalex.org/W3200271510","https://openalex.org/W63366483","https://openalex.org/W1516770101","https://openalex.org/W1897466773","https://openalex.org/W2357011584","https://openalex.org/W2415514194","https://openalex.org/W2044571730"],"abstract_inverted_index":{"This":[0,154],"paper":[1],"investigates":[2],"the":[3,10,39,50,61,79,82,96,101,114,127,136,150,160],"integration":[4,151],"of":[5,12,52,63,81,95,130,152,162],"functional":[6],"genomic":[7,64,70],"data":[8],"for":[9],"prediction":[11],"protein-protein":[13],"interactions":[14,118],"(PPI)":[15],"in":[16,27,84,144,164],"Saccharomyces":[17],"cerevisiae.":[18],"A":[19],"previous":[20],"benchmark":[21],"study":[22,47],"observed":[23,148],"a":[24,53,122,141],"marginal":[25],"increase":[26,143],"predictive":[28,111],"power":[29],"when":[30],"integrating":[31],"diverse":[32],"features.":[33,153],"Classification":[34],"performance":[35,146],"was":[36,147],"evaluated":[37],"using":[38,121],"Receiver":[40],"Operating":[41],"Characteristic":[42],"(ROC)":[43],"curve.":[44,116],"In":[45],"this":[46,85],"we":[48],"propose":[49],"implementation":[51],"likelihood":[54],"ratio":[55],"based":[56],"Bayesian":[57],"classifier":[58,67],"to":[59,75,78,113,159],"reassess":[60],"limits":[62],"integration.":[65],"The":[66],"combines":[68],"seven":[69],"features":[71],"ranging":[72],"from":[73,126],"co-expression":[74],"essentiality.":[76],"Due":[77],"imbalance":[80],"dataset":[83],"study,":[86],"ROC":[87,115],"curves":[88],"may":[89],"present":[90],"an":[91],"overly":[92],"optimistic":[93],"view":[94],"classification":[97,145],"performance.":[98],"We":[99],"use":[100],"true":[102],"positive/false":[103],"positive":[104],"(TP/FP)":[105],"rate":[106],"and":[107,139,172],"sensitivity":[108],"as":[109,169],"comparative":[110],"measures":[112,137],"Predicted":[117],"are":[119],"verified":[120],"Gold":[123],"Standard":[124],"constructed":[125],"Munich":[128],"Database":[129],"Interacting":[131],"Proteins":[132],"Complex":[133],"Catalogue.":[134],"Using":[135],"TP/FP":[138],"sensitivity,":[140],"clear":[142],"with":[149],"framework":[155],"could":[156],"be":[157],"extended":[158],"analysis":[161],"PPI":[163],"more":[165],"complex":[166],"organisms":[167],"such":[168],"Drosophila":[170],"melanogaster":[171],"Homo":[173],"sapiens.":[174]},"counts_by_year":[],"updated_date":"2026-07-18T07:39:51.176621","created_date":"2025-10-10T00:00:00"}