{"id":"https://openalex.org/W2170148990","doi":"https://doi.org/10.1109/bibm.2010.5706537","title":"Protein-protein interaction prediction via Collective Matrix Factorization","display_name":"Protein-protein interaction prediction via Collective Matrix Factorization","publication_year":2010,"publication_date":"2010-12-01","ids":{"openalex":"https://openalex.org/W2170148990","doi":"https://doi.org/10.1109/bibm.2010.5706537","mag":"2170148990"},"language":"en","primary_location":{"id":"doi:10.1109/bibm.2010.5706537","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2010.5706537","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2010 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","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/A5100685889","display_name":"Qian Xu","orcid":"https://orcid.org/0000-0002-9180-3487"},"institutions":[{"id":"https://openalex.org/I200769079","display_name":"Hong Kong University of Science and Technology","ror":"https://ror.org/00q4vv597","country_code":"HK","type":"education","lineage":["https://openalex.org/I200769079"]},{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":true,"raw_author_name":"Qian Xu","raw_affiliation_strings":["Bioengineering Program, HKUST, Hong Kong, China"],"affiliations":[{"raw_affiliation_string":"Bioengineering Program, HKUST, Hong Kong, China","institution_ids":["https://openalex.org/I200769079","https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059591440","display_name":"Evan Wei Xiang","orcid":null},"institutions":[{"id":"https://openalex.org/I200769079","display_name":"Hong Kong University of Science and Technology","ror":"https://ror.org/00q4vv597","country_code":"HK","type":"education","lineage":["https://openalex.org/I200769079"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Evan Wei Xiang","raw_affiliation_strings":["Department of Computer Science and Engineering, HKUST, Hong Kong, China"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, HKUST, Hong Kong, China","institution_ids":["https://openalex.org/I200769079"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100636286","display_name":"Qiang Yang","orcid":"https://orcid.org/0000-0001-5059-8360"},"institutions":[{"id":"https://openalex.org/I200769079","display_name":"Hong Kong University of Science and Technology","ror":"https://ror.org/00q4vv597","country_code":"HK","type":"education","lineage":["https://openalex.org/I200769079"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Qiang Yang","raw_affiliation_strings":["Department of Computer Science and Engineering, HKUST, Hong Kong, China"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, HKUST, Hong Kong, China","institution_ids":["https://openalex.org/I200769079"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5100685889"],"corresponding_institution_ids":["https://openalex.org/I200769079","https://openalex.org/I889458895"],"apc_list":null,"apc_paid":null,"fwci":0.6777,"has_fulltext":false,"cited_by_count":51,"citation_normalized_percentile":{"value":0.70195065,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":null,"issue":null,"first_page":"62","last_page":"67"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998000264167786,"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":0.9998000264167786,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9926999807357788,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9926000237464905,"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/computer-science","display_name":"Computer science","score":0.7514733076095581},{"id":"https://openalex.org/keywords/protein-interaction-networks","display_name":"Protein Interaction Networks","score":0.5777061581611633},{"id":"https://openalex.org/keywords/linkage","display_name":"Linkage (software)","score":0.5692987442016602},{"id":"https://openalex.org/keywords/matrix-decomposition","display_name":"Matrix decomposition","score":0.5597988963127136},{"id":"https://openalex.org/keywords/non-negative-matrix-factorization","display_name":"Non-negative matrix factorization","score":0.5590077042579651},{"id":"https://openalex.org/keywords/interaction-network","display_name":"Interaction network","score":0.5215256810188293},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5086763501167297},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5025053024291992},{"id":"https://openalex.org/keywords/sparse-matrix","display_name":"Sparse matrix","score":0.43570831418037415},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.41713374853134155},{"id":"https://openalex.org/keywords/protein\u2013protein-interaction","display_name":"Protein\u2013protein interaction","score":0.2538187503814697},{"id":"https://openalex.org/keywords/gaussian","display_name":"Gaussian","score":0.0927572250366211}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7514733076095581},{"id":"https://openalex.org/C2909613950","wikidata":"https://www.wikidata.org/wiki/Q158695","display_name":"Protein Interaction Networks","level":3,"score":0.5777061581611633},{"id":"https://openalex.org/C31266012","wikidata":"https://www.wikidata.org/wiki/Q6554340","display_name":"Linkage (software)","level":3,"score":0.5692987442016602},{"id":"https://openalex.org/C42355184","wikidata":"https://www.wikidata.org/wiki/Q1361088","display_name":"Matrix decomposition","level":3,"score":0.5597988963127136},{"id":"https://openalex.org/C152671427","wikidata":"https://www.wikidata.org/wiki/Q10843505","display_name":"Non-negative matrix factorization","level":4,"score":0.5590077042579651},{"id":"https://openalex.org/C55105296","wikidata":"https://www.wikidata.org/wiki/Q841382","display_name":"Interaction network","level":3,"score":0.5215256810188293},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5086763501167297},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5025053024291992},{"id":"https://openalex.org/C56372850","wikidata":"https://www.wikidata.org/wiki/Q1050404","display_name":"Sparse matrix","level":3,"score":0.43570831418037415},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.41713374853134155},{"id":"https://openalex.org/C11804247","wikidata":"https://www.wikidata.org/wiki/Q896177","display_name":"Protein\u2013protein interaction","level":2,"score":0.2538187503814697},{"id":"https://openalex.org/C163716315","wikidata":"https://www.wikidata.org/wiki/Q901177","display_name":"Gaussian","level":2,"score":0.0927572250366211},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C158693339","wikidata":"https://www.wikidata.org/wiki/Q190524","display_name":"Eigenvalues and eigenvectors","level":2,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","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},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/bibm.2010.5706537","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2010.5706537","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2010 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.467.7808","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.467.7808","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://er2004.cse.ust.hk/~qyang/Docs/2010/bibm2010.pdf","raw_type":"text"},{"id":"pmh:oai:repository.hkust.edu.hk:1783.1-35222","is_oa":false,"landing_page_url":"http://repository.hkust.edu.hk/ir/Record/1783.1-35222","pdf_url":null,"source":{"id":"https://openalex.org/S4306401796","display_name":"Rare & Special e-Zone (The Hong Kong University of Science and Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I200769079","host_organization_name":"Hong Kong University of Science and Technology","host_organization_lineage":["https://openalex.org/I200769079"],"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":"Conference paper"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Decent work and economic growth","score":0.699999988079071,"id":"https://metadata.un.org/sdg/8"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320323537","display_name":"Hong Kong University of Science and Technology","ror":"https://ror.org/00q4vv597"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":37,"referenced_works":["https://openalex.org/W48643329","https://openalex.org/W143867266","https://openalex.org/W1502375784","https://openalex.org/W1577068911","https://openalex.org/W1963916671","https://openalex.org/W1966421023","https://openalex.org/W1975305782","https://openalex.org/W1975888060","https://openalex.org/W1984886691","https://openalex.org/W1994108141","https://openalex.org/W2029574260","https://openalex.org/W2042613054","https://openalex.org/W2045131140","https://openalex.org/W2056124433","https://openalex.org/W2087064593","https://openalex.org/W2099862356","https://openalex.org/W2103729016","https://openalex.org/W2107340752","https://openalex.org/W2113654464","https://openalex.org/W2116089841","https://openalex.org/W2117403572","https://openalex.org/W2117420919","https://openalex.org/W2127637605","https://openalex.org/W2137965757","https://openalex.org/W2145753039","https://openalex.org/W2147736120","https://openalex.org/W2150452800","https://openalex.org/W2158698691","https://openalex.org/W2166814967","https://openalex.org/W2167348517","https://openalex.org/W2169816580","https://openalex.org/W2171333143","https://openalex.org/W4237572013","https://openalex.org/W6602014579","https://openalex.org/W6634686832","https://openalex.org/W6684593029","https://openalex.org/W6685104818"],"related_works":["https://openalex.org/W2127243424","https://openalex.org/W4390394189","https://openalex.org/W2037504162","https://openalex.org/W2539013788","https://openalex.org/W2792706544","https://openalex.org/W1568451138","https://openalex.org/W2156699640","https://openalex.org/W2045265907","https://openalex.org/W2972997031","https://openalex.org/W2146544734"],"abstract_inverted_index":{"Protein-protein":[0],"interactions":[1,25],"(PPI)":[2],"play":[3],"an":[4],"important":[5,17],"role":[6],"in":[7,63,129],"cellular":[8],"processes":[9,12],"and":[10,36,48,54,166,189,205],"metabolic":[11],"within":[13],"a":[14,109,119,126,152,164,167,186,192],"cell.":[15],"An":[16],"task":[18],"is":[19,95,158],"to":[20,97,108,112,141,151,159,211],"determine":[21],"the":[22,99,114,134,161],"existence":[23],"of":[24,41],"among":[26],"proteins.":[27],"Unfortunately,":[28],"existing":[29],"biological":[30],"experimental":[31,196],"techniques":[32],"are":[33,45,76],"expensive,":[34],"time-consuming":[35],"labor-intensive.":[37],"The":[38],"network":[39,88,120,150,169,171],"structures":[40],"many":[42,51],"such":[43],"networks":[44,65,75,107],"sparse,":[46],"incomplete":[47],"noisy,":[49],"containing":[50],"false":[52,55],"positive":[53],"negatives.":[56],"Thus,":[57],"state-of-the-art":[58],"methods":[59],"for":[60],"link":[61],"prediction":[62,70,115],"these":[64],"often":[66],"cannot":[67],"give":[68],"satisfactory":[69],"results,":[71],"especially":[72],"when":[73],"some":[74,103,212],"extremely":[77],"sparse.":[78],"Noticing":[79,117],"that":[80,118,199],"we":[81,90,132],"typically":[82],"have":[83],"more":[84,206],"than":[85],"one":[86],"PPI":[87],"available,":[89],"naturally":[91],"wonder":[92],"whether":[93],"it":[94],"possible":[96],"'transfer'":[98,142],"linkage":[100,144],"knowledge":[101,145],"from":[102,146],"existing,":[104],"relatively":[105,147],"dense":[106,148],"sparse":[110,153],"network,":[111],"improve":[113],"performance.":[116],"structure":[121],"can":[122,202],"be":[123],"modeled":[124],"using":[125],"matrix":[127],"model,":[128],"this":[130,175],"paper,":[131],"introduce":[133],"well-known":[135],"Collective":[136],"Matrix":[137],"Factorization":[138],"(CMF)":[139],"technique":[140],"usable":[143],"interaction":[149,181],"target":[154,168,187],"network.":[155],"Our":[156,195],"approach":[157],"establish":[160],"correspondence":[162],"between":[163],"source":[165,193],"via":[170],"similarities.":[172],"We":[173],"test":[174],"method":[176,201],"on":[177],"two":[178],"real":[179],"protein-protein":[180],"networks,":[182],"Helicobacter":[183],"pylori":[184],"(as":[185,191],"network)":[188],"Human":[190],"network).":[194],"results":[197],"show":[198],"our":[200],"achieve":[203],"higher":[204],"robust":[207],"performance":[208],"as":[209],"compared":[210],"baseline":[213],"methods.":[214]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":28},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":5},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}