{"id":"https://openalex.org/W2435641471","doi":"https://doi.org/10.1109/tcbb.2015.2480066","title":"Detecting Functional Modules Based on a Multiple-Grain Model in Large-Scale Protein-Protein Interaction Networks","display_name":"Detecting Functional Modules Based on a Multiple-Grain Model in Large-Scale Protein-Protein Interaction Networks","publication_year":2015,"publication_date":"2015-09-18","ids":{"openalex":"https://openalex.org/W2435641471","doi":"https://doi.org/10.1109/tcbb.2015.2480066","mag":"2435641471","pmid":"https://pubmed.ncbi.nlm.nih.gov/26394434"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2015.2480066","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2015.2480066","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5035117617","display_name":"Junzhong Ji","orcid":"https://orcid.org/0000-0001-6951-741X"},"institutions":[{"id":"https://openalex.org/I37796252","display_name":"Beijing University of Technology","ror":"https://ror.org/037b1pp87","country_code":"CN","type":"education","lineage":["https://openalex.org/I37796252"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Junzhong Ji","raw_affiliation_strings":["Beijing Municipal Key Laboratory of Multimedia and Intelligent Software Technology, the College of Computer Science and Technology, Beijing University of Technology, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beijing Municipal Key Laboratory of Multimedia and Intelligent Software Technology, the College of Computer Science and Technology, Beijing University of Technology, Beijing, China","institution_ids":["https://openalex.org/I37796252"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101962049","display_name":"Jia\u2010Wei Lv","orcid":"https://orcid.org/0000-0001-9278-0929"},"institutions":[{"id":"https://openalex.org/I37796252","display_name":"Beijing University of Technology","ror":"https://ror.org/037b1pp87","country_code":"CN","type":"education","lineage":["https://openalex.org/I37796252"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiawei Lv","raw_affiliation_strings":["Beijing Municipal Key Laboratory of Multimedia and Intelligent Software Technology, the College of Computer Science and Technology, Beijing University of Technology, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beijing Municipal Key Laboratory of Multimedia and Intelligent Software Technology, the College of Computer Science and Technology, Beijing University of Technology, Beijing, China","institution_ids":["https://openalex.org/I37796252"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083745549","display_name":"Cuicui Yang","orcid":"https://orcid.org/0000-0002-4471-7447"},"institutions":[{"id":"https://openalex.org/I37796252","display_name":"Beijing University of Technology","ror":"https://ror.org/037b1pp87","country_code":"CN","type":"education","lineage":["https://openalex.org/I37796252"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Cuicui Yang","raw_affiliation_strings":["Beijing Municipal Key Laboratory of Multimedia and Intelligent Software Technology, the College of Computer Science and Technology, Beijing University of Technology, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beijing Municipal Key Laboratory of Multimedia and Intelligent Software Technology, the College of Computer Science and Technology, Beijing University of Technology, Beijing, China","institution_ids":["https://openalex.org/I37796252"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013588572","display_name":"Aidong Zhang","orcid":"https://orcid.org/0000-0001-9723-3246"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Aidong Zhang","raw_affiliation_strings":["Department of Computer Science and Engineering, University at Buffalo, The State University of New York, Buffalo, NY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, University at Buffalo, The State University of New York, Buffalo, NY","institution_ids":["https://openalex.org/I63190737"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.2755,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.60825761,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"13","issue":"4","first_page":"610","last_page":"622"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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":0.9995999932289124,"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":0.9936000108718872,"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":0.9933000206947327,"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/merge","display_name":"Merge (version control)","score":0.7777557969093323},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6848774552345276},{"id":"https://openalex.org/keywords/node","display_name":"Node (physics)","score":0.5024106502532959},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.4877260625362396},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.47833701968193054},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.4494304060935974},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.42944151163101196},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.38034507632255554},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3552094101905823},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3503618836402893},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.13892492651939392},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.10039904713630676}],"concepts":[{"id":"https://openalex.org/C197129107","wikidata":"https://www.wikidata.org/wiki/Q1921621","display_name":"Merge (version control)","level":2,"score":0.7777557969093323},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6848774552345276},{"id":"https://openalex.org/C62611344","wikidata":"https://www.wikidata.org/wiki/Q1062658","display_name":"Node (physics)","level":2,"score":0.5024106502532959},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.4877260625362396},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.47833701968193054},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4494304060935974},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.42944151163101196},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.38034507632255554},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3552094101905823},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3503618836402893},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.13892492651939392},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.10039904713630676},{"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/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","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/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C66938386","wikidata":"https://www.wikidata.org/wiki/Q633538","display_name":"Structural engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015003","descriptor_name":"Yeasts","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015003","descriptor_name":"Yeasts","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015003","descriptor_name":"Yeasts","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015003","descriptor_name":"Yeasts","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015003","descriptor_name":"Yeasts","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015003","descriptor_name":"Yeasts","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2015.2480066","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2015.2480066","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26394434","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26394434","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1244497533","display_name":null,"funder_award_id":"61375059","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1765240191","display_name":null,"funder_award_id":"20121103110031","funder_id":"https://openalex.org/F4320336024","funder_display_name":"Specialized Research Fund for the Doctoral Program of Higher Education of China"},{"id":"https://openalex.org/G267313036","display_name":null,"funder_award_id":"61332016","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320336024","display_name":"Specialized Research Fund for the Doctoral Program of Higher Education of China","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":46,"referenced_works":["https://openalex.org/W109709570","https://openalex.org/W122143408","https://openalex.org/W606701410","https://openalex.org/W614669698","https://openalex.org/W1485582261","https://openalex.org/W1563816212","https://openalex.org/W1575542444","https://openalex.org/W1973247012","https://openalex.org/W1974613511","https://openalex.org/W1979899431","https://openalex.org/W1986214964","https://openalex.org/W1987363726","https://openalex.org/W2005198909","https://openalex.org/W2006124679","https://openalex.org/W2007448777","https://openalex.org/W2018045523","https://openalex.org/W2041178998","https://openalex.org/W2056158214","https://openalex.org/W2061567983","https://openalex.org/W2076480502","https://openalex.org/W2084619201","https://openalex.org/W2091816809","https://openalex.org/W2097624459","https://openalex.org/W2100371004","https://openalex.org/W2100585269","https://openalex.org/W2109947205","https://openalex.org/W2109953984","https://openalex.org/W2110711069","https://openalex.org/W2117720828","https://openalex.org/W2123026189","https://openalex.org/W2123318061","https://openalex.org/W2124166542","https://openalex.org/W2124354935","https://openalex.org/W2136850043","https://openalex.org/W2138003801","https://openalex.org/W2138582694","https://openalex.org/W2139867489","https://openalex.org/W2147440061","https://openalex.org/W2149744196","https://openalex.org/W2152427885","https://openalex.org/W2152495216","https://openalex.org/W2165232124","https://openalex.org/W2165533101","https://openalex.org/W2178465836","https://openalex.org/W2318401729","https://openalex.org/W4240943811"],"related_works":["https://openalex.org/W4234886518","https://openalex.org/W2389591058","https://openalex.org/W2486541857","https://openalex.org/W2382112581","https://openalex.org/W3124036233","https://openalex.org/W2759366996","https://openalex.org/W2354081742","https://openalex.org/W2372661603","https://openalex.org/W1588041347","https://openalex.org/W2098964748"],"abstract_inverted_index":{"Detecting":[0],"functional":[1,37,63,98,160,181],"modules":[2,38,64,128,168,182],"from":[3],"a":[4,10,45,50,55,71,76,81,97,101,112],"Protein-Protein":[5],"Interaction":[6],"(PPI)":[7],"network":[8],"is":[9,43,119,176],"fundamental":[11],"and":[12,34,143],"hot":[13],"issue":[14],"in":[15,27,39,65,183],"proteomics":[16],"research,":[17],"where":[18],"many":[19],"computational":[20],"approaches":[21],"have":[22],"played":[23],"an":[24],"important":[25],"role":[26],"recent":[28],"years.":[29],"However,":[30],"how":[31],"to":[32,61,104,121,179],"effectively":[33,165],"efficiently":[35],"detect":[36,62,180],"large-scale":[40,141,184],"PPI":[41,59,66,77,185],"networks":[42],"still":[44],"challenging":[46],"problem.":[47],"We":[48],"present":[49],"new":[51],"framework,":[52],"based":[53],"on":[54,139],"multiple-grain":[56,72],"model":[57,74],"of":[58,75,126,159],"networks,":[60],"networks.":[67,145,186],"First,":[68],"we":[69,88],"give":[70],"representation":[73],"network,":[78],"which":[79,95],"has":[80],"smaller":[82],"scale":[83],"with":[84,115],"super":[85],"nodes.":[86],"Next,":[87],"design":[89],"the":[90,123,130,150,156],"protein":[91,124],"grain":[92,131],"partitioning":[93],"method,":[94],"employs":[96],"similarity":[99,103],"or":[100],"structural":[102],"merge":[105],"some":[106,171],"proteins":[107],"layer":[108],"by":[109],"layer.":[110],"Thirdly,":[111],"refining":[113],"mechanism":[114],"border":[116],"node":[117],"tests":[118],"proposed":[120],"address":[122],"overlapping":[125,167],"different":[127],"during":[129],"eliminating":[132],"process.":[133],"Finally,":[134],"systematic":[135],"experiments":[136],"are":[137],"conducted":[138],"five":[140],"yeast":[142],"human":[144],"The":[146],"results":[147],"show":[148],"that":[149],"framework":[151],"not":[152],"only":[153],"significantly":[154],"reduces":[155],"running":[157],"time":[158],"module":[161],"detection,":[162],"but":[163],"also":[164],"identifies":[166],"while":[169],"keeping":[170],"competitive":[172],"performances,":[173],"thus":[174],"it":[175],"highly":[177],"competent":[178]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1}],"updated_date":"2026-07-28T07:46:37.118299","created_date":"2025-10-10T00:00:00"}
