{"id":"https://openalex.org/W2119464234","doi":"https://doi.org/10.1155/2009/787128","title":"Accurate and Scalable Techniques for the Complex/Pathway Membership Problem in Protein Networks","display_name":"Accurate and Scalable Techniques for the Complex/Pathway Membership Problem in Protein Networks","publication_year":2009,"publication_date":"2009-02-23","ids":{"openalex":"https://openalex.org/W2119464234","doi":"https://doi.org/10.1155/2009/787128","mag":"2119464234","pmid":"https://pubmed.ncbi.nlm.nih.gov/20182643"},"language":"en","primary_location":{"id":"doi:10.1155/2009/787128","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2009/787128","pdf_url":"https://downloads.hindawi.com/archive/2009/787128.pdf","source":{"id":"https://openalex.org/S146125958","display_name":"Advances in Bioinformatics","issn_l":"1687-8027","issn":["1687-8027","1687-8035"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advances in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://downloads.hindawi.com/archive/2009/787128.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5056984579","display_name":"Orhan \u00c7amo\u01e7lu","orcid":null},"institutions":[{"id":"https://openalex.org/I154570441","display_name":"University of California, Santa Barbara","ror":"https://ror.org/02t274463","country_code":"US","type":"education","lineage":["https://openalex.org/I154570441"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Orhan \u00c7amo\u011flu","raw_affiliation_strings":["Department of Computer Science, University of California, Santa Barbara, CA 93106, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of California, Santa Barbara, CA 93106, USA","institution_ids":["https://openalex.org/I154570441"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045764563","display_name":"Tolga Can","orcid":"https://orcid.org/0000-0002-5532-0154"},"institutions":[{"id":"https://openalex.org/I201799495","display_name":"Middle East Technical University","ror":"https://ror.org/014weej12","country_code":"TR","type":"education","lineage":["https://openalex.org/I201799495"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Tolga Can","raw_affiliation_strings":["Department of Computer Engineering, Middle East Technical University, 06531 Ankara, Turkey"],"raw_orcid":"https://orcid.org/0000-0002-5532-0154","affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Middle East Technical University, 06531 Ankara, Turkey","institution_ids":["https://openalex.org/I201799495"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5036639779","display_name":"Ambuj K. Singh","orcid":"https://orcid.org/0000-0002-1997-7140"},"institutions":[{"id":"https://openalex.org/I154570441","display_name":"University of California, Santa Barbara","ror":"https://ror.org/02t274463","country_code":"US","type":"education","lineage":["https://openalex.org/I154570441"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ambuj K. Singh","raw_affiliation_strings":["Department of Computer Science, University of California, Santa Barbara, CA 93106, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of California, Santa Barbara, CA 93106, USA","institution_ids":["https://openalex.org/I154570441"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5056984579"],"corresponding_institution_ids":["https://openalex.org/I154570441"],"apc_list":null,"apc_paid":null,"fwci":0.2696,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.60555552,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":"2009","issue":null,"first_page":"1","last_page":"9"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9994000196456909,"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":0.9994000196456909,"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":0.984499990940094,"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/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9840999841690063,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8073053359985352},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.7436387538909912},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.6652408838272095},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5377632975578308},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.4498814046382904},{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.4247281551361084},{"id":"https://openalex.org/keywords/degree","display_name":"Degree (music)","score":0.411205530166626},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3510870337486267},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.2638540267944336},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.26207906007766724},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.08193150162696838}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8073053359985352},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.7436387538909912},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.6652408838272095},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5377632975578308},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4498814046382904},{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.4247281551361084},{"id":"https://openalex.org/C2775997480","wikidata":"https://www.wikidata.org/wiki/Q586277","display_name":"Degree (music)","level":2,"score":0.411205530166626},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3510870337486267},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2638540267944336},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.26207906007766724},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.08193150162696838},{"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/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},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1155/2009/787128","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2009/787128","pdf_url":"https://downloads.hindawi.com/archive/2009/787128.pdf","source":{"id":"https://openalex.org/S146125958","display_name":"Advances in Bioinformatics","issn_l":"1687-8027","issn":["1687-8027","1687-8035"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advances in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:20182643","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20182643","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":"Advances in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2826754","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2826754","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Adv Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1155/2009/787128","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2009/787128","pdf_url":"https://downloads.hindawi.com/archive/2009/787128.pdf","source":{"id":"https://openalex.org/S146125958","display_name":"Advances in Bioinformatics","issn_l":"1687-8027","issn":["1687-8027","1687-8035"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advances in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2119464234.pdf","grobid_xml":"https://content.openalex.org/works/W2119464234.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W1514107797","https://openalex.org/W1542652324","https://openalex.org/W1983493033","https://openalex.org/W1984567848","https://openalex.org/W2037036397","https://openalex.org/W2058441739","https://openalex.org/W2065304353","https://openalex.org/W2079007492","https://openalex.org/W2084619201","https://openalex.org/W2097706568","https://openalex.org/W2115826669","https://openalex.org/W2121832783","https://openalex.org/W2122964432","https://openalex.org/W2130790725","https://openalex.org/W2131456688","https://openalex.org/W2140000393","https://openalex.org/W2150681269","https://openalex.org/W2151135734","https://openalex.org/W2165874743","https://openalex.org/W2167869241","https://openalex.org/W2171403830","https://openalex.org/W2171662214","https://openalex.org/W2799004609"],"related_works":["https://openalex.org/W1973959357","https://openalex.org/W2360158017","https://openalex.org/W2126785046","https://openalex.org/W1982829397","https://openalex.org/W2399035783","https://openalex.org/W2114802749","https://openalex.org/W2140673944","https://openalex.org/W2911822841","https://openalex.org/W2258364789","https://openalex.org/W4205828568"],"abstract_inverted_index":{"A":[0,28],"protein":[1,72],"network":[2,85],"shows":[3],"physical":[4],"interactions":[5],"as":[6,8],"well":[7,110],"functional":[9],"associations.":[10],"An":[11],"important":[12],"usage":[13],"of":[14,22,30,49,68,70,93,96,114,129],"such":[15,34],"networks":[16],"is":[17,145],"to":[18,88,108,147,159],"discover":[19],"unknown":[20],"members":[21],"partially":[23],"known":[24],"complexes":[25,79],"and":[26,36,80,131,152],"pathways.":[27,81],"number":[29,128],"methods":[31,59],"exist":[32],"for":[33,77,125],"analyses,":[35],"they":[37],"can":[38],"be":[39],"divided":[40],"into":[41],"two":[42],"main":[43],"categories":[44],"based":[45],"on":[46],"their":[47],"treatment":[48],"highly":[50],"connected":[51],"proteins.":[52,97],"In":[53],"this":[54],"paper,":[55],"we":[56],"show":[57,118],"that":[58,60,119,163],"are":[61,122,134],"not":[62,123],"affected":[63],"by":[64],"the":[65,90,100,112],"degree":[66],"(number":[67],"linkages)":[69],"a":[71,84,94,126,160],"give":[73],"more":[74,135],"accurate":[75],"predictions":[76],"certain":[78],"We":[82,98,116],"propose":[83],"flow-based":[86],"technique":[87,102,142],"compute":[89],"association":[91],"probability":[92],"pair":[95],"extend":[99],"proposed":[101],"using":[103],"hierarchical":[104],"clustering":[105,144],"in":[106,137],"order":[107],"scale":[109],"with":[111,143,155],"size":[113],"proteome.":[115],"also":[117],"top-k":[120],"queries":[121,133,151],"suitable":[124],"large":[127],"cases,":[130],"threshold":[132,150],"meaningful":[136,149],"these":[138],"cases.":[139],"Network":[140],"flow":[141],"able":[146],"optimize":[148],"answer":[153],"them":[154],"high":[156],"efficiency":[157],"compared":[158],"similar":[161],"method":[162],"uses":[164],"Monte":[165],"Carlo":[166],"simulation.":[167]},"counts_by_year":[{"year":2012,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
