{"id":"https://openalex.org/W2066645376","doi":"https://doi.org/10.1145/2808719.2808731","title":"Counting motifs in probabilistic biological networks","display_name":"Counting motifs in probabilistic biological networks","publication_year":2015,"publication_date":"2015-09-09","ids":{"openalex":"https://openalex.org/W2066645376","doi":"https://doi.org/10.1145/2808719.2808731","mag":"2066645376"},"language":"en","primary_location":{"id":"doi:10.1145/2808719.2808731","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2808719.2808731","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 6th ACM Conference on Bioinformatics, Computational Biology and Health Informatics","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/A5110044411","display_name":"Andrei Todor","orcid":null},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrei Todor","raw_affiliation_strings":["University of Florida, Gainesville, FL"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Florida, Gainesville, FL","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008335723","display_name":"Alin Dobra","orcid":"https://orcid.org/0000-0003-2033-9952"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alin Dobra","raw_affiliation_strings":["University of Florida, Gainesville, FL"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Florida, Gainesville, FL","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091769289","display_name":"Tamer Kahveci","orcid":"https://orcid.org/0000-0002-4403-8612"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tamer Kahveci","raw_affiliation_strings":["University of Florida, Gainesville, FL"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Florida, Gainesville, FL","institution_ids":["https://openalex.org/I33213144"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.4518,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.65863102,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"116","last_page":"125"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"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":0.9997000098228455,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9958999752998352,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9948999881744385,"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/probabilistic-logic","display_name":"Probabilistic logic","score":0.7767980694770813},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7427825927734375},{"id":"https://openalex.org/keywords/network-topology","display_name":"Network topology","score":0.7388244271278381},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.7219744920730591},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.5287411212921143},{"id":"https://openalex.org/keywords/network-motif","display_name":"Network motif","score":0.5275573134422302},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.4736798107624054},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.449199378490448},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4437447190284729},{"id":"https://openalex.org/keywords/probabilistic-method","display_name":"Probabilistic method","score":0.4361482262611389},{"id":"https://openalex.org/keywords/complex-network","display_name":"Complex network","score":0.39646175503730774},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.35919690132141113},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.181168794631958},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.17796793580055237},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.099458247423172},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.07805901765823364}],"concepts":[{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.7767980694770813},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7427825927734375},{"id":"https://openalex.org/C199845137","wikidata":"https://www.wikidata.org/wiki/Q145490","display_name":"Network topology","level":2,"score":0.7388244271278381},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.7219744920730591},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.5287411212921143},{"id":"https://openalex.org/C60723933","wikidata":"https://www.wikidata.org/wiki/Q7001080","display_name":"Network motif","level":3,"score":0.5275573134422302},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.4736798107624054},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.449199378490448},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4437447190284729},{"id":"https://openalex.org/C60782215","wikidata":"https://www.wikidata.org/wiki/Q3333679","display_name":"Probabilistic method","level":3,"score":0.4361482262611389},{"id":"https://openalex.org/C34947359","wikidata":"https://www.wikidata.org/wiki/Q665189","display_name":"Complex network","level":2,"score":0.39646175503730774},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.35919690132141113},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.181168794631958},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.17796793580055237},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.099458247423172},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.07805901765823364},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.0},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2808719.2808731","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2808719.2808731","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 6th ACM Conference on Bioinformatics, Computational Biology and Health Informatics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":30,"referenced_works":["https://openalex.org/W1483118642","https://openalex.org/W1603241183","https://openalex.org/W2001554877","https://openalex.org/W2008620264","https://openalex.org/W2010707723","https://openalex.org/W2027439534","https://openalex.org/W2029230311","https://openalex.org/W2047693963","https://openalex.org/W2056069438","https://openalex.org/W2056903220","https://openalex.org/W2057545775","https://openalex.org/W2060071214","https://openalex.org/W2063389953","https://openalex.org/W2080182143","https://openalex.org/W2093050872","https://openalex.org/W2097769475","https://openalex.org/W2105039688","https://openalex.org/W2106336008","https://openalex.org/W2110503722","https://openalex.org/W2110699703","https://openalex.org/W2112090702","https://openalex.org/W2118423420","https://openalex.org/W2122144032","https://openalex.org/W2136316164","https://openalex.org/W2137896695","https://openalex.org/W2153624566","https://openalex.org/W2298927951","https://openalex.org/W6652609139","https://openalex.org/W6665679298","https://openalex.org/W6673619857"],"related_works":["https://openalex.org/W2796517744","https://openalex.org/W15348386","https://openalex.org/W2807926763","https://openalex.org/W2951915565","https://openalex.org/W2090574217","https://openalex.org/W2143557297","https://openalex.org/W2070704205","https://openalex.org/W2353485001","https://openalex.org/W2795736690","https://openalex.org/W2066645376"],"abstract_inverted_index":{"Studying":[0],"the":[1,12,34,61,65,71,91],"distribution":[2],"of":[3,15,64,70,73,75,141,153],"motifs":[4,19,77,136],"in":[5,20,78,137,148],"biological":[6,38],"networks":[7,21,39,119,125,140,152],"provides":[8],"valuable":[9],"insights":[10],"about":[11],"key":[13,76],"functions":[14],"these":[16],"networks.":[17,96],"Finding":[18],"is":[22,30,45,99],"however":[23],"a":[24,84],"computationally":[25],"challenging":[26],"task.":[27],"This":[28],"task":[29],"further":[31],"complicated":[32],"by":[33],"fact":[35],"that":[36,111],"inherently,":[37],"have":[40],"uncertain":[41],"topologies.":[42,107],"Such":[43],"uncertainty":[44],"often":[46],"described":[47],"using":[48],"probabilistic":[49,79],"network":[50],"models.":[51],"In":[52],"this":[53,57],"study":[54],"we":[55,133],"tackle":[56],"challenge.":[58],"We":[59],"present":[60],"exact":[62],"computation":[63],"expected":[66],"value":[67],"and":[68,101],"variance":[69,92],"number":[72],"occurrences":[74],"networks,":[80],"as":[81,83,120,122,145,147],"well":[82,121,146],"specialized":[85],"sampling":[86],"approximate":[87],"method":[88,98,113],"for":[89,93],"computing":[90],"very":[94],"large":[95,116],"Our":[97,108],"generic,":[100],"easily":[102],"extends":[103],"to":[104,115],"arbitrary":[105],"motif":[106],"experiments":[109],"demonstrate":[110],"our":[112,131],"scales":[114],"protein":[117],"interaction":[118,139],"synthetically":[123],"generated":[124],"with":[126,157],"different":[127,143,154,158],"connectivity":[128],"patterns.":[129],"Using":[130],"method,":[132],"identify":[134],"over-represented":[135],"protein-protein":[138],"five":[142],"organisms,":[144],"human":[149,155],"transcription":[150],"regulatory":[151],"cells":[156],"lineages.":[159]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":4},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}