{"id":"https://openalex.org/W2584628929","doi":"https://doi.org/10.1093/bioinformatics/btx051","title":"NSSRF: global network similarity search with subgraph signatures and its applications","display_name":"NSSRF: global network similarity search with subgraph signatures and its applications","publication_year":2017,"publication_date":"2017-01-30","ids":{"openalex":"https://openalex.org/W2584628929","doi":"https://doi.org/10.1093/bioinformatics/btx051","mag":"2584628929","pmid":"https://pubmed.ncbi.nlm.nih.gov/28158419"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx051","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx051","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","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/A5100317587","display_name":"Jiao Zhang","orcid":"https://orcid.org/0000-0001-8218-3688"},"institutions":[{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Jiao Zhang","raw_affiliation_strings":["Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong","institution_ids":["https://openalex.org/I168719708"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008386708","display_name":"Sam Kwong","orcid":"https://orcid.org/0000-0001-7484-7261"},"institutions":[{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Sam Kwong","raw_affiliation_strings":["Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong","institution_ids":["https://openalex.org/I168719708"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013880628","display_name":"Yuheng Jia","orcid":"https://orcid.org/0000-0002-3907-6550"},"institutions":[{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Yuheng Jia","raw_affiliation_strings":["Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong","institution_ids":["https://openalex.org/I168719708"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5030015771","display_name":"Ka\u2010Chun Wong","orcid":"https://orcid.org/0000-0001-6062-733X"},"institutions":[{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["HK"],"is_corresponding":true,"raw_author_name":"Ka-Chun Wong","raw_affiliation_strings":["Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong","institution_ids":["https://openalex.org/I168719708"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5030015771"],"corresponding_institution_ids":["https://openalex.org/I168719708"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.4372,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.61316326,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"33","issue":"11","first_page":"1696","last_page":"1702"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.7397000193595886,"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":0.7397000193595886,"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":0.08169999718666077,"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/T12292","display_name":"Graph Theory and Algorithms","score":0.054499998688697815,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7357923984527588},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.6421204209327698},{"id":"https://openalex.org/keywords/nearest-neighbor-search","display_name":"Nearest neighbor search","score":0.6134240627288818},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5910189747810364},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2823915481567383},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.09885454177856445}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7357923984527588},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.6421204209327698},{"id":"https://openalex.org/C116738811","wikidata":"https://www.wikidata.org/wiki/Q608751","display_name":"Nearest neighbor search","level":2,"score":0.6134240627288818},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5910189747810364},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2823915481567383},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.09885454177856445}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btx051","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx051","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:28158419","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28158419","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.6800000071525574,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G2998413974","display_name":null,"funder_award_id":"72004444","funder_id":"https://openalex.org/F4320309893","funder_display_name":"City University of Hong Kong"}],"funders":[{"id":"https://openalex.org/F4320309893","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W137249086","https://openalex.org/W1984249061","https://openalex.org/W1986803878","https://openalex.org/W2012459404","https://openalex.org/W2026595597","https://openalex.org/W2040676413","https://openalex.org/W2092986233","https://openalex.org/W2096725584","https://openalex.org/W2096729078","https://openalex.org/W2101511590","https://openalex.org/W2103017472","https://openalex.org/W2106525823","https://openalex.org/W2109110326","https://openalex.org/W2119021615","https://openalex.org/W2124533460","https://openalex.org/W2128408632","https://openalex.org/W2153624566","https://openalex.org/W2155834877","https://openalex.org/W2157523980","https://openalex.org/W2159482845","https://openalex.org/W2159693571","https://openalex.org/W2167139431","https://openalex.org/W2254156100","https://openalex.org/W2340796580","https://openalex.org/W2557385283","https://openalex.org/W2911964244","https://openalex.org/W2915975108","https://openalex.org/W2998768810","https://openalex.org/W4294216483","https://openalex.org/W6605606876","https://openalex.org/W6646872213","https://openalex.org/W6673953622"],"related_works":["https://openalex.org/W3083116277","https://openalex.org/W2550092706","https://openalex.org/W2097704312","https://openalex.org/W2046947721","https://openalex.org/W3131368048","https://openalex.org/W1498782543","https://openalex.org/W2089099363","https://openalex.org/W2363946901","https://openalex.org/W2904170742","https://openalex.org/W2390847229"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1,245],"exponential":[2],"growth":[3],"of":[4,49,54,67,84,221,232,248,251],"biological":[5,189],"network":[6,13,22,25,42,56],"database":[7,38],"has":[8],"increasingly":[9],"rendered":[10],"the":[11,32,37,40,52,58,82,90,111,124,146,151,169,173,199,212,219,228,239],"global":[12,100],"similarity":[14,47,142,156,170],"search":[15,60,112],"(NSS)":[16],"computationally":[17],"intensive.":[18],"Given":[19],"a":[20,24,45,99],"query":[21,41,79,143,171],"and":[23,94,141,154,191,230,260],"database,":[26],"it":[27],"aims":[28],"to":[29,179],"find":[30],"out":[31],"top":[33],"similar":[34,181],"networks":[35],"in":[36,118,135,218],"against":[39],"based":[43,103],"on":[44,104,188],"topological":[46],"measure":[48],"interest.":[50],"With":[51],"advent":[53],"big":[55,222],"data,":[57],"existing":[59,240],"methods":[61],"may":[62],"become":[63],"unsuitable":[64],"since":[65],"some":[66],"them":[68],"could":[69,235],"render":[70],"queries":[71],"unsuccessful":[72],"by":[73,238],"returning":[74],"empty":[75],"answers":[76],"or":[77],"arbitrary":[78],"restrictions.":[80],"Therefore,":[81],"design":[83],"NSS":[85,101],"algorithm":[86],"remains":[87],"challenging":[88],"under":[89],"dilemma":[91],"between":[92],"accuracy":[93],"efficiency.":[95],"RESULTS:":[96],"We":[97,183],"propose":[98],"method":[102],"regression,":[105],"denotated":[106],"as":[107],"NSSRF,":[108],"which":[109,209,234],"boosts":[110],"speed":[113],"without":[114],"any":[115],"significant":[116],"sacrifice":[117],"practical":[119],"performance.":[120],"As":[121],"motivated":[122],"from":[123],"nature,":[125],"subgraph":[126,152],"signatures":[127,153],"are":[128,133,158,253,269],"heavily":[129],"involved.":[130],"Two":[131],"phases":[132],"proposed":[134,213],"NSSRF:":[136],"offline":[137,147],"model":[138,148,166,176],"building":[139,149],"phase":[140],"phase.":[144],"In":[145,168],"phase,":[150,172],"cosine":[155],"scores":[157],"used":[159],"for":[160,206,256],"efficient":[161],"random":[162],"forest":[163],"regression":[164,175],"(RFR)":[165],"training.":[167],"trained":[174],"is":[177],"queried":[178],"return":[180],"networks.":[182],"have":[184,226],"extensively":[185],"validated":[186],"NSSRF":[187,194,202,233,252],"pathways":[190],"molecular":[192],"structures;":[193],"demonstrates":[195],"competitive":[196],"performance":[197],"over":[198],"state-of-the-arts.":[200,241],"Remarkably,":[201],"works":[203],"especially":[204],"well":[205],"large":[207],"networks,":[208],"indicates":[210],"that":[211],"approach":[214],"can":[215],"be":[216,236],"promising":[217],"era":[220],"data.":[223],"Case":[224],"studies":[225],"proven":[227],"efficiencies":[229],"uniqueness":[231],"missed":[237],"AVAILABILITY":[242],"AND":[243],"IMPLEMENTATION:":[244],"source":[246],"code":[247],"two":[249],"versions":[250],"freely":[254],"available":[255,270],"downloading":[257],"at":[258,271],"https://github.com/zhangjiaobxy/nssrfBinary":[259],"https://github.com/zhangjiaobxy/nssrfPackage":[261],".":[262],"CONTACT:":[263],"kc.w@cityu.edu.hk.":[264],"SUPPLEMENTARY":[265],"INFORMATION:":[266],"Supplementary":[267],"data":[268],"Bioinformatics":[272],"online.":[273]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
