{"id":"https://openalex.org/W2285770062","doi":"https://doi.org/10.1007/s13042-016-0503-5","title":"Investigating the impact human protein\u2013protein interaction networks have on disease-gene analysis","display_name":"Investigating the impact human protein\u2013protein interaction networks have on disease-gene analysis","publication_year":2016,"publication_date":"2016-02-13","ids":{"openalex":"https://openalex.org/W2285770062","doi":"https://doi.org/10.1007/s13042-016-0503-5","mag":"2285770062"},"language":"en","primary_location":{"id":"doi:10.1007/s13042-016-0503-5","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s13042-016-0503-5","pdf_url":"https://link.springer.com/content/pdf/10.1007%2Fs13042-016-0503-5.pdf","source":{"id":"https://openalex.org/S2764999920","display_name":"International Journal of Machine Learning and Cybernetics","issn_l":"1868-8071","issn":["1868-8071","1868-808X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Machine Learning and Cybernetics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://link.springer.com/content/pdf/10.1007%2Fs13042-016-0503-5.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5024303177","display_name":"Fiona Browne","orcid":"https://orcid.org/0000-0003-0443-4730"},"institutions":[{"id":"https://openalex.org/I138801177","display_name":"University of Ulster","ror":"https://ror.org/01yp9g959","country_code":"GB","type":"education","lineage":["https://openalex.org/I138801177"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Fiona Browne","raw_affiliation_strings":["Computer Science Research Institution, School of Computing and Mathematics, University of Ulster, Newtownabbey, Northern Ireland, UK"],"affiliations":[{"raw_affiliation_string":"Computer Science Research Institution, School of Computing and Mathematics, University of Ulster, Newtownabbey, Northern Ireland, UK","institution_ids":["https://openalex.org/I138801177"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100379058","display_name":"Haiying Wang","orcid":"https://orcid.org/0000-0001-8358-9065"},"institutions":[{"id":"https://openalex.org/I138801177","display_name":"University of Ulster","ror":"https://ror.org/01yp9g959","country_code":"GB","type":"education","lineage":["https://openalex.org/I138801177"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Haiying Wang","raw_affiliation_strings":["Computer Science Research Institution, School of Computing and Mathematics, University of Ulster, Newtownabbey, Northern Ireland, UK"],"affiliations":[{"raw_affiliation_string":"Computer Science Research Institution, School of Computing and Mathematics, University of Ulster, Newtownabbey, Northern Ireland, UK","institution_ids":["https://openalex.org/I138801177"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5024401909","display_name":"Huiru Zheng","orcid":"https://orcid.org/0000-0001-7648-8709"},"institutions":[{"id":"https://openalex.org/I138801177","display_name":"University of Ulster","ror":"https://ror.org/01yp9g959","country_code":"GB","type":"education","lineage":["https://openalex.org/I138801177"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Huiru Zheng","raw_affiliation_strings":["Computer Science Research Institution, School of Computing and Mathematics, University of Ulster, Newtownabbey, Northern Ireland, UK"],"affiliations":[{"raw_affiliation_string":"Computer Science Research Institution, School of Computing and Mathematics, University of Ulster, Newtownabbey, Northern Ireland, UK","institution_ids":["https://openalex.org/I138801177"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5024303177"],"corresponding_institution_ids":["https://openalex.org/I138801177"],"apc_list":{"value":2790,"currency":"EUR","value_usd":3590},"apc_paid":{"value":2790,"currency":"EUR","value_usd":3590},"fwci":0.6669,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.72250471,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"9","issue":"3","first_page":"455","last_page":"464"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998999834060669,"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":0.9998999834060669,"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/T10086","display_name":"Alzheimer's disease research and treatments","score":0.9923999905586243,"subfield":{"id":"https://openalex.org/subfields/2737","display_name":"Physiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9868999719619751,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/interactome","display_name":"Interactome","score":0.8041406273841858},{"id":"https://openalex.org/keywords/kegg","display_name":"KEGG","score":0.6310710906982422},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6051074266433716},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5821280479431152},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5033237338066101},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.494547575712204},{"id":"https://openalex.org/keywords/interaction-network","display_name":"Interaction network","score":0.458228200674057},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.4251665472984314},{"id":"https://openalex.org/keywords/betweenness-centrality","display_name":"Betweenness centrality","score":0.412129670381546},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.36184048652648926},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.24460488557815552},{"id":"https://openalex.org/keywords/centrality","display_name":"Centrality","score":0.20776250958442688},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.16496515274047852}],"concepts":[{"id":"https://openalex.org/C9760119","wikidata":"https://www.wikidata.org/wiki/Q841382","display_name":"Interactome","level":3,"score":0.8041406273841858},{"id":"https://openalex.org/C152724338","wikidata":"https://www.wikidata.org/wiki/Q909442","display_name":"KEGG","level":5,"score":0.6310710906982422},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6051074266433716},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5821280479431152},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5033237338066101},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.494547575712204},{"id":"https://openalex.org/C55105296","wikidata":"https://www.wikidata.org/wiki/Q841382","display_name":"Interaction network","level":3,"score":0.458228200674057},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.4251665472984314},{"id":"https://openalex.org/C117045392","wikidata":"https://www.wikidata.org/wiki/Q4899215","display_name":"Betweenness centrality","level":3,"score":0.412129670381546},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.36184048652648926},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.24460488557815552},{"id":"https://openalex.org/C53811970","wikidata":"https://www.wikidata.org/wiki/Q5062194","display_name":"Centrality","level":2,"score":0.20776250958442688},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.16496515274047852},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/s13042-016-0503-5","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s13042-016-0503-5","pdf_url":"https://link.springer.com/content/pdf/10.1007%2Fs13042-016-0503-5.pdf","source":{"id":"https://openalex.org/S2764999920","display_name":"International Journal of Machine Learning and Cybernetics","issn_l":"1868-8071","issn":["1868-8071","1868-808X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Machine Learning and Cybernetics","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1007/s13042-016-0503-5","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s13042-016-0503-5","pdf_url":"https://link.springer.com/content/pdf/10.1007%2Fs13042-016-0503-5.pdf","source":{"id":"https://openalex.org/S2764999920","display_name":"International Journal of Machine Learning and Cybernetics","issn_l":"1868-8071","issn":["1868-8071","1868-808X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Machine Learning and Cybernetics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2285770062.pdf","grobid_xml":"https://content.openalex.org/works/W2285770062.grobid-xml"},"referenced_works_count":63,"referenced_works":["https://openalex.org/W1549870369","https://openalex.org/W1578104218","https://openalex.org/W1877439477","https://openalex.org/W1923384484","https://openalex.org/W1963508543","https://openalex.org/W1978637017","https://openalex.org/W1980106352","https://openalex.org/W1992594876","https://openalex.org/W1994803330","https://openalex.org/W2003516452","https://openalex.org/W2005889734","https://openalex.org/W2008083733","https://openalex.org/W2009227687","https://openalex.org/W2018570668","https://openalex.org/W2020424190","https://openalex.org/W2033245850","https://openalex.org/W2037442572","https://openalex.org/W2038122249","https://openalex.org/W2046831513","https://openalex.org/W2048839385","https://openalex.org/W2062533676","https://openalex.org/W2067305633","https://openalex.org/W2075578689","https://openalex.org/W2080274663","https://openalex.org/W2081126811","https://openalex.org/W2081375228","https://openalex.org/W2083045667","https://openalex.org/W2085060592","https://openalex.org/W2090048853","https://openalex.org/W2100761975","https://openalex.org/W2103017472","https://openalex.org/W2109108939","https://openalex.org/W2109248504","https://openalex.org/W2110684048","https://openalex.org/W2115779804","https://openalex.org/W2116117181","https://openalex.org/W2117405110","https://openalex.org/W2117757462","https://openalex.org/W2119114096","https://openalex.org/W2119412782","https://openalex.org/W2122863289","https://openalex.org/W2123280311","https://openalex.org/W2128036243","https://openalex.org/W2128049108","https://openalex.org/W2130687290","https://openalex.org/W2130790725","https://openalex.org/W2134711219","https://openalex.org/W2136479434","https://openalex.org/W2141002268","https://openalex.org/W2147566730","https://openalex.org/W2150318080","https://openalex.org/W2153280946","https://openalex.org/W2153768000","https://openalex.org/W2154947819","https://openalex.org/W2157122545","https://openalex.org/W2157795344","https://openalex.org/W2158217645","https://openalex.org/W2165253681","https://openalex.org/W2168264491","https://openalex.org/W2169179075","https://openalex.org/W2171998949","https://openalex.org/W4255855797","https://openalex.org/W4294107304"],"related_works":["https://openalex.org/W2101998831","https://openalex.org/W1922372990","https://openalex.org/W2153577994","https://openalex.org/W2032694615","https://openalex.org/W2086904135","https://openalex.org/W2162117109","https://openalex.org/W3016389020","https://openalex.org/W2157795344","https://openalex.org/W2022953464","https://openalex.org/W2043924719"],"abstract_inverted_index":{"Advances":[0],"in":[1,13,196,205,231],"high-throughput":[2,115,162,247],"technologies":[3],"along":[4],"with":[5],"the":[6,14,20,42,45,129,149,158,168,190,225,246],"curation":[7],"of":[8,16,19,29,37,44,125,139,175,219,241],"small-scale":[9],"experiments":[10],"has":[11],"aided":[12],"construction":[15],"reference":[17],"maps":[18,23],"interactome.":[21],"These":[22],"are":[24,194],"critical":[25,173],"to":[26,81,97,154,238],"our":[27,35],"understanding":[28],"genotype-phenotype":[30],"relationships":[31],"and":[32,41,93,110,117,179,203],"disease.":[33],"However,":[34],"knowledge":[36],"disease":[38,72,101],"associated":[39],"genes":[40,145,156,187],"map":[43],"human":[46],"interactome":[47],"still":[48],"remains":[49],"incomplete.":[50],"In":[51],"this":[52],"study":[53],"we":[54],"investigate":[55],"whether":[56],"protein\u2013protein":[57],"interaction":[58],"networks":[59],"(PPINs)":[60],"constructed":[61,111,160],"from":[62,112,161,189,224],"either":[63],"experimental":[64,114],"or":[65],"curated":[66,227],"data":[67,85,116],"have":[68,107],"an":[69],"impact":[70],"upon":[71],"network":[73],"analysis.":[74],"An":[75],"integrative":[76],"network-driven":[77],"framework":[78],"is":[79,235],"implemented":[80],"integrate":[82],"diverse":[83],"heterogeneous":[84],"including:":[86],"gene-expression,":[87],"PPIN,":[88],"ontology-based":[89],"similarity,":[90],"degree":[91],"connectivity":[92],"betweenness":[94],"centrality":[95],"measures":[96],"uncover":[98],"potential":[99],"Alzhemier":[100],"(AD)":[102],"candidate":[103,144],"genes.":[104],"Two":[105],"PPINs":[106,131],"been":[108],"selected":[109],"(1)":[113],"(2)":[118],"literature-curated":[119],"sources.":[120],"Only":[121],"a":[122,172],"marginal":[123],"overlap":[124],"protein":[126,133],"pairs":[127],"between":[128],"two":[130],"(305":[132],"pairs)":[134],"was":[135],"observed.":[136],"A":[137],"total":[138],"17":[140],"significant":[141],"AD":[142,169,197,220,234],"gene":[143,221,242],"were":[146,229],"identified":[147,167],"using":[148,157,245],"literature":[150,191,226],"derived":[151],"PPIN":[152,159,193,228],"compared":[153,237],"20":[155],"data.":[163],"Both":[164],"approaches":[165],"correctly":[166],"susceptible":[170],"TRAF1,":[171],"regulator":[174],"cerebral":[176],"ischaemia\u2013reperfusion":[177],"injury":[178],"neuronal":[180],"death.":[181],"Biological":[182],"process":[183],"enrichment":[184],"analysis":[185,215],"revealed":[186,216],"candidates":[188,222,243],"based":[192],"modulated":[195],"pathogenesis":[198],"such":[199,208],"as":[200,209],"neuron":[201],"differentiation":[202],"involved":[204],"KEGG":[206],"pathways":[207],"neurotrophin":[210],"signaling":[211],"pathways.":[212],"Tissue":[213],"specific":[214],"48":[217],"%":[218,240],"obtained":[223],"expressed":[230],"tissues":[232],"where":[233],"observed":[236],"19":[239],"extracted":[244],"PPIN.":[248]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}