{"id":"https://openalex.org/W4392607744","doi":"https://doi.org/10.1109/tbdata.2024.3375149","title":"<i>FuzzyPPI:</i> Large-Scale Interaction of Human Proteome at Fuzzy Semantic Space","display_name":"<i>FuzzyPPI:</i> Large-Scale Interaction of Human Proteome at Fuzzy Semantic Space","publication_year":2024,"publication_date":"2024-03-08","ids":{"openalex":"https://openalex.org/W4392607744","doi":"https://doi.org/10.1109/tbdata.2024.3375149"},"language":"en","primary_location":{"id":"doi:10.1109/tbdata.2024.3375149","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tbdata.2024.3375149","pdf_url":null,"source":{"id":"https://openalex.org/S2491400915","display_name":"IEEE Transactions on Big Data","issn_l":"2332-7790","issn":["2332-7790","2372-2096"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320439","host_organization_name":"IEEE Computer Society","host_organization_lineage":["https://openalex.org/P4310320439","https://openalex.org/P4310319808"],"host_organization_lineage_names":["IEEE Computer Society","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 Transactions on Big Data","raw_type":"journal-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/A5055498019","display_name":"Anup Kumar Halder","orcid":"https://orcid.org/0000-0003-4825-1901"},"institutions":[{"id":"https://openalex.org/I108403487","display_name":"Warsaw University of Technology","ror":"https://ror.org/00y0xnp53","country_code":"PL","type":"education","lineage":["https://openalex.org/I108403487"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Anup Kumar Halder","raw_affiliation_strings":["Faculty of Mathematics and Information Sciences, Warsaw University of Technology, Warsaw, Poland"],"raw_orcid":"https://orcid.org/0000-0003-4825-1901","affiliations":[{"raw_affiliation_string":"Faculty of Mathematics and Information Sciences, Warsaw University of Technology, Warsaw, Poland","institution_ids":["https://openalex.org/I108403487"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085298948","display_name":"Soumyendu Sekhar Bandyopadhyay","orcid":"https://orcid.org/0000-0003-3530-2503"},"institutions":[{"id":"https://openalex.org/I170979836","display_name":"Jadavpur University","ror":"https://ror.org/02af4h012","country_code":"IN","type":"education","lineage":["https://openalex.org/I170979836"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Soumyendu Sekhar Bandyopadhyay","raw_affiliation_strings":["Department of Computer Science and Engineering, Jadavpur University, Kolkata, West Bengal, India","Department of Computer Science and Engineering, Jadavpur University, India"],"raw_orcid":"https://orcid.org/0000-0003-3530-2503","affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Jadavpur University, Kolkata, West Bengal, India","institution_ids":["https://openalex.org/I170979836"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, Jadavpur University, India","institution_ids":["https://openalex.org/I170979836"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5094102730","display_name":"Witold Jedrzejewski","orcid":null},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Witold Jedrzejewski","raw_affiliation_strings":["Institute of Informatics, University of Warsaw, Warsaw, Poland","Institute of Informatics, University ofWarsaw,Warsaw, Poland"],"raw_orcid":"https://orcid.org/0009-0009-5073-5594","affiliations":[{"raw_affiliation_string":"Institute of Informatics, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"Institute of Informatics, University ofWarsaw,Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043105133","display_name":"Subhadip Basu","orcid":"https://orcid.org/0000-0003-1780-0461"},"institutions":[{"id":"https://openalex.org/I170979836","display_name":"Jadavpur University","ror":"https://ror.org/02af4h012","country_code":"IN","type":"education","lineage":["https://openalex.org/I170979836"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Subhadip Basu","raw_affiliation_strings":["Department of Computer Science and Engineering, Jadavpur University, Kolkata, West Bengal, India","Department of Computer Science and Engineering, Jadavpur University, India"],"raw_orcid":"https://orcid.org/0000-0003-1780-0461","affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Jadavpur University, Kolkata, West Bengal, India","institution_ids":["https://openalex.org/I170979836"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, Jadavpur University, India","institution_ids":["https://openalex.org/I170979836"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091346096","display_name":"Jacek Sroka","orcid":"https://orcid.org/0000-0002-1714-9667"},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Jacek Sroka","raw_affiliation_strings":["Institute of Informatics, University of Warsaw, Warsaw, Poland","Institute of Informatics, University ofWarsaw,Warsaw, Poland"],"raw_orcid":"https://orcid.org/0000-0002-1714-9667","affiliations":[{"raw_affiliation_string":"Institute of Informatics, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"Institute of Informatics, University ofWarsaw,Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.01923365,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"11","issue":"1","first_page":"47","last_page":"58"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13062","display_name":"Cognitive Computing and Networks","score":0.8319000005722046,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T13062","display_name":"Cognitive Computing and Networks","score":0.8319000005722046,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10215","display_name":"Semantic Web and Ontologies","score":0.8295000195503235,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.824400007724762,"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/computer-science","display_name":"Computer science","score":0.798326849937439},{"id":"https://openalex.org/keywords/fuzzy-logic","display_name":"Fuzzy logic","score":0.42952612042427063},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.4248812794685364},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.32501572370529175},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.0900459885597229}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.798326849937439},{"id":"https://openalex.org/C58166","wikidata":"https://www.wikidata.org/wiki/Q224821","display_name":"Fuzzy logic","level":2,"score":0.42952612042427063},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4248812794685364},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.32501572370529175},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0900459885597229},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/tbdata.2024.3375149","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tbdata.2024.3375149","pdf_url":null,"source":{"id":"https://openalex.org/S2491400915","display_name":"IEEE Transactions on Big Data","issn_l":"2332-7790","issn":["2332-7790","2372-2096"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320439","host_organization_name":"IEEE Computer Society","host_organization_lineage":["https://openalex.org/P4310320439","https://openalex.org/P4310319808"],"host_organization_lineage_names":["IEEE Computer Society","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 Transactions on Big Data","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320311382","display_name":"Jadavpur University","ror":"https://ror.org/02af4h012"},{"id":"https://openalex.org/F4320322637","display_name":"Politechnika Warszawska","ror":"https://ror.org/00y0xnp53"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":54,"referenced_works":["https://openalex.org/W1015675232","https://openalex.org/W1707980822","https://openalex.org/W1783597500","https://openalex.org/W2010134474","https://openalex.org/W2011340259","https://openalex.org/W2011986160","https://openalex.org/W2038412523","https://openalex.org/W2042301222","https://openalex.org/W2055431298","https://openalex.org/W2058290061","https://openalex.org/W2058722111","https://openalex.org/W2082565035","https://openalex.org/W2083620785","https://openalex.org/W2087612189","https://openalex.org/W2101181377","https://openalex.org/W2120453034","https://openalex.org/W2123023820","https://openalex.org/W2128049108","https://openalex.org/W2131562240","https://openalex.org/W2134197776","https://openalex.org/W2151412657","https://openalex.org/W2152705149","https://openalex.org/W2153577994","https://openalex.org/W2155320925","https://openalex.org/W2161922860","https://openalex.org/W2169805130","https://openalex.org/W2256629785","https://openalex.org/W2524367868","https://openalex.org/W2565890851","https://openalex.org/W2602328737","https://openalex.org/W2603603297","https://openalex.org/W2739999456","https://openalex.org/W2749613778","https://openalex.org/W2757598598","https://openalex.org/W2808606536","https://openalex.org/W2817773239","https://openalex.org/W2895487334","https://openalex.org/W2900569176","https://openalex.org/W2911844753","https://openalex.org/W2917858269","https://openalex.org/W2950595506","https://openalex.org/W2986210726","https://openalex.org/W3015964336","https://openalex.org/W3023539333","https://openalex.org/W3037788059","https://openalex.org/W3134169372","https://openalex.org/W3165240900","https://openalex.org/W3196351118","https://openalex.org/W4213149192","https://openalex.org/W4220886390","https://openalex.org/W4311114767","https://openalex.org/W4322500500","https://openalex.org/W4389166162","https://openalex.org/W6679815717"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2478288626","https://openalex.org/W4391913857","https://openalex.org/W2350741829","https://openalex.org/W2530322880"],"abstract_inverted_index":{"Large-scale":[0],"protein-protein":[1],"interaction":[2],"(PPI)":[3],"network":[4,78,194],"of":[5,61,79,119,214],"an":[6,115],"organism":[7],"provides":[8],"key":[9],"insights":[10],"into":[11],"its":[12],"cellular":[13],"and":[14,19,36,51,127,173,211],"molecular":[15],"functionalities,":[16],"signaling":[17,193],"pathways":[18],"underlying":[20],"disease":[21,190],"mechanisms.":[22],"For":[23,39],"any":[24],"organism,":[25],"the":[26,133],"total":[27],"unexplored":[28],"protein":[29,178,188],"interactions":[30,84],"significantly":[31,112],"outnumbers":[32],"all":[33,41],"known":[34,42],"positive":[35,50],"negative":[37,55],"interactions.":[38,63],"Human,":[40],"PPI":[43,77,136,153],"datasets":[44],"contain":[45],"only":[46],"\u223c":[47,52,59,80],"5.61":[48],"million":[49,54,82],"0.76":[53],"interactions,":[56],"which":[57,92],"is":[58,163,203],"3.1%":[60],"potential":[62,83],"We":[64],"have":[65,102,169],"implemented":[66],"a":[67,75,144,165,206],"distributed":[68],"algorithm":[69,202],"in":[70,160,186,199],"Apache":[71],"Spark":[72],"that":[73,177],"evaluates":[74],"Human":[76],"180":[81],"resulting":[85,139],"from":[86],"18":[87],"994":[88],"reviewed":[89],"proteins":[90],"for":[91,147],"Gene":[93],"Ontology":[94],"(GO)":[95],"annotations":[96],"are":[97,141],"available.":[98],"The":[99,138],"computed":[100],"scores":[101,140],"been":[103],"validated":[104],"against":[105],"state-of-the-art":[106],"methods":[107,155],"on":[108,205],"benchmark":[109],"datasets.FuzzyPPI":[110],"performed":[111],"better":[113],"with":[114,132,143],"average":[116],"F1":[117],"score":[118],"0.62":[120],"compared":[121],"to":[122,183],"GOntoSim":[123],"(0.39),":[124],"GOGO":[125],"(0.38),":[126],"Wang":[128],"(0.38)":[129],"when":[130],"tested":[131],"Gold":[134],"Standard":[135],"Dataset.":[137],"published":[142],"web":[145],"server":[146],"non-commercial":[148],"use":[149],"athttp://fuzzyppi.mimuw.edu.pl/.":[150],"Moreover,":[151],"conventional":[152],"prediction":[154],"produce":[156],"binary":[157],"results,":[158],"but":[159],"fact":[161],"this":[162],"just":[164],"simplification":[166],"as":[167],"PPIs":[168],"strengths":[170],"or":[171],"probabilities":[172,213],"recent":[174],"studies":[175],"show":[176],"binding":[179],"affinities":[180],"may":[181],"prove":[182],"be":[184],"effective":[185],"detecting":[187],"complexes,":[189],"association":[191],"analysis,":[192],"reconstruction,":[195],"etc.":[196],"Keeping":[197],"these":[198],"mind,":[200],"our":[201],"based":[204],"fuzzy":[207],"semantic":[208],"scoring":[209],"function":[210],"produces":[212],"interaction.":[215]},"counts_by_year":[],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2024-03-09T00:00:00"}
