{"id":"https://openalex.org/W4408708967","doi":"https://doi.org/10.1109/access.2025.3553732","title":"A Review of Link Prediction Applications in Network Biology","display_name":"A Review of Link Prediction Applications in Network Biology","publication_year":2025,"publication_date":"2025-01-01","ids":{"openalex":"https://openalex.org/W4408708967","doi":"https://doi.org/10.1109/access.2025.3553732"},"language":"en","primary_location":{"id":"doi:10.1109/access.2025.3553732","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2025.3553732","pdf_url":null,"source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1109/access.2025.3553732","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5058246496","display_name":"Ahmad F. Al Musawi","orcid":"https://orcid.org/0000-0002-5508-9968"},"institutions":[{"id":"https://openalex.org/I202735123","display_name":"Thi Qar University","ror":"https://ror.org/02ypa8k59","country_code":"IQ","type":"education","lineage":["https://openalex.org/I202735123"]}],"countries":["IQ"],"is_corresponding":false,"raw_author_name":"Ahmad F. Al Musawi","raw_affiliation_strings":["Department of Information Technology, University of Thi-Qar, Thi-Qar, Iraq","Department of Information Technology, University of Thi Qar, Annasiriyah, Thi Qar, Iraq"],"raw_orcid":"https://orcid.org/0000-0002-5508-9968","affiliations":[{"raw_affiliation_string":"Department of Information Technology, University of Thi-Qar, Thi-Qar, Iraq","institution_ids":["https://openalex.org/I202735123"]},{"raw_affiliation_string":"Department of Information Technology, University of Thi Qar, Annasiriyah, Thi Qar, Iraq","institution_ids":["https://openalex.org/I202735123"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062065730","display_name":"Satyaki Roy","orcid":"https://orcid.org/0000-0001-6767-266X"},"institutions":[{"id":"https://openalex.org/I82495205","display_name":"University of Alabama in Huntsville","ror":"https://ror.org/02zsxwr40","country_code":"US","type":"education","lineage":["https://openalex.org/I82495205"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Satyaki Roy","raw_affiliation_strings":["Department of Mathematical Sciences, The University of Alabama in Huntsville, Huntsville, AL, USA","Department of Mathematical Sciences, University of Alabama in Huntsville, Alabama, USA"],"raw_orcid":"https://orcid.org/0000-0001-6767-266X","affiliations":[{"raw_affiliation_string":"Department of Mathematical Sciences, The University of Alabama in Huntsville, Huntsville, AL, USA","institution_ids":["https://openalex.org/I82495205"]},{"raw_affiliation_string":"Department of Mathematical Sciences, University of Alabama in Huntsville, Alabama, USA","institution_ids":["https://openalex.org/I82495205"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5080886331","display_name":"Preetam Ghosh","orcid":"https://orcid.org/0000-0003-3880-5886"},"institutions":[{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Preetam Ghosh","raw_affiliation_strings":["Department of Computer Science, Virginia Commonwealth University, Richmond, VA, USA"],"raw_orcid":"https://orcid.org/0000-0003-3880-5886","affiliations":[{"raw_affiliation_string":"Department of Computer Science, Virginia Commonwealth University, Richmond, VA, USA","institution_ids":["https://openalex.org/I184840846"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1850,"currency":"USD","value_usd":1850},"apc_paid":{"value":1850,"currency":"USD","value_usd":1850},"fwci":3.4558,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.92117932,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":99},"biblio":{"volume":"13","issue":null,"first_page":"54997","last_page":"55016"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9882000088691711,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9882000088691711,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9667999744415283,"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/T12946","display_name":"Fractal and DNA sequence analysis","score":0.953499972820282,"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/link","display_name":"Link (geometry)","score":0.6394665241241455},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6195964813232422},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.258406400680542}],"concepts":[{"id":"https://openalex.org/C2778753846","wikidata":"https://www.wikidata.org/wiki/Q6554239","display_name":"Link (geometry)","level":2,"score":0.6394665241241455},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6195964813232422},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.258406400680542}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/access.2025.3553732","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2025.3553732","pdf_url":null,"source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:2877685aa60f4aedb8bb3ecef0e78796","is_oa":true,"landing_page_url":"https://doaj.org/article/2877685aa60f4aedb8bb3ecef0e78796","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE Access, Vol 13, Pp 54997-55016 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1109/access.2025.3553732","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2025.3553732","pdf_url":null,"source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":123,"referenced_works":["https://openalex.org/W828529927","https://openalex.org/W1757980361","https://openalex.org/W1966119405","https://openalex.org/W1975586684","https://openalex.org/W1979104937","https://openalex.org/W1989921625","https://openalex.org/W2007444087","https://openalex.org/W2008620264","https://openalex.org/W2017099446","https://openalex.org/W2017986542","https://openalex.org/W2018045523","https://openalex.org/W2018740272","https://openalex.org/W2025844353","https://openalex.org/W2026417691","https://openalex.org/W2036992515","https://openalex.org/W2037705937","https://openalex.org/W2045283959","https://openalex.org/W2066618386","https://openalex.org/W2066692087","https://openalex.org/W2068996502","https://openalex.org/W2087194317","https://openalex.org/W2091130596","https://openalex.org/W2096173332","https://openalex.org/W2098189808","https://openalex.org/W2105924489","https://openalex.org/W2106474670","https://openalex.org/W2108119513","https://openalex.org/W2108984616","https://openalex.org/W2116392242","https://openalex.org/W2122863289","https://openalex.org/W2123699903","https://openalex.org/W2124045889","https://openalex.org/W2125118217","https://openalex.org/W2128983843","https://openalex.org/W2131681506","https://openalex.org/W2135785255","https://openalex.org/W2137052779","https://openalex.org/W2138621811","https://openalex.org/W2140043890","https://openalex.org/W2142572836","https://openalex.org/W2143892509","https://openalex.org/W2144359569","https://openalex.org/W2151936673","https://openalex.org/W2154454189","https://openalex.org/W2154851992","https://openalex.org/W2158135353","https://openalex.org/W2163032501","https://openalex.org/W2163480486","https://openalex.org/W2171631429","https://openalex.org/W2171707538","https://openalex.org/W2172574008","https://openalex.org/W2288135941","https://openalex.org/W2420733993","https://openalex.org/W2537679995","https://openalex.org/W2564984086","https://openalex.org/W2579983667","https://openalex.org/W2586211942","https://openalex.org/W2753577819","https://openalex.org/W2755183035","https://openalex.org/W2763148304","https://openalex.org/W2763558783","https://openalex.org/W2765119506","https://openalex.org/W2765372324","https://openalex.org/W2766445662","https://openalex.org/W2767061187","https://openalex.org/W2767823042","https://openalex.org/W2770030914","https://openalex.org/W2786016794","https://openalex.org/W2906970539","https://openalex.org/W2911884040","https://openalex.org/W2911932738","https://openalex.org/W2946357421","https://openalex.org/W2962756421","https://openalex.org/W2964015378","https://openalex.org/W2966349991","https://openalex.org/W2967216151","https://openalex.org/W2969194307","https://openalex.org/W2972205206","https://openalex.org/W2979174771","https://openalex.org/W2998878641","https://openalex.org/W3003422837","https://openalex.org/W3006318668","https://openalex.org/W3007807538","https://openalex.org/W3020759564","https://openalex.org/W3024771599","https://openalex.org/W3027368752","https://openalex.org/W3035458854","https://openalex.org/W3082550533","https://openalex.org/W3083421733","https://openalex.org/W3093996932","https://openalex.org/W3101369110","https://openalex.org/W3144812654","https://openalex.org/W3145591289","https://openalex.org/W3164012574","https://openalex.org/W3174718131","https://openalex.org/W3192705825","https://openalex.org/W3203683156","https://openalex.org/W3216323234","https://openalex.org/W4200042293","https://openalex.org/W4205562234","https://openalex.org/W4205883408","https://openalex.org/W4243979784","https://openalex.org/W4291894998","https://openalex.org/W4318185025","https://openalex.org/W4318586086","https://openalex.org/W4394712976","https://openalex.org/W4401071965","https://openalex.org/W6636510571","https://openalex.org/W6639055396","https://openalex.org/W6669466360","https://openalex.org/W6697195335","https://openalex.org/W6730084236","https://openalex.org/W6738964360","https://openalex.org/W6748141922","https://openalex.org/W6752826563","https://openalex.org/W6752915296","https://openalex.org/W6754929296","https://openalex.org/W6759102620","https://openalex.org/W6771247989","https://openalex.org/W6779860234","https://openalex.org/W6785244979","https://openalex.org/W6853622469","https://openalex.org/W6910703013"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W1518185400","https://openalex.org/W3200586296","https://openalex.org/W2390279801","https://openalex.org/W4230332972","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W1998033311"],"abstract_inverted_index":{"In":[0],"the":[1,6,38,56,87,97,103,106,118,124,142,148,162],"domain":[2],"of":[3,40,59,90,120,147,161],"network":[4,83,108],"biology,":[5],"interactions":[7,164],"among":[8,102],"heterogeneous":[9],"genomic":[10],"and":[11,43,50,72,105,135],"molecular":[12],"entities":[13],"are":[14,22],"represented":[15],"through":[16],"networks.":[17,33,53],"Link":[18],"prediction":[19,100],"(LP)":[20],"methodologies":[21],"instrumental":[23],"in":[24,99,122,128],"inferring":[25],"missing":[26],"or":[27],"prospective":[28],"associations":[29],"within":[30],"these":[31],"biological":[32,52,82,129,166],"This":[34],"review":[35,143],"systematically":[36],"dissects":[37],"attributes":[39,109],"local,":[41],"centrality":[42],"embedding-based":[44],"LP":[45,60,92,121,154],"approaches":[46],"applied":[47],"to":[48,85,112,138,157],"static":[49],"dynamic":[51],"We":[54,74,140],"examine":[55],"current":[57],"applications":[58,89],"metrics":[61],"for":[62],"predicting":[63],"links":[64],"between":[65],"diseases,":[66],"genes,":[67],"proteins,":[68],"RNA,":[69],"microbiomes,":[70],"drugs,":[71],"neurons.":[73],"carry":[75],"out":[76],"comprehensive":[77],"performance":[78],"evaluations":[79],"on":[80],"established":[81],"datasets":[84],"show":[86],"practical":[88],"standard":[91],"models.":[93],"Moreover,":[94],"we":[95],"compare":[96],"similarity":[98],"trends":[101],"models":[104],"specific":[107],"that":[110],"contribute":[111],"effective":[113],"link":[114],"prediction,":[115],"before":[116],"underscoring":[117],"role":[119],"addressing":[123],"formidable":[125],"challenges":[126],"prevalent":[127],"systems,":[130],"ranging":[131],"from":[132,152],"noise,":[133],"bias,":[134],"data":[136],"sparseness":[137],"interpretability.":[139],"conclude":[141],"with":[144],"an":[145],"exploration":[146],"essential":[149],"characteristics":[150],"expected":[151],"future":[153],"models,":[155],"poised":[156],"advance":[158],"our":[159],"comprehension":[160],"intricate":[163],"governing":[165],"systems.":[167]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
