{"id":"https://openalex.org/W4411358997","doi":"https://doi.org/10.1109/tcbbio.2025.3580460","title":"Enhancing Molecular Contrastive Prediction by Recognizing Metric Distribution Separation","display_name":"Enhancing Molecular Contrastive Prediction by Recognizing Metric Distribution Separation","publication_year":2025,"publication_date":"2025-06-17","ids":{"openalex":"https://openalex.org/W4411358997","doi":"https://doi.org/10.1109/tcbbio.2025.3580460","pmid":"https://pubmed.ncbi.nlm.nih.gov/40811282"},"language":"en","primary_location":{"id":"doi:10.1109/tcbbio.2025.3580460","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3580460","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Xue Liu","orcid":"https://orcid.org/0000-0002-7854-7845"},"institutions":[{"id":"https://openalex.org/I82880672","display_name":"Beihang University","ror":"https://ror.org/00wk2mp56","country_code":"CN","type":"education","lineage":["https://openalex.org/I82880672"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xue Liu","raw_affiliation_strings":["Institute of Artificial Intelligence, Key Laboratory of Mathematics, Informatics and Behavioral Semantics, Ministry of Education, Beihang University, Beijing, China","Institute of Artificial Intelligence, Beihang University, Beijing, P.R.China"],"raw_orcid":"https://orcid.org/0000-0002-7854-7845","affiliations":[{"raw_affiliation_string":"Institute of Artificial Intelligence, Key Laboratory of Mathematics, Informatics and Behavioral Semantics, Ministry of Education, Beihang University, Beijing, China","institution_ids":["https://openalex.org/I82880672"]},{"raw_affiliation_string":"Institute of Artificial Intelligence, Beihang University, Beijing, P.R.China","institution_ids":["https://openalex.org/I82880672"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101042330","display_name":"Dan Sun","orcid":null},"institutions":[{"id":"https://openalex.org/I4210148107","display_name":"Space Engineering University","ror":"https://ror.org/04rj1td02","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210148107"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dan Sun","raw_affiliation_strings":["Space Engineering University, Beijing, China","Space Engineering University, Beijing, P.R.China"],"raw_orcid":"https://orcid.org/0009-0008-7369-7220","affiliations":[{"raw_affiliation_string":"Space Engineering University, Beijing, China","institution_ids":["https://openalex.org/I4210148107"]},{"raw_affiliation_string":"Space Engineering University, Beijing, P.R.China","institution_ids":["https://openalex.org/I4210148107"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"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":0.13128341,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"22","issue":"5","first_page":"2020","last_page":"2030"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9747999906539917,"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"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9747999906539917,"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"}},{"id":"https://openalex.org/T10640","display_name":"Spectroscopy and Chemometric Analyses","score":0.9718999862670898,"subfield":{"id":"https://openalex.org/subfields/1602","display_name":"Analytical Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11324","display_name":"Spectroscopy Techniques in Biomedical and Chemical Research","score":0.9646000266075134,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/metric","display_name":"Metric (unit)","score":0.6336365342140198},{"id":"https://openalex.org/keywords/separation","display_name":"Separation (statistics)","score":0.6123119592666626},{"id":"https://openalex.org/keywords/distribution","display_name":"Distribution (mathematics)","score":0.4391057789325714},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3828381597995758},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3731895983219147},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3321089744567871},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.15948951244354248},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.15236303210258484},{"id":"https://openalex.org/keywords/mathematical-analysis","display_name":"Mathematical analysis","score":0.07557180523872375}],"concepts":[{"id":"https://openalex.org/C176217482","wikidata":"https://www.wikidata.org/wiki/Q860554","display_name":"Metric (unit)","level":2,"score":0.6336365342140198},{"id":"https://openalex.org/C2776061190","wikidata":"https://www.wikidata.org/wiki/Q7451805","display_name":"Separation (statistics)","level":2,"score":0.6123119592666626},{"id":"https://openalex.org/C110121322","wikidata":"https://www.wikidata.org/wiki/Q865811","display_name":"Distribution (mathematics)","level":2,"score":0.4391057789325714},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3828381597995758},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3731895983219147},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3321089744567871},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.15948951244354248},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.15236303210258484},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.07557180523872375},{"id":"https://openalex.org/C21547014","wikidata":"https://www.wikidata.org/wiki/Q1423657","display_name":"Operations management","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbbio.2025.3580460","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3580460","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40811282","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40811282","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":"IEEE transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321125","display_name":"Beihang University","ror":"https://ror.org/00wk2mp56"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":39,"referenced_works":["https://openalex.org/W2025167103","https://openalex.org/W2042035902","https://openalex.org/W2081050523","https://openalex.org/W2099438806","https://openalex.org/W2145578524","https://openalex.org/W2177317049","https://openalex.org/W2406943157","https://openalex.org/W2461470610","https://openalex.org/W2461620095","https://openalex.org/W2594183968","https://openalex.org/W2751261182","https://openalex.org/W2902652978","https://openalex.org/W2925177113","https://openalex.org/W2962764460","https://openalex.org/W2966357564","https://openalex.org/W2968734407","https://openalex.org/W3004800139","https://openalex.org/W3034516664","https://openalex.org/W3110901318","https://openalex.org/W3130274530","https://openalex.org/W3179111421","https://openalex.org/W3192705825","https://openalex.org/W3199430355","https://openalex.org/W3201249640","https://openalex.org/W3216470025","https://openalex.org/W4213070269","https://openalex.org/W4214868967","https://openalex.org/W4225911012","https://openalex.org/W4231616774","https://openalex.org/W4319866019","https://openalex.org/W4323338513","https://openalex.org/W4381679608","https://openalex.org/W4385329973","https://openalex.org/W4386046779","https://openalex.org/W4387790076","https://openalex.org/W4393185967","https://openalex.org/W4394002449","https://openalex.org/W4402922793","https://openalex.org/W4403683751"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W1979597421","https://openalex.org/W2007980826","https://openalex.org/W2061531152","https://openalex.org/W3002753104","https://openalex.org/W2077600819","https://openalex.org/W2142036596","https://openalex.org/W2072657027","https://openalex.org/W2962838298","https://openalex.org/W2600246793"],"abstract_inverted_index":{"Molecular":[0],"machine":[1],"learning":[2],"has":[3],"attracted":[4],"much":[5],"attention":[6],"in":[7,33,171],"molecular":[8,34,159],"property":[9,35],"prediction":[10,36,64,144,172],"and":[11,22,109,142],"AI-aided":[12],"Drug":[13],"Discovery.":[14],"Recent":[15],"advancements":[16],"have":[17],"significantly":[18],"improved":[19],"the":[20,81,103,126,133,161],"efficiency":[21],"speed":[23],"of":[24,50,163],"searching":[25],"for":[26,106],"potential":[27,41],"drug":[28],"candidates.":[29,52],"The":[30],"primary":[31],"challenge":[32],"is":[37,166],"how":[38],"to":[39,46,117,175],"transfer":[40],"knowledge":[42],"from":[43],"known":[44,85],"molecules":[45],"a":[47,60,89,111,147],"large":[48],"set":[49],"unseen":[51],"To":[53],"address":[54],"this":[55,57,123,164],"challenge,":[56],"work":[58],"explores":[59],"metric":[61,69,91,97,116,120],"distribution":[62,113],"contrastive":[63],"method.":[65],"This":[66,93,138],"method":[67,139,165],"establishes":[68],"distributions":[70],"among":[71],"ordered":[72],"categorical":[73],"molecule":[74],"populations,":[75],"ensuring":[76],"that":[77],"all":[78],"samples":[79,130],"within":[80],"same":[82],"class,":[83,108],"whether":[84],"or":[86],"unknown,":[87],"share":[88],"common":[90],"distribution.":[92],"technique":[94],"comprises":[95],"constructing":[96],"distributions,":[98],"extracting":[99],"class":[100],"prototypes":[101],"as":[102],"foundational":[104],"representations":[105],"each":[107],"employing":[110],"Bhattacharyya":[112],"transformation":[114],"distance":[115],"distinguish":[118],"pairwise":[119],"distributions.":[121],"Notably,":[122],"approach":[124],"minimizes":[125],"distances":[127,134],"between":[128,135],"intra-class":[129],"while":[131],"increasing":[132],"inter-class":[136],"samples.":[137],"integrates":[140],"pre-training":[141],"subsequent":[143],"phases":[145],"into":[146],"unified":[148],"neural":[149],"computation":[150],"framework.":[151],"Through":[152],"thorough":[153],"experiments":[154],"on":[155],"various":[156],"diverse":[157],"benchmark":[158],"datasets,":[160],"effectiveness":[162],"validated,":[167],"yielding":[168],"notable":[169],"improvements":[170],"accuracy":[173],"compared":[174],"existing":[176],"models.":[177]},"counts_by_year":[],"updated_date":"2026-07-28T07:46:37.118299","created_date":"2025-10-10T00:00:00"}
