{"id":"https://openalex.org/W4390971185","doi":"https://doi.org/10.1109/bibm58861.2023.10386058","title":"Improving efficiency in rationale discovery for Out-of-Distribution molecular representations","display_name":"Improving efficiency in rationale discovery for Out-of-Distribution molecular representations","publication_year":2023,"publication_date":"2023-12-05","ids":{"openalex":"https://openalex.org/W4390971185","doi":"https://doi.org/10.1109/bibm58861.2023.10386058"},"language":"en","primary_location":{"id":"doi:10.1109/bibm58861.2023.10386058","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm58861.2023.10386058","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-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/A5100383590","display_name":"Jiahui Zhang","orcid":"https://orcid.org/0000-0002-2013-0289"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"id":"https://openalex.org/I308837","display_name":"Suzhou University of Science and Technology","ror":"https://ror.org/04en8wb91","country_code":"CN","type":"education","lineage":["https://openalex.org/I308837"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jiahui Zhang","raw_affiliation_strings":["University of Science and Technology of China,School of Software Engineering,Suzhou,China","School of Software Engineering, University of Science and Technology of China, Suzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China,School of Software Engineering,Suzhou,China","institution_ids":["https://openalex.org/I308837","https://openalex.org/I126520041"]},{"raw_affiliation_string":"School of Software Engineering, University of Science and Technology of China, Suzhou, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101521555","display_name":"Wenjie Du","orcid":"https://orcid.org/0000-0003-3046-7835"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"id":"https://openalex.org/I308837","display_name":"Suzhou University of Science and Technology","ror":"https://ror.org/04en8wb91","country_code":"CN","type":"education","lineage":["https://openalex.org/I308837"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenjie Du","raw_affiliation_strings":["University of Science and Technology of China,School of Software Engineering,Suzhou,China","School of Software Engineering, University of Science and Technology of China, Suzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China,School of Software Engineering,Suzhou,China","institution_ids":["https://openalex.org/I308837","https://openalex.org/I126520041"]},{"raw_affiliation_string":"School of Software Engineering, University of Science and Technology of China, Suzhou, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101693382","display_name":"Di Wu","orcid":"https://orcid.org/0000-0001-7261-8131"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"id":"https://openalex.org/I308837","display_name":"Suzhou University of Science and Technology","ror":"https://ror.org/04en8wb91","country_code":"CN","type":"education","lineage":["https://openalex.org/I308837"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Di Wu","raw_affiliation_strings":["University of Science and Technology of China,School of Software Engineering,Suzhou,China","School of Software Engineering, University of Science and Technology of China, Suzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China,School of Software Engineering,Suzhou,China","institution_ids":["https://openalex.org/I308837","https://openalex.org/I126520041"]},{"raw_affiliation_string":"School of Software Engineering, University of Science and Technology of China, Suzhou, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035446189","display_name":"Jiahe Li","orcid":"https://orcid.org/0000-0001-7597-908X"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"id":"https://openalex.org/I308837","display_name":"Suzhou University of Science and Technology","ror":"https://ror.org/04en8wb91","country_code":"CN","type":"education","lineage":["https://openalex.org/I308837"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiahe Li","raw_affiliation_strings":["University of Science and Technology of China,School of Software Engineering,Suzhou,China","School of Software Engineering, University of Science and Technology of China, Suzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China,School of Software Engineering,Suzhou,China","institution_ids":["https://openalex.org/I308837","https://openalex.org/I126520041"]},{"raw_affiliation_string":"School of Software Engineering, University of Science and Technology of China, Suzhou, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100328947","display_name":"Shuai Zhang","orcid":"https://orcid.org/0000-0003-4291-8170"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"id":"https://openalex.org/I308837","display_name":"Suzhou University of Science and Technology","ror":"https://ror.org/04en8wb91","country_code":"CN","type":"education","lineage":["https://openalex.org/I308837"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shuai Zhang","raw_affiliation_strings":["University of Science and Technology of China,School of Computer Science and Technology,Suzhou,China","School of Computer Science and Technology, University of Science and Technology of China, Suzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China,School of Computer Science and Technology,Suzhou,China","institution_ids":["https://openalex.org/I308837","https://openalex.org/I126520041"]},{"raw_affiliation_string":"School of Computer Science and Technology, University of Science and Technology of China, Suzhou, China","institution_ids":["https://openalex.org/I308837","https://openalex.org/I126520041"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5078232760","display_name":"Yang Wang","orcid":"https://orcid.org/0000-0002-7769-2047"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"id":"https://openalex.org/I308837","display_name":"Suzhou University of Science and Technology","ror":"https://ror.org/04en8wb91","country_code":"CN","type":"education","lineage":["https://openalex.org/I308837"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yang Wang","raw_affiliation_strings":["University of Science and Technology of China,School of Software Engineering,Suzhou,China","School of Software Engineering, University of Science and Technology of China, Suzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China,School of Software Engineering,Suzhou,China","institution_ids":["https://openalex.org/I308837","https://openalex.org/I126520041"]},{"raw_affiliation_string":"School of Software Engineering, University of Science and Technology of China, Suzhou, China","institution_ids":["https://openalex.org/I126520041"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100383590"],"corresponding_institution_ids":["https://openalex.org/I126520041","https://openalex.org/I308837"],"apc_list":null,"apc_paid":null,"fwci":0.093,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.36976166,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":null,"issue":null,"first_page":"401","last_page":"407"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9994999766349792,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9922000169754028,"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":0.6605276465415955},{"id":"https://openalex.org/keywords/bottleneck","display_name":"Bottleneck","score":0.527930498123169},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.4602595269680023},{"id":"https://openalex.org/keywords/chemical-space","display_name":"Chemical space","score":0.45843252539634705},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.44525110721588135},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4239826798439026},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3403089642524719},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.2764495611190796}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6605276465415955},{"id":"https://openalex.org/C2780513914","wikidata":"https://www.wikidata.org/wiki/Q18210350","display_name":"Bottleneck","level":2,"score":0.527930498123169},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.4602595269680023},{"id":"https://openalex.org/C99726746","wikidata":"https://www.wikidata.org/wiki/Q906396","display_name":"Chemical space","level":3,"score":0.45843252539634705},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.44525110721588135},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4239826798439026},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3403089642524719},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.2764495611190796},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.0},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm58861.2023.10386058","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm58861.2023.10386058","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":29,"referenced_works":["https://openalex.org/W1731081199","https://openalex.org/W2013603106","https://openalex.org/W2050137450","https://openalex.org/W2107081909","https://openalex.org/W2126151240","https://openalex.org/W2137913010","https://openalex.org/W2156909104","https://openalex.org/W2213443318","https://openalex.org/W2548228487","https://openalex.org/W2786553003","https://openalex.org/W2884430236","https://openalex.org/W2931335216","https://openalex.org/W2964288524","https://openalex.org/W2983178467","https://openalex.org/W2991497298","https://openalex.org/W3016824580","https://openalex.org/W3100078588","https://openalex.org/W4213077304","https://openalex.org/W4288287305","https://openalex.org/W4382458099","https://openalex.org/W6637618735","https://openalex.org/W6678977525","https://openalex.org/W6730091202","https://openalex.org/W6755174428","https://openalex.org/W6765285020","https://openalex.org/W6771271773","https://openalex.org/W6774630179","https://openalex.org/W6775269048","https://openalex.org/W6776488958"],"related_works":["https://openalex.org/W2595172197","https://openalex.org/W2084856301","https://openalex.org/W2127970246","https://openalex.org/W2885125400","https://openalex.org/W1989889224","https://openalex.org/W4382618745","https://openalex.org/W1973775000","https://openalex.org/W2748922771","https://openalex.org/W1987128138","https://openalex.org/W2743976221"],"abstract_inverted_index":{"Graph":[0],"Neural":[1],"Networks":[2],"(GNNs),":[3],"as":[4],"the":[5,28,39,56,69,115,127,170],"dominant":[6],"approach":[7,149],"in":[8,17,36,61,83,168,173],"Molecular":[9],"Representation":[10],"Learning":[11],"(MRL),":[12],"have":[13],"exhibited":[14],"remarkable":[15],"efficacy":[16],"diverse":[18,31],"tasks,":[19],"including":[20],"molecular":[21],"property":[22],"prediction":[23],"and":[24,30,42,49,96,108,126,134,158],"drug":[25],"discovery.":[26,85],"Considering":[27],"dynamic":[29],"nature":[32],"of":[33,58,73],"test":[34,50],"molecules":[35,51],"real-world":[37],"contexts,":[38],"previous":[40],"independently":[41],"identically":[43],"distributed":[44],"(i.i.d.)":[45],"assumption":[46],"for":[47],"training":[48],"is":[52,90,130],"not":[53],"align":[54],"with":[55],"requirements":[57],"practical":[59],"applications":[60],"chemistry.":[62],"Rationalization":[63],"has":[64],"been":[65],"proposed":[66],"to":[67,92,113,122],"enhance":[68],"Out-of-Distribution":[70,162],"(OOD)":[71],"generalization":[72],"GNN,":[74],"but":[75],"a":[76,103],"critical":[77],"concern":[78],"remains":[79],"unexplored:":[80],"low":[81],"efficiency":[82],"rationale":[84],"We":[86],"consider":[87],"this":[88],"bottleneck":[89],"due":[91],"large":[93],"search":[94,128],"space":[95,129],"overly":[97],"flexible":[98],"modeling.":[99],"Here,":[100],"we":[101],"introduce":[102],"framework":[104],"called":[105],"Molecule":[106],"Stratifier":[107],"Invariant":[109],"Rational":[110],"Improver":[111],"(MSIRI)":[112],"overcome":[114],"challenge.":[116],"Specifically,":[117],"MSIRI":[118],"adopt":[119],"vector":[120],"quantization":[121],"obtain":[123],"invariant":[124],"rationales":[125],"narrowed":[131],"by":[132],"substructure":[133],"two":[135],"assumptions":[136],"based":[137],"on":[138,143],"subgraph":[139],"matching.":[140],"Experimental":[141],"results":[142],"ten":[144],"datasets":[145],"demonstrate":[146],"that":[147],"our":[148],"both":[150],"achieves":[151],"significant":[152],"improvements":[153],"across":[154],"various":[155],"GNN":[156],"backbones":[157],"outperforms":[159],"other":[160],"six":[161],"method,":[163],"clearly":[164],"demonstrating":[165],"its":[166],"effectiveness":[167],"addressing":[169],"OOD":[171],"challenges":[172],"MRL.":[174]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
