{"id":"https://openalex.org/W4406259880","doi":"https://doi.org/10.1109/bibm62325.2024.10822075","title":"MolCLW: Molecular Contrastive Learning With Learnable Weighted Substructures","display_name":"MolCLW: Molecular Contrastive Learning With Learnable Weighted Substructures","publication_year":2024,"publication_date":"2024-12-03","ids":{"openalex":"https://openalex.org/W4406259880","doi":"https://doi.org/10.1109/bibm62325.2024.10822075"},"language":"en","primary_location":{"id":"doi:10.1109/bibm62325.2024.10822075","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822075","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 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/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":true,"raw_author_name":"Jiahe Li","raw_affiliation_strings":["University of Science and Technology of China,School of Software Engineering,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"]}]},{"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"],"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"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100322704","display_name":"Yang Wang","orcid":"https://orcid.org/0009-0008-6688-4773"},"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"],"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"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5035446189"],"corresponding_institution_ids":["https://openalex.org/I126520041","https://openalex.org/I308837"],"apc_list":null,"apc_paid":null,"fwci":0.1127,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.4288736,"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":"828","last_page":"831"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.8514999747276306,"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":0.8514999747276306,"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/T12613","display_name":"X-ray Diffraction in Crystallography","score":0.7771000266075134,"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/T12327","display_name":"Various Chemistry Research Topics","score":0.6956999897956848,"subfield":{"id":"https://openalex.org/subfields/1606","display_name":"Physical and Theoretical Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6797761917114258},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4979283809661865},{"id":"https://openalex.org/keywords/contrastive-analysis","display_name":"Contrastive analysis","score":0.4759264290332794},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.420188307762146},{"id":"https://openalex.org/keywords/linguistics","display_name":"Linguistics","score":0.14161887764930725}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6797761917114258},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4979283809661865},{"id":"https://openalex.org/C2777629044","wikidata":"https://www.wikidata.org/wiki/Q614959","display_name":"Contrastive analysis","level":2,"score":0.4759264290332794},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.420188307762146},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.14161887764930725},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm62325.2024.10822075","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822075","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.5899999737739563}],"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":16,"referenced_works":["https://openalex.org/W2966357564","https://openalex.org/W2973114758","https://openalex.org/W3204651332","https://openalex.org/W4221151574","https://openalex.org/W4293821372","https://openalex.org/W4311860164","https://openalex.org/W4382786830","https://openalex.org/W4385568381","https://openalex.org/W6726873649","https://openalex.org/W6754929296","https://openalex.org/W6772452955","https://openalex.org/W6784526300","https://openalex.org/W6784694379","https://openalex.org/W6802320626","https://openalex.org/W6838623678","https://openalex.org/W6845259520"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W3204019825"],"abstract_inverted_index":{"Predicting":[0],"molecular":[1,47,60,81,85],"properties":[2],"is":[3,98],"crucial":[4],"across":[5],"scientific":[6],"and":[7,14,33,91,140,184,190,198],"industrial":[8],"domains":[9],"such":[10],"as":[11,22],"drug":[12,194],"discovery":[13],"material":[15],"science.":[16],"Contrastive":[17,66],"learning":[18,62,79,101],"has":[19],"gained":[20],"prominence":[21],"an":[23,130,141],"effective":[24],"method.":[25],"However,":[26],"routine":[27],"strategies":[28],"often":[29],"overlook":[30],"substructure":[31,162,185],"information":[32],"run":[34],"the":[35,39,78,89,102,108,112,120,153,156,161,165,170],"risk":[36],"of":[37,80,105,172],"guiding":[38],"model":[40,63,74,109,157],"to":[41,46,76,100,110,126,160,164],"learn":[42],"incorrect":[43],"knowledge":[44],"due":[45],"property":[48],"changes":[49],"during":[50,152],"augmentation.":[51],"To":[52],"address":[53],"these":[54],"issues,":[55],"we":[56],"propose":[57],"a":[58,94,179],"novel":[59],"contrastive":[61],"named":[64],"Molecular":[65],"Learning":[67],"with":[68],"Learnable":[69],"Weighted":[70],"Substructures":[71],"(MolCLW).":[72],"Our":[73],"aims":[75],"enhance":[77],"substructures":[82],"by":[83,168],"comparing":[84],"representations":[86],"generated":[87],"at":[88],"molecular-level":[90],"substructure-level.":[92],"Meanwhile,":[93],"transformer":[95],"encoder":[96],"module":[97],"dedicated":[99],"weight":[103],"scores":[104],"substructures,":[106],"enabling":[107],"adjust":[111],"similarity":[113],"level":[114],"between":[115,181],"positive":[116],"pairs":[117],"based":[118],"on":[119,136,147],"varying":[121],"masked":[122],"substructures.":[123,174],"In":[124],"comparison":[125],"baselines,":[127],"MolCLW":[128],"demonstrates":[129],"averaged":[131,142],"2.2%":[132],"improvement":[133],"in":[134,145],"ROC-AUC":[135],"6":[137],"classification":[138],"benchmarks":[139],"4.3%":[143],"decrease":[144],"error":[146],"5":[148],"regression":[149],"benchmarks.":[150],"Furthermore,":[151],"finetuning":[154],"process,":[155],"can":[158],"attend":[159],"relevant":[163],"downstream":[166,182],"task":[167],"adjusting":[169],"weights":[171],"different":[173],"The":[175],"visualization":[176],"results":[177],"establish":[178],"link":[180],"targets":[183],"function,":[186],"providing":[187],"valuable":[188],"insights":[189],"strong":[191],"support":[192],"for":[193],"discovery,":[195],"chemical":[196],"reactions,":[197],"research.":[199]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
