{"id":"https://openalex.org/W4411272299","doi":"https://doi.org/10.1021/acs.jcim.5c00748","title":"MMSol: Predicting Protein Solubility with an Antinoise Multimodal Deep Model","display_name":"MMSol: Predicting Protein Solubility with an Antinoise Multimodal Deep Model","publication_year":2025,"publication_date":"2025-06-13","ids":{"openalex":"https://openalex.org/W4411272299","doi":"https://doi.org/10.1021/acs.jcim.5c00748","pmid":"https://pubmed.ncbi.nlm.nih.gov/40512751"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jcim.5c00748","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.5c00748","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","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":"https://openalex.org/A5101912103","display_name":"Jia Xu","orcid":"https://orcid.org/0000-0003-4545-7103"},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":[],"is_corresponding":false,"raw_author_name":"Jia Xu","raw_affiliation_strings":["School of Computer Science and Technology","Soochow University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064852381","display_name":"Tingfang Wu","orcid":"https://orcid.org/0000-0001-8137-2436"},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]},{"id":"https://openalex.org/I70986742","display_name":"Novelis (Canada)","ror":"https://ror.org/03wn09h25","country_code":"CA","type":"company","lineage":["https://openalex.org/I70986742"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Tingfang Wu","raw_affiliation_strings":["Collaborative Innovation Center of Novel Software Technology and Industrialization","Province Key Lab for Information Processing Technologies","School of Computer Science and Technology","Soochow University"],"raw_orcid":"https://orcid.org/0000-0001-8137-2436","affiliations":[{"raw_affiliation_string":"Collaborative Innovation Center of Novel Software Technology and Industrialization","institution_ids":["https://openalex.org/I70986742"]},{"raw_affiliation_string":"Province Key Lab for Information Processing Technologies","institution_ids":[]},{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071538499","display_name":"Yelu Jiang","orcid":null},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":[],"is_corresponding":false,"raw_author_name":"Yelu Jiang","raw_affiliation_strings":["School of Computer Science and Technology","Soochow University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073740698","display_name":"Liangpeng Nie","orcid":"https://orcid.org/0000-0003-4210-8039"},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":[],"is_corresponding":false,"raw_author_name":"Liangpeng Nie","raw_affiliation_strings":["School of Computer Science and Technology","Soochow University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100455636","display_name":"Geng Li","orcid":"https://orcid.org/0000-0003-0479-9668"},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":[],"is_corresponding":false,"raw_author_name":"Geng Li","raw_affiliation_strings":["School of Computer Science and Technology","Soochow University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100388188","display_name":"Yi Zhang","orcid":"https://orcid.org/0000-0002-5867-9322"},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":[],"is_corresponding":false,"raw_author_name":"Yi Zhang","raw_affiliation_strings":["School of Computer Science and Technology","Soochow University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102674489","display_name":"Zhenglong Zhou","orcid":null},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":[],"is_corresponding":false,"raw_author_name":"Zhenglong Zhou","raw_affiliation_strings":["School of Computer Science and Technology","Soochow University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100432872","display_name":"Yiwei Chen","orcid":"https://orcid.org/0000-0001-5739-2429"},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]}],"countries":[],"is_corresponding":false,"raw_author_name":"Yiwei Chen","raw_affiliation_strings":["School of Computer Science and Technology","Soochow University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010017304","display_name":"Lijun Quan","orcid":"https://orcid.org/0000-0003-4551-4198"},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]},{"id":"https://openalex.org/I70986742","display_name":"Novelis (Canada)","ror":"https://ror.org/03wn09h25","country_code":"CA","type":"company","lineage":["https://openalex.org/I70986742"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Lijun Quan","raw_affiliation_strings":["Collaborative Innovation Center of Novel Software Technology and Industrialization","Province Key Lab for Information Processing Technologies","School of Computer Science and Technology","Soochow University"],"raw_orcid":"https://orcid.org/0000-0003-4551-4198","affiliations":[{"raw_affiliation_string":"Collaborative Innovation Center of Novel Software Technology and Industrialization","institution_ids":["https://openalex.org/I70986742"]},{"raw_affiliation_string":"Province Key Lab for Information Processing Technologies","institution_ids":[]},{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5061252858","display_name":"Qiang Lyu","orcid":"https://orcid.org/0000-0003-2371-835X"},"institutions":[{"id":"https://openalex.org/I4390039265","display_name":"PRG S&Tech (South Korea)","ror":"https://ror.org/02sr2ee22","country_code":null,"type":"company","lineage":["https://openalex.org/I4390039265"]},{"id":"https://openalex.org/I70986742","display_name":"Novelis (Canada)","ror":"https://ror.org/03wn09h25","country_code":"CA","type":"company","lineage":["https://openalex.org/I70986742"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Qiang Lyu","raw_affiliation_strings":["Collaborative Innovation Center of Novel Software Technology and Industrialization","Province Key Lab for Information Processing Technologies","School of Computer Science and Technology","Soochow University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Collaborative Innovation Center of Novel Software Technology and Industrialization","institution_ids":["https://openalex.org/I70986742"]},{"raw_affiliation_string":"Province Key Lab for Information Processing Technologies","institution_ids":[]},{"raw_affiliation_string":"School of Computer Science and Technology","institution_ids":["https://openalex.org/I4390039265"]},{"raw_affiliation_string":"Soochow University","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5061252858","https://openalex.org/A5064852381"],"corresponding_institution_ids":["https://openalex.org/I4390039265","https://openalex.org/I70986742"],"apc_list":null,"apc_paid":null,"fwci":0.6376,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.68747403,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"65","issue":"13","first_page":"7238","last_page":"7251"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11124","display_name":"Protein purification and stability","score":0.9987000226974487,"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/T11124","display_name":"Protein purification and stability","score":0.9987000226974487,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9962999820709229,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9902999997138977,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/solubility","display_name":"Solubility","score":0.5260142087936401},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44952502846717834},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4227266311645508},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.24241241812705994},{"id":"https://openalex.org/keywords/organic-chemistry","display_name":"Organic chemistry","score":0.07912090420722961}],"concepts":[{"id":"https://openalex.org/C155574463","wikidata":"https://www.wikidata.org/wiki/Q170731","display_name":"Solubility","level":2,"score":0.5260142087936401},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44952502846717834},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4227266311645508},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.24241241812705994},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.07912090420722961}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep 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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012995","descriptor_name":"Solubility","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012995","descriptor_name":"Solubility","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012995","descriptor_name":"Solubility","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}],"locations_count":2,"locations":[{"id":"doi:10.1021/acs.jcim.5c00748","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.5c00748","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:40512751","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40512751","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":"Journal of chemical information and modeling","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2802167152","display_name":null,"funder_award_id":"BK20200856","funder_id":"https://openalex.org/F4320335445","funder_display_name":"Outstanding Youth Foundation of Jiangsu Province of China"},{"id":"https://openalex.org/G4070125920","display_name":null,"funder_award_id":"62272335","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G739727963","display_name":null,"funder_award_id":"62002251","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320327518","display_name":"Priority Academic Program Development of Jiangsu Higher Education Institutions","ror":null},{"id":"https://openalex.org/F4320335445","display_name":"Outstanding Youth Foundation of Jiangsu Province of China","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":40,"referenced_works":["https://openalex.org/W1527927437","https://openalex.org/W1583837637","https://openalex.org/W1588724272","https://openalex.org/W1985941856","https://openalex.org/W1993282040","https://openalex.org/W2008708467","https://openalex.org/W2058275547","https://openalex.org/W2083152645","https://openalex.org/W2085277871","https://openalex.org/W2094988704","https://openalex.org/W2114850508","https://openalex.org/W2116595386","https://openalex.org/W2131643336","https://openalex.org/W2133458779","https://openalex.org/W2171533950","https://openalex.org/W2530998706","https://openalex.org/W2585597953","https://openalex.org/W2620185010","https://openalex.org/W2794004073","https://openalex.org/W2903887467","https://openalex.org/W2964834357","https://openalex.org/W2979986977","https://openalex.org/W3042609801","https://openalex.org/W3083406432","https://openalex.org/W3119780302","https://openalex.org/W3129073614","https://openalex.org/W3136918052","https://openalex.org/W3216325381","https://openalex.org/W4289653737","https://openalex.org/W4311327315","https://openalex.org/W4317853066","https://openalex.org/W4327550249","https://openalex.org/W4376226279","https://openalex.org/W4386133793","https://openalex.org/W4386735747","https://openalex.org/W4389486963","https://openalex.org/W4392757360","https://openalex.org/W4396998180","https://openalex.org/W4399262081","https://openalex.org/W4404995526"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W1990608904","https://openalex.org/W1539400370","https://openalex.org/W2007219878","https://openalex.org/W1934224411","https://openalex.org/W1561807720","https://openalex.org/W2005109573","https://openalex.org/W1564792705"],"abstract_inverted_index":{"Protein":[0],"solubility":[1,33,68,79],"plays":[2],"a":[3,76],"critical":[4],"role":[5],"in":[6,66,153],"determining":[7],"its":[8],"biological":[9],"function,":[10,92],"such":[11],"as":[12],"enabling":[13],"proper":[14],"protein":[15,32,67,78,96],"delivery":[16],"and":[17,44,60,91,124,141,156],"ensuring":[18],"that":[19,83,131],"proteins":[20,43],"remain":[21],"soluble":[22],"during":[23,104],"cellular":[24],"processes":[25],"or":[26],"therapeutic":[27],"applications.":[28],"Accurate":[29],"prediction":[30,80],"of":[31,40,57,87,110,144],"with":[34],"computational":[35],"methods":[36],"accelerates":[37],"the":[38,55,95,108,114,142,145,148],"development":[39],"therapeutically":[41],"relevant":[42],"industrial":[45],"enzymes.":[46],"However,":[47],"existing":[48],"models":[49],"do":[50],"not":[51],"fully":[52],"account":[53],"for":[54],"interaction":[56],"multimodal":[58],"information":[59],"are":[61],"limited":[62],"by":[63],"label":[64,111],"noise":[65],"experimental":[69],"data.":[70],"To":[71],"address":[72],"this,":[73],"we":[74,99,117],"propose":[75],"new":[77],"model":[81,120,149],"MMSol":[82],"considers":[84],"three":[85],"modalities":[86],"information:":[88],"sequence,":[89],"structure,":[90],"which":[93],"enrich":[94],"representation.":[97],"Additionally,":[98],"incorporates":[100],"an":[101],"antinoise":[102,146],"algorithm":[103],"training":[105],"to":[106,133,137],"mitigate":[107],"impact":[109],"noise.":[112],"In":[113],"empirical":[115],"study,":[116],"evaluate":[118],"our":[119,134],"on":[121],"both":[122,154],"noise-free":[123,157],"noisy":[125,155],"data":[126],"sets.":[127],"The":[128],"result":[129],"demonstrates":[130],"due":[132],"model's":[135],"capability":[136],"integrate":[138],"proteins'":[139],"multimodality,":[140],"incorporation":[143],"algorithm,":[147],"achieves":[150],"superior":[151],"performance":[152],"scenarios.":[158]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-05-20T08:49:12.498775","created_date":"2025-10-10T00:00:00"}
