{"id":"https://openalex.org/W4366824201","doi":"https://doi.org/10.1038/s42256-023-00640-6","title":"Multitask joint strategies of self-supervised representation learning on biomedical networks for drug discovery","display_name":"Multitask joint strategies of self-supervised representation learning on biomedical networks for drug discovery","publication_year":2023,"publication_date":"2023-04-24","ids":{"openalex":"https://openalex.org/W4366824201","doi":"https://doi.org/10.1038/s42256-023-00640-6"},"language":"en","primary_location":{"id":"doi:10.1038/s42256-023-00640-6","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-023-00640-6","pdf_url":"https://www.nature.com/articles/s42256-023-00640-6.pdf","source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://www.nature.com/articles/s42256-023-00640-6.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5014801745","display_name":"Xiaoqi Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoqi Wang","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University, Changsha, China"],"raw_orcid":"https://orcid.org/0000-0001-5041-4269","affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083696246","display_name":"Yingjie Cheng","orcid":"https://orcid.org/0000-0001-7232-9946"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yingjie Cheng","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University, Changsha, China"],"raw_orcid":"https://orcid.org/0000-0001-7232-9946","affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101520782","display_name":"Yaning Yang","orcid":"https://orcid.org/0000-0003-2408-4176"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yaning Yang","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University, Changsha, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100397991","display_name":"Yue Yu","orcid":"https://orcid.org/0000-0002-9865-2212"},"institutions":[{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yue Yu","raw_affiliation_strings":["Peng Cheng Laboratory, Shenzhen, China"],"raw_orcid":"https://orcid.org/0000-0002-9865-2212","affiliations":[{"raw_affiliation_string":"Peng Cheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100325907","display_name":"Fei Li","orcid":"https://orcid.org/0000-0003-4895-7330"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Fei Li","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, China"],"raw_orcid":"https://orcid.org/0000-0003-4895-7330","affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210108629","https://openalex.org/I19820366"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5108008219","display_name":"Shaoliang Peng","orcid":"https://orcid.org/0000-0002-4647-2615"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]},{"id":"https://openalex.org/I4391767752","display_name":"State Key Laboratory of Chemobiosensing and Chemometrics","ror":"https://ror.org/05vg20182","country_code":null,"type":"facility","lineage":["https://openalex.org/I16609230","https://openalex.org/I4391767752"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shaoliang Peng","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University, Changsha, China","Peng Cheng Laboratory, Shenzhen, China","The State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China"],"raw_orcid":"https://orcid.org/0000-0002-4647-2615","affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, China","institution_ids":["https://openalex.org/I16609230"]},{"raw_affiliation_string":"Peng Cheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"The State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China","institution_ids":["https://openalex.org/I16609230","https://openalex.org/I4391767752"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5100325907","https://openalex.org/A5108008219"],"corresponding_institution_ids":["https://openalex.org/I16609230","https://openalex.org/I19820366","https://openalex.org/I4210108629","https://openalex.org/I4210136793","https://openalex.org/I4391767752"],"apc_list":{"value":9750,"currency":"EUR","value_usd":11690},"apc_paid":{"value":9750,"currency":"EUR","value_usd":11690},"fwci":9.9997,"has_fulltext":true,"cited_by_count":69,"citation_normalized_percentile":{"value":0.9875258,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"5","issue":"4","first_page":"445","last_page":"456"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998000264167786,"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":0.9998000264167786,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9955999851226807,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9896000027656555,"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":0.769543468952179},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5747511982917786},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.5738967061042786},{"id":"https://openalex.org/keywords/multi-task-learning","display_name":"Multi-task learning","score":0.5728186964988708},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5380418300628662},{"id":"https://openalex.org/keywords/modalities","display_name":"Modalities","score":0.514474630355835},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.4713701009750366},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.46409645676612854},{"id":"https://openalex.org/keywords/feature-learning","display_name":"Feature learning","score":0.43845972418785095},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.41746142506599426},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.16736841201782227},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.14235353469848633}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.769543468952179},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5747511982917786},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.5738967061042786},{"id":"https://openalex.org/C28006648","wikidata":"https://www.wikidata.org/wiki/Q6934509","display_name":"Multi-task learning","level":3,"score":0.5728186964988708},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5380418300628662},{"id":"https://openalex.org/C2779903281","wikidata":"https://www.wikidata.org/wiki/Q6888026","display_name":"Modalities","level":2,"score":0.514474630355835},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.4713701009750366},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.46409645676612854},{"id":"https://openalex.org/C59404180","wikidata":"https://www.wikidata.org/wiki/Q17013334","display_name":"Feature learning","level":2,"score":0.43845972418785095},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.41746142506599426},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.16736841201782227},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.14235353469848633},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C36289849","wikidata":"https://www.wikidata.org/wiki/Q34749","display_name":"Social science","level":1,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1038/s42256-023-00640-6","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-023-00640-6","pdf_url":"https://www.nature.com/articles/s42256-023-00640-6.pdf","source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1038/s42256-023-00640-6","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-023-00640-6","pdf_url":"https://www.nature.com/articles/s42256-023-00640-6.pdf","source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G8028094890","display_name":null,"funder_award_id":"U19A2067","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8417351188","display_name":null,"funder_award_id":"XDB38040100","funder_id":"https://openalex.org/F4320321133","funder_display_name":"Chinese Academy of Sciences"},{"id":"https://openalex.org/G8617305348","display_name":null,"funder_award_id":"81973244","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320318558","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321133","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35"},{"id":"https://openalex.org/F4320326871","display_name":"State Key Laboratory of Chemo/Biosensing and Chemometrics","ror":null},{"id":"https://openalex.org/F4320337144","display_name":"National Supercomputing Center, Korea Institute of Science and Technology Information","ror":null}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4366824201.pdf"},"referenced_works_count":75,"referenced_works":["https://openalex.org/W1849277567","https://openalex.org/W1983248350","https://openalex.org/W2002470750","https://openalex.org/W2018518196","https://openalex.org/W2028279608","https://openalex.org/W2029173860","https://openalex.org/W2043961251","https://openalex.org/W2044424923","https://openalex.org/W2064675550","https://openalex.org/W2068448872","https://openalex.org/W2087698552","https://openalex.org/W2091439417","https://openalex.org/W2097308346","https://openalex.org/W2112090702","https://openalex.org/W2114082868","https://openalex.org/W2117130368","https://openalex.org/W2119412782","https://openalex.org/W2122863289","https://openalex.org/W2124001239","https://openalex.org/W2141433508","https://openalex.org/W2142535891","https://openalex.org/W2143419558","https://openalex.org/W2154851992","https://openalex.org/W2159583324","https://openalex.org/W2270070752","https://openalex.org/W2336207313","https://openalex.org/W2539985226","https://openalex.org/W2594183968","https://openalex.org/W2612436700","https://openalex.org/W2624871570","https://openalex.org/W2753953057","https://openalex.org/W2786016794","https://openalex.org/W2792962096","https://openalex.org/W2802200505","https://openalex.org/W2826750344","https://openalex.org/W2911964244","https://openalex.org/W2917858269","https://openalex.org/W2933068012","https://openalex.org/W2938214930","https://openalex.org/W2945027804","https://openalex.org/W2962876161","https://openalex.org/W2962897020","https://openalex.org/W2963558486","https://openalex.org/W2997680655","https://openalex.org/W3005769002","https://openalex.org/W3024894285","https://openalex.org/W3035060554","https://openalex.org/W3035524453","https://openalex.org/W3036974265","https://openalex.org/W3042221936","https://openalex.org/W3086452730","https://openalex.org/W3088070507","https://openalex.org/W3093687066","https://openalex.org/W3094497296","https://openalex.org/W3095883070","https://openalex.org/W3104097132","https://openalex.org/W3119774682","https://openalex.org/W3120049458","https://openalex.org/W3128378288","https://openalex.org/W3129222583","https://openalex.org/W3134146005","https://openalex.org/W3156650687","https://openalex.org/W3158868742","https://openalex.org/W3167140978","https://openalex.org/W3176947119","https://openalex.org/W3184618566","https://openalex.org/W3196349267","https://openalex.org/W3205082786","https://openalex.org/W3217681006","https://openalex.org/W4214868967","https://openalex.org/W4220655797","https://openalex.org/W4225411558","https://openalex.org/W4239510810","https://openalex.org/W6772452955","https://openalex.org/W6778883912"],"related_works":["https://openalex.org/W2237537322","https://openalex.org/W2950678851","https://openalex.org/W4301248618","https://openalex.org/W2165343651","https://openalex.org/W2242427765","https://openalex.org/W2075830955","https://openalex.org/W2343790552","https://openalex.org/W4385507578","https://openalex.org/W2972302231","https://openalex.org/W3111398917"],"abstract_inverted_index":{"Abstract":[0],"Self-supervised":[1],"representation":[2],"learning":[3,81],"(SSL)":[4],"on":[5,36],"biomedical":[6,37,66],"networks":[7,38],"provides":[8],"new":[9],"opportunities":[10],"for":[11,39,146],"drug":[12,40,85,147],"discovery;":[13],"however,":[14],"effectively":[15],"combining":[16],"multiple":[17,72],"SSL":[18,35,48,145],"models":[19,111],"is":[20],"still":[21],"challenging":[22],"and":[23,62,133],"has":[24],"been":[25],"rarely":[26],"explored.":[27],"We":[28,44,127],"therefore":[29],"propose":[30],"multitask":[31,79,104,144],"joint":[32,105],"strategies":[33,136],"of":[34,56,71,96,125,143],"discovery,":[41],"named":[42],"MSSL2drug.":[43],"design":[45],"six":[46],"basic":[47],"tasks":[49,73,98],"that":[50,130],"are":[51,74,121],"inspired":[52],"by":[53],"the":[54,108,122,131,141],"knowledge":[55],"various":[57],"modalities,":[58],"inlcuding":[59],"structures,":[60],"semantics":[61],"attributes":[63],"in":[64,83],"heterogeneous":[65],"networks.":[67],"Importantly,":[68],"fifteen":[69],"combinations":[70,95,118],"evaluated":[75],"using":[76],"a":[77],"graph-attention-based":[78],"adversarial":[80],"framework":[82],"two":[84,91],"discovery":[86],"scenarios.":[87],"The":[88],"results":[89],"suggest":[90],"important":[92],"findings:":[93],"(1)":[94],"multimodal":[97,132],"achieve":[99],"better":[100],"performance":[101,114],"than":[102,115],"other":[103],"models;":[106],"(2)":[107],"local\u2013global":[109,134],"combination":[110,135],"yield":[112],"higher":[113],"random":[116],"two-task":[117],"when":[119],"there":[120],"same":[123],"number":[124],"modalities.":[126],"thus":[128],"conjecture":[129],"can":[137],"be":[138],"treated":[139],"as":[140],"guideline":[142],"discovery.":[148]},"counts_by_year":[{"year":2026,"cited_by_count":9},{"year":2025,"cited_by_count":33},{"year":2024,"cited_by_count":21},{"year":2023,"cited_by_count":6}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
