{"id":"https://openalex.org/W4403113340","doi":"https://doi.org/10.1093/bioinformatics/btae589","title":"Learning to explain is a good biomedical few-shot learner","display_name":"Learning to explain is a good biomedical few-shot learner","publication_year":2024,"publication_date":"2024-10-01","ids":{"openalex":"https://openalex.org/W4403113340","doi":"https://doi.org/10.1093/bioinformatics/btae589","pmid":"https://pubmed.ncbi.nlm.nih.gov/39360976"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae589","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae589","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bioinformatics/btae589","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008961920","display_name":"Peng Chen","orcid":"https://orcid.org/0000-0002-0975-236X"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Peng Chen","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,"],"raw_orcid":"https://orcid.org/0000-0002-0975-236X","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","institution_ids":["https://openalex.org/I27357992"]},{"raw_affiliation_string":"Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100696824","display_name":"Jian Wang","orcid":"https://orcid.org/0000-0002-4316-932X"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jian Wang","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","institution_ids":["https://openalex.org/I27357992"]},{"raw_affiliation_string":"Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100619435","display_name":"Ling Luo","orcid":"https://orcid.org/0000-0002-5141-0259"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ling Luo","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,"],"raw_orcid":"https://orcid.org/0000-0002-5141-0259","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","institution_ids":["https://openalex.org/I27357992"]},{"raw_affiliation_string":"Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023931221","display_name":"Hongfei Lin","orcid":"https://orcid.org/0000-0003-0872-7688"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hongfei Lin","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","institution_ids":["https://openalex.org/I27357992"]},{"raw_affiliation_string":"Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5051597671","display_name":"Zhihao Yang","orcid":"https://orcid.org/0000-0001-6186-2024"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhihao Yang","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,"],"raw_orcid":"https://orcid.org/0000-0001-6186-2024","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology , Dalian 116024,","institution_ids":["https://openalex.org/I27357992"]},{"raw_affiliation_string":"Dalian University of Technology School of Computer Science and Technology, , Dalian, 116024,","institution_ids":["https://openalex.org/I27357992"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I27357992"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.9449,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.88183866,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"40","issue":"10","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12026","display_name":"Explainable Artificial Intelligence (XAI)","score":0.24480000138282776,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/T12026","display_name":"Explainable Artificial Intelligence (XAI)","score":0.24480000138282776,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/T10028","display_name":"Topic Modeling","score":0.241799995303154,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.12020000070333481,"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":0.6446794271469116},{"id":"https://openalex.org/keywords/shot","display_name":"Shot (pellet)","score":0.5893992781639099},{"id":"https://openalex.org/keywords/one-shot","display_name":"One shot","score":0.46865811944007874},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.34607693552970886},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.12577062845230103},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.10883629322052002},{"id":"https://openalex.org/keywords/mechanical-engineering","display_name":"Mechanical engineering","score":0.07639169692993164}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6446794271469116},{"id":"https://openalex.org/C2778344882","wikidata":"https://www.wikidata.org/wiki/Q278938","display_name":"Shot (pellet)","level":2,"score":0.5893992781639099},{"id":"https://openalex.org/C2992734406","wikidata":"https://www.wikidata.org/wiki/Q413267","display_name":"One shot","level":2,"score":0.46865811944007874},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.34607693552970886},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.12577062845230103},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.10883629322052002},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.07639169692993164},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btae589","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae589","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39360976","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39360976","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11483110","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11483110","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11483110/pdf/btae589.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae589","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae589","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G5150479751","display_name":null,"funder_award_id":"62302076","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5520768470","display_name":null,"funder_award_id":"DUT23RC","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"}],"funders":[{"id":"https://openalex.org/F4320313434","display_name":"Institute for Catastrophic Loss Reduction","ror":null},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W2097960255","https://openalex.org/W2166474856","https://openalex.org/W2168041406","https://openalex.org/W2169099542","https://openalex.org/W2911489562","https://openalex.org/W3046375318","https://openalex.org/W4200351086","https://openalex.org/W4313591059","https://openalex.org/W4384920712","https://openalex.org/W4385163750","https://openalex.org/W4385647457","https://openalex.org/W4388605937","https://openalex.org/W4390745503","https://openalex.org/W6769627184","https://openalex.org/W6847076894","https://openalex.org/W6856363876"],"related_works":["https://openalex.org/W2497720472","https://openalex.org/W4292659306","https://openalex.org/W3044321615","https://openalex.org/W4294892107","https://openalex.org/W2806221744","https://openalex.org/W2326937258","https://openalex.org/W394267150","https://openalex.org/W2773965352","https://openalex.org/W2357748469","https://openalex.org/W2392917037"],"abstract_inverted_index":{"MOTIVATION:":[0],"Significant":[1],"progress":[2],"has":[3],"been":[4],"achieved":[5],"in":[6,73,157,201],"biomedical":[7,82,92,149,183,198],"text":[8],"mining":[9],"using":[10],"deep":[11],"learning":[12,190],"methods,":[13],"which":[14],"rely":[15],"heavily":[16],"on":[17,65,91,138,177],"large":[18,110],"amounts":[19],"of":[20,57,89,120,134,196],"high-quality":[21,33,128],"data":[22,35,41,48,58,235],"annotated":[23,34],"by":[24,130,171,209],"human":[25],"experts.":[26],"However,":[27],"the":[28,54,87,116,194,214,218],"reality":[29],"is":[30,36],"that":[31,105,189],"obtaining":[32],"extremely":[37],"challenging":[38],"due":[39],"to":[40,99,114,191,211],"scarcity":[42],"(e.g.":[43],"rare":[44],"or":[45],"new":[46],"diseases),":[47],"privacy":[49],"and":[50,53,85,143,234],"security":[51],"concerns,":[52],"high":[55],"cost":[56],"annotation.":[59],"Additionally,":[60],"nearly":[61],"all":[62],"researches":[63],"focus":[64],"predicting":[66],"labels":[67],"without":[68],"providing":[69],"corresponding":[70],"explanations.":[71],"Therefore,":[72],"this":[74],"paper,":[75],"we":[76],"investigate":[77],"a":[78,132,153,158],"more":[79],"realistic":[80],"scenario,":[81,203],"few-shot":[83,93,121,179],"learning,":[84],"explore":[86],"impact":[88],"interpretability":[90],"learning.":[94,122],"RESULTS:":[95],"We":[96],"present":[97],"LetEx-Learning":[98],"explain-a":[100],"novel":[101],"multi-task":[102,172],"generative":[103],"approach":[104,124],"leverages":[106],"reasoning":[107,118,223],"explanations":[108,129,163],"from":[109],"language":[111],"models":[112,207],"(LLMs)":[113],"enhance":[115],"inductive":[117],"ability":[119,225],"Our":[123,231],"includes":[125],"(1)":[126],"collecting":[127],"devising":[131],"suite":[133],"complete":[135],"workflow":[136],"based":[137],"LLMs":[139],"through":[140],"CoT":[141],"prompting":[142],"self-training":[144],"strategies,":[145],"(2)":[146],"converting":[147],"various":[148],"NLP":[150,199],"tasks":[151,200],"into":[152],"text-to-text":[154],"generation":[155],"task":[156],"unified":[159],"manner,":[160],"where":[161],"collected":[162],"serve":[164],"as":[165],"additional":[166],"supervision":[167],"between":[168],"text-label":[169],"pairs":[170],"training.":[173],"Experiments":[174],"are":[175,236],"conducted":[176],"three":[178],"settings":[180],"across":[181],"six":[182],"benchmark":[184],"datasets.":[185],"The":[186],"results":[187],"show":[188],"explain":[192],"improves":[193],"performances":[195],"diverse":[197],"low-resource":[202],"outperforming":[204],"strong":[205],"baseline":[206],"significantly":[208],"up":[210],"6.41%.":[212],"Notably,":[213],"proposed":[215],"method":[216],"makes":[217],"220M":[219],"LetEx":[220],"perform":[221],"superior":[222],"explanation":[224],"against":[226],"LLMs.":[227],"AVAILABILITY":[228],"AND":[229],"IMPLEMENTATION:":[230],"source":[232],"code":[233],"available":[237],"at":[238],"https://github.com/cpmss521/LetEx.":[239]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":6}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
