{"id":"https://openalex.org/W4399854538","doi":"https://doi.org/10.1093/jamia/ocae146","title":"A comparative study of large language model-based zero-shot inference and task-specific supervised classification of breast cancer pathology reports","display_name":"A comparative study of large language model-based zero-shot inference and task-specific supervised classification of breast cancer pathology reports","publication_year":2024,"publication_date":"2024-06-20","ids":{"openalex":"https://openalex.org/W4399854538","doi":"https://doi.org/10.1093/jamia/ocae146","pmid":"https://pubmed.ncbi.nlm.nih.gov/38900207"},"language":"en","primary_location":{"id":"doi:10.1093/jamia/ocae146","is_oa":true,"landing_page_url":"https://doi.org/10.1093/jamia/ocae146","pdf_url":"https://academic.oup.com/jamia/advance-article-pdf/doi/10.1093/jamia/ocae146/58287293/ocae146.pdf","source":{"id":"https://openalex.org/S129839026","display_name":"Journal of the American Medical Informatics Association","issn_l":"1067-5027","issn":["1067-5027","1527-974X"],"is_oa":false,"is_in_doaj":false,"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of the American Medical Informatics Association","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/jamia/advance-article-pdf/doi/10.1093/jamia/ocae146/58287293/ocae146.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5009516496","display_name":"Madhumita Sushil","orcid":"https://orcid.org/0000-0001-7884-0526"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Madhumita Sushil","raw_affiliation_strings":["Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States"],"raw_orcid":"https://orcid.org/0000-0001-7884-0526","affiliations":[{"raw_affiliation_string":"Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States","institution_ids":["https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024959372","display_name":"Travis Zack","orcid":"https://orcid.org/0000-0002-1620-6455"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]},{"id":"https://openalex.org/I4210167126","display_name":"UCSF Helen Diller Family Comprehensive Cancer Center","ror":"https://ror.org/05yndxy10","country_code":"US","type":"facility","lineage":["https://openalex.org/I180670191","https://openalex.org/I4210110664","https://openalex.org/I4210167126"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Travis Zack","raw_affiliation_strings":["Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States","Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco , San Francisco, CA 94158, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States","institution_ids":["https://openalex.org/I180670191"]},{"raw_affiliation_string":"Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco , San Francisco, CA 94158, United States","institution_ids":["https://openalex.org/I4210167126","https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046846922","display_name":"Divneet Mandair","orcid":"https://orcid.org/0000-0002-4629-0387"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]},{"id":"https://openalex.org/I4210167126","display_name":"UCSF Helen Diller Family Comprehensive Cancer Center","ror":"https://ror.org/05yndxy10","country_code":"US","type":"facility","lineage":["https://openalex.org/I180670191","https://openalex.org/I4210110664","https://openalex.org/I4210167126"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Divneet Mandair","raw_affiliation_strings":["Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States","Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco , San Francisco, CA 94158, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States","institution_ids":["https://openalex.org/I180670191"]},{"raw_affiliation_string":"Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco , San Francisco, CA 94158, United States","institution_ids":["https://openalex.org/I4210167126","https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051079756","display_name":"Zhiwei Zheng","orcid":"https://orcid.org/0000-0001-8010-4325"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhiwei Zheng","raw_affiliation_strings":["University of California, Berkeley , Berkeley, CA 94720, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of California, Berkeley , Berkeley, CA 94720, United States","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044308761","display_name":"Ahmed Wali","orcid":null},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ahmed Wali","raw_affiliation_strings":["University of California, Berkeley , Berkeley, CA 94720, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of California, Berkeley , Berkeley, CA 94720, United States","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100583552","display_name":"Yan-Ning Yu","orcid":null},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yan-Ning Yu","raw_affiliation_strings":["University of California, Berkeley , Berkeley, CA 94720, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of California, Berkeley , Berkeley, CA 94720, United States","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113113430","display_name":"Yuwei Quan","orcid":null},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yuwei Quan","raw_affiliation_strings":["University of California, Berkeley , Berkeley, CA 94720, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of California, Berkeley , Berkeley, CA 94720, United States","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009377274","display_name":"Dmytro Lituiev","orcid":"https://orcid.org/0000-0003-0543-0758"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dmytro Lituiev","raw_affiliation_strings":["Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States"],"raw_orcid":"https://orcid.org/0000-0003-0543-0758","affiliations":[{"raw_affiliation_string":"Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States","institution_ids":["https://openalex.org/I180670191"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5036068985","display_name":"Atul J. Butte","orcid":"https://orcid.org/0000-0002-7433-2740"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]},{"id":"https://openalex.org/I4210167126","display_name":"UCSF Helen Diller Family Comprehensive Cancer Center","ror":"https://ror.org/05yndxy10","country_code":"US","type":"facility","lineage":["https://openalex.org/I180670191","https://openalex.org/I4210110664","https://openalex.org/I4210167126"]},{"id":"https://openalex.org/I4387154595","display_name":"University of California Office of the President","ror":"https://ror.org/00dmfq477","country_code":"US","type":"education","lineage":["https://openalex.org/I4387154595"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Atul J Butte","raw_affiliation_strings":["Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States","Center for Data-driven Insights and Innovation, University of California, Office of the President , Oakland, CA 94607, United States","Department of Pediatrics, University of California, San Francisco , San Francisco, CA 94158, United States","Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco , San Francisco, CA 94158, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bakar Computational Health Sciences Institute, University of California, San Francisco , San Francisco, CA 94158, United States","institution_ids":["https://openalex.org/I180670191"]},{"raw_affiliation_string":"Center for Data-driven Insights and Innovation, University of California, Office of the President , Oakland, CA 94607, United States","institution_ids":["https://openalex.org/I4387154595"]},{"raw_affiliation_string":"Department of Pediatrics, University of California, San Francisco , San Francisco, CA 94158, United States","institution_ids":["https://openalex.org/I180670191"]},{"raw_affiliation_string":"Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco , San Francisco, CA 94158, United States","institution_ids":["https://openalex.org/I4210167126","https://openalex.org/I180670191"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5009516496"],"corresponding_institution_ids":["https://openalex.org/I180670191"],"apc_list":{"value":3967,"currency":"USD","value_usd":3967},"apc_paid":{"value":3967,"currency":"USD","value_usd":3967},"fwci":12.2419,"has_fulltext":true,"cited_by_count":41,"citation_normalized_percentile":{"value":0.98904329,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"31","issue":"10","first_page":"2315","last_page":"2327"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.9975000023841858,"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/T10028","display_name":"Topic Modeling","score":0.9975000023841858,"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/T13702","display_name":"Machine Learning in Healthcare","score":0.9951000213623047,"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/T11636","display_name":"Artificial Intelligence in Healthcare and Education","score":0.9945999979972839,"subfield":{"id":"https://openalex.org/subfields/2718","display_name":"Health Informatics"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7422482371330261},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6766732931137085},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.6209356784820557},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.6149882674217224},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5954911708831787},{"id":"https://openalex.org/keywords/random-forest","display_name":"Random forest","score":0.4743203818798065},{"id":"https://openalex.org/keywords/f1-score","display_name":"F1 score","score":0.45620959997177124},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.39038437604904175}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7422482371330261},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6766732931137085},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.6209356784820557},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.6149882674217224},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5954911708831787},{"id":"https://openalex.org/C169258074","wikidata":"https://www.wikidata.org/wiki/Q245748","display_name":"Random forest","level":2,"score":0.4743203818798065},{"id":"https://openalex.org/C148524875","wikidata":"https://www.wikidata.org/wiki/Q6975395","display_name":"F1 score","level":2,"score":0.45620959997177124},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.39038437604904175},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"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":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","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":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","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":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","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":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","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":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","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":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","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":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057286","descriptor_name":"Electronic Health Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057286","descriptor_name":"Electronic Health Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057286","descriptor_name":"Electronic Health Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057286","descriptor_name":"Electronic Health Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057286","descriptor_name":"Electronic Health Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057286","descriptor_name":"Electronic Health Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057286","descriptor_name":"Electronic Health Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/jamia/ocae146","is_oa":true,"landing_page_url":"https://doi.org/10.1093/jamia/ocae146","pdf_url":"https://academic.oup.com/jamia/advance-article-pdf/doi/10.1093/jamia/ocae146/58287293/ocae146.pdf","source":{"id":"https://openalex.org/S129839026","display_name":"Journal of the American Medical Informatics Association","issn_l":"1067-5027","issn":["1067-5027","1527-974X"],"is_oa":false,"is_in_doaj":false,"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of the American Medical Informatics Association","raw_type":"journal-article"},{"id":"pmid:38900207","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38900207","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 the American Medical Informatics Association : JAMIA","raw_type":null},{"id":"pmh:oai:escholarship.org:ark:/13030/qt06p015n5","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/06p015n5","pdf_url":"https://escholarship.org/content/qt06p015n5/qt06p015n5.pdf","source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of the American Medical Informatics Association, vol 31, iss 10","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:11413420","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11413420","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11413420/pdf/ocae146.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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Am Med Inform Assoc","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/jamia/ocae146","is_oa":true,"landing_page_url":"https://doi.org/10.1093/jamia/ocae146","pdf_url":"https://academic.oup.com/jamia/advance-article-pdf/doi/10.1093/jamia/ocae146/58287293/ocae146.pdf","source":{"id":"https://openalex.org/S129839026","display_name":"Journal of the American Medical Informatics Association","issn_l":"1067-5027","issn":["1067-5027","1527-974X"],"is_oa":false,"is_in_doaj":false,"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of the American Medical Informatics Association","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1176383031","display_name":null,"funder_award_id":"UL1 TR001872","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"},{"id":"https://openalex.org/G1601389486","display_name":null,"funder_award_id":"P30 CA082103","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G1814800902","display_name":null,"funder_award_id":"U01FD005978","funder_id":"https://openalex.org/F4320332744","funder_display_name":"Center of Excellence in Regulatory Science and Innovation"},{"id":"https://openalex.org/G2342450115","display_name":null,"funder_award_id":"P30CA082103","funder_id":"https://openalex.org/F4320332622","funder_display_name":"University of California, San Francisco"},{"id":"https://openalex.org/G2895356224","display_name":null,"funder_award_id":"TR001872","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3897007235","display_name":null,"funder_award_id":"U01 FD005978","funder_id":"https://openalex.org/F4320332163","funder_display_name":"U.S. Food and Drug Administration"},{"id":"https://openalex.org/G5133976721","display_name":null,"funder_award_id":"P30CA082103","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G5437152916","display_name":null,"funder_award_id":"UL1 TR001872","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6245908341","display_name":null,"funder_award_id":"UL1 TR001872","funder_id":"https://openalex.org/F4320332622","funder_display_name":"University of California, San Francisco"},{"id":"https://openalex.org/G7022792414","display_name":null,"funder_award_id":"U01FD005978","funder_id":"https://openalex.org/F4320332163","funder_display_name":"U.S. Food and Drug Administration"},{"id":"https://openalex.org/G8881677771","display_name":null,"funder_award_id":"P30CA082103","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332163","display_name":"U.S. Food and Drug Administration","ror":"https://ror.org/034xvzb47"},{"id":"https://openalex.org/F4320332622","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54"},{"id":"https://openalex.org/F4320332744","display_name":"Center of Excellence in Regulatory Science and Innovation","ror":"https://ror.org/05vzafd60"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4399854538.pdf"},"referenced_works_count":31,"referenced_works":["https://openalex.org/W2098690513","https://openalex.org/W2888620177","https://openalex.org/W3101216323","https://openalex.org/W4210764005","https://openalex.org/W4212774754","https://openalex.org/W4225335710","https://openalex.org/W4281557260","https://openalex.org/W4289531747","https://openalex.org/W4310964482","https://openalex.org/W4312113143","https://openalex.org/W4383223222","https://openalex.org/W4386865118","https://openalex.org/W4387232979","https://openalex.org/W4388007786","https://openalex.org/W4388011452","https://openalex.org/W4388525110","https://openalex.org/W4388608412","https://openalex.org/W4389205282","https://openalex.org/W4389524025","https://openalex.org/W4389792145","https://openalex.org/W4390510163","https://openalex.org/W4390704928","https://openalex.org/W4390745503","https://openalex.org/W4391292768","https://openalex.org/W4391876619","https://openalex.org/W4391973028","https://openalex.org/W4392643126","https://openalex.org/W4392740458","https://openalex.org/W4392986561","https://openalex.org/W4393994738","https://openalex.org/W6838865847"],"related_works":["https://openalex.org/W3193043704","https://openalex.org/W4386259002","https://openalex.org/W1546989560","https://openalex.org/W3171520305","https://openalex.org/W3135126032","https://openalex.org/W1924178503","https://openalex.org/W4308716060","https://openalex.org/W4280648719","https://openalex.org/W4386937079","https://openalex.org/W2901774584"],"abstract_inverted_index":{"OBJECTIVE:":[0],"Although":[1],"supervised":[2,85,123],"machine":[3],"learning":[4,33],"is":[5,22,201],"popular":[6],"for":[7,47,234],"information":[8],"extraction":[9],"from":[10,153,157],"clinical":[11,227,249],"notes,":[12],"creating":[13],"large":[14,25,180,209,235],"annotated":[15,181,210,236],"datasets":[16,182,211],"requires":[17],"extensive":[18],"domain":[19],"expertise":[20],"and":[21,81,100,156,159,163,246],"time-consuming.":[23],"Meanwhile,":[24],"language":[26],"models":[27,207],"(LLMs)":[28],"have":[29],"demonstrated":[30,143,218],"promising":[31],"transfer":[32],"capability.":[34],"In":[35],"this":[36],"study,":[37],"we":[38],"explored":[39],"whether":[40],"recent":[41],"LLMs":[42,142,187,200],"could":[43],"reduce":[44,189],"the":[45,75,101,109,121,173,190,197,203,219,224,232,241],"need":[46,233],"large-scale":[48],"data":[49,193],"annotations.":[50],"MATERIALS":[51],"AND":[52],"METHODS:":[53],"We":[54],"curated":[55],"a":[56],"dataset":[57],"of":[58,74,88,129,192,199,205,226,243],"769":[59],"breast":[60],"cancer":[61],"pathology":[62],"reports,":[63],"manually":[64],"labeled":[65],"with":[66,83,97,133,137,208],"12":[67,107],"categories,":[68],"to":[69,169,172,221],"compare":[70],"zero-shot":[71],"classification":[72,86],"capability":[73],"following":[76],"LLMs:":[77],"GPT-4,":[78],"GPT-3.5,":[79],"Starling,":[80],"ClinicalCamel,":[82],"task-specific":[84],"performance":[87],"3":[89],"models:":[90],"random":[91],"forests,":[92],"long":[93],"short-term":[94],"memory":[95],"networks":[96],"attention":[98],"(LSTM-Att),":[99],"UCSF-BERT":[102],"model.":[103],"RESULTS:":[104],"Across":[105],"all":[106],"tasks,":[108],"GPT-4":[110,147,217],"model":[111],"performed":[112],"either":[113],"significantly":[114],"better":[115],"than":[116],"or":[117],"as":[118,120],"well":[119],"best":[122],"model,":[124],"LSTM-Att":[125,165],"(average":[126],"macro":[127],"F1-score":[128],"0.86":[130],"vs":[131],"0.75),":[132],"advantage":[134],"on":[135],"tasks":[136,178],"high":[138],"label":[139],"imbalance.":[140],"Other":[141],"poor":[144,170],"performance.":[145],"Frequent":[146],"error":[148],"categories":[149],"included":[150],"incorrect":[151],"inferences":[152],"multiple":[154],"samples":[155],"history,":[158],"complex":[160],"task":[161],"design,":[162],"several":[164],"errors":[166],"were":[167],"related":[168],"generalization":[171],"test":[174],"set.":[175],"DISCUSSION:":[176],"On":[177],"where":[179],"cannot":[183],"be":[184],"easily":[185],"collected,":[186],"can":[188,212],"burden":[191],"labeling.":[194],"However,":[195],"if":[196],"use":[198,204],"prohibitive,":[202],"simpler":[206],"provide":[213],"comparable":[214],"results.":[215],"CONCLUSIONS:":[216],"potential":[220],"speed":[222],"up":[223],"execution":[225],"NLP":[228],"studies":[229],"by":[230],"reducing":[231],"datasets.":[237],"This":[238],"may":[239],"increase":[240],"utilization":[242],"NLP-based":[244],"variables":[245],"outcomes":[247],"in":[248],"studies.":[250]},"counts_by_year":[{"year":2026,"cited_by_count":8},{"year":2025,"cited_by_count":25},{"year":2024,"cited_by_count":8}],"updated_date":"2026-06-25T06:16:34.145877","created_date":"2025-10-10T00:00:00"}
