{"id":"https://openalex.org/W4409410170","doi":"https://doi.org/10.1038/s41746-025-01592-4","title":"Leveraging pretrained language models for seizure frequency extraction from epilepsy evaluation reports","display_name":"Leveraging pretrained language models for seizure frequency extraction from epilepsy evaluation reports","publication_year":2025,"publication_date":"2025-04-14","ids":{"openalex":"https://openalex.org/W4409410170","doi":"https://doi.org/10.1038/s41746-025-01592-4","pmid":"https://pubmed.ncbi.nlm.nih.gov/40229513"},"language":"en","primary_location":{"id":"doi:10.1038/s41746-025-01592-4","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s41746-025-01592-4","pdf_url":"https://www.nature.com/articles/s41746-025-01592-4.pdf","source":{"id":"https://openalex.org/S4210195431","display_name":"npj Digital Medicine","issn_l":"2398-6352","issn":["2398-6352"],"is_oa":true,"is_in_doaj":true,"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":"npj Digital Medicine","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.nature.com/articles/s41746-025-01592-4.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5083171882","display_name":"Rashmie Abeysinghe","orcid":"https://orcid.org/0000-0001-9297-9540"},"institutions":[{"id":"https://openalex.org/I919571938","display_name":"The University of Texas Health Science Center at Houston","ror":"https://ror.org/03gds6c39","country_code":"US","type":"education","lineage":["https://openalex.org/I919571938"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Rashmie Abeysinghe","raw_affiliation_strings":["Department of Neurology, McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA","Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA"],"affiliations":[{"raw_affiliation_string":"Department of Neurology, McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA","institution_ids":["https://openalex.org/I919571938"]},{"raw_affiliation_string":"Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA","institution_ids":["https://openalex.org/I919571938"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063163780","display_name":"Shiqiang Tao","orcid":"https://orcid.org/0000-0003-1515-3184"},"institutions":[{"id":"https://openalex.org/I919571938","display_name":"The University of Texas Health Science Center at Houston","ror":"https://ror.org/03gds6c39","country_code":"US","type":"education","lineage":["https://openalex.org/I919571938"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shiqiang Tao","raw_affiliation_strings":["Department of Neurology, McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA","Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA"],"affiliations":[{"raw_affiliation_string":"Department of Neurology, McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA","institution_ids":["https://openalex.org/I919571938"]},{"raw_affiliation_string":"Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA","institution_ids":["https://openalex.org/I919571938"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065856386","display_name":"Samden D. Lhatoo","orcid":"https://orcid.org/0000-0001-8626-1137"},"institutions":[{"id":"https://openalex.org/I919571938","display_name":"The University of Texas Health Science Center at Houston","ror":"https://ror.org/03gds6c39","country_code":"US","type":"education","lineage":["https://openalex.org/I919571938"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Samden D. Lhatoo","raw_affiliation_strings":["Department of Neurology, McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA","Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA"],"affiliations":[{"raw_affiliation_string":"Department of Neurology, McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA","institution_ids":["https://openalex.org/I919571938"]},{"raw_affiliation_string":"Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA","institution_ids":["https://openalex.org/I919571938"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100392507","display_name":"Guoqiang Zhang","orcid":"https://orcid.org/0000-0003-3781-6874"},"institutions":[{"id":"https://openalex.org/I919571938","display_name":"The University of Texas Health Science Center at Houston","ror":"https://ror.org/03gds6c39","country_code":"US","type":"education","lineage":["https://openalex.org/I919571938"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Guo-Qiang Zhang","raw_affiliation_strings":["Department of Neurology, McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA","McWilliams School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, USA","Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA"],"affiliations":[{"raw_affiliation_string":"Department of Neurology, McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA","institution_ids":["https://openalex.org/I919571938"]},{"raw_affiliation_string":"McWilliams School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, USA","institution_ids":["https://openalex.org/I919571938"]},{"raw_affiliation_string":"Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA","institution_ids":["https://openalex.org/I919571938"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049834185","display_name":"Licong Cui","orcid":"https://orcid.org/0000-0001-5549-8780"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Licong Cui","raw_affiliation_strings":["McWilliams School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, USA. licong.cui@uth.tmc.edu","Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA. licong.cui@uth.tmc.edu"],"affiliations":[{"raw_affiliation_string":"McWilliams School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, USA. licong.cui@uth.tmc.edu","institution_ids":[]},{"raw_affiliation_string":"Texas Institute for Restorative Neurotechnologies, The University of Texas Health Science Center at Houston, Houston, TX, USA. licong.cui@uth.tmc.edu","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5083171882"],"corresponding_institution_ids":["https://openalex.org/I919571938"],"apc_list":{"value":3060,"currency":"USD","value_usd":3060},"apc_paid":{"value":3060,"currency":"USD","value_usd":3060},"fwci":7.0294,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.96240328,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"8","issue":"1","first_page":"208","last_page":"208"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.9998000264167786,"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":0.9998000264167786,"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/T10181","display_name":"Natural Language Processing Techniques","score":0.9958999752998352,"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":0.9941999912261963,"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":0.7082501649856567},{"id":"https://openalex.org/keywords/epilepsy","display_name":"Epilepsy","score":0.6411253213882446},{"id":"https://openalex.org/keywords/recall","display_name":"Recall","score":0.5900126099586487},{"id":"https://openalex.org/keywords/phrase","display_name":"Phrase","score":0.5409986972808838},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4969921410083771},{"id":"https://openalex.org/keywords/extraction","display_name":"Extraction (chemistry)","score":0.4822293221950531},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.4598328769207001},{"id":"https://openalex.org/keywords/speech-recognition","display_name":"Speech recognition","score":0.4163861572742462},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.33181333541870117},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3208155035972595},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.18257761001586914},{"id":"https://openalex.org/keywords/cognitive-psychology","display_name":"Cognitive psychology","score":0.12074840068817139},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.10298749804496765}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7082501649856567},{"id":"https://openalex.org/C2778186239","wikidata":"https://www.wikidata.org/wiki/Q41571","display_name":"Epilepsy","level":2,"score":0.6411253213882446},{"id":"https://openalex.org/C100660578","wikidata":"https://www.wikidata.org/wiki/Q18733","display_name":"Recall","level":2,"score":0.5900126099586487},{"id":"https://openalex.org/C2776224158","wikidata":"https://www.wikidata.org/wiki/Q187931","display_name":"Phrase","level":2,"score":0.5409986972808838},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4969921410083771},{"id":"https://openalex.org/C4725764","wikidata":"https://www.wikidata.org/wiki/Q844704","display_name":"Extraction (chemistry)","level":2,"score":0.4822293221950531},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.4598328769207001},{"id":"https://openalex.org/C28490314","wikidata":"https://www.wikidata.org/wiki/Q189436","display_name":"Speech recognition","level":1,"score":0.4163861572742462},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.33181333541870117},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3208155035972595},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.18257761001586914},{"id":"https://openalex.org/C180747234","wikidata":"https://www.wikidata.org/wiki/Q23373","display_name":"Cognitive psychology","level":1,"score":0.12074840068817139},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.10298749804496765},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1038/s41746-025-01592-4","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s41746-025-01592-4","pdf_url":"https://www.nature.com/articles/s41746-025-01592-4.pdf","source":{"id":"https://openalex.org/S4210195431","display_name":"npj Digital Medicine","issn_l":"2398-6352","issn":["2398-6352"],"is_oa":true,"is_in_doaj":true,"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":"npj Digital Medicine","raw_type":"journal-article"},{"id":"pmid:40229513","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40229513","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":"NPJ digital medicine","raw_type":null},{"id":"pmh:oai:digitalcommons.library.tmc.edu:uthmed_docs-4024","is_oa":false,"landing_page_url":"https://digitalcommons.library.tmc.edu/uthmed_docs/3084","pdf_url":null,"source":{"id":"https://openalex.org/S4377196655","display_name":"Digital Commons-TMC (Texas Medical Center)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1337852284","host_organization_name":"Texas Medical Center","host_organization_lineage":["https://openalex.org/I1337852284"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty, Staff and Student Publications","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:b57e43978add4a6e8051f3ee35010c11","is_oa":true,"landing_page_url":"https://doaj.org/article/b57e43978add4a6e8051f3ee35010c11","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"npj Digital Medicine, Vol 8, Iss 1, Pp 1-10 (2025)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:10809164","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11997153","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1038/s41746-025-01592-4","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s41746-025-01592-4","pdf_url":"https://www.nature.com/articles/s41746-025-01592-4.pdf","source":{"id":"https://openalex.org/S4210195431","display_name":"npj Digital Medicine","issn_l":"2398-6352","issn":["2398-6352"],"is_oa":true,"is_in_doaj":true,"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":"npj Digital Medicine","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4399999976158142,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G76504394","display_name":null,"funder_award_id":"R01NS116287","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7921868684","display_name":null,"funder_award_id":"R01NS116287","funder_id":"https://openalex.org/F4320337359","funder_display_name":"National Institute of Neurological Disorders and Stroke"},{"id":"https://openalex.org/G8523666510","display_name":null,"funder_award_id":"R01NS126690","funder_id":"https://openalex.org/F4320337359","funder_display_name":"National Institute of Neurological Disorders and Stroke"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337359","display_name":"National Institute of Neurological Disorders and Stroke","ror":"https://ror.org/01s5ya894"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4409410170.pdf","grobid_xml":"https://content.openalex.org/works/W4409410170.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W144720917","https://openalex.org/W1524327358","https://openalex.org/W1623072288","https://openalex.org/W1967758872","https://openalex.org/W2047168771","https://openalex.org/W2089125052","https://openalex.org/W2212049882","https://openalex.org/W2418920503","https://openalex.org/W2646536716","https://openalex.org/W2790138787","https://openalex.org/W2911489562","https://openalex.org/W2949676527","https://openalex.org/W2963341956","https://openalex.org/W3116477623","https://openalex.org/W4210898640","https://openalex.org/W4282983782","https://openalex.org/W4286255110","https://openalex.org/W4286376081","https://openalex.org/W4292299650","https://openalex.org/W4310640599","https://openalex.org/W4319322326","https://openalex.org/W4323806306","https://openalex.org/W6601375367"],"related_works":["https://openalex.org/W2039546652","https://openalex.org/W2395385109","https://openalex.org/W2773633178","https://openalex.org/W2080101436","https://openalex.org/W2802335767","https://openalex.org/W2356350882","https://openalex.org/W4388090985","https://openalex.org/W1545074592","https://openalex.org/W2275559830","https://openalex.org/W351867064"],"abstract_inverted_index":{"Seizure":[0],"frequency":[1,38,58,115,124],"is":[2,23],"essential":[3],"for":[4,14,114,122,132],"evaluating":[5],"epilepsy":[6],"treatment,":[7],"ensuring":[8],"patient":[9],"safety,":[10],"and":[11,54,70,83,106,111,120,127,130],"reducing":[12],"risk":[13],"Sudden":[15],"Unexpected":[16],"Death":[17],"in":[18,26,146],"Epilepsy.":[19],"As":[20],"this":[21,29],"information":[22],"often":[24],"described":[25],"clinical":[27],"narratives,":[28],"study":[30],"presents":[31],"an":[32],"approach":[33],"to":[34],"extracting":[35,49,56],"structured":[36,87,135],"seizure":[37,52,57,123],"details":[39],"from":[40,92,149],"such":[41],"unstructured":[42],"text.":[43],"We":[44],"investigated":[45],"two":[46],"tasks:":[47],"(1)":[48],"phrases":[50],"describing":[51],"frequency,":[53],"(2)":[55],"attributes.":[59],"For":[60],"both":[61,93],"tasks,":[62],"we":[63],"fine-tuned":[64,143],"three":[65,75],"BERT-based":[66],"models":[67,79,145],"(bert-large-cased,":[68],"biobert-large-cased,":[69],"Bio_ClinicalBERT),":[71],"as":[72,74],"well":[73],"generative":[76,144],"large":[77],"language":[78],"(GPT-4,":[80],"GPT-3.5":[81],"Turbo,":[82],"Llama-2-70b-hf).":[84],"The":[85],"final":[86,134],"output":[88],"integrated":[89],"the":[90,97,133,140],"results":[91],"tasks.":[94],"GPT-4":[95],"attained":[96],"best":[98],"performance":[99],"across":[100],"all":[101],"tasks":[102,148],"with":[103],"precision,":[104],"recall,":[105],"F1-score":[107],"of":[108,142],"86.61%,":[109],"85.04%,":[110],"85.79%":[112],"respectively":[113],"phrase":[116],"extraction;":[117,126],"90.23%,":[118],"93.51%,":[119],"91.84%":[121],"attribute":[125],"86.64%,":[128],"85.06%,":[129],"85.82%":[131],"output.":[136],"These":[137],"findings":[138],"highlight":[139],"potential":[141],"extractive":[147],"limited":[150],"text":[151],"strings.":[152]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
