{"id":"https://openalex.org/W2990085462","doi":"https://doi.org/10.1109/ichi.2019.8904544","title":"A Study of Deep Learning Methods for De-identification of Clinical Notes at Cross Institute Settings","display_name":"A Study of Deep Learning Methods for De-identification of Clinical Notes at Cross Institute Settings","publication_year":2019,"publication_date":"2019-06-01","ids":{"openalex":"https://openalex.org/W2990085462","doi":"https://doi.org/10.1109/ichi.2019.8904544","mag":"2990085462","pmid":"https://pubmed.ncbi.nlm.nih.gov/31879734"},"language":"en","primary_location":{"id":"doi:10.1109/ichi.2019.8904544","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ichi.2019.8904544","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 IEEE International Conference on Healthcare Informatics (ICHI)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6932867","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103133745","display_name":"Xi Yang","orcid":"https://orcid.org/0000-0003-2981-3972"},"institutions":[{"id":"https://openalex.org/I2800717037","display_name":"University of Florida Health","ror":"https://ror.org/04tk2gy88","country_code":"US","type":"education","lineage":["https://openalex.org/I2800717037"]},{"id":"https://openalex.org/I94062374","display_name":"Florida College","ror":"https://ror.org/010bgev76","country_code":"US","type":"education","lineage":["https://openalex.org/I94062374"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xi Yang","raw_affiliation_strings":["Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","institution_ids":["https://openalex.org/I2800717037","https://openalex.org/I94062374"]},{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA","institution_ids":["https://openalex.org/I2800717037"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031161176","display_name":"Tianchen Lyu","orcid":"https://orcid.org/0000-0002-0981-3847"},"institutions":[{"id":"https://openalex.org/I2800717037","display_name":"University of Florida Health","ror":"https://ror.org/04tk2gy88","country_code":"US","type":"education","lineage":["https://openalex.org/I2800717037"]},{"id":"https://openalex.org/I94062374","display_name":"Florida College","ror":"https://ror.org/010bgev76","country_code":"US","type":"education","lineage":["https://openalex.org/I94062374"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tianchen Lyu","raw_affiliation_strings":["Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","institution_ids":["https://openalex.org/I2800717037","https://openalex.org/I94062374"]},{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA","institution_ids":["https://openalex.org/I2800717037"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075345958","display_name":"Chih-Yin Lee","orcid":null},"institutions":[{"id":"https://openalex.org/I2800717037","display_name":"University of Florida Health","ror":"https://ror.org/04tk2gy88","country_code":"US","type":"education","lineage":["https://openalex.org/I2800717037"]},{"id":"https://openalex.org/I94062374","display_name":"Florida College","ror":"https://ror.org/010bgev76","country_code":"US","type":"education","lineage":["https://openalex.org/I94062374"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chih-Yin Lee","raw_affiliation_strings":["Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","institution_ids":["https://openalex.org/I2800717037","https://openalex.org/I94062374"]},{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA","institution_ids":["https://openalex.org/I2800717037"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030951014","display_name":"Jiang Bian","orcid":"https://orcid.org/0000-0002-2238-5429"},"institutions":[{"id":"https://openalex.org/I2800717037","display_name":"University of Florida Health","ror":"https://ror.org/04tk2gy88","country_code":"US","type":"education","lineage":["https://openalex.org/I2800717037"]},{"id":"https://openalex.org/I94062374","display_name":"Florida College","ror":"https://ror.org/010bgev76","country_code":"US","type":"education","lineage":["https://openalex.org/I94062374"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jiang Bian","raw_affiliation_strings":["Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","institution_ids":["https://openalex.org/I2800717037","https://openalex.org/I94062374"]},{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA","institution_ids":["https://openalex.org/I2800717037"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076610873","display_name":"William R. Hogan","orcid":"https://orcid.org/0000-0002-9881-1017"},"institutions":[{"id":"https://openalex.org/I2800717037","display_name":"University of Florida Health","ror":"https://ror.org/04tk2gy88","country_code":"US","type":"education","lineage":["https://openalex.org/I2800717037"]},{"id":"https://openalex.org/I94062374","display_name":"Florida College","ror":"https://ror.org/010bgev76","country_code":"US","type":"education","lineage":["https://openalex.org/I94062374"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"William R. Hogan","raw_affiliation_strings":["Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","institution_ids":["https://openalex.org/I2800717037","https://openalex.org/I94062374"]},{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA","institution_ids":["https://openalex.org/I2800717037"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010253402","display_name":"Yonghui Wu","orcid":"https://orcid.org/0000-0002-6780-6135"},"institutions":[{"id":"https://openalex.org/I2800717037","display_name":"University of Florida Health","ror":"https://ror.org/04tk2gy88","country_code":"US","type":"education","lineage":["https://openalex.org/I2800717037"]},{"id":"https://openalex.org/I94062374","display_name":"Florida College","ror":"https://ror.org/010bgev76","country_code":"US","type":"education","lineage":["https://openalex.org/I94062374"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yonghui Wu","raw_affiliation_strings":["Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics College of Medicine, University of Florida Gainesville, USA","institution_ids":["https://openalex.org/I2800717037","https://openalex.org/I94062374"]},{"raw_affiliation_string":"Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, USA","institution_ids":["https://openalex.org/I2800717037"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":2.2997,"has_fulltext":false,"cited_by_count":20,"citation_normalized_percentile":{"value":0.90875617,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"2019","issue":null,"first_page":"1","last_page":"3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10350","display_name":"Electronic Health Records Systems","score":0.9922999739646912,"subfield":{"id":"https://openalex.org/subfields/3605","display_name":"Health Information Management"},"field":{"id":"https://openalex.org/fields/36","display_name":"Health Professions"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10350","display_name":"Electronic Health Records Systems","score":0.9922999739646912,"subfield":{"id":"https://openalex.org/subfields/3605","display_name":"Health Information Management"},"field":{"id":"https://openalex.org/fields/36","display_name":"Health Professions"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9904000163078308,"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/T12790","display_name":"Nursing Diagnosis and Documentation","score":0.9753000140190125,"subfield":{"id":"https://openalex.org/subfields/2910","display_name":"Issues, ethics and legal aspects"},"field":{"id":"https://openalex.org/fields/29","display_name":"Nursing"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.7231061458587646},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.6411908864974976},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6308310627937317},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.6283459663391113},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6160153746604919},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5217722058296204},{"id":"https://openalex.org/keywords/word","display_name":"Word (group theory)","score":0.5151766538619995},{"id":"https://openalex.org/keywords/word-identification","display_name":"Word identification","score":0.44330504536628723},{"id":"https://openalex.org/keywords/speech-recognition","display_name":"Speech recognition","score":0.3920174539089203},{"id":"https://openalex.org/keywords/linguistics","display_name":"Linguistics","score":0.28203123807907104},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.17277929186820984},{"id":"https://openalex.org/keywords/word-recognition","display_name":"Word recognition","score":0.14338263869285583},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.06457221508026123}],"concepts":[{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.7231061458587646},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.6411908864974976},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6308310627937317},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.6283459663391113},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6160153746604919},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5217722058296204},{"id":"https://openalex.org/C90805587","wikidata":"https://www.wikidata.org/wiki/Q10944557","display_name":"Word (group theory)","level":2,"score":0.5151766538619995},{"id":"https://openalex.org/C2994428975","wikidata":"https://www.wikidata.org/wiki/Q8034367","display_name":"Word identification","level":4,"score":0.44330504536628723},{"id":"https://openalex.org/C28490314","wikidata":"https://www.wikidata.org/wiki/Q189436","display_name":"Speech recognition","level":1,"score":0.3920174539089203},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.28203123807907104},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.17277929186820984},{"id":"https://openalex.org/C150856459","wikidata":"https://www.wikidata.org/wiki/Q8034367","display_name":"Word recognition","level":3,"score":0.14338263869285583},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.06457221508026123},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C554936623","wikidata":"https://www.wikidata.org/wiki/Q199657","display_name":"Reading (process)","level":2,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/ichi.2019.8904544","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ichi.2019.8904544","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 IEEE International Conference on Healthcare Informatics (ICHI)","raw_type":"proceedings-article"},{"id":"pmid:31879734","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31879734","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":"Proceedings. IEEE International Conference on Healthcare Informatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:6932867","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6932867","pdf_url":null,"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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proc (IEEE Int Conf Healthc Inform)","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:6932867","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6932867","pdf_url":null,"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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proc (IEEE Int Conf Healthc Inform)","raw_type":"Text"},"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.7699999809265137}],"awards":[{"id":"https://openalex.org/G19436128","display_name":null,"funder_award_id":"P30 AG028740","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G7612683197","display_name":null,"funder_award_id":"UL1 TR001427","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"}],"funders":[{"id":"https://openalex.org/F4320337337","display_name":"National Institute on Aging","ror":"https://ror.org/049v75w11"},{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W1034374084","https://openalex.org/W2015620729","https://openalex.org/W2153579005","https://openalex.org/W2160987310","https://openalex.org/W2169818249","https://openalex.org/W2396881363","https://openalex.org/W2563351168","https://openalex.org/W2624380710","https://openalex.org/W2940685834","https://openalex.org/W2962772361","https://openalex.org/W4294170691","https://openalex.org/W4294367149","https://openalex.org/W6682691769","https://openalex.org/W6731031554","https://openalex.org/W6747248625","https://openalex.org/W6762060370"],"related_works":["https://openalex.org/W1992616322","https://openalex.org/W2036873286","https://openalex.org/W2408487574","https://openalex.org/W4283746496","https://openalex.org/W2364032347","https://openalex.org/W438210688","https://openalex.org/W3032649931","https://openalex.org/W2413876267","https://openalex.org/W2114272857","https://openalex.org/W2972697496"],"abstract_inverted_index":{"In":[0],"this":[1],"study,":[2],"we":[3],"examined":[4],"a":[5,18,115],"deep":[6,23,86],"learning":[7,24,87],"method":[8],"for":[9],"de-identification":[10,133],"of":[11,76,85,132],"clinical":[12,35,59],"notes":[13,36],"at":[14],"UF":[15,39],"Health":[16],"under":[17],"cross-institute":[19,135],"setting.":[20],"We":[21,41,61],"developed":[22],"models":[25,88],"using":[26,34,90],"2014":[27],"i2b2/UTHealth":[28,91],"corpus":[29,92,113],"and":[30,54,69,96,103,107,125,140],"evaluated":[31],"the":[32,51,58,74,83,130],"performance":[33,75,84,131],"collected":[37],"from":[38,50,57,101,114],"Health.":[40],"compared":[42],"four":[43],"pre-trained":[44],"word":[45,67,123],"embeddings,":[46],"including":[47,122],"two":[48,55],"embeddings":[49,56],"general":[52],"domain":[53],"domain.":[60],"also":[62],"explored":[63],"linguistic":[64],"features":[65],"(i.e.,":[66],"shape":[68],"part-of-speech)":[70],"to":[71,105,111,138],"further":[72,128],"improve":[73,129],"de-identification.":[77],"The":[78],"experimental":[79],"results":[80],"show":[81],"that":[82],"trained":[89],"significantly":[93],"dropped":[94,100],"(strict":[95],"relax":[97],"F1":[98],"scores":[99],"0.9547":[102],"0.9646":[104],"0.8360":[106],"0.8870)":[108],"when":[109],"applied":[110],"another":[112],"different":[116],"institution":[117],"(UF":[118],"Health).":[119],"Linguistic":[120],"features,":[121],"shapes":[124],"part-of-speech,":[126],"could":[127],"in":[134],"settings":[136],"(improved":[137],"0.8527":[139],"0.9052).":[141]},"counts_by_year":[{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
