{"id":"https://openalex.org/W4391229566","doi":"https://doi.org/10.3233/shti231031","title":"Automatic Extraction of Skin and Soft Tissue Infection Status from Clinical Notes","display_name":"Automatic Extraction of Skin and Soft Tissue Infection Status from Clinical Notes","publication_year":2024,"publication_date":"2024-01-25","ids":{"openalex":"https://openalex.org/W4391229566","doi":"https://doi.org/10.3233/shti231031","pmid":"https://pubmed.ncbi.nlm.nih.gov/38269875"},"language":"en","primary_location":{"id":"doi:10.3233/shti231031","is_oa":true,"landing_page_url":"http://dx.doi.org/10.3233/shti231031","pdf_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI231031","source":{"id":"https://openalex.org/S4210179765","display_name":"Studies in health technology and informatics","issn_l":"0926-9630","issn":["0926-9630","1879-8365"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"type":"book series"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Studies in Health Technology and Informatics","raw_type":"book-chapter"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI231031","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017695633","display_name":"Jamie L W Rhoads","orcid":"https://orcid.org/0000-0002-2859-4168"},"institutions":[{"id":"https://openalex.org/I223532165","display_name":"University of Utah","ror":"https://ror.org/03r0ha626","country_code":"US","type":"education","lineage":["https://openalex.org/I223532165"]},{"id":"https://openalex.org/I4210089864","display_name":"VA Salt Lake City Healthcare System","ror":"https://ror.org/007fyq698","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1322918889","https://openalex.org/I2799886695","https://openalex.org/I4210089864","https://openalex.org/I4210113540"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jamie L.W. Rhoads","raw_affiliation_strings":["Dept. Dermatology, University of Utah, Salt Lake City, UT, USA","Informatics, Decision-Enhancement and Analytic Sciences (IDEAS) Center of Innovation, VA Salt Lake City Health Care System, Salt Lake City, UT, USA"],"raw_orcid":"https://orcid.org/0000-0002-2859-4168","affiliations":[{"raw_affiliation_string":"Dept. Dermatology, University of Utah, Salt Lake City, UT, USA","institution_ids":["https://openalex.org/I223532165"]},{"raw_affiliation_string":"Informatics, Decision-Enhancement and Analytic Sciences (IDEAS) Center of Innovation, VA Salt Lake City Health Care System, Salt Lake City, UT, USA","institution_ids":["https://openalex.org/I4210089864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068888219","display_name":"Lee M. Christensen","orcid":"https://orcid.org/0000-0002-1161-9285"},"institutions":[{"id":"https://openalex.org/I223532165","display_name":"University of Utah","ror":"https://ror.org/03r0ha626","country_code":"US","type":"education","lineage":["https://openalex.org/I223532165"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lee Christensen","raw_affiliation_strings":["Dept. Biomedical Informatics, University of Utah, Salt Lake City, UT, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dept. Biomedical Informatics, University of Utah, Salt Lake City, UT, USA","institution_ids":["https://openalex.org/I223532165"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061077035","display_name":"Skylar Westerdahl","orcid":null},"institutions":[{"id":"https://openalex.org/I223532165","display_name":"University of Utah","ror":"https://ror.org/03r0ha626","country_code":"US","type":"education","lineage":["https://openalex.org/I223532165"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Skylar Westerdahl","raw_affiliation_strings":["Dept. Dermatology, University of Utah, Salt Lake City, UT, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dept. Dermatology, University of Utah, Salt Lake City, UT, USA","institution_ids":["https://openalex.org/I223532165"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007905006","display_name":"Vanessa Stevens","orcid":"https://orcid.org/0000-0001-8933-5453"},"institutions":[{"id":"https://openalex.org/I223532165","display_name":"University of Utah","ror":"https://ror.org/03r0ha626","country_code":"US","type":"education","lineage":["https://openalex.org/I223532165"]},{"id":"https://openalex.org/I4210089864","display_name":"VA Salt Lake City Healthcare System","ror":"https://ror.org/007fyq698","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1322918889","https://openalex.org/I2799886695","https://openalex.org/I4210089864","https://openalex.org/I4210113540"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Vanessa Stevens","raw_affiliation_strings":["Div. Epidemiology, University of Utah, Salt Lake City, UT, USA","Informatics, Decision-Enhancement and Analytic Sciences (IDEAS) Center of Innovation, VA Salt Lake City Health Care System, Salt Lake City, UT, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Div. Epidemiology, University of Utah, Salt Lake City, UT, USA","institution_ids":["https://openalex.org/I223532165"]},{"raw_affiliation_string":"Informatics, Decision-Enhancement and Analytic Sciences (IDEAS) Center of Innovation, VA Salt Lake City Health Care System, Salt Lake City, UT, USA","institution_ids":["https://openalex.org/I4210089864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065170642","display_name":"Wendy W. Chapman","orcid":"https://orcid.org/0000-0001-8702-4483"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"The University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Wendy W. Chapman","raw_affiliation_strings":["Centre for Digital Transformation of Health, University of Melbourne, VIC, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Digital Transformation of Health, University of Melbourne, VIC, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5082051013","display_name":"Mike Conway","orcid":"https://orcid.org/0000-0002-3209-8108"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"The University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Mike Conway","raw_affiliation_strings":["Centre for Digital Transformation of Health, University of Melbourne, VIC, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Digital Transformation of Health, University of Melbourne, VIC, Australia","institution_ids":["https://openalex.org/I165779595"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5017695633"],"corresponding_institution_ids":["https://openalex.org/I223532165","https://openalex.org/I4210089864"],"apc_list":null,"apc_paid":null,"fwci":1.4212,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.7282127,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"310","issue":null,"first_page":"579","last_page":"583"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9455999732017517,"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"}},"topics":[{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9455999732017517,"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/medicine","display_name":"Medicine","score":0.5567836761474609},{"id":"https://openalex.org/keywords/guideline","display_name":"Guideline","score":0.5052345395088196},{"id":"https://openalex.org/keywords/health-records","display_name":"Health records","score":0.49729493260383606},{"id":"https://openalex.org/keywords/epidemiology","display_name":"Epidemiology","score":0.4604943096637726},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.4566901624202728},{"id":"https://openalex.org/keywords/electronic-health-record","display_name":"Electronic health record","score":0.42331042885780334},{"id":"https://openalex.org/keywords/clinical-epidemiology","display_name":"Clinical epidemiology","score":0.41947609186172485},{"id":"https://openalex.org/keywords/data-extraction","display_name":"Data extraction","score":0.4163411855697632},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.38287532329559326},{"id":"https://openalex.org/keywords/medline","display_name":"MEDLINE","score":0.3006988763809204},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.25705593824386597},{"id":"https://openalex.org/keywords/health-care","display_name":"Health care","score":0.2293897271156311}],"concepts":[{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.5567836761474609},{"id":"https://openalex.org/C2780182762","wikidata":"https://www.wikidata.org/wiki/Q1630279","display_name":"Guideline","level":2,"score":0.5052345395088196},{"id":"https://openalex.org/C3019952477","wikidata":"https://www.wikidata.org/wiki/Q1324077","display_name":"Health records","level":3,"score":0.49729493260383606},{"id":"https://openalex.org/C107130276","wikidata":"https://www.wikidata.org/wiki/Q133805","display_name":"Epidemiology","level":2,"score":0.4604943096637726},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.4566901624202728},{"id":"https://openalex.org/C3020144179","wikidata":"https://www.wikidata.org/wiki/Q10871684","display_name":"Electronic health record","level":3,"score":0.42331042885780334},{"id":"https://openalex.org/C2994161385","wikidata":"https://www.wikidata.org/wiki/Q65089331","display_name":"Clinical epidemiology","level":3,"score":0.41947609186172485},{"id":"https://openalex.org/C2777466982","wikidata":"https://www.wikidata.org/wiki/Q5227287","display_name":"Data extraction","level":3,"score":0.4163411855697632},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.38287532329559326},{"id":"https://openalex.org/C2779473830","wikidata":"https://www.wikidata.org/wiki/Q1540899","display_name":"MEDLINE","level":2,"score":0.3006988763809204},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.25705593824386597},{"id":"https://openalex.org/C160735492","wikidata":"https://www.wikidata.org/wiki/Q31207","display_name":"Health care","level":2,"score":0.2293897271156311},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"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/C50522688","wikidata":"https://www.wikidata.org/wiki/Q189833","display_name":"Economic growth","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0}],"mesh":[{"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":"D012867","descriptor_name":"Skin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012867","descriptor_name":"Skin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012867","descriptor_name":"Skin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018461","descriptor_name":"Soft Tissue Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D018461","descriptor_name":"Soft Tissue Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D018461","descriptor_name":"Soft Tissue Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","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}],"locations_count":2,"locations":[{"id":"doi:10.3233/shti231031","is_oa":true,"landing_page_url":"http://dx.doi.org/10.3233/shti231031","pdf_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI231031","source":{"id":"https://openalex.org/S4210179765","display_name":"Studies in health technology and informatics","issn_l":"0926-9630","issn":["0926-9630","1879-8365"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"type":"book series"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Studies in Health Technology and Informatics","raw_type":"book-chapter"},{"id":"pmid:38269875","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38269875","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":"Studies in health technology and informatics","raw_type":null}],"best_oa_location":{"id":"doi:10.3233/shti231031","is_oa":true,"landing_page_url":"http://dx.doi.org/10.3233/shti231031","pdf_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI231031","source":{"id":"https://openalex.org/S4210179765","display_name":"Studies in health technology and informatics","issn_l":"0926-9630","issn":["0926-9630","1879-8365"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"type":"book series"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Studies in Health Technology and Informatics","raw_type":"book-chapter"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.6200000047683716}],"awards":[],"funders":[{"id":"https://openalex.org/F4320306127","display_name":"U.S. Department of Veterans Affairs","ror":"https://ror.org/05rsv9s98"},{"id":"https://openalex.org/F4320309610","display_name":"Health Services Research and Development","ror":"https://ror.org/05rsv9s98"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4391229566.pdf","grobid_xml":"https://content.openalex.org/works/W4391229566.grobid-xml"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W2009629448","https://openalex.org/W2049204117","https://openalex.org/W2057108376","https://openalex.org/W2128705367","https://openalex.org/W2152531952","https://openalex.org/W2296478120","https://openalex.org/W2783749541","https://openalex.org/W2940494117","https://openalex.org/W2989123183","https://openalex.org/W3007697507","https://openalex.org/W3013605954","https://openalex.org/W3048403583","https://openalex.org/W3177105417"],"related_works":["https://openalex.org/W187932805","https://openalex.org/W1641026212","https://openalex.org/W4312053962","https://openalex.org/W2078646730","https://openalex.org/W2087134418","https://openalex.org/W2323588885","https://openalex.org/W3047677938","https://openalex.org/W2911135505","https://openalex.org/W2920854314","https://openalex.org/W4302340031"],"abstract_inverted_index":{"The":[0,95],"reliable":[1],"identification":[2],"of":[3,19,36,85,104],"skin":[4],"and":[5,27,58,88,100,114],"soft":[6],"tissue":[7],"infections":[8],"(SSTIs)":[9],"from":[10,74,92],"electronic":[11],"health":[12],"records":[13],"is":[14,39],"important":[15],"for":[16,110,118],"a":[17,60],"number":[18],"applications,":[20],"including":[21],"quality":[22],"improvement,":[23],"clinical":[24,51,62,71,93],"guideline":[25],"construction,":[26],"epidemiological":[28],"analysis.":[29],"However,":[30],"in":[31,49],"the":[32,40,75,83,105],"United":[33,76],"States,":[34],"types":[35],"SSTIs":[37],"(e.g.":[38],"infection":[41],"purulent":[42],"or":[43],"non-purulent?)":[44],"are":[45],"not":[46],"captured":[47],"reliably":[48],"structured":[50],"data.":[52],"With":[53],"this":[54],"work,":[55],"we":[56],"trained":[57,96],"evaluated":[59],"rule-based":[61],"natural":[63],"language":[64],"processing":[65],"system":[66,97],"using":[67],"6,576":[68],"manually":[69],"annotated":[70],"notes":[72],"derived":[73],"States":[77],"Veterans":[78],"Health":[79],"Administration":[80],"(VA)":[81],"with":[82],"goal":[84],"automatically":[86],"extracting":[87],"classifying":[89],"SSTI":[90],"subtypes":[91],"notes.":[94],"achieved":[98],"mention-":[99],"document-level":[101],"performance":[102],"metrics":[103],"range":[106],"0.39":[107],"to":[108,116],"0.80":[109],"mention":[111],"level":[112,120],"classification":[113],"0.49":[115],"0.98":[117],"document":[119],"classification.":[121]},"counts_by_year":[{"year":2024,"cited_by_count":1}],"updated_date":"2025-12-21T01:58:51.020947","created_date":"2025-10-10T00:00:00"}