{"id":"https://openalex.org/W1988432728","doi":"https://doi.org/10.1109/bibmw.2011.6112438","title":"An initial study of full parsing of clinical text using the Stanford Parser","display_name":"An initial study of full parsing of clinical text using the Stanford Parser","publication_year":2011,"publication_date":"2011-11-01","ids":{"openalex":"https://openalex.org/W1988432728","doi":"https://doi.org/10.1109/bibmw.2011.6112438","mag":"1988432728"},"language":"en","primary_location":{"id":"doi:10.1109/bibmw.2011.6112438","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibmw.2011.6112438","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5084072550","display_name":"Hua Xu","orcid":"https://orcid.org/0000-0002-5274-4672"},"institutions":[{"id":"https://openalex.org/I200719446","display_name":"Vanderbilt University","ror":"https://ror.org/02vm5rt34","country_code":"US","type":"education","lineage":["https://openalex.org/I200719446"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Hua Xu","raw_affiliation_strings":["Department of Biomedical Informatics, School of Medicine, Vanderbilt University, Nashville, TN, USA","Dept of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, School of Medicine, Vanderbilt University, Nashville, TN, USA","institution_ids":["https://openalex.org/I200719446"]},{"raw_affiliation_string":"Dept of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025877685","display_name":"Samir Abdelrahman","orcid":"https://orcid.org/0000-0001-6396-3259"},"institutions":[{"id":"https://openalex.org/I200719446","display_name":"Vanderbilt University","ror":"https://ror.org/02vm5rt34","country_code":"US","type":"education","lineage":["https://openalex.org/I200719446"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"S. AbdelRahman","raw_affiliation_strings":["Department of Biomedical Informatics, School of Medicine, Vanderbilt University, Nashville, TN, USA","Dept of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, School of Medicine, Vanderbilt University, Nashville, TN, USA","institution_ids":["https://openalex.org/I200719446"]},{"raw_affiliation_string":"Dept of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055848133","display_name":"Min Jiang","orcid":"https://orcid.org/0000-0002-1407-0961"},"institutions":[{"id":"https://openalex.org/I200719446","display_name":"Vanderbilt University","ror":"https://ror.org/02vm5rt34","country_code":"US","type":"education","lineage":["https://openalex.org/I200719446"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Min Jiang","raw_affiliation_strings":["Department of Biomedical Informatics, School of Medicine, Vanderbilt University, Nashville, TN, USA","Dept of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, School of Medicine, Vanderbilt University, Nashville, TN, USA","institution_ids":["https://openalex.org/I200719446"]},{"raw_affiliation_string":"Dept of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111584033","display_name":"Jung-Wei Fan","orcid":null},"institutions":[{"id":"https://openalex.org/I4210091210","display_name":"Kaiser Permanente San Diego Medical Center","ror":"https://ror.org/00fg98b82","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1343052199","https://openalex.org/I4210091210"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jung-wei Fan","raw_affiliation_strings":["Kaiser Permanente, San Diego, CA, USA","Kaiser Permanente, San Diego, CA#TAB#"],"affiliations":[{"raw_affiliation_string":"Kaiser Permanente, San Diego, CA, USA","institution_ids":["https://openalex.org/I4210091210"]},{"raw_affiliation_string":"Kaiser Permanente, San Diego, CA#TAB#","institution_ids":["https://openalex.org/I4210091210"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5041745433","display_name":"Yang Huang","orcid":"https://orcid.org/0000-0002-7394-0955"},"institutions":[{"id":"https://openalex.org/I4210091210","display_name":"Kaiser Permanente San Diego Medical Center","ror":"https://ror.org/00fg98b82","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1343052199","https://openalex.org/I4210091210"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yang Huang","raw_affiliation_strings":["Kaiser Permanente, San Diego, CA, USA","Kaiser Permanente, San Diego, CA#TAB#"],"affiliations":[{"raw_affiliation_string":"Kaiser Permanente, San Diego, CA, USA","institution_ids":["https://openalex.org/I4210091210"]},{"raw_affiliation_string":"Kaiser Permanente, San Diego, CA#TAB#","institution_ids":["https://openalex.org/I4210091210"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5084072550"],"corresponding_institution_ids":["https://openalex.org/I200719446"],"apc_list":null,"apc_paid":null,"fwci":0.8552,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.78605095,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"607","last_page":"614"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10181","display_name":"Natural Language Processing Techniques","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/T10181","display_name":"Natural Language Processing Techniques","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/T10028","display_name":"Topic Modeling","score":0.9990000128746033,"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":0.9979000091552734,"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/parsing","display_name":"Parsing","score":0.8559876680374146},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.7871193885803223},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7863149642944336},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.7553904056549072},{"id":"https://openalex.org/keywords/parser-combinator","display_name":"Parser combinator","score":0.6036779284477234},{"id":"https://openalex.org/keywords/top-down-parsing","display_name":"Top-down parsing","score":0.5402007699012756},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5278717875480652},{"id":"https://openalex.org/keywords/sentence","display_name":"Sentence","score":0.4418138861656189},{"id":"https://openalex.org/keywords/automatic-summarization","display_name":"Automatic summarization","score":0.4214625358581543},{"id":"https://openalex.org/keywords/bracketing","display_name":"Bracketing (phenomenology)","score":0.4189993739128113}],"concepts":[{"id":"https://openalex.org/C186644900","wikidata":"https://www.wikidata.org/wiki/Q194152","display_name":"Parsing","level":2,"score":0.8559876680374146},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.7871193885803223},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7863149642944336},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.7553904056549072},{"id":"https://openalex.org/C118364021","wikidata":"https://www.wikidata.org/wiki/Q7139956","display_name":"Parser combinator","level":3,"score":0.6036779284477234},{"id":"https://openalex.org/C42560504","wikidata":"https://www.wikidata.org/wiki/Q15419395","display_name":"Top-down parsing","level":3,"score":0.5402007699012756},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5278717875480652},{"id":"https://openalex.org/C2777530160","wikidata":"https://www.wikidata.org/wiki/Q41796","display_name":"Sentence","level":2,"score":0.4418138861656189},{"id":"https://openalex.org/C170858558","wikidata":"https://www.wikidata.org/wiki/Q1394144","display_name":"Automatic summarization","level":2,"score":0.4214625358581543},{"id":"https://openalex.org/C102944935","wikidata":"https://www.wikidata.org/wiki/Q4953701","display_name":"Bracketing (phenomenology)","level":2,"score":0.4189993739128113},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibmw.2011.6112438","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibmw.2011.6112438","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.8199999928474426}],"awards":[],"funders":[{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":31,"referenced_works":["https://openalex.org/W38597370","https://openalex.org/W108563459","https://openalex.org/W192665053","https://openalex.org/W202643521","https://openalex.org/W1425787433","https://openalex.org/W1504212872","https://openalex.org/W1602357614","https://openalex.org/W1602694398","https://openalex.org/W1632114991","https://openalex.org/W1965380368","https://openalex.org/W2004111828","https://openalex.org/W2071890384","https://openalex.org/W2097606805","https://openalex.org/W2097960255","https://openalex.org/W2114388055","https://openalex.org/W2122402213","https://openalex.org/W2125712079","https://openalex.org/W2127241285","https://openalex.org/W2146089916","https://openalex.org/W2153439141","https://openalex.org/W2156518033","https://openalex.org/W2163568299","https://openalex.org/W2288093748","https://openalex.org/W2305592425","https://openalex.org/W2788296320","https://openalex.org/W6601518354","https://openalex.org/W6604452400","https://openalex.org/W6607694240","https://openalex.org/W6628551597","https://openalex.org/W6636649193","https://openalex.org/W6696167440"],"related_works":["https://openalex.org/W3143982968","https://openalex.org/W2792937288","https://openalex.org/W2804916787","https://openalex.org/W2389755172","https://openalex.org/W2529664582","https://openalex.org/W1929722976","https://openalex.org/W4319941662","https://openalex.org/W2159707670","https://openalex.org/W1574037173","https://openalex.org/W4320024782"],"abstract_inverted_index":{"Full":[0],"parsing":[1,114],"recognizes":[2],"a":[3,7,79,94,125],"sentence":[4],"and":[5,73,115,138],"generates":[6],"syntactic":[8],"structure":[9],"of":[10,30,45,82,98,109,128,134],"it":[11],"(a":[12],"parse":[13,83,144],"tree),":[14],"which":[15],"is":[16,28,41],"useful":[17],"for":[18,147],"many":[19],"natural":[20],"language":[21],"processing":[22],"(NLP)":[23],"applications.":[24],"The":[25],"Stanford":[26,91,136],"Parser":[27,92,137],"one":[29],"the":[31,35,65,89,101,107,135],"state-of-art":[32],"parsers":[33],"in":[34,48,64],"general":[36],"English":[37],"domain.":[38],"However,":[39],"there":[40],"no":[42],"formal":[43],"evaluation":[44,86],"its":[46],"performance":[47],"clinical":[49,66,148],"text":[50],"that":[51,88,119],"often":[52],"contains":[53],"ungrammatical":[54],"structures.":[55],"In":[56],"this":[57],"study,":[58],"we":[59,105,131],"randomly":[60],"selected":[61],"50":[62],"sentences":[63],"corpus":[67],"from":[68],"2010":[69],"i2b2":[70],"NLP":[71],"challenge":[72],"manually":[74,120],"annotated":[75],"them":[76],"to":[77,142],"create":[78],"gold":[80,102],"standard":[81],"trees.":[84],"Our":[85],"showed":[87,118],"original":[90],"achieved":[93,124],"bracketing":[95],"F-measure":[96],"(BF)":[97],"77%":[99],"on":[100,113],"standard.":[103],"Moreover,":[104],"assessed":[106],"effect":[108],"part-of-speech":[110],"(POS)":[111],"tags":[112,123],"our":[116],"results":[117],"corrected":[121],"POS":[122],"maximum":[126],"BF":[127],"81%.":[129],"Furthermore,":[130],"analyzed":[132],"errors":[133],"provided":[139],"valuable":[140],"insights":[141],"large-scale":[143],"tree":[145],"annotation":[146],"text.":[149]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
