{"id":"https://openalex.org/W2786397773","doi":"https://doi.org/10.3233/978-1-61499-830-3-629","title":"Aligned-Layer Text Search in Clinical Notes","display_name":"Aligned-Layer Text Search in Clinical Notes","publication_year":2017,"publication_date":"2017-01-01","ids":{"openalex":"https://openalex.org/W2786397773","doi":"https://doi.org/10.3233/978-1-61499-830-3-629","mag":"2786397773","pmid":"https://pubmed.ncbi.nlm.nih.gov/29295172"},"language":"en","primary_location":{"id":"doi:10.3233/978-1-61499-830-3-629","is_oa":false,"landing_page_url":"https://doi.org/10.3233/978-1-61499-830-3-629","pdf_url":null,"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":null,"license_id":null,"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":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7466869","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5038428039","display_name":"Stephen Wu","orcid":"https://orcid.org/0000-0002-0031-2560"},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Wu Stephen","raw_affiliation_strings":["Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, USA","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003128469","display_name":"Andrew Wen","orcid":"https://orcid.org/0000-0001-9090-8028"},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wen Andrew","raw_affiliation_strings":["Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, USA","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080116611","display_name":"Yanshan Wang","orcid":"https://orcid.org/0000-0003-4433-7839"},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"funder","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wang Yanshan","raw_affiliation_strings":["Division of Biomedical Informatics, Mayo Clinic, Rochester, MN, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biomedical Informatics, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100321835","display_name":"Sijia Liu","orcid":"https://orcid.org/0000-0001-9763-1164"},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"funder","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Liu Sijia","raw_affiliation_strings":["Division of Biomedical Informatics, Mayo Clinic, Rochester, MN, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biomedical Informatics, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101585391","display_name":"Hongfang Liu","orcid":"https://orcid.org/0000-0003-2570-3741"},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"funder","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Liu Hongfang","raw_affiliation_strings":["Division of Biomedical Informatics, Mayo Clinic, Rochester, MN, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biomedical Informatics, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5038428039"],"corresponding_institution_ids":["https://openalex.org/I165690674"],"apc_list":null,"apc_paid":null,"fwci":1.7773,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.86001296,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"245","issue":null,"first_page":"629","last_page":"633"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998000264167786,"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":0.9998000264167786,"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/T10028","display_name":"Topic Modeling","score":0.9987000226974487,"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":0.9987000226974487,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7917382121086121},{"id":"https://openalex.org/keywords/granularity","display_name":"Granularity","score":0.6988146305084229},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.6372790336608887},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.6037739515304565},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.5785619020462036},{"id":"https://openalex.org/keywords/health-records","display_name":"Health records","score":0.5716318488121033},{"id":"https://openalex.org/keywords/layer","display_name":"Layer (electronics)","score":0.5226735472679138},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5161879658699036},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5014891624450684},{"id":"https://openalex.org/keywords/medical-record","display_name":"Medical record","score":0.43731653690338135},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.13108214735984802},{"id":"https://openalex.org/keywords/health-care","display_name":"Health care","score":0.1018974781036377},{"id":"https://openalex.org/keywords/radiology","display_name":"Radiology","score":0.08265995979309082},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.07436451315879822}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7917382121086121},{"id":"https://openalex.org/C177774035","wikidata":"https://www.wikidata.org/wiki/Q1246948","display_name":"Granularity","level":2,"score":0.6988146305084229},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.6372790336608887},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.6037739515304565},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.5785619020462036},{"id":"https://openalex.org/C3019952477","wikidata":"https://www.wikidata.org/wiki/Q1324077","display_name":"Health records","level":3,"score":0.5716318488121033},{"id":"https://openalex.org/C2779227376","wikidata":"https://www.wikidata.org/wiki/Q6505497","display_name":"Layer (electronics)","level":2,"score":0.5226735472679138},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5161879658699036},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5014891624450684},{"id":"https://openalex.org/C195910791","wikidata":"https://www.wikidata.org/wiki/Q1324077","display_name":"Medical record","level":2,"score":0.43731653690338135},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.13108214735984802},{"id":"https://openalex.org/C160735492","wikidata":"https://www.wikidata.org/wiki/Q31207","display_name":"Health care","level":2,"score":0.1018974781036377},{"id":"https://openalex.org/C126838900","wikidata":"https://www.wikidata.org/wiki/Q77604","display_name":"Radiology","level":1,"score":0.08265995979309082},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.07436451315879822},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","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},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","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/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"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/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","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":"D008037","descriptor_name":"Linguistics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008037","descriptor_name":"Linguistics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008037","descriptor_name":"Linguistics","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":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":3,"locations":[{"id":"doi:10.3233/978-1-61499-830-3-629","is_oa":false,"landing_page_url":"https://doi.org/10.3233/978-1-61499-830-3-629","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Studies in Health Technology and Informatics","raw_type":"book-chapter"},{"id":"pmid:29295172","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29295172","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},{"id":"pmh:oai:pubmedcentral.nih.gov:7466869","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7466869","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Stud Health Technol Inform","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:7466869","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7466869","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Stud Health Technol Inform","raw_type":"Text"},"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.8700000047683716}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":3,"referenced_works":["https://openalex.org/W1985053842","https://openalex.org/W2036237184","https://openalex.org/W2146089916"],"related_works":["https://openalex.org/W2931688134","https://openalex.org/W2377919138","https://openalex.org/W2378857091","https://openalex.org/W103652678","https://openalex.org/W2554558516","https://openalex.org/W2355354922","https://openalex.org/W2527724968","https://openalex.org/W2356296688","https://openalex.org/W2413325029","https://openalex.org/W2739554337"],"abstract_inverted_index":{"Search":[0],"techniques":[1],"in":[2],"clinical":[3],"text":[4,63],"need":[5],"to":[6,81,100],"make":[7],"fine-grained":[8,39],"semantic":[9],"distinctions,":[10,40],"since":[11],"medical":[12],"terms":[13],"may":[14],"be":[15],"negated,":[16],"about":[17],"someone":[18],"other":[19,27,90],"than":[20,28],"the":[21,29,62,87,112],"patient,":[22],"or":[23],"at":[24],"some":[25],"time":[26],"present.":[30],"While":[31],"natural":[32],"language":[33,76],"processing":[34],"(NLP)":[35],"approaches":[36],"address":[37],"these":[38],"a":[41,54,78],"task":[42],"like":[43],"patient":[44],"cohort":[45],"identification":[46],"from":[47,61],"electronic":[48],"health":[49,70],"records":[50],"(EHRs)":[51],"simultaneously":[52],"requires":[53],"much":[55],"more":[56],"coarse-grained":[57],"combination":[58],"of":[59,67,89,115],"evidence":[60],"and":[64,110],"structured":[65],"data":[66],"each":[68],"patient's":[69],"records.":[71],"We":[72,93],"thus":[73],"introduce":[74],"aligned-layer":[75],"models,":[77],"novel":[79],"approach":[80],"information":[82],"retrieval":[83],"(IR)":[84],"that":[85,95],"incorporates":[86],"output":[88],"NLP":[91],"systems.":[92],"show":[94],"this":[96],"framework":[97],"is":[98],"able":[99],"represent":[101],"standard":[102],"IR":[103],"queries,":[104,109],"formulate":[105],"previously":[106],"impossible":[107],"multi-layered":[108],"customize":[111],"desired":[113],"degree":[114],"linguistic":[116],"granularity.":[117]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2017,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
