{"id":"https://openalex.org/W2611878561","doi":"https://doi.org/10.4338/aci-2017-01-ie-0018","title":"Canary: An NLP Platform for Clinicians and Researchers","display_name":"Canary: An NLP Platform for Clinicians and Researchers","publication_year":2017,"publication_date":"2017-04-01","ids":{"openalex":"https://openalex.org/W2611878561","doi":"https://doi.org/10.4338/aci-2017-01-ie-0018","mag":"2611878561","pmid":"https://pubmed.ncbi.nlm.nih.gov/28466087"},"language":"en","primary_location":{"id":"doi:10.4338/aci-2017-01-ie-0018","is_oa":true,"landing_page_url":"https://doi.org/10.4338/aci-2017-01-ie-0018","pdf_url":"http://www.thieme-connect.de/products/ejournals/pdf/10.4338/ACI-2017-01-IE-0018.pdf","source":{"id":"https://openalex.org/S187139995","display_name":"Applied Clinical Informatics","issn_l":"1869-0327","issn":["1869-0327"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320000","host_organization_name":"Thieme Medical Publishers (Germany)","host_organization_lineage":["https://openalex.org/P4310320000"],"host_organization_lineage_names":["Thieme Medical Publishers (Germany)"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Applied Clinical Informatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"http://www.thieme-connect.de/products/ejournals/pdf/10.4338/ACI-2017-01-IE-0018.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5059403175","display_name":"Shervin Malmasi","orcid":"https://orcid.org/0000-0001-6250-5571"},"institutions":[{"id":"https://openalex.org/I1283280774","display_name":"Brigham and Women's Hospital","ror":"https://ror.org/04b6nzv94","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1283280774","https://openalex.org/I48633490"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shervin Malmasi","raw_affiliation_strings":["Brigham and Women's Hospital, Boston, MA;"],"affiliations":[{"raw_affiliation_string":"Brigham and Women's Hospital, Boston, MA;","institution_ids":["https://openalex.org/I1283280774"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003222565","display_name":"Nicolae L. Sandor","orcid":null},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nicolae Sandor","raw_affiliation_strings":["Boston University, Boston, MA;"],"affiliations":[{"raw_affiliation_string":"Boston University, Boston, MA;","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062533828","display_name":"Naoshi Hosomura","orcid":"https://orcid.org/0000-0002-5076-977X"},"institutions":[{"id":"https://openalex.org/I1283280774","display_name":"Brigham and Women's Hospital","ror":"https://ror.org/04b6nzv94","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1283280774","https://openalex.org/I48633490"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Naoshi Hosomura","raw_affiliation_strings":["Brigham and Women's Hospital, Boston, MA;"],"affiliations":[{"raw_affiliation_string":"Brigham and Women's Hospital, Boston, MA;","institution_ids":["https://openalex.org/I1283280774"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057913441","display_name":"Matt Goldberg","orcid":null},"institutions":[{"id":"https://openalex.org/I2801851002","display_name":"Harvard University Press","ror":"https://ror.org/006v7bf86","country_code":"US","type":"other","lineage":["https://openalex.org/I136199984","https://openalex.org/I2801851002"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matt Goldberg","raw_affiliation_strings":["Harvard University, Boston, MA;"],"affiliations":[{"raw_affiliation_string":"Harvard University, Boston, MA;","institution_ids":["https://openalex.org/I2801851002"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012393041","display_name":"Stephen Skentzos","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Stephen Skentzos","raw_affiliation_strings":["Kiip, Inc., San Francisco, CA"],"affiliations":[{"raw_affiliation_string":"Kiip, Inc., San Francisco, CA","institution_ids":[]}]},{"author_position":"last","author":{"id":null,"display_name":"Alexander Turchin","orcid":null},"institutions":[{"id":"https://openalex.org/I1283280774","display_name":"Brigham and Women's Hospital","ror":"https://ror.org/04b6nzv94","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1283280774","https://openalex.org/I48633490"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Alexander Turchin","raw_affiliation_strings":["Alexander Turchin, MD, MS, Brigham and Women's Hospital, Boston, MA, Email: aturchin@bwh.harvard.edu","Brigham and Women's Hospital, Boston, MA;"],"affiliations":[{"raw_affiliation_string":"Alexander Turchin, MD, MS, Brigham and Women's Hospital, Boston, MA, Email: aturchin@bwh.harvard.edu","institution_ids":["https://openalex.org/I1283280774"]},{"raw_affiliation_string":"Brigham and Women's Hospital, Boston, MA;","institution_ids":["https://openalex.org/I1283280774"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I1283280774"],"apc_list":null,"apc_paid":null,"fwci":1.3473,"has_fulltext":true,"cited_by_count":37,"citation_normalized_percentile":{"value":0.80256587,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"08","issue":"02","first_page":"447","last_page":"453"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9833999872207642,"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":0.9833999872207642,"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":0.5633005499839783},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.4903886318206787},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4886346459388733},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.40876415371894836},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.4071004390716553},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.35557690262794495}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5633005499839783},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.4903886318206787},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4886346459388733},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.40876415371894836},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.4071004390716553},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.35557690262794495}],"mesh":[{"descriptor_ui":"D006282","descriptor_name":"Health Personnel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006282","descriptor_name":"Health Personnel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006282","descriptor_name":"Health Personnel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":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":"D012108","descriptor_name":"Research Personnel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012108","descriptor_name":"Research Personnel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012108","descriptor_name":"Research Personnel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.4338/aci-2017-01-ie-0018","is_oa":true,"landing_page_url":"https://doi.org/10.4338/aci-2017-01-ie-0018","pdf_url":"http://www.thieme-connect.de/products/ejournals/pdf/10.4338/ACI-2017-01-IE-0018.pdf","source":{"id":"https://openalex.org/S187139995","display_name":"Applied Clinical Informatics","issn_l":"1869-0327","issn":["1869-0327"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320000","host_organization_name":"Thieme Medical Publishers (Germany)","host_organization_lineage":["https://openalex.org/P4310320000"],"host_organization_lineage_names":["Thieme Medical Publishers (Germany)"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Applied Clinical Informatics","raw_type":"journal-article"},{"id":"pmid:28466087","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28466087","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":"Applied clinical informatics","raw_type":null},{"id":"pmh:oai:europepmc.org:5208373","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6241741","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.4338/aci-2017-01-ie-0018","is_oa":true,"landing_page_url":"https://doi.org/10.4338/aci-2017-01-ie-0018","pdf_url":"http://www.thieme-connect.de/products/ejournals/pdf/10.4338/ACI-2017-01-IE-0018.pdf","source":{"id":"https://openalex.org/S187139995","display_name":"Applied Clinical Informatics","issn_l":"1869-0327","issn":["1869-0327"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320000","host_organization_name":"Thieme Medical Publishers (Germany)","host_organization_lineage":["https://openalex.org/P4310320000"],"host_organization_lineage_names":["Thieme Medical Publishers (Germany)"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Applied Clinical Informatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2611878561.pdf","grobid_xml":"https://content.openalex.org/works/W2611878561.grobid-xml"},"referenced_works_count":4,"referenced_works":["https://openalex.org/W1508637077","https://openalex.org/W1998569580","https://openalex.org/W2078806330","https://openalex.org/W2346623028"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2772917594","https://openalex.org/W4306742369","https://openalex.org/W4303457083","https://openalex.org/W4376623224","https://openalex.org/W2951359407","https://openalex.org/W2124566234","https://openalex.org/W3136979370","https://openalex.org/W2036807459","https://openalex.org/W3204019825"],"abstract_inverted_index":{"Information":[0],"Extraction":[1],"methods":[2,19],"can":[3],"help":[4],"discover":[5],"critical":[6],"knowledge":[7],"buried":[8],"in":[9,22],"the":[10,28,93],"vast":[11],"repositories":[12],"of":[13,30,92],"unstructured":[14],"clinical":[15,23],"data.":[16],"However,":[17],"these":[18,57],"are":[20],"underutilized":[21],"research,":[24],"potentially":[25],"due":[26],"to":[27,55,86],"absence":[29],"free":[31,67],"software":[32,46,80],"geared":[33],"towards":[34],"clinicians":[35],"with":[36],"little":[37],"technical":[38],"expertise.":[39],"The":[40],"skills":[41],"required":[42],"for":[43,51,72],"developing/using":[44],"such":[45],"constitute":[47],"a":[48,66,96],"major":[49],"barrier":[50],"medical":[52],"researchers":[53],"wishing":[54],"employ":[56],"methods.":[58],"To":[59],"address":[60],"this,":[61],"we":[62],"have":[63],"developed":[64],"Canary,":[65],"and":[68,89],"open-source":[69],"solution":[70],"designed":[71,85],"users":[73],"without":[74],"natural":[75],"language":[76],"processing":[77],"(NLP)":[78],"or":[79],"engineering":[81],"experience.":[82],"It":[83],"was":[84],"be":[87],"fast":[88],"work":[90],"out":[91],"box":[94],"via":[95],"user-friendly":[97],"graphical":[98],"interface.":[99]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":3}],"updated_date":"2026-04-16T08:26:57.006410","created_date":"2025-10-10T00:00:00"}
