{"id":"https://openalex.org/W2949926253","doi":"https://doi.org/10.1093/bioinformatics/bty722","title":"Adjutant: an R-based tool to support topic discovery for systematic and literature reviews","display_name":"Adjutant: an R-based tool to support topic discovery for systematic and literature reviews","publication_year":2018,"publication_date":"2018-08-22","ids":{"openalex":"https://openalex.org/W2949926253","doi":"https://doi.org/10.1093/bioinformatics/bty722","mag":"2949926253","pmid":"https://pubmed.ncbi.nlm.nih.gov/30875428"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty722","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty722","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj","pubmed"],"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/A5022433344","display_name":"Anamaria Crisan","orcid":"https://orcid.org/0000-0003-3445-3414"},"institutions":[{"id":"https://openalex.org/I141945490","display_name":"University of British Columbia","ror":"https://ror.org/03rmrcq20","country_code":"CA","type":"education","lineage":["https://openalex.org/I141945490"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Anamaria Crisan","raw_affiliation_strings":["Department of Computer Science, University of British Columbia, Vancouver, BC, Canada"],"raw_orcid":"https://orcid.org/0000-0003-3445-3414","affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of British Columbia, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I141945490"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079916657","display_name":"Tamara Munzner","orcid":"https://orcid.org/0000-0002-3294-3869"},"institutions":[{"id":"https://openalex.org/I141945490","display_name":"University of British Columbia","ror":"https://ror.org/03rmrcq20","country_code":"CA","type":"education","lineage":["https://openalex.org/I141945490"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Tamara Munzner","raw_affiliation_strings":["Department of Computer Science, University of British Columbia, Vancouver, BC, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of British Columbia, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I141945490"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5078873032","display_name":"Jennifer L. Gardy","orcid":"https://orcid.org/0000-0001-7255-7631"},"institutions":[{"id":"https://openalex.org/I141945490","display_name":"University of British Columbia","ror":"https://ror.org/03rmrcq20","country_code":"CA","type":"education","lineage":["https://openalex.org/I141945490"]},{"id":"https://openalex.org/I2802940977","display_name":"BC Centre for Disease Control","ror":"https://ror.org/05jyzx602","country_code":"CA","type":"funder","lineage":["https://openalex.org/I1308729876","https://openalex.org/I156965999","https://openalex.org/I2802940977"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Jennifer L Gardy","raw_affiliation_strings":["British Columbia Centre for Disease Control, Vancouver, BC, Canada","School of Population and Public Health, University of British Columbia, Vancouver, BC, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"British Columbia Centre for Disease Control, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I2802940977"]},{"raw_affiliation_string":"School of Population and Public Health, University of British Columbia, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I141945490"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5022433344"],"corresponding_institution_ids":["https://openalex.org/I141945490"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.299,"has_fulltext":false,"cited_by_count":18,"citation_normalized_percentile":{"value":0.80814577,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":98},"biblio":{"volume":"35","issue":"6","first_page":"1070","last_page":"1072"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.6815999746322632,"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":0.6815999746322632,"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/T10206","display_name":"Meta-analysis and systematic reviews","score":0.10890000313520432,"subfield":{"id":"https://openalex.org/subfields/1804","display_name":"Statistics, Probability and Uncertainty"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.01640000008046627,"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/systematic-review","display_name":"Systematic review","score":0.6614359021186829},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6393216252326965},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4988224506378174},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.42650774121284485},{"id":"https://openalex.org/keywords/medline","display_name":"MEDLINE","score":0.3018779754638672},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.08924946188926697}],"concepts":[{"id":"https://openalex.org/C189708586","wikidata":"https://www.wikidata.org/wiki/Q1504425","display_name":"Systematic review","level":3,"score":0.6614359021186829},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6393216252326965},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4988224506378174},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.42650774121284485},{"id":"https://openalex.org/C2779473830","wikidata":"https://www.wikidata.org/wiki/Q1540899","display_name":"MEDLINE","level":2,"score":0.3018779754638672},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.08924946188926697},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bty722","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty722","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30875428","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30875428","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Partnerships for the goals","score":0.46000000834465027,"id":"https://metadata.un.org/sdg/17"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320319965","display_name":"Michael Smith Health Research BC","ror":"https://ror.org/020x39229"},{"id":"https://openalex.org/F4320320994","display_name":"Canada Research Chairs","ror":"https://ror.org/0517h6h17"},{"id":"https://openalex.org/F4320334506","display_name":"Canadian Institutes of Health Research","ror":"https://ror.org/01gavpb45"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":15,"referenced_works":["https://openalex.org/W151377110","https://openalex.org/W1576855214","https://openalex.org/W1760234209","https://openalex.org/W1872095891","https://openalex.org/W1875842236","https://openalex.org/W2117584472","https://openalex.org/W2147469877","https://openalex.org/W2465750682","https://openalex.org/W2534400985","https://openalex.org/W2539135795","https://openalex.org/W2542768043","https://openalex.org/W4313371821","https://openalex.org/W4366077702","https://openalex.org/W6606062967","https://openalex.org/W6677683308"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2070311887","https://openalex.org/W2115099528"],"abstract_inverted_index":{"SUMMARY:":[0],"Adjutant":[1,21,60,93,105,113],"is":[2,114,121],"an":[3,32],"open-source,":[4],"interactive":[5],"and":[6,26,66,120],"R-based":[7],"application":[8],"to":[9,30,36,51,98],"support":[10],"mining":[11],"PubMed":[12],"for":[13,57],"literature":[14],"reviews.":[15],"Given":[16],"a":[17,53,76,85],"PubMed-compatible":[18],"search":[19],"query,":[20],"downloads":[22],"the":[23,28,72],"relevant":[24],"articles":[25],"allows":[27],"user":[29],"perform":[31],"unsupervised":[33],"clustering":[34],"analysis":[35,78],"identify":[37],"data-driven":[38],"topic":[39],"clusters.":[40],"Following":[41],"clustering,":[42],"users":[43,97],"can":[44,83],"also":[45],"sample":[46],"documents":[47,82],"using":[48,118],"different":[49],"strategies":[50],"obtain":[52],"more":[54],"manageable":[55],"dataset":[56],"further":[58],"analysis.":[59],"makes":[61],"explicit":[62],"trade-offs":[63],"between":[64],"speed":[65],"accuracy,":[67],"which":[68],"are":[69,94,129],"modifiable":[70],"by":[71,92],"user,":[73],"such":[74],"that":[75,104],"complete":[77],"of":[79],"several":[80],"thousand":[81],"take":[84],"few":[86],"minutes.":[87],"All":[88],"analytic":[89],"datasets":[90],"generated":[91],"saved,":[95],"allowing":[96],"easily":[99],"conduct":[100],"other":[101],"downstream":[102],"analyses":[103],"does":[106],"not":[107],"explicitly":[108],"support.":[109],"AVAILABILITY":[110],"AND":[111],"IMPLEMENTATION:":[112],"implemented":[115],"in":[116],"R,":[117],"Shiny,":[119],"available":[122,130],"at":[123,131],"https://github.com/amcrisan/Adjutant.":[124],"SUPPLEMENTARY":[125],"INFORMATION:":[126],"Supplementary":[127],"data":[128],"Bioinformatics":[132],"online.":[133]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":3},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3}],"updated_date":"2026-06-23T13:55:30.953635","created_date":"2025-10-10T00:00:00"}
