{"id":"https://openalex.org/W2752320387","doi":"https://doi.org/10.1109/tvcg.2017.2745118","title":"PhenoLines: Phenotype Comparison Visualizations for Disease Subtyping via Topic Models","display_name":"PhenoLines: Phenotype Comparison Visualizations for Disease Subtyping via Topic Models","publication_year":2017,"publication_date":"2017-08-29","ids":{"openalex":"https://openalex.org/W2752320387","doi":"https://doi.org/10.1109/tvcg.2017.2745118","mag":"2752320387","pmid":"https://pubmed.ncbi.nlm.nih.gov/28866570"},"language":"en","primary_location":{"id":"doi:10.1109/tvcg.2017.2745118","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tvcg.2017.2745118","pdf_url":null,"source":{"id":"https://openalex.org/S84775595","display_name":"IEEE Transactions on Visualization and Computer Graphics","issn_l":"1077-2626","issn":["1077-2626","1941-0506","2160-9306"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Visualization and Computer Graphics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","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/A5035443322","display_name":"Michael Glueck","orcid":"https://orcid.org/0000-0001-7969-5025"},"institutions":[{"id":"https://openalex.org/I1286353243","display_name":"Autodesk (United States)","ror":"https://ror.org/00pkt4594","country_code":"US","type":"company","lineage":["https://openalex.org/I1286353243"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Michael Glueck","raw_affiliation_strings":["Autodesk Research and University, Toronto"],"affiliations":[{"raw_affiliation_string":"Autodesk Research and University, Toronto","institution_ids":["https://openalex.org/I1286353243"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000623954","display_name":"Mahdi Pakdaman Naeini","orcid":"https://orcid.org/0000-0001-7683-9310"},"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":"Mahdi Pakdaman Naeini","raw_affiliation_strings":["Harvard University"],"affiliations":[{"raw_affiliation_string":"Harvard University","institution_ids":["https://openalex.org/I2801851002"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038771285","display_name":"Finale Doshi\u2010Velez","orcid":"https://orcid.org/0000-0003-2886-3898"},"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":"Finale Doshi-Velez","raw_affiliation_strings":["Harvard University"],"affiliations":[{"raw_affiliation_string":"Harvard University","institution_ids":["https://openalex.org/I2801851002"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029815396","display_name":"Fanny Chevalier","orcid":"https://orcid.org/0000-0002-5585-7971"},"institutions":[{"id":"https://openalex.org/I1326498283","display_name":"Institut national de recherche en informatique et en automatique","ror":"https://ror.org/02kvxyf05","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1326498283"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Fanny Chevalier","raw_affiliation_strings":["Inria"],"affiliations":[{"raw_affiliation_string":"Inria","institution_ids":["https://openalex.org/I1326498283"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023270158","display_name":"Azam Khan","orcid":"https://orcid.org/0000-0002-1816-5714"},"institutions":[{"id":"https://openalex.org/I1286353243","display_name":"Autodesk (United States)","ror":"https://ror.org/00pkt4594","country_code":"US","type":"company","lineage":["https://openalex.org/I1286353243"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Azam Khan","raw_affiliation_strings":["Autodesk Research"],"affiliations":[{"raw_affiliation_string":"Autodesk Research","institution_ids":["https://openalex.org/I1286353243"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083735800","display_name":"Daniel Wigdor","orcid":"https://orcid.org/0000-0003-2008-7070"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Daniel Wigdor","raw_affiliation_strings":["University of Toronto"],"affiliations":[{"raw_affiliation_string":"University of Toronto","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012113499","display_name":"Michael Brudno","orcid":"https://orcid.org/0000-0001-7947-2243"},"institutions":[{"id":"https://openalex.org/I2800129641","display_name":"Great Ormond Street Hospital","ror":"https://ror.org/00zn2c847","country_code":"GB","type":"healthcare","lineage":["https://openalex.org/I2800129641","https://openalex.org/I2800349819"]},{"id":"https://openalex.org/I2801317318","display_name":"Hospital for Sick Children","ror":"https://ror.org/057q4rt57","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I2801317318"]},{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]},{"id":"https://openalex.org/I4210141030","display_name":"SickKids Foundation","ror":"https://ror.org/04374qe70","country_code":"CA","type":"funder","lineage":["https://openalex.org/I4210141030"]}],"countries":["CA","GB"],"is_corresponding":false,"raw_author_name":"Michael Brudno","raw_affiliation_strings":["Hospital for Sick Children, University of Toronto"],"affiliations":[{"raw_affiliation_string":"Hospital for Sick Children, University of Toronto","institution_ids":["https://openalex.org/I45129253","https://openalex.org/I4210141030","https://openalex.org/I2801317318","https://openalex.org/I2800129641","https://openalex.org/I185261750"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5035443322"],"corresponding_institution_ids":["https://openalex.org/I1286353243"],"apc_list":null,"apc_paid":null,"fwci":1.6838,"has_fulltext":false,"cited_by_count":33,"citation_normalized_percentile":{"value":0.84405452,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"24","issue":"1","first_page":"371","last_page":"381"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.996999979019165,"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":0.996999979019165,"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/T10799","display_name":"Data Visualization and Analytics","score":0.9926000237464905,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"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/T13910","display_name":"Computational and Text Analysis Methods","score":0.9269999861717224,"subfield":{"id":"https://openalex.org/subfields/3300","display_name":"General Social Sciences"},"field":{"id":"https://openalex.org/fields/33","display_name":"Social Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7150593996047974},{"id":"https://openalex.org/keywords/relevance","display_name":"Relevance (law)","score":0.5950947999954224},{"id":"https://openalex.org/keywords/subtyping","display_name":"Subtyping","score":0.5895845890045166},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5872317552566528},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.5323351621627808},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.4900904893875122},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.47359517216682434},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.43878307938575745},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4059481620788574},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3702058494091034},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.3535526692867279},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10981971025466919}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7150593996047974},{"id":"https://openalex.org/C158154518","wikidata":"https://www.wikidata.org/wiki/Q7310970","display_name":"Relevance (law)","level":2,"score":0.5950947999954224},{"id":"https://openalex.org/C83852419","wikidata":"https://www.wikidata.org/wiki/Q2713292","display_name":"Subtyping","level":2,"score":0.5895845890045166},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5872317552566528},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.5323351621627808},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.4900904893875122},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.47359517216682434},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.43878307938575745},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4059481620788574},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3702058494091034},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.3535526692867279},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10981971025466919},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/tvcg.2017.2745118","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tvcg.2017.2745118","pdf_url":null,"source":{"id":"https://openalex.org/S84775595","display_name":"IEEE Transactions on Visualization and Computer Graphics","issn_l":"1077-2626","issn":["1077-2626","1941-0506","2160-9306"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Visualization and Computer Graphics","raw_type":"journal-article"},{"id":"pmid:28866570","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28866570","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":"IEEE transactions on visualization and computer graphics","raw_type":null},{"id":"pmh:oai:HAL:hal-01565556v1","is_oa":false,"landing_page_url":"https://inria.hal.science/hal-01565556","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://ieeevis.org/year/2017","raw_type":"Conference papers"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320310787","display_name":"Genome Canada","ror":"https://ror.org/029s29983"},{"id":"https://openalex.org/F4320314024","display_name":"Ontario Genomics","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":67,"referenced_works":["https://openalex.org/W107389347","https://openalex.org/W168564468","https://openalex.org/W181624760","https://openalex.org/W214705575","https://openalex.org/W1731081199","https://openalex.org/W1880262756","https://openalex.org/W1902526473","https://openalex.org/W1931908328","https://openalex.org/W1953652583","https://openalex.org/W1970569592","https://openalex.org/W1990995255","https://openalex.org/W1991676464","https://openalex.org/W1996034305","https://openalex.org/W1998785512","https://openalex.org/W2012361142","https://openalex.org/W2024783975","https://openalex.org/W2028206358","https://openalex.org/W2042954874","https://openalex.org/W2045007904","https://openalex.org/W2054052884","https://openalex.org/W2058745787","https://openalex.org/W2071677204","https://openalex.org/W2072644219","https://openalex.org/W2073800769","https://openalex.org/W2074930186","https://openalex.org/W2075884149","https://openalex.org/W2090491854","https://openalex.org/W2099223662","https://openalex.org/W2100163972","https://openalex.org/W2100741257","https://openalex.org/W2109076134","https://openalex.org/W2114566476","https://openalex.org/W2122060742","https://openalex.org/W2126483201","https://openalex.org/W2135415614","https://openalex.org/W2139817070","https://openalex.org/W2141461755","https://openalex.org/W2142493242","https://openalex.org/W2153845956","https://openalex.org/W2159426623","https://openalex.org/W2159583324","https://openalex.org/W2160170318","https://openalex.org/W2160507407","https://openalex.org/W2169767637","https://openalex.org/W2171343266","https://openalex.org/W2171826173","https://openalex.org/W2201680753","https://openalex.org/W2260396455","https://openalex.org/W2288972158","https://openalex.org/W2318368071","https://openalex.org/W2488962145","https://openalex.org/W2500109981","https://openalex.org/W2516807252","https://openalex.org/W2520519270","https://openalex.org/W2537621452","https://openalex.org/W2542889218","https://openalex.org/W2557385283","https://openalex.org/W2999543019","https://openalex.org/W3183766709","https://openalex.org/W4240492454","https://openalex.org/W6604306396","https://openalex.org/W6674922813","https://openalex.org/W6675146868","https://openalex.org/W6682906163","https://openalex.org/W6683333316","https://openalex.org/W6685210674","https://openalex.org/W6726274139"],"related_works":["https://openalex.org/W2013728941","https://openalex.org/W4225274103","https://openalex.org/W2579659702","https://openalex.org/W2154046714","https://openalex.org/W1965329638","https://openalex.org/W1574055964","https://openalex.org/W2923661510","https://openalex.org/W2189613078","https://openalex.org/W2586219255","https://openalex.org/W2547096368"],"abstract_inverted_index":{"PhenoLines":[0,80,158,197],"is":[1],"a":[2,97,102,115,140,189],"visual":[3],"analysis":[4],"tool":[5],"for":[6,55],"the":[7,14,59,121,131,152,172,203],"interpretation":[8,65],"of":[9,16,48,61,108,143,157,207],"disease":[10,38,90],"subtypes,":[11],"derived":[12],"from":[13],"application":[15],"topic":[17,62,136,208],"models":[18,23,63],"to":[19,26,83,125,150,201],"clinical":[20,111,168],"data.":[21],"Topic":[22],"enable":[24],"one":[25,82],"mine":[27],"cross-sectional":[28],"patient":[29],"comorbidity":[30],"data":[31,54,116],"(e.g.,":[32],"electronic":[33],"health":[34],"records)":[35],"and":[36,46,67,88,110,129,167,179,188,205],"construct":[37],"subtypes-each":[39],"with":[40,164,184],"its":[41],"own":[42],"temporally":[43],"evolving":[44,132],"prevalence":[45,86],"co-occurrence":[47],"phenotypes-without":[49],"requiring":[50],"aligned":[51],"longitudinal":[52],"phenotype":[53,75,78,85,144],"all":[56],"patients.":[57],"However,":[58],"dimensionality":[60],"makes":[64],"challenging,":[66],"de":[68],"facto":[69],"analyses":[70],"provide":[71],"little":[72],"intuition":[73],"regarding":[74],"relevance":[76,145],"or":[77],"interrelationships.":[79],"enables":[81],"compare":[84],"within":[87],"across":[89],"subtype":[91,95],"topics,":[92],"thus":[93],"supporting":[94],"characterization,":[96],"task":[98],"that":[99,119,146,196],"involves":[100],"identifying":[101],"proposed":[103],"subtype's":[104],"dominant":[105],"phenotypes,":[106],"ages":[107],"effect,":[109],"validity.":[112],"We":[113,138,170],"contribute":[114],"transformation":[117],"workflow":[118],"employs":[120],"Human":[122],"Phenotype":[123],"Ontology":[124],"hierarchically":[126],"organize":[127],"phenotypes":[128],"aggregate":[130],"probabilities":[133],"produced":[134],"by":[135,161],"models.":[137,209],"introduce":[139],"novel":[141],"measure":[142],"can":[147],"be":[148],"used":[149],"simplify":[151],"resulting":[153],"topology.":[154],"The":[155],"design":[156,174],"was":[159],"motivated":[160],"formative":[162],"interviews":[163],"machine":[165,185],"learning":[166,186],"experts.":[169],"describe":[171],"collaborative":[173],"process,":[175],"distill":[176],"high-level":[177],"tasks,":[178],"report":[180],"on":[181],"initial":[182],"evaluations":[183],"experts":[187],"medical":[190],"domain":[191],"expert.":[192],"These":[193],"results":[194],"suggest":[195],"demonstrates":[198],"promising":[199],"approaches":[200],"support":[202],"characterization":[204],"optimization":[206]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":7}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
