{"id":"https://openalex.org/W3124781765","doi":"https://doi.org/10.1093/bioinformatics/btab021","title":"<i>lgpr:</i>an interpretable non-parametric method for inferring covariate effects from longitudinal data","display_name":"<i>lgpr:</i>an interpretable non-parametric method for inferring covariate effects from longitudinal data","publication_year":2021,"publication_date":"2021-01-08","ids":{"openalex":"https://openalex.org/W3124781765","doi":"https://doi.org/10.1093/bioinformatics/btab021","mag":"3124781765"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab021","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab021","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/13/1860/39353091/btab021.pdf","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/37/13/1860/39353091/btab021.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5080991599","display_name":"Juho Timonen","orcid":"https://orcid.org/0000-0003-2341-6765"},"institutions":[{"id":"https://openalex.org/I9927081","display_name":"Aalto University","ror":"https://ror.org/020hwjq30","country_code":"FI","type":"education","lineage":["https://openalex.org/I9927081"]}],"countries":["FI"],"is_corresponding":true,"raw_author_name":"Juho Timonen","raw_affiliation_strings":["Department of Computer Science, Aalto University , Espoo 00076, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Aalto University , Espoo 00076, Finland","institution_ids":["https://openalex.org/I9927081"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070900340","display_name":"Henrik Mannerstr\u00f6m","orcid":"https://orcid.org/0000-0001-8492-665X"},"institutions":[{"id":"https://openalex.org/I9927081","display_name":"Aalto University","ror":"https://ror.org/020hwjq30","country_code":"FI","type":"education","lineage":["https://openalex.org/I9927081"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Henrik Mannerstr\u00f6m","raw_affiliation_strings":["Department of Computer Science, Aalto University , Espoo 00076, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Aalto University , Espoo 00076, Finland","institution_ids":["https://openalex.org/I9927081"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047269552","display_name":"Aki Vehtari","orcid":"https://orcid.org/0000-0003-2164-9469"},"institutions":[{"id":"https://openalex.org/I9927081","display_name":"Aalto University","ror":"https://ror.org/020hwjq30","country_code":"FI","type":"education","lineage":["https://openalex.org/I9927081"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Aki Vehtari","raw_affiliation_strings":["Department of Computer Science, Aalto University , Espoo 00076, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Aalto University , Espoo 00076, Finland","institution_ids":["https://openalex.org/I9927081"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049442192","display_name":"Harri L\u00e4hdesm\u00e4ki","orcid":"https://orcid.org/0000-0002-0373-139X"},"institutions":[{"id":"https://openalex.org/I9927081","display_name":"Aalto University","ror":"https://ror.org/020hwjq30","country_code":"FI","type":"education","lineage":["https://openalex.org/I9927081"]}],"countries":["FI"],"is_corresponding":true,"raw_author_name":"Harri L\u00e4hdesm\u00e4ki","raw_affiliation_strings":["Department of Computer Science, Aalto University , Espoo 00076, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Aalto University , Espoo 00076, Finland","institution_ids":["https://openalex.org/I9927081"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5049442192","https://openalex.org/A5080991599"],"corresponding_institution_ids":["https://openalex.org/I9927081"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":2836,"currency":"EUR","value_usd":3058},"fwci":1.3716,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.81444037,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"37","issue":"13","first_page":"1860","last_page":"1867"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9937999844551086,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9937999844551086,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10136","display_name":"Statistical Methods and Inference","score":0.9746999740600586,"subfield":{"id":"https://openalex.org/subfields/2613","display_name":"Statistics and Probability"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10594","display_name":"Genetic and phenotypic traits in livestock","score":0.9659000039100647,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/covariate","display_name":"Covariate","score":0.9546084403991699},{"id":"https://openalex.org/keywords/categorical-variable","display_name":"Categorical variable","score":0.8979640007019043},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7180042266845703},{"id":"https://openalex.org/keywords/parametric-statistics","display_name":"Parametric statistics","score":0.5796204805374146},{"id":"https://openalex.org/keywords/covariance","display_name":"Covariance","score":0.4891500771045685},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.46451181173324585},{"id":"https://openalex.org/keywords/nonparametric-statistics","display_name":"Nonparametric statistics","score":0.4276268482208252},{"id":"https://openalex.org/keywords/analysis-of-covariance","display_name":"Analysis of covariance","score":0.4254145324230194},{"id":"https://openalex.org/keywords/documentation","display_name":"Documentation","score":0.4218960404396057},{"id":"https://openalex.org/keywords/time-point","display_name":"Time point","score":0.41667425632476807},{"id":"https://openalex.org/keywords/mixed-model","display_name":"Mixed model","score":0.41544878482818604},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4086369276046753},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.33221328258514404},{"id":"https://openalex.org/keywords/econometrics","display_name":"Econometrics","score":0.2925601601600647},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.2644594609737396},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.16841664910316467}],"concepts":[{"id":"https://openalex.org/C119043178","wikidata":"https://www.wikidata.org/wiki/Q320723","display_name":"Covariate","level":2,"score":0.9546084403991699},{"id":"https://openalex.org/C5274069","wikidata":"https://www.wikidata.org/wiki/Q2285707","display_name":"Categorical variable","level":2,"score":0.8979640007019043},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7180042266845703},{"id":"https://openalex.org/C117251300","wikidata":"https://www.wikidata.org/wiki/Q1849855","display_name":"Parametric statistics","level":2,"score":0.5796204805374146},{"id":"https://openalex.org/C178650346","wikidata":"https://www.wikidata.org/wiki/Q201984","display_name":"Covariance","level":2,"score":0.4891500771045685},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.46451181173324585},{"id":"https://openalex.org/C102366305","wikidata":"https://www.wikidata.org/wiki/Q1097688","display_name":"Nonparametric statistics","level":2,"score":0.4276268482208252},{"id":"https://openalex.org/C119340705","wikidata":"https://www.wikidata.org/wiki/Q1628597","display_name":"Analysis of covariance","level":2,"score":0.4254145324230194},{"id":"https://openalex.org/C56666940","wikidata":"https://www.wikidata.org/wiki/Q788790","display_name":"Documentation","level":2,"score":0.4218960404396057},{"id":"https://openalex.org/C2779466056","wikidata":"https://www.wikidata.org/wiki/Q107630651","display_name":"Time point","level":2,"score":0.41667425632476807},{"id":"https://openalex.org/C16012445","wikidata":"https://www.wikidata.org/wiki/Q1501135","display_name":"Mixed model","level":2,"score":0.41544878482818604},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4086369276046753},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33221328258514404},{"id":"https://openalex.org/C149782125","wikidata":"https://www.wikidata.org/wiki/Q160039","display_name":"Econometrics","level":1,"score":0.2925601601600647},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.2644594609737396},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.16841664910316467},{"id":"https://openalex.org/C107038049","wikidata":"https://www.wikidata.org/wiki/Q35986","display_name":"Aesthetics","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/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1093/bioinformatics/btab021","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab021","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/13/1860/39353091/btab021.pdf","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btab021","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab021","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/13/1860/39353091/btab021.pdf","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2086140990","display_name":null,"funder_award_id":"292660","funder_id":"https://openalex.org/F4320321108","funder_display_name":"Academy of Finland"}],"funders":[{"id":"https://openalex.org/F4320321108","display_name":"Academy of Finland","ror":"https://ror.org/05k73zm37"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3124781765.pdf","grobid_xml":"https://content.openalex.org/works/W3124781765.grobid-xml"},"referenced_works_count":44,"referenced_works":["https://openalex.org/W136174036","https://openalex.org/W1514587894","https://openalex.org/W1533803232","https://openalex.org/W1644145788","https://openalex.org/W1746819321","https://openalex.org/W1877880381","https://openalex.org/W1951724000","https://openalex.org/W1986672307","https://openalex.org/W2005695783","https://openalex.org/W2006617902","https://openalex.org/W2085571932","https://openalex.org/W2095256598","https://openalex.org/W2095654324","https://openalex.org/W2097198296","https://openalex.org/W2105090664","https://openalex.org/W2130283669","https://openalex.org/W2145816995","https://openalex.org/W2157355630","https://openalex.org/W2166163519","https://openalex.org/W2266084929","https://openalex.org/W2343597029","https://openalex.org/W2572702041","https://openalex.org/W2577537660","https://openalex.org/W2582743722","https://openalex.org/W2761532420","https://openalex.org/W2774486220","https://openalex.org/W2901323504","https://openalex.org/W2904925972","https://openalex.org/W2921051283","https://openalex.org/W2940355724","https://openalex.org/W2961402510","https://openalex.org/W2963977107","https://openalex.org/W4211049957","https://openalex.org/W4297730691","https://openalex.org/W4298870098","https://openalex.org/W4388319941","https://openalex.org/W6605568159","https://openalex.org/W6631818155","https://openalex.org/W6675677446","https://openalex.org/W6679226052","https://openalex.org/W6679529799","https://openalex.org/W6684823039","https://openalex.org/W6731701471","https://openalex.org/W6760353796"],"related_works":["https://openalex.org/W2171362509","https://openalex.org/W2036271916","https://openalex.org/W2554068199","https://openalex.org/W2580063968","https://openalex.org/W4387309985","https://openalex.org/W2489296056","https://openalex.org/W2418594686","https://openalex.org/W2782404209","https://openalex.org/W4250904219","https://openalex.org/W5006733"],"abstract_inverted_index":{"Abstract":[0],"Motivation":[1],"Longitudinal":[2],"study":[3],"designs":[4],"are":[5,187],"indispensable":[6],"for":[7,92,131,144,176],"studying":[8],"disease":[9,43,57],"progression.":[10],"Inferring":[11],"covariate":[12,135],"effects":[13,30,44],"from":[14],"longitudinal":[15,96],"data,":[16],"however,":[17],"requires":[18],"interpretable":[19,90],"methods":[20],"that":[21,50,72,104],"can":[22,76],"model":[23],"complicated":[24],"covariance":[25],"structures":[26],"and":[27,34,60,89,114,140,158,162,174],"detect":[28],"non-linear":[29],"of":[31,95,134,147,180],"both":[32],"categorical":[33,113],"continuous":[35,115],"covariates,":[36],"as":[37,39,155],"well":[38],"their":[40,137],"interactions.":[41],"Detecting":[42],"is":[45,71,153,165],"hindered":[46],"by":[47],"the":[48,56,73,80,111,127,132,178],"fact":[49],"they":[51],"often":[52],"occur":[53],"rapidly":[54],"near":[55],"initiation":[58],"time,":[59],"this":[61,181],"time":[62],"point":[63],"cannot":[64],"be":[65,77],"exactly":[66],"observed.":[67],"An":[68],"additional":[69],"challenge":[70],"effect":[74],"magnitude":[75],"heterogeneous":[78],"over":[79],"subjects.":[81],"Results":[82],"We":[83,102],"present":[84],"lgpr,":[85],"a":[86,156],"widely":[87],"applicable":[88],"method":[91],"non-parametric":[93],"analysis":[94],"data":[97,173,186],"using":[98],"additive":[99],"Gaussian":[100],"processes.":[101],"demonstrate":[103],"it":[105,121],"outperforms":[106],"previous":[107],"approaches":[108],"in":[109,117],"identifying":[110],"relevant":[112],"covariates":[116],"various":[118],"settings.":[119],"Furthermore,":[120],"implements":[122],"important":[123],"novel":[124],"features,":[125],"including":[126],"ability":[128],"to":[129],"account":[130],"heterogeneity":[133],"effects,":[136],"temporal":[138],"uncertainty,":[139],"appropriate":[141],"observation":[142],"models":[143],"different":[145],"types":[146],"biomedical":[148],"data.":[149],"The":[150],"lgpr":[151,164],"tool":[152],"implemented":[154],"comprehensive":[157],"user-friendly":[159],"R-package.":[160],"Availability":[161],"implementation":[163],"available":[166,188],"at":[167,189],"jtimonen.github.io/lgpr-usage":[168],"with":[169],"documentation,":[170],"tutorials,":[171],"test":[172],"code":[175],"reproducing":[177],"experiments":[179],"article.":[182],"Supplementary":[183,185],"information":[184],"Bioinformatics":[190],"online.":[191]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2021-02-01T00:00:00"}
