{"id":"https://openalex.org/W4392927049","doi":"https://doi.org/10.1371/journal.pcbi.1011942","title":"Continuous evaluation of denoising strategies in resting-state fMRI connectivity using fMRIPrep and Nilearn","display_name":"Continuous evaluation of denoising strategies in resting-state fMRI connectivity using fMRIPrep and Nilearn","publication_year":2024,"publication_date":"2024-03-18","ids":{"openalex":"https://openalex.org/W4392927049","doi":"https://doi.org/10.1371/journal.pcbi.1011942","pmid":"https://pubmed.ncbi.nlm.nih.gov/38498530"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1011942","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1011942","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1011942&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1011942&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5063326067","display_name":"Hao-Ting Wang","orcid":"https://orcid.org/0000-0003-4078-2038"},"institutions":[{"id":"https://openalex.org/I4210126907","display_name":"Institut Universitaire de G\u00e9riatrie de Montr\u00e9al","ror":"https://ror.org/031z68d90","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210126907"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Hao-Ting Wang","raw_affiliation_strings":["Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)"],"affiliations":[{"raw_affiliation_string":"Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I4210126907"]},{"raw_affiliation_string":"CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)","institution_ids":["https://openalex.org/I4210126907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004309484","display_name":"Steven L. Meisler","orcid":"https://orcid.org/0000-0002-8888-1572"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"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"]},{"id":"https://openalex.org/I4210104429","display_name":"Institute of Cognitive and Brain Sciences","ror":"https://ror.org/01c3w3270","country_code":"US","type":"education","lineage":["https://openalex.org/I4210104429"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Steven L. Meisler","raw_affiliation_strings":["Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Massachusetts, United States of America","Program in Speech and Hearing Bioscience and Technology, Harvard University, Massachusetts, United States of America","MIT - Massachusetts Institute of Technology (77 Massachusetts Ave, Cambridge, MA 02139 - United States)","Harvard University (Massachusetts Hall, Cambridge, MA 02138 - United States)"],"affiliations":[{"raw_affiliation_string":"Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Massachusetts, United States of America","institution_ids":["https://openalex.org/I4210104429","https://openalex.org/I63966007"]},{"raw_affiliation_string":"Program in Speech and Hearing Bioscience and Technology, Harvard University, Massachusetts, United States of America","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"MIT - Massachusetts Institute of Technology (77 Massachusetts Ave, Cambridge, MA 02139 - United States)","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"Harvard University (Massachusetts Hall, Cambridge, MA 02138 - United States)","institution_ids":["https://openalex.org/I2801851002"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089894422","display_name":"Hanad Sharmarke","orcid":null},"institutions":[{"id":"https://openalex.org/I4210126907","display_name":"Institut Universitaire de G\u00e9riatrie de Montr\u00e9al","ror":"https://ror.org/031z68d90","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210126907"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["CA","US"],"is_corresponding":false,"raw_author_name":"Hanad Sharmarke","raw_affiliation_strings":["Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","MIT - Massachusetts Institute of Technology (77 Massachusetts Ave, Cambridge, MA 02139 - United States)","CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)"],"affiliations":[{"raw_affiliation_string":"Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I4210126907"]},{"raw_affiliation_string":"MIT - Massachusetts Institute of Technology (77 Massachusetts Ave, Cambridge, MA 02139 - United States)","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)","institution_ids":["https://openalex.org/I4210126907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047127458","display_name":"Natasha Clarke","orcid":"https://orcid.org/0000-0003-2375-4510"},"institutions":[{"id":"https://openalex.org/I4210126907","display_name":"Institut Universitaire de G\u00e9riatrie de Montr\u00e9al","ror":"https://ror.org/031z68d90","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210126907"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Natasha Clarke","raw_affiliation_strings":["Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)"],"affiliations":[{"raw_affiliation_string":"Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I4210126907"]},{"raw_affiliation_string":"CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)","institution_ids":["https://openalex.org/I4210126907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006351653","display_name":"Nicolas Gensollen","orcid":"https://orcid.org/0000-0001-7199-9753"},"institutions":[{"id":"https://openalex.org/I2738703131","display_name":"Commissariat \u00e0 l'\u00c9nergie Atomique et aux \u00c9nergies Alternatives","ror":"https://ror.org/00jjx8s55","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210128565","display_name":"CEA Paris-Saclay","ror":"https://ror.org/03n15ch10","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210128565"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Nicolas Gensollen","raw_affiliation_strings":["Inria, CEA, Universit\u00e9 Paris-Saclay, Paris, France","SED - Service Exp\u00e9rimentation et D\u00e9veloppement [Paris] (France)"],"affiliations":[{"raw_affiliation_string":"Inria, CEA, Universit\u00e9 Paris-Saclay, Paris, France","institution_ids":["https://openalex.org/I277688954","https://openalex.org/I2738703131","https://openalex.org/I4210128565"]},{"raw_affiliation_string":"SED - Service Exp\u00e9rimentation et D\u00e9veloppement [Paris] (France)","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005898599","display_name":"Christopher J. Markiewicz","orcid":"https://orcid.org/0000-0002-6533-164X"},"institutions":[{"id":"https://openalex.org/I4210137306","display_name":"Stanford Medicine","ror":"https://ror.org/03mtd9a03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210137306","https://openalex.org/I97018004"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher J. Markiewicz","raw_affiliation_strings":["Department of Psychology, Stanford University, Stanford, United States of America","Department of Psychology [Stanford] (Stanford, California 94305 - United States)"],"affiliations":[{"raw_affiliation_string":"Department of Psychology, Stanford University, Stanford, United States of America","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Department of Psychology [Stanford] (Stanford, California 94305 - United States)","institution_ids":["https://openalex.org/I4210137306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025932460","display_name":"Fran\u00e7ois Paugam","orcid":null},"institutions":[{"id":"https://openalex.org/I4210126907","display_name":"Institut Universitaire de G\u00e9riatrie de Montr\u00e9al","ror":"https://ror.org/031z68d90","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210126907"]},{"id":"https://openalex.org/I4210164802","display_name":"Mila - Quebec Artificial Intelligence Institute","ror":"https://ror.org/05c22rx21","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210164802"]},{"id":"https://openalex.org/I70931966","display_name":"Universit\u00e9 de Montr\u00e9al","ror":"https://ror.org/0161xgx34","country_code":"CA","type":"education","lineage":["https://openalex.org/I70931966"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Fran\u00e7ois Paugam","raw_affiliation_strings":["Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","Computer Science and Operations Research Department, Universit\u00e9 de Montr\u00e9al, Montr\u00e9al, Qu\u00e9bec, Canada","Mila-Institut Qu\u00e9b\u00e9cois d'Intelligence Artificielle, Montr\u00e9al, Canada","UdeM - Universit\u00e9 de Montr\u00e9al (2900 Boulevard Edouard-Montpetit, Montr\u00e9al, QC H3T 1J4 - Canada)","MILA - Montreal Institute for Learning Algorithms  [Montr\u00e9al] (6666 St-Urbain, #200, Montreal, QC, H2S 3H1, Canada - Canada)","CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)"],"affiliations":[{"raw_affiliation_string":"Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I4210126907"]},{"raw_affiliation_string":"Computer Science and Operations Research Department, Universit\u00e9 de Montr\u00e9al, Montr\u00e9al, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I70931966"]},{"raw_affiliation_string":"Mila-Institut Qu\u00e9b\u00e9cois d'Intelligence Artificielle, Montr\u00e9al, Canada","institution_ids":["https://openalex.org/I4210164802"]},{"raw_affiliation_string":"UdeM - Universit\u00e9 de Montr\u00e9al (2900 Boulevard Edouard-Montpetit, Montr\u00e9al, QC H3T 1J4 - Canada)","institution_ids":["https://openalex.org/I70931966"]},{"raw_affiliation_string":"MILA - Montreal Institute for Learning Algorithms  [Montr\u00e9al] (6666 St-Urbain, #200, Montreal, QC, H2S 3H1, Canada - Canada)","institution_ids":["https://openalex.org/I4210164802"]},{"raw_affiliation_string":"CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)","institution_ids":["https://openalex.org/I4210126907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026762833","display_name":"Bertrand Thirion","orcid":"https://orcid.org/0000-0001-5018-7895"},"institutions":[{"id":"https://openalex.org/I142476485","display_name":"\u00c9cole Polytechnique","ror":"https://ror.org/05hy3tk52","country_code":"FR","type":"education","lineage":["https://openalex.org/I142476485","https://openalex.org/I4210145102"]},{"id":"https://openalex.org/I2738703131","display_name":"Commissariat \u00e0 l'\u00c9nergie Atomique et aux \u00c9nergies Alternatives","ror":"https://ror.org/00jjx8s55","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210128565","display_name":"CEA Paris-Saclay","ror":"https://ror.org/03n15ch10","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210128565"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Bertrand Thirion","raw_affiliation_strings":["Inria, CEA, Universit\u00e9 Paris-Saclay, Paris, France","MIND - Mod\u00e8les et inf\u00e9rence pour les donn\u00e9es de Neuroimagerie (1 rue Honor\u00e9 d'Estienne d'Orves Campus de l'\u00c9cole Polytechnique 91120 Palaiseau - France)"],"affiliations":[{"raw_affiliation_string":"Inria, CEA, Universit\u00e9 Paris-Saclay, Paris, France","institution_ids":["https://openalex.org/I277688954","https://openalex.org/I2738703131","https://openalex.org/I4210128565"]},{"raw_affiliation_string":"MIND - Mod\u00e8les et inf\u00e9rence pour les donn\u00e9es de Neuroimagerie (1 rue Honor\u00e9 d'Estienne d'Orves Campus de l'\u00c9cole Polytechnique 91120 Palaiseau - France)","institution_ids":["https://openalex.org/I142476485"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5009114084","display_name":"Pierre Bellec","orcid":"https://orcid.org/0000-0002-9111-0699"},"institutions":[{"id":"https://openalex.org/I4210126907","display_name":"Institut Universitaire de G\u00e9riatrie de Montr\u00e9al","ror":"https://ror.org/031z68d90","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210126907"]},{"id":"https://openalex.org/I70931966","display_name":"Universit\u00e9 de Montr\u00e9al","ror":"https://ror.org/0161xgx34","country_code":"CA","type":"education","lineage":["https://openalex.org/I70931966"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Pierre Bellec","raw_affiliation_strings":["Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","Psychology Department, Universit\u00e9 de Montr\u00e9al, Montr\u00e9al, Qu\u00e9bec, Canada","CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)","UdeM - Universit\u00e9 de Montr\u00e9al (2900 Boulevard Edouard-Montpetit, Montr\u00e9al, QC H3T 1J4 - Canada)"],"affiliations":[{"raw_affiliation_string":"Centre de recherche de l'institut Universitaire de g\u00e9riatrie de Montr\u00e9al (CRIUGM), Montr\u00e9al, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I4210126907"]},{"raw_affiliation_string":"Psychology Department, Universit\u00e9 de Montr\u00e9al, Montr\u00e9al, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I70931966"]},{"raw_affiliation_string":"CRIUGM - Centre de recherche de l'Institut universitaire de g\u00e9riatrie de Montreal (4565, Chemin Queen-Mary Montr\u00e9al (Qu\u00e9bec) H3W 1W5 - Canada)","institution_ids":["https://openalex.org/I4210126907"]},{"raw_affiliation_string":"UdeM - Universit\u00e9 de Montr\u00e9al (2900 Boulevard Edouard-Montpetit, Montr\u00e9al, QC H3T 1J4 - Canada)","institution_ids":["https://openalex.org/I70931966"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5063326067"],"corresponding_institution_ids":["https://openalex.org/I4210126907"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":8.707,"has_fulltext":true,"cited_by_count":29,"citation_normalized_percentile":{"value":0.98461166,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"20","issue":"3","first_page":"e1011942","last_page":"e1011942"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10241","display_name":"Functional Brain Connectivity Studies","score":1.0,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10241","display_name":"Functional Brain Connectivity Studies","score":1.0,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10378","display_name":"Advanced MRI Techniques and Applications","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10581","display_name":"Neural dynamics and brain function","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.7808734178543091},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7362120747566223},{"id":"https://openalex.org/keywords/noise-reduction","display_name":"Noise reduction","score":0.6871072053909302},{"id":"https://openalex.org/keywords/functional-magnetic-resonance-imaging","display_name":"Functional magnetic resonance imaging","score":0.6002901792526245},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5392934083938599},{"id":"https://openalex.org/keywords/noise","display_name":"Noise (video)","score":0.5340202450752258},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5187404751777649},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.49911975860595703},{"id":"https://openalex.org/keywords/communication-noise","display_name":"Communication noise","score":0.48714062571525574},{"id":"https://openalex.org/keywords/resting-state-fmri","display_name":"Resting state fMRI","score":0.4601894021034241},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4341862201690674}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.7808734178543091},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7362120747566223},{"id":"https://openalex.org/C163294075","wikidata":"https://www.wikidata.org/wiki/Q581861","display_name":"Noise reduction","level":2,"score":0.6871072053909302},{"id":"https://openalex.org/C2779226451","wikidata":"https://www.wikidata.org/wiki/Q903809","display_name":"Functional magnetic resonance imaging","level":2,"score":0.6002901792526245},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5392934083938599},{"id":"https://openalex.org/C99498987","wikidata":"https://www.wikidata.org/wiki/Q2210247","display_name":"Noise (video)","level":3,"score":0.5340202450752258},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5187404751777649},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.49911975860595703},{"id":"https://openalex.org/C16210155","wikidata":"https://www.wikidata.org/wiki/Q5154140","display_name":"Communication noise","level":2,"score":0.48714062571525574},{"id":"https://openalex.org/C66324658","wikidata":"https://www.wikidata.org/wiki/Q7316120","display_name":"Resting state fMRI","level":2,"score":0.4601894021034241},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4341862201690674},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","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/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D001931","descriptor_name":"Brain Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D001931","descriptor_name":"Brain Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D001931","descriptor_name":"Brain Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D001931","descriptor_name":"Brain Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D001931","descriptor_name":"Brain Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D008279","descriptor_name":"Magnetic Resonance Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D008279","descriptor_name":"Magnetic Resonance Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D008279","descriptor_name":"Magnetic Resonance Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D008279","descriptor_name":"Magnetic Resonance Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D008279","descriptor_name":"Magnetic Resonance Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1011942","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1011942","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1011942&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:38498530","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38498530","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:HAL:hal-04718572v1","is_oa":true,"landing_page_url":"https://hal.science/hal-04718572","pdf_url":"https://hal.science/hal-04718572/document","source":{"id":"https://openalex.org/S4406922466","display_name":"SPIRE - Sciences Po Institutional REpository","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, 2024, 20 (3), pp.e1011942. &#x27E8;10.1371/journal.pcbi.1011942&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:pubmedcentral.nih.gov:10977879","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10977879","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10977879/pdf/pcbi.1011942.pdf","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":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:80ca0fd6af574cc798f616a11a8192a7","is_oa":true,"landing_page_url":"https://doaj.org/article/80ca0fd6af574cc798f616a11a8192a7","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 20, Iss 3, p e1011942 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1011942","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1011942","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1011942&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G10740737","display_name":null,"funder_award_id":"Neuromod","funder_id":"https://openalex.org/F4320331472","funder_display_name":"Courtois Foundation"},{"id":"https://openalex.org/G3338144485","display_name":null,"funder_award_id":"R24MH117179","funder_id":"https://openalex.org/F4320337346","funder_display_name":"National Institute of Mental Health"},{"id":"https://openalex.org/G4485239816","display_name":null,"funder_award_id":"PRF3","funder_id":"https://openalex.org/F4320330273","funder_display_name":"Institut de Valorisation des Donn\u00e9es"},{"id":"https://openalex.org/G4725059038","display_name":null,"funder_award_id":"5R24MH117179","funder_id":"https://openalex.org/F4320306080","funder_display_name":"Foundation for the National Institutes of Health"},{"id":"https://openalex.org/G5393144159","display_name":null,"funder_award_id":"Team 9 \u201cdiscovering new biomarkers\u201d","funder_id":"https://openalex.org/F4320315912","funder_display_name":"Consortium canadien en neurod\u00e9g\u00e9n\u00e9rescence associ\u00e9e au vieillissement"},{"id":"https://openalex.org/G7460842610","display_name":null,"funder_award_id":"5T32DC000038","funder_id":"https://openalex.org/F4320337352","funder_display_name":"National Institute on Deafness and Other Communication Disorders"},{"id":"https://openalex.org/G8033099994","display_name":null,"funder_award_id":"Neuromind","funder_id":"https://openalex.org/F4320313934","funder_display_name":"Institut national de recherche en informatique et en automatique (INRIA)"},{"id":"https://openalex.org/G8084565213","display_name":null,"funder_award_id":"postdoctoral research funding","funder_id":"https://openalex.org/F4320330273","funder_display_name":"Institut de Valorisation des Donn\u00e9es"},{"id":"https://openalex.org/G873216397","display_name":null,"funder_award_id":"T32DC000038","funder_id":"https://openalex.org/F4320337352","funder_display_name":"National Institute on Deafness and Other Communication Disorders"},{"id":"https://openalex.org/G957408157","display_name":null,"funder_award_id":"DC000038","funder_id":"https://openalex.org/F4320337352","funder_display_name":"National Institute on Deafness and Other Communication Disorders"}],"funders":[{"id":"https://openalex.org/F4320306080","display_name":"Foundation for the National Institutes of Health","ror":"https://ror.org/00k86s890"},{"id":"https://openalex.org/F4320313934","display_name":"Institut national de recherche en informatique et en automatique (INRIA)","ror":"https://ror.org/02kvxyf05"},{"id":"https://openalex.org/F4320315912","display_name":"Consortium canadien en neurod\u00e9g\u00e9n\u00e9rescence associ\u00e9e au vieillissement","ror":null},{"id":"https://openalex.org/F4320330273","display_name":"Institut de Valorisation des Donn\u00e9es","ror":null},{"id":"https://openalex.org/F4320331472","display_name":"Courtois Foundation","ror":null},{"id":"https://openalex.org/F4320334618","display_name":"Fonds de Recherche du Qu\u00e9bec - Sant\u00e9","ror":"https://ror.org/02eqrsj93"},{"id":"https://openalex.org/F4320337346","display_name":"National Institute of Mental Health","ror":"https://ror.org/04xeg9z08"},{"id":"https://openalex.org/F4320337352","display_name":"National Institute on Deafness and Other Communication Disorders","ror":"https://ror.org/04mhx6838"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4392927049.pdf"},"referenced_works_count":51,"referenced_works":["https://openalex.org/W1760829075","https://openalex.org/W1980527160","https://openalex.org/W1990134753","https://openalex.org/W1992288515","https://openalex.org/W2002562224","https://openalex.org/W2008607322","https://openalex.org/W2033865693","https://openalex.org/W2047453615","https://openalex.org/W2048857243","https://openalex.org/W2052615191","https://openalex.org/W2107499714","https://openalex.org/W2110065044","https://openalex.org/W2130010412","https://openalex.org/W2143661428","https://openalex.org/W2151591509","https://openalex.org/W2167822639","https://openalex.org/W2342249984","https://openalex.org/W2557111525","https://openalex.org/W2597348720","https://openalex.org/W2773623840","https://openalex.org/W2950480787","https://openalex.org/W2951583631","https://openalex.org/W2951617899","https://openalex.org/W2953090092","https://openalex.org/W2953134824","https://openalex.org/W2963691885","https://openalex.org/W2985923507","https://openalex.org/W2991634959","https://openalex.org/W3041046627","https://openalex.org/W3129777601","https://openalex.org/W3173556047","https://openalex.org/W3206860915","https://openalex.org/W4200401205","https://openalex.org/W4206336125","https://openalex.org/W4210478786","https://openalex.org/W4220740581","https://openalex.org/W4220876827","https://openalex.org/W4220983699","https://openalex.org/W4224273251","https://openalex.org/W4295290221","https://openalex.org/W4310496844","https://openalex.org/W4360618550","https://openalex.org/W4381123605","https://openalex.org/W4392927049","https://openalex.org/W4393441362","https://openalex.org/W4393798775","https://openalex.org/W4401340652","https://openalex.org/W6887940936","https://openalex.org/W6887980007","https://openalex.org/W6894053587","https://openalex.org/W7075633019"],"related_works":["https://openalex.org/W2601707947","https://openalex.org/W2168298321","https://openalex.org/W2387620927","https://openalex.org/W2365936003","https://openalex.org/W4401572343","https://openalex.org/W1964455563","https://openalex.org/W2790620361","https://openalex.org/W2294986132","https://openalex.org/W2080040231","https://openalex.org/W4403380244"],"abstract_inverted_index":{"Reducing":[0],"contributions":[1],"from":[2],"non-neuronal":[3],"sources":[4],"is":[5,50,171,182,212],"a":[6,72,76,100,127,157,196,231],"crucial":[7],"step":[8],"in":[9,25,36,204,235],"functional":[10],"magnetic":[11],"resonance":[12],"imaging":[13],"(fMRI)":[14],"connectivity":[15,86],"analyses.":[16],"Many":[17],"viable":[18],"strategies":[19,220],"for":[20,34,43,85,133,194,246],"denoising":[21,32,48,73,79,219],"fMRI":[22,47],"are":[23],"used":[24,132],"the":[26,37,55,62,90,104,114,117,144,148,188,247,253],"literature,":[27],"and":[28,54,82,208,251],"practitioners":[29],"rely":[30],"on":[31,89,116],"benchmarks":[33,56],"guidance":[35],"selection":[38],"of":[39,78,99,136,143,147,191,227,255,258],"an":[40,51,97],"appropriate":[41],"choice":[42],"their":[44],"study.":[45],"However,":[46],"software":[49],"ever-evolving":[52],"field,":[53],"can":[57,130],"quickly":[58],"become":[59],"obsolete":[60],"as":[61],"techniques":[63],"or":[64,112,229],"implementations":[65],"change.":[66],"In":[67],"this":[68],"work,":[69],"we":[70,215],"present":[71],"benchmark":[74,95,129,149],"featuring":[75],"range":[77],"strategies,":[80],"datasets":[81,224],"evaluation":[83,135,257],"metrics":[84],"analyses,":[87],"based":[88],"popular":[91],"fMRIprep":[92,248],"software.":[93],"The":[94],"prototypes":[96],"implementation":[98],"reproducible":[101,119,128],"framework,":[102],"where":[103],"provided":[105],"Jupyter":[106],"Book":[107],"enables":[108],"readers":[109],"to":[110],"reproduce":[111],"modify":[113],"figures":[115],"Neurolibre":[118],"preprint":[120],"server":[121],"(https://neurolibre.org/).":[122],"We":[123],"demonstrate":[124],"how":[125],"such":[126],"be":[131],"continuous":[134,189,256],"research":[137,259],"software,":[138],"by":[139],"comparing":[140],"two":[141],"versions":[142,226],"fMRIprep.":[145],"Most":[146],"results":[150],"were":[151],"consistent":[152],"with":[153,163,167,184],"prior":[154],"literature.":[155],"Scrubbing,":[156],"technique":[158],"which":[159,195],"excludes":[160],"time":[161],"points":[162],"excessive":[164],"motion,":[165],"combined":[166],"global":[168,209],"signal":[169,210],"regression,":[170,211],"generally":[172,179],"effective":[173],"at":[174],"noise":[175],"removal.":[176],"Scrubbing":[177],"was":[178],"effective,":[180],"but":[181],"incompatible":[183],"statistical":[185],"analyses":[186],"requiring":[187],"sampling":[190],"brain":[192,206],"signal,":[193],"simpler":[197],"strategy,":[198],"using":[199],"motion":[200],"parameters,":[201],"average":[202],"activity":[203],"select":[205],"compartments,":[207],"preferred.":[213],"Importantly,":[214],"found":[216],"that":[217],"certain":[218],"behave":[221],"inconsistently":[222],"across":[223],"and/or":[225],"fMRIPrep,":[228],"had":[230],"different":[232],"behavior":[233],"than":[234],"previously":[236],"published":[237],"benchmarks.":[238],"This":[239],"work":[240],"will":[241],"hopefully":[242],"provide":[243],"useful":[244],"guidelines":[245],"users":[249],"community,":[250],"highlight":[252],"importance":[254],"methods.":[260]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":15},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":3}],"updated_date":"2026-04-11T08:14:18.477133","created_date":"2025-10-10T00:00:00"}
