{"id":"https://openalex.org/W4223908608","doi":"https://doi.org/10.1371/journal.pcbi.1009879","title":"Benchmarking of deep learning algorithms for 3D instance segmentation of confocal image datasets","display_name":"Benchmarking of deep learning algorithms for 3D instance segmentation of confocal image datasets","publication_year":2022,"publication_date":"2022-04-14","ids":{"openalex":"https://openalex.org/W4223908608","doi":"https://doi.org/10.1371/journal.pcbi.1009879","pmid":"https://pubmed.ncbi.nlm.nih.gov/35421081"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1009879","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009879","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009879&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":"review","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.1009879&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001649793","display_name":"Anuradha Kar","orcid":"https://orcid.org/0000-0002-2543-1697"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I113428412","display_name":"\u00c9cole Normale Sup\u00e9rieure de Lyon","ror":"https://ror.org/04zmssz18","country_code":"FR","type":"education","lineage":["https://openalex.org/I113428412","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210137320","display_name":"Laboratoire Plasticit\u00e9 du Cerveau","ror":"https://ror.org/03padqz24","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I190752583","https://openalex.org/I2746051580","https://openalex.org/I4210096427","https://openalex.org/I4210137320","https://openalex.org/I98910050"]},{"id":"https://openalex.org/I4210143888","display_name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes","ror":"https://ror.org/04w61vh47","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I113428412","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I203339264","https://openalex.org/I4210088668","https://openalex.org/I4210096427","https://openalex.org/I4210143888"]},{"id":"https://openalex.org/I4210152724","display_name":"Institut du Cerveau","ror":"https://ror.org/050gn5214","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210152724"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Anuradha Kar","raw_affiliation_strings":["Institut du Cerveau-Paris Brain Institute, Paris, France","Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)","ICM - Institut du Cerveau = Paris Brain Institute (47-83 Boulevard de l'H\u00f4pital 75651 Paris Cedex 13 - France)"],"affiliations":[{"raw_affiliation_string":"Institut du Cerveau-Paris Brain Institute, Paris, France","institution_ids":["https://openalex.org/I4210152724","https://openalex.org/I4210137320"]},{"raw_affiliation_string":"Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","institution_ids":["https://openalex.org/I113428412","https://openalex.org/I100532134","https://openalex.org/I4210088668","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)","institution_ids":["https://openalex.org/I4210143888"]},{"raw_affiliation_string":"ICM - Institut du Cerveau = Paris Brain Institute (47-83 Boulevard de l'H\u00f4pital 75651 Paris Cedex 13 - France)","institution_ids":["https://openalex.org/I4210152724"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007480654","display_name":"Manuel Petit","orcid":"https://orcid.org/0000-0002-3211-0066"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I113428412","display_name":"\u00c9cole Normale Sup\u00e9rieure de Lyon","ror":"https://ror.org/04zmssz18","country_code":"FR","type":"education","lineage":["https://openalex.org/I113428412","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210143888","display_name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes","ror":"https://ror.org/04w61vh47","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I113428412","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I203339264","https://openalex.org/I4210088668","https://openalex.org/I4210096427","https://openalex.org/I4210143888"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Manuel Petit","raw_affiliation_strings":["Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)","MOSAIC - Simulation et Analyse de la morphogene\u0300se in siliCo (B\u00e2timent GN1 - 2e \u00e9tage - Ecole Normale Sup\u00e9rieure de Lyon - Site Jacques Monod - 46 All\u00e9e d'Italie - 69007 Lyon - France)"],"affiliations":[{"raw_affiliation_string":"Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","institution_ids":["https://openalex.org/I113428412","https://openalex.org/I100532134","https://openalex.org/I4210088668","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)","institution_ids":["https://openalex.org/I4210143888"]},{"raw_affiliation_string":"MOSAIC - Simulation et Analyse de la morphogene\u0300se in siliCo (B\u00e2timent GN1 - 2e \u00e9tage - Ecole Normale Sup\u00e9rieure de Lyon - Site Jacques Monod - 46 All\u00e9e d'Italie - 69007 Lyon - France)","institution_ids":["https://openalex.org/I113428412"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017973811","display_name":"Yassin Refahi","orcid":"https://orcid.org/0000-0001-6136-608X"},"institutions":[{"id":"https://openalex.org/I4210086276","display_name":"Fractionnation of AgroResources and Environment","ror":"https://ror.org/00136g547","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210086276","https://openalex.org/I4210088668","https://openalex.org/I96226040"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I96226040","display_name":"Universit\u00e9 de Reims Champagne-Ardenne","ror":"https://ror.org/03hypw319","country_code":"FR","type":"education","lineage":["https://openalex.org/I96226040"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Yassin Refahi","raw_affiliation_strings":["Universit\u00e9 de Reims Champagne Ardenne, INRAE, FARE, UMR A 614, Reims, France","FARE - Fractionnement des AgroRessources et Environnement (Centre de Recherche en Environnement et Agronomie\r\n2 esplanade Roland Garros BP 224\r\n51686 REIMS CEDEX 2 - France)"],"affiliations":[{"raw_affiliation_string":"Universit\u00e9 de Reims Champagne Ardenne, INRAE, FARE, UMR A 614, Reims, France","institution_ids":["https://openalex.org/I96226040","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"FARE - Fractionnement des AgroRessources et Environnement (Centre de Recherche en Environnement et Agronomie\r\n2 esplanade Roland Garros BP 224\r\n51686 REIMS CEDEX 2 - France)","institution_ids":["https://openalex.org/I4210086276"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018453821","display_name":"Guillaume Cerutti","orcid":"https://orcid.org/0000-0003-2003-9335"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I113428412","display_name":"\u00c9cole Normale Sup\u00e9rieure de Lyon","ror":"https://ror.org/04zmssz18","country_code":"FR","type":"education","lineage":["https://openalex.org/I113428412","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210143888","display_name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes","ror":"https://ror.org/04w61vh47","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I113428412","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I203339264","https://openalex.org/I4210088668","https://openalex.org/I4210096427","https://openalex.org/I4210143888"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Guillaume Cerutti","raw_affiliation_strings":["Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","MOSAIC - Simulation et Analyse de la morphogene\u0300se in siliCo (B\u00e2timent GN1 - 2e \u00e9tage - Ecole Normale Sup\u00e9rieure de Lyon - Site Jacques Monod - 46 All\u00e9e d'Italie - 69007 Lyon - France)","RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)"],"affiliations":[{"raw_affiliation_string":"Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","institution_ids":["https://openalex.org/I113428412","https://openalex.org/I100532134","https://openalex.org/I4210088668","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"MOSAIC - Simulation et Analyse de la morphogene\u0300se in siliCo (B\u00e2timent GN1 - 2e \u00e9tage - Ecole Normale Sup\u00e9rieure de Lyon - Site Jacques Monod - 46 All\u00e9e d'Italie - 69007 Lyon - France)","institution_ids":["https://openalex.org/I113428412"]},{"raw_affiliation_string":"RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)","institution_ids":["https://openalex.org/I4210143888"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036438671","display_name":"Christophe Godin","orcid":"https://orcid.org/0000-0002-1202-8460"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I113428412","display_name":"\u00c9cole Normale Sup\u00e9rieure de Lyon","ror":"https://ror.org/04zmssz18","country_code":"FR","type":"education","lineage":["https://openalex.org/I113428412","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210143888","display_name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes","ror":"https://ror.org/04w61vh47","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I113428412","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I203339264","https://openalex.org/I4210088668","https://openalex.org/I4210096427","https://openalex.org/I4210143888"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Christophe Godin","raw_affiliation_strings":["Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)","MOSAIC - Simulation et Analyse de la morphogene\u0300se in siliCo (B\u00e2timent GN1 - 2e \u00e9tage - Ecole Normale Sup\u00e9rieure de Lyon - Site Jacques Monod - 46 All\u00e9e d'Italie - 69007 Lyon - France)"],"affiliations":[{"raw_affiliation_string":"Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","institution_ids":["https://openalex.org/I113428412","https://openalex.org/I100532134","https://openalex.org/I4210088668","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)","institution_ids":["https://openalex.org/I4210143888"]},{"raw_affiliation_string":"MOSAIC - Simulation et Analyse de la morphogene\u0300se in siliCo (B\u00e2timent GN1 - 2e \u00e9tage - Ecole Normale Sup\u00e9rieure de Lyon - Site Jacques Monod - 46 All\u00e9e d'Italie - 69007 Lyon - France)","institution_ids":["https://openalex.org/I113428412"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027649265","display_name":"Jan Traas","orcid":"https://orcid.org/0000-0001-5107-1472"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I113428412","display_name":"\u00c9cole Normale Sup\u00e9rieure de Lyon","ror":"https://ror.org/04zmssz18","country_code":"FR","type":"education","lineage":["https://openalex.org/I113428412","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210143888","display_name":"Laboratoire Reproduction et D\u00e9veloppement des Plantes","ror":"https://ror.org/04w61vh47","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I113428412","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I203339264","https://openalex.org/I4210088668","https://openalex.org/I4210096427","https://openalex.org/I4210143888"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Jan Traas","raw_affiliation_strings":["Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)"],"affiliations":[{"raw_affiliation_string":"Laboratoire RDP, Universit\u00e9 de Lyon 1, ENS-Lyon INRAE, INRIA, CNRS, UCBL, Lyon, France","institution_ids":["https://openalex.org/I113428412","https://openalex.org/I100532134","https://openalex.org/I4210088668","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"RDP - Reproduction et d\u00e9veloppement des plantes (bat. LR5 46 All\u00e9e d'Italie 69364 LYON CEDEX 07 - France)","institution_ids":["https://openalex.org/I4210143888"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5001649793","https://openalex.org/A5027649265","https://openalex.org/A5036438671"],"corresponding_institution_ids":["https://openalex.org/I100532134","https://openalex.org/I113428412","https://openalex.org/I1294671590","https://openalex.org/I4210088668","https://openalex.org/I4210137320","https://openalex.org/I4210143888","https://openalex.org/I4210152724"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":13.2083,"has_fulltext":true,"cited_by_count":54,"citation_normalized_percentile":{"value":0.98758944,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"18","issue":"4","first_page":"e1009879","last_page":"e1009879"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T10862","display_name":"AI in cancer detection","score":0.9990000128746033,"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"}},{"id":"https://openalex.org/T10052","display_name":"Medical Image Segmentation Techniques","score":0.9973000288009644,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.8256473541259766},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7052615880966187},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.7047805786132812},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.6160731911659241},{"id":"https://openalex.org/keywords/market-segmentation","display_name":"Market segmentation","score":0.526392936706543},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.4949445128440857},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4946005046367645},{"id":"https://openalex.org/keywords/image-segmentation","display_name":"Image segmentation","score":0.468675434589386},{"id":"https://openalex.org/keywords/segmentation-based-object-categorization","display_name":"Segmentation-based object categorization","score":0.45830559730529785},{"id":"https://openalex.org/keywords/scale-space-segmentation","display_name":"Scale-space segmentation","score":0.44495171308517456},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.4087272882461548}],"concepts":[{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.8256473541259766},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7052615880966187},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.7047805786132812},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.6160731911659241},{"id":"https://openalex.org/C125308379","wikidata":"https://www.wikidata.org/wiki/Q363057","display_name":"Market segmentation","level":2,"score":0.526392936706543},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.4949445128440857},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4946005046367645},{"id":"https://openalex.org/C124504099","wikidata":"https://www.wikidata.org/wiki/Q56933","display_name":"Image segmentation","level":3,"score":0.468675434589386},{"id":"https://openalex.org/C25694479","wikidata":"https://www.wikidata.org/wiki/Q7446278","display_name":"Segmentation-based object categorization","level":5,"score":0.45830559730529785},{"id":"https://openalex.org/C65885262","wikidata":"https://www.wikidata.org/wiki/Q7429708","display_name":"Scale-space segmentation","level":4,"score":0.44495171308517456},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.4087272882461548},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","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":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1009879","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009879","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009879&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:35421081","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35421081","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-03659219v1","is_oa":true,"landing_page_url":"https://hal.inrae.fr/hal-03659219","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, 2022, 18 (4), pp.e1009879. &#x27E8;10.1371/journal.pcbi.1009879&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:RePEc:plo:pcbi00:1009879","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009879","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:doaj.org/article:9c0712a97e56447fbecfa55e87829d77","is_oa":true,"landing_page_url":"https://doaj.org/article/9c0712a97e56447fbecfa55e87829d77","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 18, Iss 4, p e1009879 (2022)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9009699","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9009699","pdf_url":null,"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"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1009879","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009879","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009879&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":[{"score":0.49000000953674316,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G7763902124","display_name":null,"funder_award_id":"17-CAPS-0006-01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4223908608.pdf","grobid_xml":"https://content.openalex.org/works/W4223908608.grobid-xml"},"referenced_works_count":62,"referenced_works":["https://openalex.org/W104645259","https://openalex.org/W138878435","https://openalex.org/W1570870791","https://openalex.org/W1884875365","https://openalex.org/W1909740415","https://openalex.org/W1972544340","https://openalex.org/W2011301426","https://openalex.org/W2092327679","https://openalex.org/W2130623599","https://openalex.org/W2131938193","https://openalex.org/W2141715793","https://openalex.org/W2143987776","https://openalex.org/W2167279371","https://openalex.org/W2397837821","https://openalex.org/W2548342201","https://openalex.org/W2559880634","https://openalex.org/W2584383026","https://openalex.org/W2591616290","https://openalex.org/W2604468722","https://openalex.org/W2758694956","https://openalex.org/W2788918892","https://openalex.org/W2894837499","https://openalex.org/W2895303488","https://openalex.org/W2900936384","https://openalex.org/W2901341089","https://openalex.org/W2919115771","https://openalex.org/W2940464472","https://openalex.org/W2946901414","https://openalex.org/W2953421783","https://openalex.org/W2956039025","https://openalex.org/W2959658253","https://openalex.org/W2961912654","https://openalex.org/W2962676885","https://openalex.org/W2963150697","https://openalex.org/W2964282006","https://openalex.org/W2964293073","https://openalex.org/W2999054038","https://openalex.org/W3015130545","https://openalex.org/W3021439391","https://openalex.org/W3035965352","https://openalex.org/W3039368862","https://openalex.org/W3040925369","https://openalex.org/W3045252664","https://openalex.org/W3046117255","https://openalex.org/W3084995528","https://openalex.org/W3089250090","https://openalex.org/W3089760472","https://openalex.org/W3092232537","https://openalex.org/W3093569261","https://openalex.org/W3095323785","https://openalex.org/W3098245246","https://openalex.org/W3099878876","https://openalex.org/W3105054740","https://openalex.org/W3111521801","https://openalex.org/W3131946519","https://openalex.org/W4233591477","https://openalex.org/W4244270174","https://openalex.org/W4247566079","https://openalex.org/W4294974894","https://openalex.org/W6605645989","https://openalex.org/W6776382145","https://openalex.org/W6967010625"],"related_works":["https://openalex.org/W3144569342","https://openalex.org/W2945274617","https://openalex.org/W2185902295","https://openalex.org/W2103507220","https://openalex.org/W2055202857","https://openalex.org/W2371519352","https://openalex.org/W4205800335","https://openalex.org/W2386644571","https://openalex.org/W2372421320","https://openalex.org/W2551987074"],"abstract_inverted_index":{"Segmenting":[0],"three-dimensional":[1],"(3D)":[2],"microscopy":[3,130],"images":[4,37],"is":[5,164],"essential":[6],"for":[7,48,93,148,171,200],"understanding":[8],"phenomena":[9],"like":[10],"morphogenesis,":[11],"cell":[12,95,201],"division,":[13],"cellular":[14,36,128],"growth,":[15],"and":[16,38,65,100,196,207],"genetic":[17],"expression":[18],"patterns.":[19],"Recently,":[20],"deep":[21],"learning":[22],"(DL)":[23],"pipelines":[24,183],"have":[25,184],"been":[26],"developed,":[27],"which":[28,154,192],"claim":[29],"to":[30,56,74,159,215],"provide":[31],"high":[32,205],"accuracy":[33],"segmentation":[34,50,133,149,156,175],"of":[35,45,67,88,105,126,141,174,187,190,213],"are":[39,193],"increasingly":[40],"considered":[41],"as":[42,61],"the":[43,46,62,89,139,181],"state":[44],"art":[47],"image":[49,143],"problems.":[51],"However,":[52],"it":[53,72],"remains":[54],"difficult":[55,73],"define":[57],"their":[58,77],"relative":[59],"performances":[60],"concurrent":[63],"diversity":[64],"lack":[66],"uniform":[68],"evaluation":[69,151],"strategies":[70],"makes":[71],"know":[75],"how":[76],"results":[78],"compare.":[79],"In":[80],"this":[81],"paper,":[82],"we":[83],"first":[84],"made":[85],"an":[86],"inventory":[87],"available":[90],"DL":[91,107,118,182],"methods":[92,119],"3D":[94,127,168,195],"segmentation.":[96],"We":[97],"next":[98],"implemented":[99],"quantitatively":[101],"compared":[102],"a":[103,110,123,167],"number":[104],"representative":[106],"pipelines,":[108],"alongside":[109],"highly":[111],"efficient":[112],"non-DL":[113],"method":[114,147],"named":[115],"MARS.":[116],"The":[117],"were":[120,135,197],"trained":[121],"on":[122],"common":[124],"dataset":[125],"confocal":[129],"images.":[131],"Their":[132],"accuracies":[134],"also":[136],"tested":[137],"in":[138,211],"presence":[140],"different":[142,185],"artifacts.":[144],"A":[145],"specific":[146],"quality":[150],"was":[152],"adopted,":[153],"isolates":[155],"errors":[157],"due":[158],"under-":[160],"or":[161],"oversegmentation.":[162],"This":[163],"complemented":[165],"with":[166],"visualization":[169],"strategy":[170],"interactive":[172],"exploration":[173],"quality.":[176],"Our":[177],"analysis":[178],"shows":[179],"that":[180],"levels":[186],"accuracy.":[188],"Two":[189],"them,":[191],"end-to-end":[194],"originally":[198],"designed":[199],"boundary":[202],"detection,":[203],"show":[204],"performance":[206],"offer":[208],"clear":[209],"advantages":[210],"terms":[212],"adaptability":[214],"new":[216],"data.":[217]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":14},{"year":2024,"cited_by_count":26},{"year":2023,"cited_by_count":8},{"year":2022,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
