{"id":"https://openalex.org/W2147728748","doi":"https://doi.org/10.1093/bioinformatics/btu774","title":"<i>NucleusJ</i>: an ImageJ plugin for quantifying 3D images of interphase nuclei","display_name":"<i>NucleusJ</i>: an ImageJ plugin for quantifying 3D images of interphase nuclei","publication_year":2014,"publication_date":"2014-11-20","ids":{"openalex":"https://openalex.org/W2147728748","doi":"https://doi.org/10.1093/bioinformatics/btu774","mag":"2147728748","pmid":"https://pubmed.ncbi.nlm.nih.gov/25416749"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu774","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu774","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/7/1144/50306130/bioinformatics_31_7_1144.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/31/7/1144/50306130/bioinformatics_31_7_1144.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5045027489","display_name":"Axel Poulet","orcid":"https://orcid.org/0000-0002-3415-8960"},"institutions":[{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I198244214","display_name":"Universit\u00e9 Clermont Auvergne","ror":"https://ror.org/01a8ajp46","country_code":"FR","type":"education","lineage":["https://openalex.org/I198244214"]},{"id":"https://openalex.org/I22248866","display_name":"AgroParisTech","ror":"https://ror.org/02kbmgc12","country_code":"FR","type":"education","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"id":"https://openalex.org/I4210104197","display_name":"Food Process Engineering and Microbiology","ror":"https://ror.org/01ky8b097","country_code":"FR","type":"facility","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210088668","https://openalex.org/I4210104197","https://openalex.org/I4210136388","https://openalex.org/I4210142426"]},{"id":"https://openalex.org/I4210143836","display_name":"Clermont Universit\u00e9","ror":"https://ror.org/03yf5zr20","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210143836"]},{"id":"https://openalex.org/I4210163188","display_name":"Institut G\u00e9n\u00e9tique, Reproduction et D\u00e9veloppement","ror":"https://ror.org/052d1cv78","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I198244214","https://openalex.org/I4210096427","https://openalex.org/I4210163188"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Axel Poulet","raw_affiliation_strings":["1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","G\u00e9n\u00e9tique, Reproduction et D\u00e9veloppement"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I22248866","https://openalex.org/I39804081","https://openalex.org/I4210104197","https://openalex.org/I4210143836"]},{"raw_affiliation_string":"G\u00e9n\u00e9tique, Reproduction et D\u00e9veloppement","institution_ids":["https://openalex.org/I198244214","https://openalex.org/I4210163188"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021284069","display_name":"Ignacio Arganda\u2010Carreras","orcid":"https://orcid.org/0000-0003-0229-5722"},"institutions":[{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I22248866","display_name":"AgroParisTech","ror":"https://ror.org/02kbmgc12","country_code":"FR","type":"education","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"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/I4210104197","display_name":"Food Process Engineering and Microbiology","ror":"https://ror.org/01ky8b097","country_code":"FR","type":"facility","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210088668","https://openalex.org/I4210104197","https://openalex.org/I4210136388","https://openalex.org/I4210142426"]},{"id":"https://openalex.org/I4210107368","display_name":"Institut Jean-Pierre Bourgin","ror":"https://ror.org/01wqd6v19","country_code":"FR","type":"facility","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210088668","https://openalex.org/I4210107368"]},{"id":"https://openalex.org/I4210143836","display_name":"Clermont Universit\u00e9","ror":"https://ror.org/03yf5zr20","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210143836"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Ignacio Arganda-Carreras","raw_affiliation_strings":["1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","Institut Jean-Pierre Bourgin"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I22248866","https://openalex.org/I39804081","https://openalex.org/I4210104197","https://openalex.org/I4210143836"]},{"raw_affiliation_string":"Institut Jean-Pierre Bourgin","institution_ids":["https://openalex.org/I4210088668","https://openalex.org/I4210107368"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081216944","display_name":"David Legland","orcid":"https://orcid.org/0000-0001-7456-4632"},"institutions":[{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I22248866","display_name":"AgroParisTech","ror":"https://ror.org/02kbmgc12","country_code":"FR","type":"education","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"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/I4210104197","display_name":"Food Process Engineering and Microbiology","ror":"https://ror.org/01ky8b097","country_code":"FR","type":"facility","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210088668","https://openalex.org/I4210104197","https://openalex.org/I4210136388","https://openalex.org/I4210142426"]},{"id":"https://openalex.org/I4210107368","display_name":"Institut Jean-Pierre Bourgin","ror":"https://ror.org/01wqd6v19","country_code":"FR","type":"facility","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210088668","https://openalex.org/I4210107368"]},{"id":"https://openalex.org/I4210143836","display_name":"Clermont Universit\u00e9","ror":"https://ror.org/03yf5zr20","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210143836"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"David Legland","raw_affiliation_strings":["1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","Institut Jean-Pierre Bourgin"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I22248866","https://openalex.org/I39804081","https://openalex.org/I4210104197","https://openalex.org/I4210143836"]},{"raw_affiliation_string":"Institut Jean-Pierre Bourgin","institution_ids":["https://openalex.org/I4210088668","https://openalex.org/I4210107368"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020455495","display_name":"Aline V. Probst","orcid":"https://orcid.org/0000-0001-9534-8058"},"institutions":[{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I198244214","display_name":"Universit\u00e9 Clermont Auvergne","ror":"https://ror.org/01a8ajp46","country_code":"FR","type":"education","lineage":["https://openalex.org/I198244214"]},{"id":"https://openalex.org/I22248866","display_name":"AgroParisTech","ror":"https://ror.org/02kbmgc12","country_code":"FR","type":"education","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"id":"https://openalex.org/I4210104197","display_name":"Food Process Engineering and Microbiology","ror":"https://ror.org/01ky8b097","country_code":"FR","type":"facility","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210088668","https://openalex.org/I4210104197","https://openalex.org/I4210136388","https://openalex.org/I4210142426"]},{"id":"https://openalex.org/I4210143836","display_name":"Clermont Universit\u00e9","ror":"https://ror.org/03yf5zr20","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210143836"]},{"id":"https://openalex.org/I4210163188","display_name":"Institut G\u00e9n\u00e9tique, Reproduction et D\u00e9veloppement","ror":"https://ror.org/052d1cv78","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I198244214","https://openalex.org/I4210096427","https://openalex.org/I4210163188"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Aline V. Probst","raw_affiliation_strings":["1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","G\u00e9n\u00e9tique, Reproduction et D\u00e9veloppement"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I22248866","https://openalex.org/I39804081","https://openalex.org/I4210104197","https://openalex.org/I4210143836"]},{"raw_affiliation_string":"G\u00e9n\u00e9tique, Reproduction et D\u00e9veloppement","institution_ids":["https://openalex.org/I198244214","https://openalex.org/I4210163188"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082583818","display_name":"Philippe Andrey","orcid":"https://orcid.org/0000-0001-5932-6863"},"institutions":[{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I22248866","display_name":"AgroParisTech","ror":"https://ror.org/02kbmgc12","country_code":"FR","type":"education","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"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/I4210104197","display_name":"Food Process Engineering and Microbiology","ror":"https://ror.org/01ky8b097","country_code":"FR","type":"facility","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210088668","https://openalex.org/I4210104197","https://openalex.org/I4210136388","https://openalex.org/I4210142426"]},{"id":"https://openalex.org/I4210107368","display_name":"Institut Jean-Pierre Bourgin","ror":"https://ror.org/01wqd6v19","country_code":"FR","type":"facility","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210088668","https://openalex.org/I4210107368"]},{"id":"https://openalex.org/I4210143836","display_name":"Clermont Universit\u00e9","ror":"https://ror.org/03yf5zr20","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210143836"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Philippe Andrey","raw_affiliation_strings":["1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","Institut Jean-Pierre Bourgin"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I22248866","https://openalex.org/I39804081","https://openalex.org/I4210104197","https://openalex.org/I4210143836"]},{"raw_affiliation_string":"Institut Jean-Pierre Bourgin","institution_ids":["https://openalex.org/I4210088668","https://openalex.org/I4210107368"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5042995991","display_name":"Christophe Tatout","orcid":"https://orcid.org/0000-0001-5215-2338"},"institutions":[{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I198244214","display_name":"Universit\u00e9 Clermont Auvergne","ror":"https://ror.org/01a8ajp46","country_code":"FR","type":"education","lineage":["https://openalex.org/I198244214"]},{"id":"https://openalex.org/I22248866","display_name":"AgroParisTech","ror":"https://ror.org/02kbmgc12","country_code":"FR","type":"education","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"id":"https://openalex.org/I4210104197","display_name":"Food Process Engineering and Microbiology","ror":"https://ror.org/01ky8b097","country_code":"FR","type":"facility","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210088668","https://openalex.org/I4210104197","https://openalex.org/I4210136388","https://openalex.org/I4210142426"]},{"id":"https://openalex.org/I4210143836","display_name":"Clermont Universit\u00e9","ror":"https://ror.org/03yf5zr20","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210143836"]},{"id":"https://openalex.org/I4210163188","display_name":"Institut G\u00e9n\u00e9tique, Reproduction et D\u00e9veloppement","ror":"https://ror.org/052d1cv78","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I198244214","https://openalex.org/I4210096427","https://openalex.org/I4210163188"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Christophe Tatout","raw_affiliation_strings":["1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","G\u00e9n\u00e9tique, Reproduction et D\u00e9veloppement"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 UMR CNRS 6293 INSERM U 1103, GRED, Clermont Universit\u00e9, Aubi\u00e8re, France, 2UMR INRA-AgroParisTech 1318 ERL CNRS 3559, IJPB, Versailles, France, 3UMR INRA-AgroParisTech 782, Food Process Engineering and Microbiology, Thiverval-Grignon, France and 4Sorbonne Universit\u00e9s, UPMC Univ Paris 06 UFR 927, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I22248866","https://openalex.org/I39804081","https://openalex.org/I4210104197","https://openalex.org/I4210143836"]},{"raw_affiliation_string":"G\u00e9n\u00e9tique, Reproduction et D\u00e9veloppement","institution_ids":["https://openalex.org/I198244214","https://openalex.org/I4210163188"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5042995991","https://openalex.org/A5082583818"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I198244214","https://openalex.org/I22248866","https://openalex.org/I39804081","https://openalex.org/I4210088668","https://openalex.org/I4210104197","https://openalex.org/I4210107368","https://openalex.org/I4210143836","https://openalex.org/I4210163188"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.6919,"has_fulltext":true,"cited_by_count":59,"citation_normalized_percentile":{"value":0.84182998,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"31","issue":"7","first_page":"1144","last_page":"1146"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11841","display_name":"Nuclear Structure and Function","score":0.7106000185012817,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11841","display_name":"Nuclear Structure and Function","score":0.7106000185012817,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.19300000369548798,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":0.022199999541044235,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.735600471496582},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6842184662818909},{"id":"https://openalex.org/keywords/thresholding","display_name":"Thresholding","score":0.6749863624572754},{"id":"https://openalex.org/keywords/nucleus","display_name":"Nucleus","score":0.4838637113571167},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.4567064940929413},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4390564560890198},{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.43574395775794983},{"id":"https://openalex.org/keywords/sphericity","display_name":"Sphericity","score":0.41449007391929626},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.381620317697525},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.34408003091812134},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.23068493604660034},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.22689086198806763},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2059367597103119},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.08527359366416931}],"concepts":[{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.735600471496582},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6842184662818909},{"id":"https://openalex.org/C191178318","wikidata":"https://www.wikidata.org/wiki/Q2256906","display_name":"Thresholding","level":3,"score":0.6749863624572754},{"id":"https://openalex.org/C2780723820","wikidata":"https://www.wikidata.org/wiki/Q1934178","display_name":"Nucleus","level":2,"score":0.4838637113571167},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.4567064940929413},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4390564560890198},{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.43574395775794983},{"id":"https://openalex.org/C173913448","wikidata":"https://www.wikidata.org/wiki/Q1375687","display_name":"Sphericity","level":2,"score":0.41449007391929626},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.381620317697525},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.34408003091812134},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.23068493604660034},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.22689086198806763},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2059367597103119},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.08527359366416931},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.0},{"id":"https://openalex.org/C1276947","wikidata":"https://www.wikidata.org/wiki/Q333","display_name":"Astronomy","level":1,"score":0.0},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002467","descriptor_name":"Cell Nucleus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002467","descriptor_name":"Cell Nucleus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002467","descriptor_name":"Cell Nucleus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":"D007399","descriptor_name":"Interphase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007399","descriptor_name":"Interphase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007399","descriptor_name":"Interphase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btu774","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu774","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/7/1144/50306130/bioinformatics_31_7_1144.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:25416749","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25416749","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:HAL:hal-01920000v1","is_oa":false,"landing_page_url":"https://uca.hal.science/hal-01920000","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2015, 31 (7), pp.1144 - 1146. &#x27E8;10.1093/bioinformatics/btu774&#x27E9;","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu774","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu774","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/7/1144/50306130/bioinformatics_31_7_1144.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3038135699","display_name":null,"funder_award_id":"009-01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G3333441650","display_name":null,"funder_award_id":"ANR-11 JSV2 009 01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G3560128276","display_name":"Stress-induced nucleosome dynamics in plants","funder_award_id":"ANR-12-ISV6-0001","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G5802621812","display_name":null,"funder_award_id":"ANR-11-INBS","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6338002351","display_name":"Transgen\u00e8se pour les Etudes Fonctionnelles sur les Organismes mod\u00e8les","funder_award_id":"ANR-11-INBS-0014","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6702880738","display_name":null,"funder_award_id":"ANR-12","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/W2147728748.pdf","grobid_xml":"https://content.openalex.org/works/W2147728748.grobid-xml"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W1978291928","https://openalex.org/W2017244879","https://openalex.org/W2030948026","https://openalex.org/W2116529502","https://openalex.org/W2124260943","https://openalex.org/W2133059825","https://openalex.org/W2142408776","https://openalex.org/W2156447791","https://openalex.org/W2167723066"],"related_works":["https://openalex.org/W2096043834","https://openalex.org/W3094508179","https://openalex.org/W2027005891","https://openalex.org/W4390193366","https://openalex.org/W1941822459","https://openalex.org/W2928518363","https://openalex.org/W2189228385","https://openalex.org/W1998835050","https://openalex.org/W2004670208","https://openalex.org/W1986531667"],"abstract_inverted_index":{"UNLABELLED:":[0],"NucleusJ":[1,66,114],"is":[2,28,90,110,115],"a":[3,50,57],"simple":[4],"and":[5,16,54,72,81],"user-friendly":[6],"ImageJ":[7],"plugin":[8],"dedicated":[9],"to":[10],"the":[11,25,32,47,61,85],"characterization":[12],"of":[13,38,74,98,108],"nuclear":[14,26,39,102],"morphology":[15],"chromatin":[17],"organization":[18],"in":[19],"3D.":[20],"Starting":[21],"from":[22],"image":[23],"stacks,":[24],"boundary":[27],"delimited":[29],"by":[30,45,55],"combining":[31],"Otsu":[33],"segmentation":[34],"method":[35],"with":[36,95,100],"optimization":[37],"sphericity.":[40],"Chromatin":[41],"domains":[42],"are":[43,123],"segmented":[44],"partitioning":[46],"nucleus":[48],"using":[49],"3D":[51],"watershed":[52],"algorithm":[53],"thresholding":[56],"contrast":[58],"measure":[59],"over":[60],"resulting":[62],"regions.":[63],"As":[64],"output,":[65],"quantifies":[67],"15":[68],"parameters":[69],"including":[70],"shape":[71],"size":[73],"nuclei":[75,99,109],"as":[76,78],"well":[77],"intra-nuclear":[79],"objects":[80],"their":[82],"position":[83],"within":[84],"nucleus.":[86],"A":[87],"step-by-step":[88],"documentation":[89],"available":[91,111,116,124],"for":[92],"self-training,":[93],"together":[94],"data":[96,122],"sets":[97],"different":[101],"organization.":[103],"AVAILABILITY":[104],"AND":[105],"IMPLEMENTATION:":[106],"Dataset":[107],"at":[112,117,125],"https://www.gred-clermont.fr/media/WorkDirectory.zip.":[113],"http://imagejdocu.tudor.lu/doku.php?id=plugin:stacks:nuclear_analysis_plugin:start.":[118],"SUPPLEMENTARY":[119],"INFORMATION:":[120],"Supplementary":[121],"Bioinformatics":[126],"online.":[127]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":11},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":8},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":2}],"updated_date":"2026-08-06T08:24:18.245995","created_date":"2016-06-24T00:00:00"}
