{"id":"https://openalex.org/W2615026636","doi":"https://doi.org/10.1186/s12859-019-2673-0","title":"FitEllipsoid: a fast supervised ellipsoid segmentation plugin","display_name":"FitEllipsoid: a fast supervised ellipsoid segmentation plugin","publication_year":2019,"publication_date":"2019-03-15","ids":{"openalex":"https://openalex.org/W2615026636","doi":"https://doi.org/10.1186/s12859-019-2673-0","mag":"2615026636","pmid":"https://pubmed.ncbi.nlm.nih.gov/30876406"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-019-2673-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2673-0","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2673-0","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2673-0","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5007096593","display_name":"Bastien Kovac","orcid":null},"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/I17866349","display_name":"Universit\u00e9 F\u00e9d\u00e9rale de Toulouse Midi-Pyr\u00e9n\u00e9es","ror":"https://ror.org/004raaa70","country_code":"FR","type":"education","lineage":["https://openalex.org/I17866349"]},{"id":"https://openalex.org/I4210118074","display_name":"Institut Technique de l'Aviculture","ror":"https://ror.org/01ph4hz96","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210118074"]},{"id":"https://openalex.org/I4210126285","display_name":"Institut des Technologies Avanc\u00e9es en sciences du Vivant","ror":"https://ror.org/028pmgd25","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I134560555","https://openalex.org/I4210126285","https://openalex.org/I4210133643","https://openalex.org/I4210139971"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Bastien Kovac","raw_affiliation_strings":["ITAV, CNRS, Universit\u00e9 de Toulouse, 1 Pl. Pierre Potier, Toulouse, 31106, France","ITAV - Institut des Technologies Avanc\u00e9es en sciences du Vivant (Centre Pierre Potier, \r\n1, Place Pierre Potier \r\nOncopole entr\u00e9e B\r\nBP 50624\r\n31106 Toulouse - France)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"ITAV, CNRS, Universit\u00e9 de Toulouse, 1 Pl. Pierre Potier, Toulouse, 31106, France","institution_ids":["https://openalex.org/I17866349","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"ITAV - Institut des Technologies Avanc\u00e9es en sciences du Vivant (Centre Pierre Potier, \r\n1, Place Pierre Potier \r\nOncopole entr\u00e9e B\r\nBP 50624\r\n31106 Toulouse - France)","institution_ids":["https://openalex.org/I4210126285","https://openalex.org/I4210118074"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021214132","display_name":"J\u00e9r\u00f4me Fehrenbach","orcid":"https://orcid.org/0000-0001-5267-7273"},"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/I134560555","display_name":"Universit\u00e9 Toulouse III - Paul Sabatier","ror":"https://ror.org/02v6kpv12","country_code":"FR","type":"education","lineage":["https://openalex.org/I134560555"]},{"id":"https://openalex.org/I17866349","display_name":"Universit\u00e9 F\u00e9d\u00e9rale de Toulouse Midi-Pyr\u00e9n\u00e9es","ror":"https://ror.org/004raaa70","country_code":"FR","type":"education","lineage":["https://openalex.org/I17866349"]},{"id":"https://openalex.org/I196454796","display_name":"Institut National des Sciences Appliqu\u00e9es de Toulouse","ror":"https://ror.org/01h8pf755","country_code":"FR","type":"education","lineage":["https://openalex.org/I196454796"]},{"id":"https://openalex.org/I4210098964","display_name":"Toulouse Mathematics Institute","ror":null,"country_code":"FR","type":null,"lineage":["https://openalex.org/I4210098964"]},{"id":"https://openalex.org/I4210118074","display_name":"Institut Technique de l'Aviculture","ror":"https://ror.org/01ph4hz96","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210118074"]},{"id":"https://openalex.org/I4210126285","display_name":"Institut des Technologies Avanc\u00e9es en sciences du Vivant","ror":"https://ror.org/028pmgd25","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I134560555","https://openalex.org/I4210126285","https://openalex.org/I4210133643","https://openalex.org/I4210139971"]},{"id":"https://openalex.org/I84500057","display_name":"Institut de Math\u00e9matiques de Toulouse","ror":"https://ror.org/014vp6c30","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I196454796","https://openalex.org/I4210092408","https://openalex.org/I4210126056","https://openalex.org/I4210141950","https://openalex.org/I4210152422","https://openalex.org/I4405258862","https://openalex.org/I84500057"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"J\u00e9r\u00f4me Fehrenbach","raw_affiliation_strings":["IMT, CNRS, Universit\u00e9 de Toulouse, 118, route de Narbonne, Toulouse, 31400, France. jerome.fehrenbach@math.univ-toulouse.fr","ITAV, CNRS, Universit\u00e9 de Toulouse, 1 Pl. Pierre Potier, Toulouse, 31106, France. jerome.fehrenbach@math.univ-toulouse.fr","IMT - Institut de Math\u00e9matiques de Toulouse UMR5219 (UPS IMT, F-31062 Toulouse Cedex 9, \r\nINSA Toulouse, F-31077 Toulouse,\r\nFrance UT1, F-31042 Toulouse, \r\nFrance UT2, F-31058 Toulouse,\r\n\r\nT\u00e9l\u00e9phone : 05.61.55.67.90 - France)","ITAV - Institut des Technologies Avanc\u00e9es en sciences du Vivant (Centre Pierre Potier, \r\n1, Place Pierre Potier \r\nOncopole entr\u00e9e B\r\nBP 50624\r\n31106 Toulouse - France)"],"raw_orcid":"https://orcid.org/0000-0001-5267-7273","affiliations":[{"raw_affiliation_string":"IMT, CNRS, Universit\u00e9 de Toulouse, 118, route de Narbonne, Toulouse, 31400, France. jerome.fehrenbach@math.univ-toulouse.fr","institution_ids":["https://openalex.org/I4210098964","https://openalex.org/I17866349","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"ITAV, CNRS, Universit\u00e9 de Toulouse, 1 Pl. Pierre Potier, Toulouse, 31106, France. jerome.fehrenbach@math.univ-toulouse.fr","institution_ids":["https://openalex.org/I17866349","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"IMT - Institut de Math\u00e9matiques de Toulouse UMR5219 (UPS IMT, F-31062 Toulouse Cedex 9, \r\nINSA Toulouse, F-31077 Toulouse,\r\nFrance UT1, F-31042 Toulouse, \r\nFrance UT2, F-31058 Toulouse,\r\n\r\nT\u00e9l\u00e9phone : 05.61.55.67.90 - France)","institution_ids":["https://openalex.org/I84500057","https://openalex.org/I134560555","https://openalex.org/I196454796"]},{"raw_affiliation_string":"ITAV - Institut des Technologies Avanc\u00e9es en sciences du Vivant (Centre Pierre Potier, \r\n1, Place Pierre Potier \r\nOncopole entr\u00e9e B\r\nBP 50624\r\n31106 Toulouse - France)","institution_ids":["https://openalex.org/I4210126285","https://openalex.org/I4210118074"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087597680","display_name":"Ludivine Guillaume","orcid":null},"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/I17866349","display_name":"Universit\u00e9 F\u00e9d\u00e9rale de Toulouse Midi-Pyr\u00e9n\u00e9es","ror":"https://ror.org/004raaa70","country_code":"FR","type":"education","lineage":["https://openalex.org/I17866349"]},{"id":"https://openalex.org/I4210118074","display_name":"Institut Technique de l'Aviculture","ror":"https://ror.org/01ph4hz96","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210118074"]},{"id":"https://openalex.org/I4210126285","display_name":"Institut des Technologies Avanc\u00e9es en sciences du Vivant","ror":"https://ror.org/028pmgd25","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I134560555","https://openalex.org/I4210126285","https://openalex.org/I4210133643","https://openalex.org/I4210139971"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Ludivine Guillaume","raw_affiliation_strings":["ITAV, CNRS, Universit\u00e9 de Toulouse, 1 Pl. Pierre Potier, Toulouse, 31106, France","ITAV - Institut des Technologies Avanc\u00e9es en sciences du Vivant (Centre Pierre Potier, \r\n1, Place Pierre Potier \r\nOncopole entr\u00e9e B\r\nBP 50624\r\n31106 Toulouse - France)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"ITAV, CNRS, Universit\u00e9 de Toulouse, 1 Pl. Pierre Potier, Toulouse, 31106, France","institution_ids":["https://openalex.org/I17866349","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"ITAV - Institut des Technologies Avanc\u00e9es en sciences du Vivant (Centre Pierre Potier, \r\n1, Place Pierre Potier \r\nOncopole entr\u00e9e B\r\nBP 50624\r\n31106 Toulouse - France)","institution_ids":["https://openalex.org/I4210126285","https://openalex.org/I4210118074"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101934388","display_name":"Pierre Weiss","orcid":"https://orcid.org/0000-0001-9083-214X"},"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/I134560555","display_name":"Universit\u00e9 Toulouse III - Paul Sabatier","ror":"https://ror.org/02v6kpv12","country_code":"FR","type":"education","lineage":["https://openalex.org/I134560555"]},{"id":"https://openalex.org/I17866349","display_name":"Universit\u00e9 F\u00e9d\u00e9rale de Toulouse Midi-Pyr\u00e9n\u00e9es","ror":"https://ror.org/004raaa70","country_code":"FR","type":"education","lineage":["https://openalex.org/I17866349"]},{"id":"https://openalex.org/I196454796","display_name":"Institut National des Sciences Appliqu\u00e9es de Toulouse","ror":"https://ror.org/01h8pf755","country_code":"FR","type":"education","lineage":["https://openalex.org/I196454796"]},{"id":"https://openalex.org/I4210098964","display_name":"Toulouse Mathematics Institute","ror":null,"country_code":"FR","type":null,"lineage":["https://openalex.org/I4210098964"]},{"id":"https://openalex.org/I4210118074","display_name":"Institut Technique de l'Aviculture","ror":"https://ror.org/01ph4hz96","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210118074"]},{"id":"https://openalex.org/I4210126285","display_name":"Institut des Technologies Avanc\u00e9es en sciences du Vivant","ror":"https://ror.org/028pmgd25","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I134560555","https://openalex.org/I4210126285","https://openalex.org/I4210133643","https://openalex.org/I4210139971"]},{"id":"https://openalex.org/I84500057","display_name":"Institut de Math\u00e9matiques de Toulouse","ror":"https://ror.org/014vp6c30","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I196454796","https://openalex.org/I4210092408","https://openalex.org/I4210126056","https://openalex.org/I4210141950","https://openalex.org/I4210152422","https://openalex.org/I4405258862","https://openalex.org/I84500057"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Pierre Weiss","raw_affiliation_strings":["IMT, CNRS, Universit\u00e9 de Toulouse, 118, route de Narbonne, Toulouse, 31400, France","ITAV, CNRS, Universit\u00e9 de Toulouse, 1 Pl. Pierre Potier, Toulouse, 31106, France","IMT - Institut de Math\u00e9matiques de Toulouse UMR5219 (UPS IMT, F-31062 Toulouse Cedex 9, \r\nINSA Toulouse, F-31077 Toulouse,\r\nFrance UT1, F-31042 Toulouse, \r\nFrance UT2, F-31058 Toulouse,\r\n\r\nT\u00e9l\u00e9phone : 05.61.55.67.90 - France)","ITAV - Institut des Technologies Avanc\u00e9es en sciences du Vivant (Centre Pierre Potier, \r\n1, Place Pierre Potier \r\nOncopole entr\u00e9e B\r\nBP 50624\r\n31106 Toulouse - France)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"IMT, CNRS, Universit\u00e9 de Toulouse, 118, route de Narbonne, Toulouse, 31400, France","institution_ids":["https://openalex.org/I4210098964","https://openalex.org/I17866349","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"ITAV, CNRS, Universit\u00e9 de Toulouse, 1 Pl. Pierre Potier, Toulouse, 31106, France","institution_ids":["https://openalex.org/I17866349","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"IMT - Institut de Math\u00e9matiques de Toulouse UMR5219 (UPS IMT, F-31062 Toulouse Cedex 9, \r\nINSA Toulouse, F-31077 Toulouse,\r\nFrance UT1, F-31042 Toulouse, \r\nFrance UT2, F-31058 Toulouse,\r\n\r\nT\u00e9l\u00e9phone : 05.61.55.67.90 - France)","institution_ids":["https://openalex.org/I84500057","https://openalex.org/I134560555","https://openalex.org/I196454796"]},{"raw_affiliation_string":"ITAV - Institut des Technologies Avanc\u00e9es en sciences du Vivant (Centre Pierre Potier, \r\n1, Place Pierre Potier \r\nOncopole entr\u00e9e B\r\nBP 50624\r\n31106 Toulouse - France)","institution_ids":["https://openalex.org/I4210126285","https://openalex.org/I4210118074"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5021214132"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I134560555","https://openalex.org/I17866349","https://openalex.org/I196454796","https://openalex.org/I4210098964","https://openalex.org/I4210118074","https://openalex.org/I4210126285","https://openalex.org/I84500057"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.5079,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.67847583,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"20","issue":"1","first_page":"142","last_page":"142"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10052","display_name":"Medical Image Segmentation Techniques","score":0.30559998750686646,"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"}},"topics":[{"id":"https://openalex.org/T10052","display_name":"Medical Image Segmentation Techniques","score":0.30559998750686646,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.23180000483989716,"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/T12549","display_name":"Image and Object Detection Techniques","score":0.19470000267028809,"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/computer-science","display_name":"Computer science","score":0.7882581949234009},{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.6929419636726379},{"id":"https://openalex.org/keywords/ellipsoid","display_name":"Ellipsoid","score":0.6850169897079468},{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.6698325872421265},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5243827700614929},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5218966603279114},{"id":"https://openalex.org/keywords/affine-transformation","display_name":"Affine transformation","score":0.47248807549476624},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.46644067764282227},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.4432866871356964},{"id":"https://openalex.org/keywords/boundary","display_name":"Boundary (topology)","score":0.42497843503952026},{"id":"https://openalex.org/keywords/matlab","display_name":"MATLAB","score":0.4220293164253235},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.37949156761169434},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.12192761898040771},{"id":"https://openalex.org/keywords/geometry","display_name":"Geometry","score":0.0880838930606842}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7882581949234009},{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.6929419636726379},{"id":"https://openalex.org/C57489055","wikidata":"https://www.wikidata.org/wiki/Q190046","display_name":"Ellipsoid","level":2,"score":0.6850169897079468},{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.6698325872421265},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5243827700614929},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5218966603279114},{"id":"https://openalex.org/C92757383","wikidata":"https://www.wikidata.org/wiki/Q382497","display_name":"Affine transformation","level":2,"score":0.47248807549476624},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.46644067764282227},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.4432866871356964},{"id":"https://openalex.org/C62354387","wikidata":"https://www.wikidata.org/wiki/Q875399","display_name":"Boundary (topology)","level":2,"score":0.42497843503952026},{"id":"https://openalex.org/C2780365114","wikidata":"https://www.wikidata.org/wiki/Q169478","display_name":"MATLAB","level":2,"score":0.4220293164253235},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.37949156761169434},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.12192761898040771},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0880838930606842},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","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/C1276947","wikidata":"https://www.wikidata.org/wiki/Q333","display_name":"Astronomy","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"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":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002467","descriptor_name":"Cell Nucleus","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002467","descriptor_name":"Cell Nucleus","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D014407","descriptor_name":"Tumor Cells, Cultured","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014407","descriptor_name":"Tumor Cells, Cultured","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014407","descriptor_name":"Tumor Cells, Cultured","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018874","descriptor_name":"Spheroids, Cellular","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D018874","descriptor_name":"Spheroids, Cellular","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D018874","descriptor_name":"Spheroids, Cellular","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D018874","descriptor_name":"Spheroids, Cellular","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D018874","descriptor_name":"Spheroids, Cellular","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D018874","descriptor_name":"Spheroids, Cellular","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D019086","descriptor_name":"Bridged Bicyclo Compounds, Heterocyclic","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D019086","descriptor_name":"Bridged Bicyclo Compounds, Heterocyclic","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D019086","descriptor_name":"Bridged Bicyclo Compounds, Heterocyclic","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053778","descriptor_name":"Thiazolidines","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D053778","descriptor_name":"Thiazolidines","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D053778","descriptor_name":"Thiazolidines","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/s12859-019-2673-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2673-0","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2673-0","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30876406","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30876406","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:HAL:hal-01520337v1","is_oa":true,"landing_page_url":"https://hal.archives-ouvertes.fr/hal-01520337","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://hal.archives-ouvertes.fr/hal-01520337","raw_type":"info:eu-repo/semantics/preprint"},{"id":"pmh:oai:HAL:hal-01520337v2","is_oa":true,"landing_page_url":"https://hal.science/hal-01520337","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, 2019, 20 (1), &#x27E8;10.1186/s12859-019-2673-0&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:doaj.org/article:9328a5fc47cc4c768c7cbc1df9365ac2","is_oa":false,"landing_page_url":"https://doaj.org/article/9328a5fc47cc4c768c7cbc1df9365ac2","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 20, Iss 1, Pp 1-8 (2019)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5416830","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6419800","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-019-2673-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2673-0","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2673-0","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2615026636.pdf","grobid_xml":"https://content.openalex.org/works/W2615026636.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W71277338","https://openalex.org/W105225125","https://openalex.org/W116922145","https://openalex.org/W1481507124","https://openalex.org/W1788938005","https://openalex.org/W1971867870","https://openalex.org/W1995583822","https://openalex.org/W1995899361","https://openalex.org/W2002569088","https://openalex.org/W2013247386","https://openalex.org/W2019569173","https://openalex.org/W2037947871","https://openalex.org/W2038967717","https://openalex.org/W2054585288","https://openalex.org/W2075280003","https://openalex.org/W2080188198","https://openalex.org/W2105916176","https://openalex.org/W2108637262","https://openalex.org/W2111209861","https://openalex.org/W2132401137","https://openalex.org/W2132403257","https://openalex.org/W2139998576","https://openalex.org/W2140427427","https://openalex.org/W2150452754","https://openalex.org/W2153178980","https://openalex.org/W2162245111","https://openalex.org/W2171620654","https://openalex.org/W2206250267","https://openalex.org/W2294282334","https://openalex.org/W2326260150","https://openalex.org/W2346890885","https://openalex.org/W2400161107","https://openalex.org/W3105772645","https://openalex.org/W3146198738","https://openalex.org/W4243313910","https://openalex.org/W6679946474"],"related_works":["https://openalex.org/W2981957539","https://openalex.org/W4287378204","https://openalex.org/W47352601","https://openalex.org/W2545422590","https://openalex.org/W4240705470","https://openalex.org/W2945311252","https://openalex.org/W631546281","https://openalex.org/W2266220644","https://openalex.org/W88292646","https://openalex.org/W4292261409"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,31,88,109,132,219],"segmentation":[2,56,94,212],"of":[3,39,69,81,92,95,111,141,152,161,193],"a":[4,8,36,54,66,75,101,106,138,167,185,197,239],"3D":[5,63,142],"image":[6,232],"is":[7,22,29,114,134,221],"task":[9],"that":[10,58,158],"can":[11,97,163],"hardly":[12],"be":[13,98,164,202,228],"automatized":[14],"in":[15,46,127,144,196],"certain":[16],"situations,":[17],"notably":[18],"when":[19],"the":[20,25,44,71,79,82,93,112,150,231],"contrast":[21],"low":[23],"and/or":[24],"distance":[26],"between":[27],"elements":[28],"small.":[30],"existing":[32],"supervised":[33,55,198],"methods":[34],"require":[35],"high":[37,168],"amount":[38,68],"user":[40,72],"input,":[41],"e.g.":[42],"delineating":[43],"domain":[45],"all":[47],"planar":[48],"sections.":[49],"RESULTS:":[50],"We":[51,183,236],"present":[52],"FitEllipsoid,":[53],"code":[57,113],"allows":[59],"fitting":[60],"ellipsoids":[61,96,123],"to":[62,121,124,148,190,205,210,215,227],"images":[64],"with":[65,166,173,243],"minimal":[67],"interactions:":[70],"clicks":[73],"on":[74,78,84,116],"few":[76],"points":[77],"boundary":[80],"object":[83],"3":[85],"orthogonal":[86],"views.":[87],"quantitative":[89],"geometric":[90],"results":[91],"exported":[99],"as":[100,105,223],"csv":[102],"file":[103],"or":[104,209],"binary":[107],"image.":[108],"core":[110],"based":[115],"an":[117,128,224],"original":[118],"computational":[119],"approach":[120],"fit":[122],"point":[125],"clouds":[126],"affine":[129],"invariant":[130],"manner.":[131,199],"plugin":[133,226],"validated":[135],"by":[136,178],"segmenting":[137],"large":[139,159],"number":[140],"nuclei":[143,162],"tumor":[145],"spheroids,":[146],"allowing":[147,189],"analyze":[149,206],"distribution":[151],"their":[153],"shapes.":[154],"User":[155],"experiments":[156],"show":[157],"collections":[160],"segmented":[165],"accuracy":[169],"much":[170],"faster":[171],"than":[172],"more":[174],"traditional":[175],"2D":[176],"slice":[177,179],"delineation":[180],"approaches.":[181],"CONCLUSIONS:":[182],"designed":[184],"user-friendly":[186],"software":[187,234],"FitEllipsoid":[188],"segment":[191],"hundreds":[192],"ellipsoidal":[194],"shapes":[195],"It":[200],"may":[201],"used":[203,229],"directly":[204],"biological":[207],"samples,":[208],"generate":[211],"databases":[213],"necessary":[214],"train":[216],"learning":[217],"algorithms.":[218],"algorithm":[220],"distributed":[222],"open-source":[225],"within":[230],"analysis":[233],"Icy.":[235],"also":[237],"provide":[238],"Matlab":[240],"toolbox":[241],"available":[242],"GitHub.":[244]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":2},{"year":2018,"cited_by_count":1}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
