{"id":"https://openalex.org/W4384030758","doi":"https://doi.org/10.1186/s12859-023-05403-z","title":"VolumePeeler: a novel FIJI plugin for geometric tissue peeling to improve visualization and quantification of 3D image stacks","display_name":"VolumePeeler: a novel FIJI plugin for geometric tissue peeling to improve visualization and quantification of 3D image stacks","publication_year":2023,"publication_date":"2023-07-12","ids":{"openalex":"https://openalex.org/W4384030758","doi":"https://doi.org/10.1186/s12859-023-05403-z","pmid":"https://pubmed.ncbi.nlm.nih.gov/37438714"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-023-05403-z","is_oa":true,"landing_page_url":"http://dx.doi.org/10.1186/s12859-023-05403-z","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05403-z","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/s12859-023-05403-z","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5015878492","display_name":"Marilyn Gatica","orcid":"https://orcid.org/0000-0001-5783-8283"},"institutions":[{"id":"https://openalex.org/I4210146512","display_name":"Nottingham Biomedical Research Centre","ror":"https://ror.org/046cr9566","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1334287468","https://openalex.org/I4210146512"]},{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Marilyn Gatica","raw_affiliation_strings":["NIHR Nottingham Biomedical Research Centre, School of Medicine, University of Nottingham, Nottingham, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NIHR Nottingham Biomedical Research Centre, School of Medicine, University of Nottingham, Nottingham, UK","institution_ids":["https://openalex.org/I4210146512","https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076360581","display_name":"Carlos Navarro","orcid":"https://orcid.org/0000-0001-9140-9095"},"institutions":[{"id":"https://openalex.org/I69737025","display_name":"University of Chile","ror":"https://ror.org/047gc3g35","country_code":"CL","type":"education","lineage":["https://openalex.org/I69737025"]},{"id":"https://openalex.org/I4210134609","display_name":"Instituto de Neurociencia Biom\u00e9dica","ror":"https://ror.org/03vp7ry06","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210134609"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Carlos F. Navarro","raw_affiliation_strings":["Biomedical Neuroscience Institute, Santiago, Chile","Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedical Neuroscience Institute, Santiago, Chile","institution_ids":["https://openalex.org/I4210134609"]},{"raw_affiliation_string":"Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile","institution_ids":["https://openalex.org/I69737025"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014948536","display_name":"Alejandro Lavado","orcid":null},"institutions":[{"id":"https://openalex.org/I69737025","display_name":"University of Chile","ror":"https://ror.org/047gc3g35","country_code":"CL","type":"education","lineage":["https://openalex.org/I69737025"]},{"id":"https://openalex.org/I4210134609","display_name":"Instituto de Neurociencia Biom\u00e9dica","ror":"https://ror.org/03vp7ry06","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210134609"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Alejandro Lavado","raw_affiliation_strings":["Biomedical Neuroscience Institute, Santiago, Chile","Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedical Neuroscience Institute, Santiago, Chile","institution_ids":["https://openalex.org/I4210134609"]},{"raw_affiliation_string":"Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile","institution_ids":["https://openalex.org/I69737025"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057712325","display_name":"Germ\u00e1n Reig","orcid":"https://orcid.org/0000-0003-4152-7434"},"institutions":[{"id":"https://openalex.org/I4210086410","display_name":"Universidad Bernardo O'Higgins","ror":"https://ror.org/00x0xhn70","country_code":"CL","type":"education","lineage":["https://openalex.org/I4210086410"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"German Reig","raw_affiliation_strings":["Escuela de Tecnolog\u00eda M\u00e9dica and Centro Integrativo de Biolog\u00eda y Qu\u00edmica Aplicada, Universidad Bernardo O'Higgins, Santiago, Chile","Escuela de Tecnolog\u00eda M\u00e9dica and Centro Integrativo de Biolog\u00eda y Qu\u00edmica Aplicada, Universidad Bernardo O\u2019Higgins, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Escuela de Tecnolog\u00eda M\u00e9dica and Centro Integrativo de Biolog\u00eda y Qu\u00edmica Aplicada, Universidad Bernardo O'Higgins, Santiago, Chile","institution_ids":[]},{"raw_affiliation_string":"Escuela de Tecnolog\u00eda M\u00e9dica and Centro Integrativo de Biolog\u00eda y Qu\u00edmica Aplicada, Universidad Bernardo O\u2019Higgins, Santiago, Chile","institution_ids":["https://openalex.org/I4210086410"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033437381","display_name":"Eduardo Pulgar","orcid":"https://orcid.org/0000-0001-9569-062X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Eduardo Pulgar","raw_affiliation_strings":["CEDAI Aquaculture, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CEDAI Aquaculture, Santiago, Chile","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070960039","display_name":"Paula Llanos","orcid":"https://orcid.org/0000-0002-4388-4737"},"institutions":[{"id":"https://openalex.org/I21067949","display_name":"Adolfo Ib\u00e1\u00f1ez University","ror":"https://ror.org/0326knt82","country_code":"CL","type":"education","lineage":["https://openalex.org/I21067949"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Paula Llanos","raw_affiliation_strings":["Facultad de Ingenier\u00eda y Ciencias, Universidad Adolfo Ib\u00e1\u00f1ez, Vi\u00f1a del Mar, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Facultad de Ingenier\u00eda y Ciencias, Universidad Adolfo Ib\u00e1\u00f1ez, Vi\u00f1a del Mar, Chile","institution_ids":["https://openalex.org/I21067949"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036998818","display_name":"Steffen H\u00e4rtel","orcid":"https://orcid.org/0000-0002-8913-1757"},"institutions":[{"id":"https://openalex.org/I69737025","display_name":"University of Chile","ror":"https://ror.org/047gc3g35","country_code":"CL","type":"education","lineage":["https://openalex.org/I69737025"]},{"id":"https://openalex.org/I4210134609","display_name":"Instituto de Neurociencia Biom\u00e9dica","ror":"https://ror.org/03vp7ry06","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210134609"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Steffen H\u00e4rtel","raw_affiliation_strings":["Biomedical Neuroscience Institute, Santiago, Chile","Center for Medical Informatics and Telemedicine, Facultad de Medicina, Universidad de Chile, Santiago, Chile","Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedical Neuroscience Institute, Santiago, Chile","institution_ids":["https://openalex.org/I4210134609"]},{"raw_affiliation_string":"Center for Medical Informatics and Telemedicine, Facultad de Medicina, Universidad de Chile, Santiago, Chile","institution_ids":["https://openalex.org/I69737025"]},{"raw_affiliation_string":"Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile","institution_ids":["https://openalex.org/I69737025"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025350443","display_name":"Andrea Ravasio","orcid":"https://orcid.org/0000-0001-7835-5133"},"institutions":[{"id":"https://openalex.org/I162148367","display_name":"Pontificia Universidad Cat\u00f3lica de Chile","ror":"https://ror.org/04teye511","country_code":"CL","type":"education","lineage":["https://openalex.org/I162148367"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Andrea Ravasio","raw_affiliation_strings":["Institute for Biological and Medical Engineering, Schools of Engineering, Medicine and Biological Sciences, Pontificia Universidad Cat\u00f3lica de Chile, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Biological and Medical Engineering, Schools of Engineering, Medicine and Biological Sciences, Pontificia Universidad Cat\u00f3lica de Chile, Santiago, Chile","institution_ids":["https://openalex.org/I162148367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057599018","display_name":"Cristina Bertocchi","orcid":"https://orcid.org/0000-0003-0907-1318"},"institutions":[{"id":"https://openalex.org/I162148367","display_name":"Pontificia Universidad Cat\u00f3lica de Chile","ror":"https://ror.org/04teye511","country_code":"CL","type":"education","lineage":["https://openalex.org/I162148367"]},{"id":"https://openalex.org/I98285908","display_name":"Osaka University","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["CL","JP"],"is_corresponding":false,"raw_author_name":"Cristina Bertocchi","raw_affiliation_strings":["Graduate School of Engineering Science, Osaka University, Osaka, Japan","Laboratory for Molecular Mechanics of Cell Adhesion, Department of Physiology, Faculty of Biological Sciences, Pontificia Universidad Cat\u00f3lica de Chile, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate School of Engineering Science, Osaka University, Osaka, Japan","institution_ids":["https://openalex.org/I98285908"]},{"raw_affiliation_string":"Laboratory for Molecular Mechanics of Cell Adhesion, Department of Physiology, Faculty of Biological Sciences, Pontificia Universidad Cat\u00f3lica de Chile, Santiago, Chile","institution_ids":["https://openalex.org/I162148367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039484998","display_name":"Miguel L. Concha","orcid":"https://orcid.org/0000-0003-3353-9398"},"institutions":[{"id":"https://openalex.org/I69737025","display_name":"University of Chile","ror":"https://ror.org/047gc3g35","country_code":"CL","type":"education","lineage":["https://openalex.org/I69737025"]},{"id":"https://openalex.org/I4210149641","display_name":"Center for Climate and Resilience Research","ror":"https://ror.org/0508vn378","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210149641"]},{"id":"https://openalex.org/I4210134609","display_name":"Instituto de Neurociencia Biom\u00e9dica","ror":"https://ror.org/03vp7ry06","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210134609"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Miguel L. Concha","raw_affiliation_strings":["Biomedical Neuroscience Institute, Santiago, Chile","Center for Geroscience, Brain Health and Metabolism, Santiago, Chile","Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedical Neuroscience Institute, Santiago, Chile","institution_ids":["https://openalex.org/I4210134609"]},{"raw_affiliation_string":"Center for Geroscience, Brain Health and Metabolism, Santiago, Chile","institution_ids":["https://openalex.org/I4210149641"]},{"raw_affiliation_string":"Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile","institution_ids":["https://openalex.org/I69737025"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5031379378","display_name":"Mauricio Cerda","orcid":"https://orcid.org/0000-0003-3447-1815"},"institutions":[{"id":"https://openalex.org/I4210134609","display_name":"Instituto de Neurociencia Biom\u00e9dica","ror":"https://ror.org/03vp7ry06","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210134609"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Mauricio Cerda","raw_affiliation_strings":["Biomedical Neuroscience Institute, Santiago, Chile. Mauricio.Cerda@uchile.cl","Center for Geroscience, Brain Health and Metabolism, Santiago, Chile. Mauricio.Cerda@uchile.cl","Center for Medical Informatics and Telemedicine, Facultad de Medicina, Universidad de Chile, Santiago, Chile. Mauricio.Cerda@uchile.cl","Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile. Mauricio.Cerda@uchile.cl","Biomedical Neuroscience Institute, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedical Neuroscience Institute, Santiago, Chile. Mauricio.Cerda@uchile.cl","institution_ids":[]},{"raw_affiliation_string":"Center for Geroscience, Brain Health and Metabolism, Santiago, Chile. Mauricio.Cerda@uchile.cl","institution_ids":[]},{"raw_affiliation_string":"Center for Medical Informatics and Telemedicine, Facultad de Medicina, Universidad de Chile, Santiago, Chile. Mauricio.Cerda@uchile.cl","institution_ids":[]},{"raw_affiliation_string":"Integrative Biology Program, Institute of Biomedical Sciences, Facultad de Medicina, Universidad de Chile, Santiago, Chile. Mauricio.Cerda@uchile.cl","institution_ids":[]},{"raw_affiliation_string":"Biomedical Neuroscience Institute, Santiago, Chile","institution_ids":["https://openalex.org/I4210134609"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":11,"corresponding_author_ids":["https://openalex.org/A5015878492"],"corresponding_institution_ids":["https://openalex.org/I142263535","https://openalex.org/I4210146512"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.6878,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.80900173,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":98},"biblio":{"volume":"24","issue":"1","first_page":"283","last_page":"283"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.3154999911785126,"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/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.3154999911785126,"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/T11897","display_name":"Digital Holography and Microscopy","score":0.20579999685287476,"subfield":{"id":"https://openalex.org/subfields/3107","display_name":"Atomic and Molecular Physics, and Optics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.19740000367164612,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.8268620371818542},{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.772924542427063},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.692371666431427},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5458515286445618},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.47069430351257324},{"id":"https://openalex.org/keywords/microscopy","display_name":"Microscopy","score":0.4520844519138336},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4086270034313202},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.4021270275115967},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3576354384422302},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.262625515460968},{"id":"https://openalex.org/keywords/optics","display_name":"Optics","score":0.12063035368919373},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.11021190881729126}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.8268620371818542},{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.772924542427063},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.692371666431427},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5458515286445618},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.47069430351257324},{"id":"https://openalex.org/C147080431","wikidata":"https://www.wikidata.org/wiki/Q1074953","display_name":"Microscopy","level":2,"score":0.4520844519138336},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4086270034313202},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.4021270275115967},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3576354384422302},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.262625515460968},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.12063035368919373},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.11021190881729126},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-023-05403-z","is_oa":true,"landing_page_url":"http://dx.doi.org/10.1186/s12859-023-05403-z","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05403-z","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:37438714","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37438714","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:pubmedcentral.nih.gov:10337153","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10337153","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10337153/pdf/12859_2023_Article_5403.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:ebb8149fd53545959b97aeef6825c18b","is_oa":true,"landing_page_url":"https://doaj.org/article/ebb8149fd53545959b97aeef6825c18b","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 24, Iss 1, Pp 1-7 (2023)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-023-05403-z","is_oa":true,"landing_page_url":"http://dx.doi.org/10.1186/s12859-023-05403-z","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05403-z","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":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4384030758.pdf","grobid_xml":"https://content.openalex.org/works/W4384030758.grobid-xml"},"referenced_works_count":8,"referenced_works":["https://openalex.org/W2095238531","https://openalex.org/W2099540110","https://openalex.org/W2133059825","https://openalex.org/W2167279371","https://openalex.org/W2272994582","https://openalex.org/W2601810315","https://openalex.org/W2733983898","https://openalex.org/W3173392742"],"related_works":["https://openalex.org/W4287378204","https://openalex.org/W2981957539","https://openalex.org/W47352601","https://openalex.org/W2545422590","https://openalex.org/W4240705470","https://openalex.org/W2945311252","https://openalex.org/W631546281","https://openalex.org/W4213354039","https://openalex.org/W2266220644","https://openalex.org/W88292646"],"abstract_inverted_index":{"MOTIVATION:":[0],"Quantitative":[1],"descriptions":[2],"of":[3,16,25,58,62,98,118,140],"multi-cellular":[4],"structures":[5],"from":[6],"optical":[7,60],"microscopy":[8,143],"imaging":[9],"are":[10,153],"prime":[11],"to":[12,66,112],"understand":[13],"the":[14,47,53,59,131],"variety":[15],"three-dimensional":[17],"(3D)":[18],"shapes":[19],"in":[20,115,156],"living":[21],"organisms.":[22],"Experimental":[23],"models":[24],"vertebrates,":[26],"invertebrates":[27],"and":[28,41,55,73,84,105,135,138,151],"plants,":[29],"such":[30],"as":[31,121,123],"zebrafish,":[32],"killifish,":[33],"Drosophila":[34],"or":[35],"Marchantia,":[36],"mainly":[37],"comprise":[38],"multilayer":[39],"tissues,":[40],"even":[42],"if":[43],"microscopes":[44],"can":[45,80],"reach":[46],"needed":[48],"depth,":[49],"their":[50],"geometry":[51],"hinders":[52],"selection":[54],"subsequent":[56],"analysis":[57,137],"volumes":[61],"interest.":[63],"Computational":[64],"tools":[65],"\"peel\"":[67],"tissues":[68],"by":[69],"removing":[70],"specific":[71],"layers":[72],"reducing":[74],"3D":[75,96,116,132],"volume":[76,133],"into":[77],"planar":[78],"images,":[79],"critically":[81],"improve":[82,130],"visualization":[83,134],"analysis.":[85],"RESULTS:":[86],"We":[87,109],"developed":[88],"VolumePeeler,":[89],"a":[90],"versatile":[91],"FIJI":[92],"plugin":[93,102],"for":[94],"virtual":[95],"\"peeling\"":[97],"image":[99],"stacks.":[100],"The":[101,127],"implements":[103],"spherical":[104,119],"spline":[106],"surface":[107],"projections.":[108],"applied":[110],"VolumePeeler":[111],"perform":[113],"peeling":[114],"images":[117,129],"embryos,":[120],"well":[122],"non-spherical":[124],"tissue":[125],"layers.":[126],"produced":[128],"enable":[136],"quantification":[139],"geometrically":[141],"challenging":[142],"datasets.":[144],"AVAILABILITY:":[145],"ImageJ/FIJI":[146],"software,":[147],"source":[148],"code,":[149],"examples,":[150],"tutorials":[152],"openly":[154],"available":[155],"https://cimt.uchile.cl/mcerda.":[157]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
