{"id":"https://openalex.org/W2023719816","doi":"https://doi.org/10.1371/journal.pcbi.1003670","title":"A Digital Framework to Build, Visualize and Analyze a Gene Expression Atlas with Cellular Resolution in Zebrafish Early Embryogenesis","display_name":"A Digital Framework to Build, Visualize and Analyze a Gene Expression Atlas with Cellular Resolution in Zebrafish Early Embryogenesis","publication_year":2014,"publication_date":"2014-06-19","ids":{"openalex":"https://openalex.org/W2023719816","doi":"https://doi.org/10.1371/journal.pcbi.1003670","mag":"2023719816","pmid":"https://pubmed.ncbi.nlm.nih.gov/24945246"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1003670","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003670","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003670&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003670&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078433579","display_name":"Carlos Castro\u2010Gonz\u00e1lez","orcid":"https://orcid.org/0000-0002-3483-6661"},"institutions":[{"id":"https://openalex.org/I4210105141","display_name":"Biomedical Research Networking Center in Bioengineering, Biomaterials and Nanomedicine","ror":"https://ror.org/01gm5f004","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210105141"]},{"id":"https://openalex.org/I88060688","display_name":"Universidad Polit\u00e9cnica de Madrid","ror":"https://ror.org/03n6nwv02","country_code":"ES","type":"education","lineage":["https://openalex.org/I88060688"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["ES","US"],"is_corresponding":false,"raw_author_name":"Carlos Castro-Gonz\u00e1lez","raw_affiliation_strings":["Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain; Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain; Madrid-MIT M+Visi\u00f3n Consortium, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America","Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","Madrid-MIT M+Visi\u00f3n Consortium, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America","Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain; Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain; Madrid-MIT M+Visi\u00f3n Consortium, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America","institution_ids":[]},{"raw_affiliation_string":"Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","institution_ids":["https://openalex.org/I4210105141"]},{"raw_affiliation_string":"Madrid-MIT M+Visi\u00f3n Consortium, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain","institution_ids":["https://openalex.org/I88060688"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032302239","display_name":"Miguel Luengo-Oroz","orcid":"https://orcid.org/0000-0002-8694-2001"},"institutions":[{"id":"https://openalex.org/I88060688","display_name":"Universidad Polit\u00e9cnica de Madrid","ror":"https://ror.org/03n6nwv02","country_code":"ES","type":"education","lineage":["https://openalex.org/I88060688"]},{"id":"https://openalex.org/I4210105141","display_name":"Biomedical Research Networking Center in Bioengineering, Biomaterials and Nanomedicine","ror":"https://ror.org/01gm5f004","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210105141"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Miguel A. Luengo-Oroz","raw_affiliation_strings":["Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain; Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain; Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","institution_ids":[]},{"raw_affiliation_string":"Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","institution_ids":["https://openalex.org/I4210105141"]},{"raw_affiliation_string":"Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain","institution_ids":["https://openalex.org/I88060688"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028183933","display_name":"Louise Duloquin","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":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210153407","display_name":"Laboratoire de Neurobiologie Cellulaire et Mol\u00e9culaire","ror":"https://ror.org/0452rtt80","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210114748","https://openalex.org/I4210139971","https://openalex.org/I4210153407"]},{"id":"https://openalex.org/I4210127056","display_name":"Laboratoire Mati\u00e8re et Syst\u00e8mes Complexes","ror":"https://ror.org/032w6q449","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210095849","https://openalex.org/I4210127056"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Louise Duloquin","raw_affiliation_strings":["MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","Institut des Syst\u00e8mes Complexes, Paris, France","MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France"],"affiliations":[{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":[]},{"raw_affiliation_string":"BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Institut des Syst\u00e8mes Complexes, Paris, France","institution_ids":["https://openalex.org/I4210127056"]},{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033642367","display_name":"Thierry Savy","orcid":"https://orcid.org/0000-0001-5970-3817"},"institutions":[{"id":"https://openalex.org/I4210153407","display_name":"Laboratoire de Neurobiologie Cellulaire et Mol\u00e9culaire","ror":"https://ror.org/0452rtt80","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210114748","https://openalex.org/I4210139971","https://openalex.org/I4210153407"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210127056","display_name":"Laboratoire Mati\u00e8re et Syst\u00e8mes Complexes","ror":"https://ror.org/032w6q449","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210095849","https://openalex.org/I4210127056"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Thierry Savy","raw_affiliation_strings":["MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","Institut des Syst\u00e8mes Complexes, Paris, France","MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France"],"affiliations":[{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":[]},{"raw_affiliation_string":"Institut des Syst\u00e8mes Complexes, Paris, France","institution_ids":["https://openalex.org/I4210127056"]},{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108384755","display_name":"B Rizzi","orcid":null},"institutions":[{"id":"https://openalex.org/I4210127056","display_name":"Laboratoire Mati\u00e8re et Syst\u00e8mes Complexes","ror":"https://ror.org/032w6q449","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210095849","https://openalex.org/I4210127056"]},{"id":"https://openalex.org/I4210153407","display_name":"Laboratoire de Neurobiologie Cellulaire et Mol\u00e9culaire","ror":"https://ror.org/0452rtt80","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210114748","https://openalex.org/I4210139971","https://openalex.org/I4210153407"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Barbara Rizzi","raw_affiliation_strings":["MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","Institut des Syst\u00e8mes Complexes, Paris, France","MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France"],"affiliations":[{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":[]},{"raw_affiliation_string":"BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Institut des Syst\u00e8mes Complexes, Paris, France","institution_ids":["https://openalex.org/I4210127056"]},{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067251195","display_name":"Sophie Salom\u00e9 Desnoulez","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":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210153407","display_name":"Laboratoire de Neurobiologie Cellulaire et Mol\u00e9culaire","ror":"https://ror.org/0452rtt80","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210114748","https://openalex.org/I4210139971","https://openalex.org/I4210153407"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Sophie Desnoulez","raw_affiliation_strings":["MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France"],"affiliations":[{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":[]},{"raw_affiliation_string":"BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010626031","display_name":"Ren\u00e9 Doursat","orcid":"https://orcid.org/0000-0001-6682-4887"},"institutions":[{"id":"https://openalex.org/I4210153407","display_name":"Laboratoire de Neurobiologie Cellulaire et Mol\u00e9culaire","ror":"https://ror.org/0452rtt80","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210114748","https://openalex.org/I4210139971","https://openalex.org/I4210153407"]},{"id":"https://openalex.org/I4210127056","display_name":"Laboratoire Mati\u00e8re et Syst\u00e8mes Complexes","ror":"https://ror.org/032w6q449","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210095849","https://openalex.org/I4210127056"]},{"id":"https://openalex.org/I72816309","display_name":"Drexel University","ror":"https://ror.org/04bdffz58","country_code":"US","type":"education","lineage":["https://openalex.org/I72816309"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR","US"],"is_corresponding":false,"raw_author_name":"Ren\u00e9 Doursat","raw_affiliation_strings":["Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; School of Biomedical Engineering, Drexel University, Philadelphia, Pennsylvania, United States of America","Institut des Syst\u00e8mes Complexes, Paris, France","BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","School of Biomedical Engineering, Drexel University, Philadelphia, Pennsylvania, United States of America"],"affiliations":[{"raw_affiliation_string":"Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; School of Biomedical Engineering, Drexel University, Philadelphia, Pennsylvania, United States of America","institution_ids":[]},{"raw_affiliation_string":"Institut des Syst\u00e8mes Complexes, Paris, France","institution_ids":["https://openalex.org/I4210127056"]},{"raw_affiliation_string":"BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"School of Biomedical Engineering, Drexel University, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I72816309"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014400532","display_name":"Yannick Kergosien","orcid":"https://orcid.org/0000-0002-9343-0266"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"funder","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4389425324","display_name":"Laboratoire d'Informatique M\u00e9dicale et d'Ing\u00e9nierie des Connaissances en e-Sant\u00e9","ror":"https://ror.org/01jr1v359","country_code":null,"type":"facility","lineage":["https://openalex.org/I154526488","https://openalex.org/I39804081","https://openalex.org/I4210091279","https://openalex.org/I4389425324"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4210153407","display_name":"Laboratoire de Neurobiologie Cellulaire et Mol\u00e9culaire","ror":"https://ror.org/0452rtt80","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210114748","https://openalex.org/I4210139971","https://openalex.org/I4210153407"]},{"id":"https://openalex.org/I4210091279","display_name":"Universit\u00e9 Sorbonne Paris Nord","ror":"https://ror.org/0199hds37","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210091279"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Yannick L. Kergosien","raw_affiliation_strings":["MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; LIMICS-INSERM UMR 1142, UFR SMBH, Universit\u00e9 Paris 13, Bobigny, France","MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","LIMICS-INSERM UMR 1142, UFR SMBH, Universit\u00e9 Paris 13, Bobigny, France"],"affiliations":[{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; LIMICS-INSERM UMR 1142, UFR SMBH, Universit\u00e9 Paris 13, Bobigny, France","institution_ids":[]},{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"LIMICS-INSERM UMR 1142, UFR SMBH, Universit\u00e9 Paris 13, Bobigny, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4389425324","https://openalex.org/I4210091279"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012910949","display_name":"Mar\u00eda J. Ledesma\u2010Carbayo","orcid":"https://orcid.org/0000-0001-6846-3923"},"institutions":[{"id":"https://openalex.org/I88060688","display_name":"Universidad Polit\u00e9cnica de Madrid","ror":"https://ror.org/03n6nwv02","country_code":"ES","type":"education","lineage":["https://openalex.org/I88060688"]},{"id":"https://openalex.org/I4210105141","display_name":"Biomedical Research Networking Center in Bioengineering, Biomaterials and Nanomedicine","ror":"https://ror.org/01gm5f004","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210105141"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Mar\u00eda J. Ledesma-Carbayo","raw_affiliation_strings":["Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain; Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain","Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain; Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","institution_ids":[]},{"raw_affiliation_string":"Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain","institution_ids":["https://openalex.org/I88060688"]},{"raw_affiliation_string":"Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","institution_ids":["https://openalex.org/I4210105141"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5105520893","display_name":"Paul Bourgine","orcid":null},"institutions":[{"id":"https://openalex.org/I4210127056","display_name":"Laboratoire Mati\u00e8re et Syst\u00e8mes Complexes","ror":"https://ror.org/032w6q449","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210095849","https://openalex.org/I4210127056"]},{"id":"https://openalex.org/I4210153407","display_name":"Laboratoire de Neurobiologie Cellulaire et Mol\u00e9culaire","ror":"https://ror.org/0452rtt80","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210114748","https://openalex.org/I4210139971","https://openalex.org/I4210153407"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Paul Bourgine","raw_affiliation_strings":["MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","Institut des Syst\u00e8mes Complexes, Paris, France","BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France"],"affiliations":[{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":[]},{"raw_affiliation_string":"Institut des Syst\u00e8mes Complexes, Paris, France","institution_ids":["https://openalex.org/I4210127056"]},{"raw_affiliation_string":"BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036028681","display_name":"Nadine Peyri\u00e9ras","orcid":"https://orcid.org/0000-0002-4905-6414"},"institutions":[{"id":"https://openalex.org/I4210153407","display_name":"Laboratoire de Neurobiologie Cellulaire et Mol\u00e9culaire","ror":"https://ror.org/0452rtt80","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I4210114748","https://openalex.org/I4210139971","https://openalex.org/I4210153407"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210127056","display_name":"Laboratoire Mati\u00e8re et Syst\u00e8mes Complexes","ror":"https://ror.org/032w6q449","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210095849","https://openalex.org/I4210127056"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Nadine Peyri\u00e9ras","raw_affiliation_strings":["MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","Institut des Syst\u00e8mes Complexes, Paris, France","MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France"],"affiliations":[{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France; Institut des Syst\u00e8mes Complexes, Paris, France; BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":[]},{"raw_affiliation_string":"BioEmergences-IBiSA, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Institut des Syst\u00e8mes Complexes, Paris, France","institution_ids":["https://openalex.org/I4210127056"]},{"raw_affiliation_string":"MDAM UPR3294, Institut de Neurobiologie Alfred Fessard, CNRS, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210153407","https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5016180116","display_name":"A. Santos","orcid":"https://orcid.org/0000-0001-7423-9135"},"institutions":[{"id":"https://openalex.org/I88060688","display_name":"Universidad Polit\u00e9cnica de Madrid","ror":"https://ror.org/03n6nwv02","country_code":"ES","type":"education","lineage":["https://openalex.org/I88060688"]},{"id":"https://openalex.org/I4210105141","display_name":"Biomedical Research Networking Center in Bioengineering, Biomaterials and Nanomedicine","ror":"https://ror.org/01gm5f004","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210105141"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Andr\u00e9s Santos","raw_affiliation_strings":["Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain; Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain","Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain; Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","institution_ids":[]},{"raw_affiliation_string":"Biomedical Image Technologies, ETSIT, Universidad Polit\u00e9cnica de Madrid, CEIMoncloa, Madrid, Spain","institution_ids":["https://openalex.org/I88060688"]},{"raw_affiliation_string":"Research Center in Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, Spain","institution_ids":["https://openalex.org/I4210105141"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":12,"corresponding_author_ids":["https://openalex.org/A5016180116","https://openalex.org/A5036028681"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210105141","https://openalex.org/I4210127056","https://openalex.org/I4210153407","https://openalex.org/I88060688"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":6.6567,"has_fulltext":true,"cited_by_count":29,"citation_normalized_percentile":{"value":0.96183559,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"10","issue":"6","first_page":"e1003670","last_page":"e1003670"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9995999932289124,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9987000226974487,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9940999746322632,"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/atlas","display_name":"Atlas (anatomy)","score":0.8170354962348938},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.6179389357566833},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5527028441429138},{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.5253559947013855},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5120851993560791},{"id":"https://openalex.org/keywords/zebrafish","display_name":"Zebrafish","score":0.5046137571334839},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.48126667737960815},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4666946232318878},{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.4258635640144348},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3557502031326294},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.24509313702583313},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.22487971186637878},{"id":"https://openalex.org/keywords/anatomy","display_name":"Anatomy","score":0.13735255599021912},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11288997530937195}],"concepts":[{"id":"https://openalex.org/C2776673561","wikidata":"https://www.wikidata.org/wiki/Q655357","display_name":"Atlas (anatomy)","level":2,"score":0.8170354962348938},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6179389357566833},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5527028441429138},{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.5253559947013855},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5120851993560791},{"id":"https://openalex.org/C2776878037","wikidata":"https://www.wikidata.org/wiki/Q169444","display_name":"Zebrafish","level":3,"score":0.5046137571334839},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.48126667737960815},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4666946232318878},{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.4258635640144348},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3557502031326294},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.24509313702583313},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.22487971186637878},{"id":"https://openalex.org/C105702510","wikidata":"https://www.wikidata.org/wiki/Q514","display_name":"Anatomy","level":1,"score":0.13735255599021912},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11288997530937195}],"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":"D004625","descriptor_name":"Embryo, Nonmammalian","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D004625","descriptor_name":"Embryo, Nonmammalian","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D004625","descriptor_name":"Embryo, Nonmammalian","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D004625","descriptor_name":"Embryo, Nonmammalian","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004625","descriptor_name":"Embryo, Nonmammalian","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004625","descriptor_name":"Embryo, Nonmammalian","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":"Q000196","qualifier_name":"embryology","is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":"Q000196","qualifier_name":"embryology","is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":"Q000196","qualifier_name":"embryology","is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015027","descriptor_name":"Zebrafish","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1371/journal.pcbi.1003670","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003670","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003670&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},{"id":"pmid:24945246","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24945246","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:dnet:archivodigit::b69f157be20b56a12d4831da1bc415ee","is_oa":false,"landing_page_url":"http://oa.upm.es/35892/","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Plos Computational Biology, ISSN 1553-7358, 2014-06, Vol. 10, No. 6","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:e-space.mmu.ac.uk:605012","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":null,"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"NonPeerReviewed"},{"id":"pmh:oai:HAL:hal-01054811v1","is_oa":false,"landing_page_url":"https://hal.science/hal-01054811","pdf_url":null,"source":{"id":"https://openalex.org/S4406922466","display_name":"SPIRE - Sciences Po Institutional REpository","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"www.ploscompbiol.org","raw_type":"Journal articles"},{"id":"pmh:oai:doaj.org/article:9619d83b198644029b3ea2cb36ca4238","is_oa":true,"landing_page_url":"https://doaj.org/article/9619d83b198644029b3ea2cb36ca4238","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 10, Iss 6, p e1003670 (2014)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:3041836","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4063669","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"},{"id":"pmh:oai:figshare.com:article/1062262","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/_A_Digital_Framework_to_Build_Visualize_and_Analyze_a_Gene_Expression_Atlas_with_Cellular_Resolution_in_Zebrafish_Early_Embryogenesis_/1062262","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"},{"id":"pmh:oai:figshare.com:article/1063808","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/_A_Digital_Framework_to_Build_Visualize_and_Analyze_a_Gene_Expression_Atlas_with_Cellular_Resolution_in_Zebrafish_Early_Embryogenesis_/1063808","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1003670","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003670","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003670&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6546410931","display_name":null,"funder_award_id":"ISC-PIF","funder_id":"https://openalex.org/F4320322892","funder_display_name":"Centre National de la Recherche Scientifique"}],"funders":[{"id":"https://openalex.org/F4320313831","display_name":"Comunidad de Madrid","ror":null},{"id":"https://openalex.org/F4320315862","display_name":"Infrastructures en Biologie Sant\u00e9 et Agronomie","ror":null},{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320321043","display_name":"Centro para el Desarrollo Tecnol\u00f3gico Industrial","ror":"https://ror.org/0124x7055"},{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"},{"id":"https://openalex.org/F4320335860","display_name":"Institut National de Physique Nucl\u00e9aire et de Physique des Particules","ror":"https://ror.org/03fd77x13"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2023719816.pdf","grobid_xml":"https://content.openalex.org/works/W2023719816.grobid-xml"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W1512809401","https://openalex.org/W1965647283","https://openalex.org/W1977786555","https://openalex.org/W2002211572","https://openalex.org/W2010888961","https://openalex.org/W2014926287","https://openalex.org/W2018227909","https://openalex.org/W2037947871","https://openalex.org/W2038928551","https://openalex.org/W2039657602","https://openalex.org/W2049422258","https://openalex.org/W2051676319","https://openalex.org/W2055063781","https://openalex.org/W2065052846","https://openalex.org/W2066962376","https://openalex.org/W2067088953","https://openalex.org/W2073580040","https://openalex.org/W2088723672","https://openalex.org/W2092007754","https://openalex.org/W2094844506","https://openalex.org/W2098181012","https://openalex.org/W2103346617","https://openalex.org/W2110721519","https://openalex.org/W2114245270","https://openalex.org/W2116833084","https://openalex.org/W2123491442","https://openalex.org/W2125349610","https://openalex.org/W2128339343","https://openalex.org/W2132620577","https://openalex.org/W2132845755","https://openalex.org/W2133584444","https://openalex.org/W2135095744","https://openalex.org/W2139031797","https://openalex.org/W2139414608","https://openalex.org/W2139442812","https://openalex.org/W2145055902","https://openalex.org/W2147555557","https://openalex.org/W2149404019","https://openalex.org/W2150394469","https://openalex.org/W2152282440","https://openalex.org/W2162979438","https://openalex.org/W2164741953","https://openalex.org/W2166419991","https://openalex.org/W2171911690","https://openalex.org/W2215928152","https://openalex.org/W2313703049","https://openalex.org/W6678837100"],"related_works":["https://openalex.org/W4256528904","https://openalex.org/W1597543017","https://openalex.org/W4245153001","https://openalex.org/W4243165149","https://openalex.org/W3147492987","https://openalex.org/W2938575486","https://openalex.org/W4237600267","https://openalex.org/W4283069614","https://openalex.org/W2007294720","https://openalex.org/W2286180676"],"abstract_inverted_index":{"A":[0],"gene":[1,73,111,146,202],"expression":[2,74,112,147,203],"atlas":[3,28,107],"is":[4,69],"an":[5,51,106,158],"essential":[6],"resource":[7],"to":[8,71,104,127,165],"quantify":[9],"and":[10,19,84,141,168,173,180,185,194,213,220],"understand":[11],"the":[12,142,170,197,201,206,210],"multiscale":[13],"processes":[14],"of":[15,24,90,109,117,144,200,215],"embryogenesis":[16],"in":[17,36,56,77,150],"time":[18],"space.":[20],"The":[21],"automated":[22],"reconstruction":[23],"a":[25,57,88,97,115],"prototypic":[26],"4D":[27,98],"for":[29,152,196],"vertebrate":[30],"early":[31,119],"embryos,":[32],"using":[33],"multicolor":[34],"fluorescence":[35],"situ":[37],"hybridization":[38],"with":[39,81,209],"nuclear":[40],"counterstain,":[41],"requires":[42],"dedicated":[43],"computational":[44,192],"strategies.":[45],"To":[46],"this":[47],"goal,":[48],"we":[49],"designed":[50],"original":[52],"methodological":[53],"framework":[54,101],"implemented":[55],"software":[58],"tool":[59],"called":[60],"Match-IT.":[61],"With":[62],"only":[63],"minimal":[64],"human":[65],"supervision,":[66],"our":[67],"system":[68],"able":[70],"gather":[72],"patterns":[75,148],"observed":[76,149],"different":[78,154],"analyzed":[79],"embryos":[80,120],"phenotypic":[82],"variability":[83],"map":[85],"them":[86],"onto":[87],"series":[89],"common":[91],"3D":[92,151],"templates":[93,113,204],"over":[94],"time,":[95],"creating":[96],"atlas.":[99,171],"This":[100],"was":[102,163],"used":[103],"construct":[105],"composed":[108],"6":[110,122],"from":[114,125],"cohort":[116],"zebrafish":[118],"spanning":[121],"developmental":[123,224],"stages":[124],"4":[126],"6.3":[128],"hpf":[129],"(hours":[130],"post":[131],"fertilization).":[132],"They":[133],"included":[134],"53":[135],"specimens,":[136],"181,415":[137],"detected":[138],"cell":[139],"nuclei":[140],"segmentation":[143],"98":[145],"9":[153],"genes.":[155],"In":[156],"addition,":[157],"interactive":[159],"visualization":[160,212],"software,":[161],"Atlas-IT,":[162,174],"developed":[164],"inspect,":[166],"supervise":[167],"analyze":[169],"Match-IT":[172],"including":[175],"user":[176],"manuals,":[177],"representative":[178],"datasets":[179],"video":[181],"tutorials,":[182],"are":[183],"publicly":[184],"freely":[186],"available":[187],"online.":[188],"We":[189],"also":[190],"propose":[191],"methods":[193],"tools":[195],"quantitative":[198],"assessment":[199],"at":[205],"cellular":[207],"scale,":[208],"identification,":[211],"analysis":[214],"coexpression":[216],"patterns,":[217],"synexpression":[218],"groups":[219],"their":[221],"dynamics":[222],"through":[223],"stages.":[225]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":8},{"year":2014,"cited_by_count":3}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}