{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,31]],"date-time":"2026-03-31T16:01:38Z","timestamp":1774972898518,"version":"3.50.1"},"reference-count":38,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2019,1,22]],"date-time":"2019-01-22T00:00:00Z","timestamp":1548115200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"French agency for food and safety","award":["ANSES n\u00b0 EST-13-081, n\u00b0 EST-17-256"],"award-info":[{"award-number":["ANSES n\u00b0 EST-13-081, n\u00b0 EST-17-256"]}]},{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","award":["ANR n\u00b0 16-CE14-0017-02"],"award-info":[{"award-number":["ANR n\u00b0 16-CE14-0017-02"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","award":["n\u00b018-CE14-0038-02"],"award-info":[{"award-number":["n\u00b018-CE14-0038-02"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100002915","name":"Fondation pour la recherche m\u00e9dicale","doi-asserted-by":"crossref","award":["FRM n\u00b0 DBI20131228558"],"award-info":[{"award-number":["FRM n\u00b0 DBI20131228558"]}],"id":[{"id":"10.13039\/501100002915","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100001711","name":"Swiss National Science Foundation","doi-asserted-by":"publisher","award":["SNF n\u00b0 CRS115_171007"],"award-info":[{"award-number":["SNF n\u00b0 CRS115_171007"]}],"id":[{"id":"10.13039\/501100001711","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100004807","name":"DFG","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100004807","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Clinical Research Unit \u2018Male Germ Cells: from Genes to Function\u2019","award":["CRU 326"],"award-info":[{"award-number":["CRU 326"]}]},{"DOI":"10.13039\/501100001677","name":"French National Institute of Health and Medical Research","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100001677","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100007525","name":"University of Rennes 1","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100007525","id-type":"DOI","asserted-by":"crossref"}]},{"name":"French School of Public Health"},{"DOI":"10.13039\/501100012519","name":"EHESP","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100012519","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,9,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Recent advances in transcriptomics have enabled unprecedented insight into gene expression analysis at a single-cell resolution. While it is anticipated that the number of publications based on such technologies will increase in the next decade, there is currently no public resource to centralize and enable scientists to explore single-cell datasets published in the field of reproductive biology.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>Here, we present a major update of the ReproGenomics Viewer, a cross-species and cross-technology web-based resource of manually-curated sequencing datasets related to reproduction. The redesign of the ReproGenomics Viewer's architecture is accompanied by significant growth of the database content including several landmark single-cell RNA-sequencing datasets. The implementation of additional tools enables users to visualize and browse the complex, high-dimensional data now being generated in the reproductive field.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The ReproGenomics Viewer resource is freely accessible at http:\/\/rgv.genouest.org. The website is implemented in Python, JavaScript and MongoDB, and is compatible with all major browsers. Source codes can be downloaded from https:\/\/github.com\/fchalmel\/RGV.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btz047","type":"journal-article","created":{"date-parts":[[2019,1,17]],"date-time":"2019-01-17T12:09:41Z","timestamp":1547726981000},"page":"3133-3139","source":"Crossref","is-referenced-by-count":58,"title":["The ReproGenomics Viewer: a multi-omics and cross-species resource compatible with single-cell studies for the reproductive science community"],"prefix":"10.1093","volume":"35","author":[{"given":"Thomas A","family":"Darde","sequence":"first","affiliation":[{"name":"Univ Rennes, Inserm, EHESP, Irset (Institut de recherche en sant\u00e9, environnement et travail) - UMR_S 1085, Rennes F-35000, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Estelle","family":"Lecluze","sequence":"additional","affiliation":[{"name":"Univ Rennes, Inserm, EHESP, Irset (Institut de recherche en sant\u00e9, environnement et travail) - UMR_S 1085, Rennes F-35000, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Aur\u00e9lie","family":"Lardenois","sequence":"additional","affiliation":[{"name":"Univ Rennes, Inserm, EHESP, Irset (Institut de recherche en sant\u00e9, environnement et travail) - UMR_S 1085, Rennes F-35000, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Isabelle","family":"St\u00e9vant","sequence":"additional","affiliation":[{"name":"University of Geneva Department of Genetic Medicine and Development, , Geneva 1211, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nathan","family":"Alary","sequence":"additional","affiliation":[{"name":"Univ Rennes, Inserm, EHESP, Irset (Institut de recherche en sant\u00e9, environnement et travail) - UMR_S 1085, Rennes F-35000, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Frank","family":"T\u00fcttelmann","sequence":"additional","affiliation":[{"name":"Institute of Human Genetics, University of M\u00fcnster , M\u00fcnster, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Olivier","family":"Collin","sequence":"additional","affiliation":[{"name":"Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires (IRISA\/INRIA) - GenOuest platform, Universit\u00e9 de Rennes 1 , Rennes F-35042, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Serge","family":"Nef","sequence":"additional","affiliation":[{"name":"University of Geneva Department of Genetic Medicine and Development, , Geneva 1211, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bernard","family":"J\u00e9gou","sequence":"additional","affiliation":[{"name":"Univ Rennes, Inserm, EHESP, Irset (Institut de recherche en sant\u00e9, environnement et travail) - UMR_S 1085, Rennes F-35000, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Antoine D","family":"Rolland","sequence":"additional","affiliation":[{"name":"Univ Rennes, Inserm, EHESP, Irset (Institut de recherche en sant\u00e9, environnement et travail) - UMR_S 1085, Rennes F-35000, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fr\u00e9d\u00e9ric","family":"Chalmel","sequence":"additional","affiliation":[{"name":"Univ Rennes, Inserm, EHESP, Irset (Institut de recherche en sant\u00e9, environnement et travail) - UMR_S 1085, Rennes F-35000, France"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2019,1,22]]},"reference":[{"key":"2023062711315520100_btz047-B1","doi-asserted-by":"crossref","first-page":"D781","DOI":"10.1093\/nar\/gkx949","article-title":"SCPortalen: human and mouse single-cell centric database","volume":"46","author":"Abugessaisa","year":"2018","journal-title":"Nucleic Acids Res"},{"key":"2023062711315520100_btz047-B2","doi-asserted-by":"crossref","first-page":"66.","DOI":"10.1186\/s13059-016-0924-1","article-title":"JBrowse: a dynamic web platform for genome visualization and analysis","volume":"17","author":"Buels","year":"2016","journal-title":"Genome Biol"},{"key":"2023062711315520100_btz047-B3","doi-asserted-by":"crossref","first-page":"E368","DOI":"10.3390\/genes8120368","article-title":"scRNASeqDB: a database for RNA-Seq based gene expression profiles in human single cells","volume":"8","author":"Cao","year":"2017","journal-title":"Genes (Basel)"},{"key":"2023062711315520100_btz047-B4","doi-asserted-by":"crossref","first-page":"5.","DOI":"10.1095\/biolreprod.114.118166","article-title":"High-resolution profiling of novel transcribed regions during rat spermatogenesis","volume":"91","author":"Chalmel","year":"2014","journal-title":"Biol. 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