{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,24]],"date-time":"2026-04-24T06:17:29Z","timestamp":1777011449385,"version":"3.51.4"},"reference-count":35,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2021,11,18]],"date-time":"2021-11-18T00:00:00Z","timestamp":1637193600000},"content-version":"vor","delay-in-days":1,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/100009633","name":"Eunice Kennedy Shriver National Institute of Child Health and Human Development","doi-asserted-by":"publisher","award":["P41HD095831"],"award-info":[{"award-number":["P41HD095831"]}],"id":[{"id":"10.13039\/100009633","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["ACI-1548562"],"award-info":[{"award-number":["ACI-1548562"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"NSF","doi-asserted-by":"publisher","award":["ACI-1445606"],"award-info":[{"award-number":["ACI-1445606"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004794","name":"Centre National de la Recherche Scientifique","doi-asserted-by":"publisher","award":["H2020-INFRADEV-4-2014-2015 RIA"],"award-info":[{"award-number":["H2020-INFRADEV-4-2014-2015 RIA"]}],"id":[{"id":"10.13039\/501100004794","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,1,7]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Echinobase (www.echinobase.org) is a third generation web resource supporting genomic research on echinoderms. The new version was built by cloning the mature Xenopus model organism knowledgebase, Xenbase, refactoring data ingestion pipelines and modifying the user interface to adapt to multispecies echinoderm content. This approach leveraged over 15 years of previous database and web application development to generate a new fully featured informatics resource in a single year. In addition to the software stack, Echinobase uses the private cloud and physical hosts that support Xenbase. Echinobase currently supports six echinoderm species, focused on those used for genomics, developmental biology and gene regulatory network analyses. Over 38 000 gene pages, 18 000 publications, new improved genome assemblies, JBrowse genome browser and BLAST\u00a0+\u00a0services are available and supported by the development of a new echinoderm anatomical ontology, uniformly applied formal gene nomenclature, and consistent orthology predictions. A novel feature of Echinobase is integrating support for multiple, disparate species. New genomes from the diverse echinoderm phylum will be added and supported as data becomes available. The common code development design of the integrated knowledgebases ensures parallel improvements as each resource evolves. This approach is widely applicable for developing new model organism informatics resources.<\/jats:p>","DOI":"10.1093\/nar\/gkab1005","type":"journal-article","created":{"date-parts":[[2021,10,13]],"date-time":"2021-10-13T20:54:10Z","timestamp":1634158450000},"page":"D970-D979","source":"Crossref","is-referenced-by-count":78,"title":["Echinobase: leveraging an extant model organism database to build a knowledgebase supporting research on the genomics and biology of echinoderms"],"prefix":"10.1093","volume":"50","author":[{"given":"Bradley I","family":"Arshinoff","sequence":"first","affiliation":[{"name":"Department of Biological Sciences, University of Calgary, Calgary, AB\u00a0T2N 1N4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Gregory A","family":"Cary","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA\u00a015213, 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AB\u00a0T2N 1N4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Thomas R","family":"Beatman","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA\u00a015213, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Eugene","family":"Kim","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, University of Calgary, Calgary, AB\u00a0T2N 1N4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3947-6041","authenticated-orcid":false,"given":"R Andrew","family":"Cameron","sequence":"additional","affiliation":[{"name":"Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA\u00a091125, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Peter D","family":"Vize","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, University of Calgary, Calgary, AB\u00a0T2N 1N4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7649-3134","authenticated-orcid":false,"given":"Cheryl\u00a0A","family":"Telmer","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA\u00a015213, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jenifer C","family":"Croce","sequence":"additional","affiliation":[{"name":"Laboratoire de Biologie du D\u00e9veloppement de Villefranche-sur-Mer (LBDV), Institut de la Mer de Villefranche (IMEV), Sorbonne Universit\u00e9, CNRS, Villefranche-sur-Mer, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Charles A","family":"Ettensohn","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA\u00a015213, 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