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SpBase: the sea urchin genome database and web site

Cameron, R. Andrew and Samanta, Manoj and Yuan, Autumn and He, Dong and Davidson, Eric (2009) SpBase: the sea urchin genome database and web site. Nucleic Acids Research, 37 (S1). D750-D754. ISSN 0305-1048. http://resolver.caltech.edu/CaltechAUTHORS:CAMnar09

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Abstract

SpBase is a system of databases focused on the genomic information from sea urchins and related echinoderms. It is exposed to the public through a web site served with open source software (http://spbase.org/). The enterprise was undertaken to provide an easily used collection of information to directly support experimental work on these useful research models in cell and developmental biology. The information served from the databases emerges from the draft genomic sequence of the purple sea urchin, Strongylocentrotus purpuratus and includes sequence data and genomic resource descriptions for other members of the echinoderm clade which in total span 540 million years of evolutionary time. This version of the system contains two assemblies of the purple sea urchin genome, associated expressed sequences, gene annotations and accessory resources. Search mechanisms for the sequences and the gene annotations are provided. Because the system is maintained along with the Sea Urchin Genome resource, a database of sequenced clones is also provided.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1093/nar/gkn887DOIArticle
http://nar.oxfordjournals.org/cgi/content/abstract/37/suppl_1/D750PublisherArticle
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686435/PubMed CentralArticle
ORCID:
AuthorORCID
Cameron, R. Andrew0000-0003-3947-6041
Additional Information:© 2008 The Author(s). This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. Received October 19, 2008. Accepted October 20, 2008. We thank Barbara Richer for carefully reading of the article. We thank Barbara Richer for carefully reading of the article. An earlier vesion of this information system was constructed with the aid of Emmanuelle Morin and Kris Khamvongsa. Funding: National Institutes of Health; National Institute of Child Health and Human Development (R01HD056016); National Center for Research Resources; Division of Comparative Medicine (RR015044) and the Beckman Institute. Funding for open access charge: the US National Institute of Child Health and Human Development (R01HD056016). Conflict of interest statement. None declared.
Funders:
Funding AgencyGrant Number
NIHRR015044
National Institute of Child Health and Human Development (NICHD)R01HD056016
Caltech Beckman InstituteUNSPECIFIED
Subject Keywords:REGULATORY NETWORK; ANNOTATION; EVOLUTION; EMBRYO; SYSTEM; SPECIFICATION; PHYLOGENY; SEQUENCE; ELEMENTS.
Issue or Number:S1
Record Number:CaltechAUTHORS:CAMnar09
Persistent URL:http://resolver.caltech.edu/CaltechAUTHORS:CAMnar09
Usage Policy:This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
ID Code:13309
Collection:CaltechAUTHORS
Deposited By: Ruth Sustaita
Deposited On:10 Feb 2009 23:54
Last Modified:19 Oct 2015 17:43

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