Click here to close
Hello! We notice that you are using Internet Explorer, which is not supported by Xenbase and may cause the site to display incorrectly.
We suggest using a current version of Chrome,
FireFox, or Safari.
???displayArticle.abstract???
Since the advent of computational methods in biology, the quantity of biological data has grown exponentially. These data support genomic, genetic, developmental, and other forms of biological experimentation. The number of on-line resources has kept pace with the growth in data. Xenopus has perhaps lagged some of the other model organisms in developing resources, but is now quickly catching up. There are now a number of well-established and developing resources for Xenopus. This chapter looks beyond the widely known public databases, Genbank and the EBI, and describes how the researcher can use a number of central sites such as Xenbase, UniProtKB, and major genome browsers to navigate to a variety of different resources.
Akkers,
A hierarchy of H3K4me3 and H3K27me3 acquisition in spatial gene regulation in Xenopus embryos.
2009, Pubmed,
Xenbase
Akkers,
A hierarchy of H3K4me3 and H3K27me3 acquisition in spatial gene regulation in Xenopus embryos.
2009,
Pubmed
,
Xenbase Bowes,
Xenbase: a Xenopus biology and genomics resource.
2008,
Pubmed
,
Xenbase Bowes,
Xenbase: gene expression and improved integration.
2010,
Pubmed
,
Xenbase Brooksbank,
The European Bioinformatics Institute's data resources.
2010,
Pubmed Davis,
The Comparative Toxicogenomics Database: update 2011.
2011,
Pubmed Donlin,
Using the Generic Genome Browser (GBrowse).
2009,
Pubmed Finn,
The Pfam protein families database.
2010,
Pubmed Flicek,
Ensembl 2011.
2011,
Pubmed Fujita,
The UCSC Genome Browser database: update 2011.
2011,
Pubmed Gardner,
Rfam: updates to the RNA families database.
2009,
Pubmed Gilchrist,
Defining a large set of full-length clones from a Xenopus tropicalis EST project.
2004,
Pubmed
,
Xenbase Griffiths-Jones,
miRBase: tools for microRNA genomics.
2008,
Pubmed Hellsten,
The genome of the Western clawed frog Xenopus tropicalis.
2010,
Pubmed
,
Xenbase Hoffmann,
Implementing the iHOP concept for navigation of biomedical literature.
2005,
Pubmed Jenssen,
A literature network of human genes for high-throughput analysis of gene expression.
2001,
Pubmed Kent,
Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes.
2003,
Pubmed Loots,
ECRbase: database of evolutionary conserved regions, promoters, and transcription factor binding sites in vertebrate genomes.
2007,
Pubmed Maglott,
Entrez Gene: gene-centered information at NCBI.
2011,
Pubmed Muffato,
Genomicus: a database and a browser to study gene synteny in modern and ancestral genomes.
2010,
Pubmed Mulder,
The InterPro Database, 2003 brings increased coverage and new features.
2003,
Pubmed Müller,
Textpresso: an ontology-based information retrieval and extraction system for biological literature.
2004,
Pubmed Pollet,
Axeldb: a Xenopus laevis database focusing on gene expression.
2000,
Pubmed
,
Xenbase Rose,
The RCSB Protein Data Bank: redesigned web site and web services.
2011,
Pubmed Sayers,
Database resources of the National Center for Biotechnology Information.
2011,
Pubmed Segerdell,
An ontology for Xenopus anatomy and development.
2008,
Pubmed
,
Xenbase Smedley,
BioMart--biological queries made easy.
2009,
Pubmed UniProt Consortium,
Ongoing and future developments at the Universal Protein Resource.
2011,
Pubmed Wells,
A genetic map of Xenopus tropicalis.
2011,
Pubmed
,
Xenbase