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Xenbase

Model organism database for Xenopus laevis and X. (Silurana) tropicalis serving as the principal centralized resource of genomic, development data and community information for Xenopus research. Xenbase gathers information for frog researchers, including both data about frogs as well as a frog stock center, a list of suppliers, meetings, and people working in the field. Xenbase welcomes data submissions from the Xenopus community. They are able to incorporate sequence data, expression data and images obtained using in situ hybridization or immunohistochemistry, protocols, and development movies. However, if you have other data that you feel would be valuable to the community, they will try to determine, how best to integrate your data. Data is collected from other databases, high-throughput screens and the scientific literature and integrated into a number of database modules covering subjects such as community, literature, gene and genomic analysis. Gene pages are automatically assembled from data piped from the Entrez Gene, Gurdon Institute, JGI, Metazome, MGI, OMIM, PubMed, Unigene, Zfin, commercial suppliers and others. These data are then supplemented with in-house annotation. Xenbase has implemented the Gbrowse genome browser and also provides a BLAST service that allows users to specifically search either laevis or tropicalis DNA or protein targets. A table of Xenopus gene synonyms has been implemented and allows the genome, genes, publications and high-throughput gene expression data to be seamlessly integrated with other Xenopus data and to external database resources, making the wealth of developmental and functional data from the frog available to the broader research community. Through the Xenbase interface you may: * Blast Xenopus ESTs, unigene sets or the tropicalis sequence; * Search for Xenopus genes; * Browse the genome using the Xenbase or JGI genome browsers; * View development stages and cell fate maps; * Search publications about Xenopus; * Search for people, labs and organizations in the Xenopus Community. View job postings and events in the Xenopus community; and * Learn about research methods and protocols (e.g. antisense and morpholinos) and obtain materials. Xenbase's core feature is the Gene Page, which presents genomic and functional information, sequence links, orthology, and publications, and will soon incorporate expression data.

URL: http://www.xenbase.org/

Resource ID: nif-0000-01286     Resource Type: Resource     Version: Latest Version

Keywords

molecular neuroanatomy resource, dna target, protein target, gene, genome, function, sequence, orthology, publication, gene expression, model organism, genomics, development, annotation, blast, development stage, publication, in situ hybridization, immunohistochemistry, video resource, organism-related portal, experimental protocol, organism supplier, data analysis service, developmental stage, gold standard

Curation Status

curated

Listed By

OMICtools, One Mind Biospecimen Bank Listing, Biobank

Availability

No materials may be reproduced without permission, Acknowledgement requested, The community can contribute to this resource

Related Application

Research

Resource Status

Last checked up;

Abbreviation

Xenbase

Synonyms

Xenbase: Xenopus laevis and tropicalis biology and genomics resource, Xenbase: Xenopus laevis and tropicalis biology and genomics resource

Parent Organization

Species

xenopus laevis, xenopus tropicalis

Supercategory

Resource

Funding Information

NICHD, NSF, Alberta Network for Proteomics Innovation, R01 HD045776, P41 HD064556, 9630621, 9983061

Additional Resource Types

database, atlas, data repository, image repository

Used By

Monarch Initiative

Alternate IDs

OMICS_01665

Resource PubMed IDs

PMID: 23789092, PMID: 24025714, PMID: 24167716, PMID: 25260584, PMID: 25380782, PMID: 25430653

Original Submitter

Anonymous

Version Status

Curated

Submitted On

12:00am August 4, 2011

Originated From

SciCrunch

Changes from Previous Version

First Version

Version 1

Created 4 years ago by Anonymous