arrow

From NeuroLex

Revision as of 09:50, 13 October 2010 by Nifbot2 (Talk | contribs)
Jump to: navigation, search



Resource:Animal Genome Database

Name: Resource:Animal Genome Database
Description:

This database focuses on the comparative gene mapping between species to assist the mapping of the genes related to phenotypic traits in livestock. The linkage maps, cytogenetic maps, polymerase chain reaction primers of pig, cattle, mouse and human, and their references have been included in the database, and the correspondence among species have been stipulated in the database.
AGP is an animal genome database developed on a Unix workstation and maintained by a relational database management system. It is a joint project of National Institute of Agrobiological Sciences (NIAS) and Institute of the Society for Techno-innovation of Agriculture, Forestry and Fisheries (STAFF-Institute), under cooperation with other related research institutes.

AGP also contains the Pig Expression Data Explorer (PEDE). PEDE is a database of porcine EST collections derived from full-length cDNA libraries and full-length sequences of the cDNA clones picked from the EST collection. The EST sequences have been clustered and assembled, and they have determined their similarity to sequences in RefSeq, and UniGene. The PEDE database system was constructed to store sequences and similarity data of our swine full-length cDNA libraries and to make them available to users. PEDE provides interfaces for keyword and ID searches of BLAST results and enables users to obtain sequence data and names of clones of interest. Putative SNPs in EST assemblies have been classified according to breed specificity and their effect on coding amino acids, and the assemblies are equipped with an SNP search interface. The PEDE database is a valuable resource because it contains porcine nucleotide sequences and cDNA clones that are ready for analyses such as expression in mammalian cells, because of their high likelihood of containing full-length CDS. PEDE will be useful for researchers who want to explore genes that may be responsible for traits such as disease susceptibility. The database also offers information regarding major and minor porcine-specific antigens, which might be investigated in regard to the use of pigs as models in various medical research applications.
Other Name(s): AGP
Resource Type(s): database
Resource: Resource
URL: http://animal.dna.affrc.go.jp/agp/index.html
Id: nif-0000-21029
Keywords: est, expression, gene, amino acid, animal, antigen, breed, cattle, cdna, cell, chain, clone, coding, cytogenetic, genome, human, linkage, livestock, mammalian, map, mouse, nucleotide, organism, phenotypic, pig, polymerase, porcine, primer, reaction, sequence, snp, specie, swine, trait
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Curated

For Resource Owners:

A sitemap will keep your NIF Registry description up-to-date and inform search engines about your resource.

Please login to create the sitemap. (top right)

Learn more about what NIF can do for your resource.
Proudly proclaim your inclusion in NIF by displaying the "Registered with NIF" button on your site.



bookmark
Facts about Resource:Animal Genome DatabaseRDF feed
CurationStatuscurated  +
DefiningCitationhttp://animal.dna.affrc.go.jp/agp/index.html  +
Definition

This database focuses on the compa
This database focuses on the comparative gene mapping between species to assist the mapping of the genes related to phenotypic traits in livestock. The linkage maps, cytogenetic maps, polymerase chain reaction primers of pig, cattle, mouse and human, and their references have been included in the database, and the correspondence among species have been stipulated in the database.
AGP is an animal genome database developed on a Unix workstation and maintained by a relational database management system. It is a joint project of National Institute of Agrobiological Sciences (NIAS) and Institute of the Society for Techno-innovation of Agriculture, Forestry and Fisheries (STAFF-Institute), under cooperation with other related research institutes.

AGP also contains the Pig Expression Data Explorer (PEDE). PEDE is a database of porcine EST collections derived from full-length cDNA libraries and full-length sequences of the cDNA clones picked from the EST collection. The EST sequences have been clustered and assembled, and they have determined their similarity to sequences in RefSeq, and UniGene. The PEDE database system was constructed to store sequences and similarity data of our swine full-length cDNA libraries and to make them available to users. PEDE provides interfaces for keyword and ID searches of BLAST results and enables users to obtain sequence data and names of clones of interest. Putative SNPs in EST assemblies have been classified according to breed specificity and their effect on coding amino acids, and the assemblies are equipped with an SNP search interface. The PEDE database is a valuable resource because it contains porcine nucleotide sequences and cDNA clones that are ready for analyses such as expression in mammalian cells, because of their high likelihood of containing full-length CDS. PEDE will be useful for researchers who want to explore genes that may be responsible for traits such as disease susceptibility. The database also offers information regarding major and minor porcine-specific antigens, which might be investigated in regard to the use of pigs as models in various medical research applications.
rious medical research applications.
Has default formThis property is a special property in this wiki.Resource  +
Has roleDatabase  +
Idnif-0000-21029  +
KeywordsEst  +, Expression  +, Gene  +, Amino acid  +, Animal  +, Antigen  +, Breed  +, Cattle  +, Cdna  +, Cell  +, Chain  +, Clone  +, Coding  +, Cytogenetic  +, Genome  +, Human  +, Linkage  +, Livestock  +, Mammalian  +, Map  +, Mouse  +, Nucleotide  +, Organism  +, Phenotypic  +, Pig  +, Polymerase  +, Porcine  +, Primer  +, Reaction  +, Sequence  +, Snp  +, Specie  +, Swine  +, and Trait  +
LabelResource:Animal Genome Database  +
ModifiedDate13 October 2010  +
SuperCategoryResource  +
SynonymAGP  +