Difference between revisions of "Face Caucus SGN: Associating Solanaceae loci with phenotype"

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SGN abstract: _Associating Solanaceae loci with phenotypes:_
 
SGN abstract: _Associating Solanaceae loci with phenotypes:_
  
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Revision as of 19:23, 23 January 2008

SGN abstract: _Associating Solanaceae loci with phenotypes:_

The SOL Genomics Network is a Clade Oriented Database (COD) containing
genomic, genetic and taxonomic information for species in the Euasterid
clade.

We have recently added to SGN databases of Solanaceae genes and
phenotypes, with a framework for simple and advanced searches by name,
function, phenotype, map position, sequence, and ontology annotations.
Phenotypes are represented as accessions of populations (mutants and
mapping populations), and may be linked to one or more loci.

Loci may be linked to one or more phenotyped accessions related directly
to the underlying gene or to a specific allele.
Each locus and phenotype have a curated page with internal links to
other SGN information pages, such as maps, markers, unigenes, and
images, and external links to other databases, such as GenBank, PubMed,
GO, and PO.

An on-line submission and feedback pipeline allows authorized SOL
community-members to submit, edit, or obsolete database objects, data,
images, and annotations. These permissions vary according to the user-type.
The framework for editing the database is now being extended for
developing an online ontology annotation tool, and storing complex
quantitative and qualitative phenotype data.

The high level of conservation of genome organization in Solanaceae
makes the family a unique subject to explore the basis of its phenotypic
diversity. The small number of Solanaceae phenotypes with a known gene
sequence calls for a comparative approach for revealing gene function
and their associated phenotypes.