ExprAlign--the identification of ESTs in non-model species by alignment of cDNA microarray expression profiles.

ABSTRACT:

Background

Sequence identification of ESTs from non-model species offers distinct challenges particularly when these species have duplicated genomes and when they are phylogenetically distant from sequenced model organisms. For the common carp, an environmental model of aquacultural interest, large numbers of ESTs remained unidentified using BLAST sequence alignment. We have used the expression profiles from large-scale microarray experiments to suggest gene identities.

Results

Expression profiles from approximation 700 cDNA microarrays describing responses of 7 major tissues to multiple environmental stressors were used to define a co-expression landscape. This was based on the Pearsons correlation coefficient relating each gene with all other genes, from which a network de

SUBMITTER: Li W 

PROVIDER: S-EPMC2790474 | biostudies-literature | 2009 Nov

REPOSITORIES: biostudies-literature