SNPExpress

What is SNPExpress?

SNPExpress is a database and its user interface that we developed to permit interrogation of the effects of common SNPs on exon and transcript level expression, in two different human tissues: brain and PBMC ( Peripheral Blood Mononuclear Cell ).

This database enables researchers to input a SNP, gene, or a genomic region to investigate regions of interest for localized effects of SNPs on exon and gene level expression changes.

The main pre-calculated database was constructed based on a 'cis-acting effects screen' - tests between each exon and gene level expression and the SNP genotypes within 100KB up- and down-stream to the gene ([Each gene] - [Surrounding SNPs]).

In addition to the pre-calculated database (released with the SNPExpress software), the SNPExpress software tool also enables one to perform :

[1] an association test between any selected exon and gene level expressions and SNP genotypes ([One selected gene] - [One selected SNP]);

[2] a real-time genome-wide association test for any selected exon and gene level expressions ([One selected gene/exon] - [Genome-wide SNPs]);

[3] a real-time transcriptome-wide expression association test for any selected exon and gene level expressions ([One selected gene/exon] - [Transcriptome-wide expression]);

[4] a real-time transcriptome-wide expression association test for any selected SNP ([One selected SNP] - [Transcriptome-wide expression]).

 


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Contact | ©2008 Dongliang Ge, PhD