Biostar Beta. Not for public use.
Pvalue in annotated peak files
0
Entering edit mode
4.3 years ago
atsalaki • 10

Iam new to the field. I have annotated a chip-seq data bed peak file from ENCODE by taking the nearest to TSS genes in 5000 distance. From 50.000 records of the bed file i finaly found 1.500 records, genes that are upstream of the genes near TSS. These records have pvalues and qvalues. I wonder is it safe to take only the genes from the annotated peak file that have pvalue<0.05 or qvalue<0.05(cut-off )?i need the binding sites to cross correlate them with expression data on a vizualization tool forGene Regulatory Networks to determine if the ChIPed protein is involved in particular biological processes.I really dont know what to do.

ADD COMMENTlink

Login before adding your answer.

Similar Posts
Loading Similar Posts
Powered by the version 2.3.1