Question: Time series analysis from ChIP-Seq data
gravatar for Assa Yeroslaviz
14 months ago by
Assa Yeroslaviz1.1k
Assa Yeroslaviz1.1k wrote:


I was wondering if there a way to run a time series analysis on ChIP-Seq data. We have duplicates of four different time points for two strains and three conditions. We have done IP, Input and IgG samples. Now I would like to identify differences over time comparing the different conditions w.o. the need of doing multiple pair-wise comparisons.

I couldn't find any tool for that. Is it possible to take the same tools as for RNA-Seq samples? (by that I mean - DESeq2, edgeR, limma-voom etc.)

thanks Assa

ADD COMMENTlink modified 13 months ago by geek_y8.8k • written 14 months ago by Assa Yeroslaviz1.1k
gravatar for geek_y
13 months ago by
geek_y8.8k wrote:

You could use same tools. I saw many papers using DESeq2 or edgeR with any king of counts data generated by high throughput sequencin to identify the differences in two different settings.

ADD COMMENTlink written 13 months ago by geek_y8.8k
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