Question: Time series analysis from ChIP-Seq data
gravatar for Assa Yeroslaviz
5 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 4 months ago by geek_y8.3k • written 5 months ago by Assa Yeroslaviz1.1k
gravatar for geek_y
4 months ago by
geek_y8.3k 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 4 months ago by geek_y8.3k
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