ChIPSeq sequencing depth for histone modifications

priya

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Posts: 57
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ChIPSeq sequencing depth for histone modifications

01-23-2019, 01:20 AM

Hi,
We would like to sequence mouse Histone modification (H3K4me3,H3K4me1,H3K27me3,H3K27ac) chip-seq samples using illumina Hiseq2500. Previously we sequenced to depth of 40M reads/sample. And the number of enriched sites were good enough. Now, we would like to minimize the depth to 20M reads/sample. Is this sequencing depth (20Mreads) sufficient enough to analyze histone modification sites?
Looking forward for your inputs!

Thank you!
Tags: chip-seq, chip-seq analysis, histone modifications, illumina hiseq
atpoint

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01-24-2019, 02:01 PM

Why don't you subsample your existing data to 20mio reads and see if the results are good enough for what you want to do with them?
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ChIPSeq sequencing depth for histone modifications

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