Annotation File for Enchancer Regions in Ensembl mm10 genome
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3.4 years ago
hkarakurt ▴ 130

Hello everyone, I analyzed a ChIP-Seq Data (H3K4me1 and H3K27ac) and I need an enhancer annotation file (GFF/GTF) to use in SeqMonk. Is there any annotation file for enhancers?

Thank you.

ChIP-Seq enhancer • 952 views
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Enhancers are highly cell type specific regulatory elements. No, there is no simple consensus list that you can download. But as you have ChIP-seq data, you could use MACS2 to call peaks for both datasets and take the intersect as putative enhancer regions. This you then can write into the GFF format.

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