I am looking for some insights for my question interest.
I have Chip-Seq data for histone marks from 3 different subtypes of a cancer which have different levels of aggressiveness. I am interested to see if there is any association between the tumor aggressiveness and H3K27me3 loss.
Towards this I am planning to compare the coordinates that has less binding for H3K27me3 but are more bound with any of the activation marks like H3K27ac, H3K4me1 or H3K4me3 in one of the subtype compared to other.
I am not sure whether it will be a correct approach to find out these loss of H3K27me3 marks or it should be addressed differently?
Any suggestions will be highly appreciated.