I downloaded MCF7 H3K4me1 (ENCFF191EBN) and H3K4me3( ENCFF132IPF) narrow peak file from ENCODE website and I found a portion of peaks are overlap with each other. But in real world, H3K4 cannot be monomethylated and trimethylated at same time. So I was wondering how to deal with those peaks? Is there any way I can tell which histone modification is more 'dominant' in the overlapped peak region? Is the fold change value result from macs2 can be used in this comparison?
Thanks in advance! Kun