ChIP-seq on AB stained cells

[Mindbomb]

Hi all,

Do you think the following plan could work out or would there be some technical difficulties?

1) Cross-link/fix primary cells with formaldehyde
2) Stain cells with primary AB
3) FACS sort specific cell population
4) Fragment chromatin and proceed with ChIP-seq protocol for histone marks.

The issue is that I can reliably distinguish a particular subset of primary human cells based only on the expression of a nuclear protein and hence the need for staining. As the protein that defines this cell population (primary AB staining) does not interact with DNA I would expect that it shouldn't interfer with the subsequent IP and library prep. Am I missing something?

Thanks in advance!