Hey guys. I just got ChIP-seq working, and I am gearing up to sequence some more libraries. I had a question for the forum. I am sequencing ChIP DNA from the same cell type that I have already sequenced input from over 2 different cross-links. Is it common practice to sequence an input from every crosslink you ChIP from, or can I just compare the sequence data from my new ChIP libraries to the input DNA that I have already sequenced from the same cell type? Is this accepted in the field? It has been suggested to me that I do this, but it seems strange to me not to have an input with every crosslink.
Thanks.
Thanks.
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