You and a classmate are both doing ChlP for the same factor. In the shearing ste

Question

You and a classmate are both doing ChlP for the same factor. In the shearing step, however, you get very different results. His shearing/size distribution centers around 1000 bp whereas yours is around 300 bp on average. How does this influence the ChlP-seq results? Your peaks will be tighter (less wide) and your signal to noise on motif finding will be better O His peaks will be tighter (less wide) and his signal to noise on motif finding will be better O His ChIP-seq will completely fail and he will get no reads You will get the same results, it is ChIP for the same TF

Explanation / Answer

Your peaks will be tight (less wide) and your signal to noise on motif finding will be better.

100-300 bp size is considered ideal shearing size for high specificity and efficient ChIP-seq peaks. Results from 1000 bp of shearing size will have very low sensitivity.

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