Fig. 2.

Quality assessment of immunoprecipitation signal with ESES. In this figure, the black straight line divides IP sample into two parts: the background (the left-hand side) and the region enriched with immunoprecipitation signal (the right-hand side). The fraction of cumulated signal (Faction of Reads) shows the fraction of reads captured in the corresponding regions, and the difference in cumulated signals between the IP and Input samples (or the scale factor) is shown by the two cross-points between the two curves (IP curve and Input curve) and the black straight line. Please refer to section “Assessing immunoprecipitation efficiency with ESES” for more details. Similar to before, we consider here only the genes that have at least 10 mapped reads. Transcripts with less 10 reads mapped are considered not readily detected and thus are excluded from this analysis