A Straight Forward Strategy For ERK inhibitor
High-confidence intrachromosomal interaction regions Selleck Onalespib were used for this analysis. If two regions have at least one base overlap, the two regions are deemed to be overlapped. The overlap ratios of the different replicates are 46.5% (MCF7 pilot), 75% (MCF7 saturated), and 66% (K562 saturated, Figure?S8Q). If we sort the interaction regions by PET counts, we found that most of the interaction regions with high PET count are overlapped in the two replicates, as shown the Venn diagram (Figure?S8R), where I, II, and III are used to indicate the top 25%, 50% and 75% of the interaction regions from one replicate. This data suggests that most strong interaction regions identified in this study are reliable. The interactions with low PET counts are weak interactions and may vary between different replicates. We selleck screening library assessed the saturation level of RNAPII interaction clusters identified by ChIA-PET based on the current sequencing depth and the overlap of the interaction clusters from the replicates. We assume that the total RNAPII interaction clusters in each cell line were sampled randomly and independently by the replicates. Given that most of the RNAPII interactions from the pairs of replicates are common to each other, the proportion of nonobserved interaction clusters from the replicates will be the product of the proportions of nonobserved interaction clusters from each replicate. Based on the assumption, we have the following formula: Cisplatin N?��i=1,2NiN=N?N1N��N?N2N Where N ? is the total number of RNAPII interaction clusters in the RNAPII interactome of the specific cell line, Ni ? is the number of RNAPII clusters found from replicate i ?, and ��i=1,2Ni is the union of the interaction clusters from two replicates. This estimation is similar to the method called ��capture-recapture�� for population size estimation ( Baillargeon and Rivest, 2007). The estimated numbers of interaction clusters at the same significance level (FDR?
