Table 1 Fitting results by mixture of two negative binomial distributions: mixture parameter estimates (second to fifth column), offset value k (sixth column), corresponding estimate of ChIP efficiency (IPE; seventh column) and number of enriched regions at a controlled 0.1% FDR (last column)
From: Accounting for immunoprecipitation efficiencies in the statistical analysis of ChIP-seq data
Experiment | p c | μ S | ϕ S | μ B | ϕ B | k | IPE | # Enriched regions |
|---|---|---|---|---|---|---|---|---|
CBPT0 | 0.0305 | 3.7318 | 0.6635 | 1.2788 | 1.8891 | 2 | 0.8973 | 2383 |
CBPT301 | 0.0568 | 4.5659 | 1.1781 | 1.4140 | 2.7159 | 2 | 0.9221 | 41606 |
CBPT302 | 0.0568 | 8.4491 | 0.5236 | 1.1634 | 1.1867 | 3 | 0.9630 | |
p300T0 | 0.0414 | 7.3513 | 0.7772 | 1.4159 | 2.0733 | 3 | 0.9628 | 22250 |
p300T301 | 0.0511 | 7.3276 | 0.7390 | 1.3524 | 3.0402 | 3 | 0.9684 | 65768 |
p300T302 | 0.0511 | 13.9161 | 0.5700 | 0.9740 | 0.9770 | 3 | 0.9793 | |
Wang CBP | 0.0180 | 24.7877 | 0.3742 | 4.8347 | 3.3128 | 9 | 0.9621 | 10251 |
Wang p300 | 0.0143 | 6.0192 | 0.2438 | 2.2001 | 4.3590 | 4 | 0.9156 | 3881 |