Table 2 For each dataset of [ 38 ], the estimated r and π 0 from CisGenome (columns 2 and 3), from NCIS (columns 4 and 5), and from CCAT (columns 6 and 7)
From: Is this the right normalization? A diagnostic tool for ChIP-seq normalization
Dataset | CisGenome | NCIS | CCAT | |||
|---|---|---|---|---|---|---|
\(\boldsymbol {\hat {r}}\) | \(\boldsymbol {\hat {\pi }_{0} = \frac {N_{\textit {in}}}{N_{\textit {ch}}}\hat {r}}\) | \(\boldsymbol {\hat {r}}\) | \(\boldsymbol {\hat {\pi }_{0} = \frac {N_{\textit {in}}}{N_{\textit {ch}}}\hat {r}}\) | \(\boldsymbol {\hat {r}}\) | \(\boldsymbol {\hat {\pi }_{0} = \frac {N_{\textit {in}}}{N_{\textit {ch}}}\hat {r}}\) | |
CTCF | 0.6699 | 0.5633 | 0.6657 | 0.5598 | 0.6419 | 0.5397 |
H3K4me3 | 0.3833 | 0.3845 | 0.3751 | 0.3762 | 0.3715 | 0.3726 |
H3K27me3 | 0.6163 | 0.8929 | 0.5182 | 0.7507 | 0.5187 | 0.7515 |
H3K36me3-1 | 0.6460 | 0.7672 | 0.5727 | 0.6801 | 0.5689 | 0.6757 |
H3K36me3-5 | 0.7097 | 0.7058 | 0.6802 | 0.676 | 0.6763 | 0.6725 |
H3K36me3-8 | 0.6987 | 0.7154 | 0.6813 | 0.6976 | 0.6499 | 0.6654 |
H3K36me3-pooled | 1.3117 | 0.4644 | 1.4680 | 0.5198 | 1.8084 | 0.6403 |
\(\frac {\hat {\pi }_{01}N_{Ch_{1}}+\hat {\pi }_{05}N_{Ch_{5}}+\hat {\pi }_{08}N_{Ch_{8}}}{N_{Ch_{1}}+N_{Ch_{5}}+N_{Ch_{8}}}\) | 0.7274 | 0.6848 | 0.6710 | |||