Table 3 For each dataset of modENCODE 38955, 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 | |||
|---|---|---|---|---|---|---|
\(\boldsymbol {\hat {r}}\) | \(\boldsymbol {\hat {\pi }_{0} = \frac {N_{\textit {in}}}{N_{\textit {ch}}}\hat {r}}\) | \(\boldsymbol {\hat {r}}\) | \(\boldsymbol {\hat {\pi }_{0} = \frac {N_{\textit {in}}}{N_{\textit {ch}}}\hat {r}}\) | \(\boldsymbol {\hat {r}}\) | \(\boldsymbol {\hat {\pi }_{0} = \frac {N_{\textit {in}}}{N_{\textit {ch}}}\hat {r}}\) | |
H3K27me3 (modENCODE,id 1820 vs id 1815) | 0.6481 | 0.6587 | 0.6508 | 0.6615 | 0.5760 | 0.5855 |
H3K27me3 (modENCODE,id 1957 vs id 1961) | 0.4883 | 0.6364 | 0.4933 | 0.6428 | 0.4251 | 0.5540 |
H3K27me3-pooled (modENCODE) | 0.5464 | 0.6301 | 0.5656 | 0.6522 | 0.4660 | 0.5373 |
\(\frac {\hat {\pi }_{1820}N_{Ch_{1820}}+\hat {\pi }_{1957}N_{Ch_{1957}}}{N_{Ch_{1820}}+N_{Ch_{1957}}}\) | 0.6473 | 0.6520 | 0.5694 | |||