Table 1. Statistical summary of significant interactions identified by MaxHiC, GOTHiC, Fit-Hi-C, Fit-HiC2, HiCDC+, HiCCUPS, Peakachu, and Mustache in the GM12878 Hi-C library from Rao et al. [5]. at bin-sizes 5kb and 10kb.
Statistical summaries for HMEC library are provided in S2 Table, respectively.
| 1kb | MaxHiC | GOTHiC | Fit-Hi-C | Fit-Hi-C2 | HiCDC+ | HiCCUPS | Peakachu | Mustache | All | ||
|---|---|---|---|---|---|---|---|---|---|---|---|
| percentage of significant interactions | 0.03 | 9.4 | 16.6 | 17.1 | 0.05 | - | - | - | 100 | ||
| average read-count of interactions | 18.1 | 2.9 | 1.1 | 1.5 | 11.8 | - | - | - | 1.2 | ||
| min read-count of cis interactions | 4 | 2 | 1 | 1 | 4 | - | - | - | 1 | ||
| median distance of cis interactions (kb) | 3 | 14 | 30832 | 29426 | 5 | - | - | - | 544 | ||
| 5kb | |||||||||||
| percentage of significant interactions | 0.17 | 9.25 | 0.8 | 0.9 | 0.07 | 0.0095 | 0.0172 | 0.0091 | 100 | ||
| average read-count of interactions | 21.3 | 7.85 | 5.6 | 5.9 | 16.7 | 32.39 | 28.49 | 36.16 | 1.77 | ||
| min read-count of cis interactions | 3 | 2 | 1 | 1 | 3 | 11 | 10 | 14 | 1 | ||
| median distance of cis interactions (kb) | 130 | 85 | 5235 | 5014 | 245 | 110 | 145 | 165 | 15173 | ||
| 10kb | |||||||||||
| percentage of significant interactions | 0.32 | 7.32 | 1.06 | 1.1 | 0.11 | 0.0094 | 0.0163 | 0.0066 | 100 | ||
| average read-count of interactions | 29.4 | 15.17 | 12.3 | 13.5 | 26.6 | 58.62 | 46.37 | 62.74 | 2.38 | ||
| min read-count of interactions | 3 | 2 | 2 | 2 | 5 | 11 | 9 | 16 | 1 | ||
| median distance of cis interactions (kb) | 270 | 170 | 7590 | 7426 | 480 | 150 | 230 | 330 | 6990 | ||
* HiCCUPS, Peakachu, and Mustache calls interactions with FDR < 0.05 as significant. For all other methods we used a threshold of P-value < 0.001 to identify significant interactions.