Table 7.
Dataset | Algorithm | Default AUCROC | Max. AUCROC param. | H3.K27 GM-VDA | H3.K36 GM-VDA | H3.K27 GM | H3.K27MT | ES.H3K4 | ES.H3K2 |
---|---|---|---|---|---|---|---|---|---|
MYO.H3k27me3.GM.VDA | CCAT | 0.8232 | 0.8787 | 0.0000 | −0.1938 | −0.0927 | −0.1539 | −0.1670 | −0.2618 |
MYO.H3k36me3.GM.VDA | CCAT | 0.6223 | 0.6849 | 0.1938 | 0.0000 | 0.1011 | 0.0400 | 0.0268 | −0.0679 |
MYO.H3k27me3.GM | CCAT | 0.8002 | 0.8562 | −0.2023 | −0.1768 | 0.0000 | −0.0371 | −0.1646 | −0.2083 |
MYO.H3k27me3.MT | CCAT | 0.7355 | 0.8191 | −0.1651 | −0.1397 | 0.0371 | 0.0000 | −0.1274 | −0.1712 |
ES.H3K4me3 | CCAT | 0.8413 | 0.8413 | −0.0181 | −0.2190 | −0.0411 | −0.1058 | 0.0000 | −0.3386 |
ES.H3K27me3 | CCAT | 0.5027 | 0.6556 | −0.0405 | −0.0124 | 0.1431 | 0.0599 | 0.1595 | 0.0000 |
MYO.H3k27me3.GM.VDA | ChipDiff | 0.8331 | 0.8331 | 0.0000 | −0.1635 | −0.0452 | −0.0991 | 0.0095 | 0.0841 |
MYO.H3k36me3.GM.VDA | ChipDiff | 0.6696 | 0.6696 | 0.1635 | 0.0000 | 0.1184 | 0.0644 | 0.1731 | 0.2476 |
MYO.H3k27me3.GM | ChipDiff | 0.7879 | 0.7879 | 0.0452 | −0.1184 | 0.0000 | −0.0539 | 0.0547 | 0.1293 |
MYO.H3k27me3.MT | ChipDiff | 0.7340 | 0.7340 | 0.0991 | −0.0644 | 0.0539 | 0.0000 | 0.1087 | 0.1832 |
ES.H3K4me3 | ChipDiff | 0.8426 | 0.9720 | −0.2687 | −0.4425 | −0.2038 | −0.2418 | 0.0000 | −0.1001 |
ES.H3K27me3 | ChipDiff | 0.9172 | 0.9172 | −0.0841 | −0.2476 | −0.1293 | −0.1832 | −0.0745 | 0.0000 |
MYO.H3k27me3.GM.VDA | Erange | 0.5038 | 0.5671 | 0.0000 | −0.0672 | −0.0011 | −0.0587 | 0.1681 | −0.0473 |
MYO.H3k36me3.GM.VDA | Erange | 0.5000 | 0.6110 | −0.1221 | 0.0000 | −0.0921 | −0.0554 | 0.1158 | −0.0243 |
MYO.H3k27me3.GM | Erange | 0.5003 | 0.5712 | −0.0188 | −0.0715 | 0.0000 | −0.0559 | 0.3057 | 0.2937 |
MYO.H3k27me3.MT | Erange | 0.5000 | 0.5557 | −0.0667 | 0.0554 | −0.0367 | 0.0000 | 0.1712 | 0.0311 |
ES.H3K4me3 | Erange | 0.8088 | 0.8770 | −0.3245 | −0.3772 | −0.3057 | −0.3617 | 0.0000 | −0.0121 |
ES.H3K27me3 | Erange | 0.5826 | 0.8649 | −0.3125 | −0.3652 | −0.2937 | −0.3496 | 0.0120 | 0.0000 |
MYO.H3k27me3.GM.VDA | Findpeaks | 0.8427 | 0.8469 | 0.0000 | −0.3916 | −0.0482 | −0.1119 | 0.0283 | 0.1531 |
MYO.H3k36me3.GM.VDA | Findpeaks | 0.4610 | 0.7576 | 0.0141 | 0.0000 | 0.0415 | −0.0475 | 0.0654 | 0.2424 |
MYO.H3k27me3.GM | Findpeaks | 0.7987 | 0.7991 | −0.0274 | −0.0415 | 0.0000 | −0.0889 | 0.0239 | 0.2009 |
MYO.H3k27me3.MT | Findpeaks | 0.7350 | 0.8423 | −0.1053 | −0.1348 | −0.0436 | 0.0000 | 0.0419 | 0.1515 |
ES.H3K4me3 | Findpeaks | 0.8738 | 0.8873 | −0.1204 | −0.1868 | −0.0886 | −0.0451 | 0.0000 | 0.1060 |
ES.H3K27me3 | Findpeaks | 1.0000 | 1.0000 | −0.1573 | −0.5390 | −0.2013 | −0.2650 | −0.1262 | 0.0000 |
MYO.H3k27me3.GM.VDA | Fseq | 0.7638 | 0.8421 | 0.0000 | −0.2281 | −0.0613 | −0.1373 | 0.1294 | −0.0148 |
MYO.H3k36me3.GM.VDA | Fseq | 0.6140 | 0.6355 | −0.0819 | 0.0000 | 0.1635 | 0.1397 | 0.2359 | 0.2272 |
MYO.H3k27me3.GM | Fseq | 0.7931 | 0.7998 | −0.1106 | −0.1808 | 0.0000 | −0.0698 | 0.1206 | 0.0833 |
MYO.H3k27me3.MT | Fseq | 0.7128 | 0.7752 | −0.2216 | −0.1397 | 0.0238 | 0.0000 | 0.0962 | 0.0876 |
ES.H3K4me3 | Fseq | 0.9742 | 0.9995 | −0.2815 | −0.4974 | −0.2062 | −0.2723 | 0.0000 | −0.1975 |
ES.H3K27me3 | Fseq | 0.8366 | 0.8831 | −0.1939 | −0.2641 | −0.0833 | −0.1531 | 0.0373 | 0.0000 |
MYO.H3k27me3.GM.VDA | MACS | 0.6583 | 0.6736 | 0.0000 | −0.0549 | −0.1176 | −0.1570 | 0.3139 | 0.1904 |
MYO.H3k36me3.GM.VDA | MACS | 0.6148 | 0.6247 | −0.1247 | 0.0000 | −0.1247 | −0.0738 | 0.2774 | 0.2205 |
MYO.H3k27me3.GM | MACS | 0.5980 | 0.6061 | −0.0139 | −0.0147 | 0.0000 | −0.0706 | 0.2222 | 0.0697 |
MYO.H3k27me3.MT | MACS | 0.5394 | 0.5553 | −0.0553 | 0.0693 | −0.0553 | 0.0000 | 0.4136 | 0.2775 |
ES.H3K4me3 | MACS | 0.9630 | 0.9886 | −0.3218 | −0.3726 | −0.4046 | −0.4678 | 0.0000 | −0.1212 |
ES.H3K27me3 | MACS | 0.6757 | 0.8674 | −0.2006 | −0.2514 | −0.2834 | −0.3466 | 0.1212 | 0.0000 |
MYO.H3k27me3.GM.VDA | PeakSeq | 0.6500 | 0.7064 | 0.0000 | −0.1877 | 0.0224 | −0.0757 | −0.2064 | 0.0436 |
MYO.H3k36me3.GM.VDA | PeakSeq | 0.5483 | 0.5509 | 0.0989 | 0.0000 | 0.1337 | 0.0164 | 0.3755 | 0.1785 |
MYO.H3k27me3.GM | PeakSeq | 0.6229 | 0.7289 | −0.0224 | −0.2101 | 0.0000 | −0.0982 | −0.2289 | 0.0211 |
MYO.H3k27me3.MT | PeakSeq | 0.5590 | 0.6307 | 0.0757 | −0.1119 | 0.0982 | 0.0000 | −0.1307 | 0.1193 |
ES.H3K4me3 | PeakSeq | 0.4951 | 0.9290 | −0.2784 | −0.3803 | −0.2268 | −0.3507 | 0.0000 | −0.1707 |
ES.H3K27me3 | PeakSeq | 0.7294 | 0.7583 | −0.1077 | −0.2096 | −0.0560 | −0.1800 | 0.1707 | 0.0000 |
MYO.H3k27me3.GM.VDA | Qeseq | 0.8378 | 0.8378 | 0.0000 | −0.1656 | −0.0387 | −0.1059 | 0.1562 | 0.0325 |
MYO.H3k36me3.GM.VDA | Qeseq | 0.6722 | 0.6722 | 0.1656 | 0.0000 | 0.1269 | 0.0597 | 0.3218 | 0.1981 |
MYO.H3k27me3.GM | Qeseq | 0.7991 | 0.7991 | 0.0387 | −0.1269 | 0.0000 | −0.0672 | 0.1949 | 0.0712 |
MYO.H3k27me3.MT | Qeseq | 0.7319 | 0.7319 | 0.1059 | −0.0597 | 0.0672 | 0.0000 | 0.2621 | 0.1384 |
ES.H3K4me3 | Qeseq | 0.9940 | 0.9940 | −0.1562 | −0.3218 | −0.1949 | −0.2621 | 0.0000 | −0.1237 |
ES.H3K27me3 | Qeseq | 0.8703 | 0.8703 | −0.0325 | −0.1981 | −0.0712 | −0.1384 | 0.1237 | 0.0000 |
MYO.H3k27me3.GM.VDA | QuEST | 0.5011 | 0.5011 | 0.0000 | −0.0011 | −0.0011 | −0.0011 | 0.1685 | 0.0540 |
MYO.H3k36me3.GM.VDA | QuEST | 0.5000 | 0.5000 | 0.0011 | 0.0000 | 0.0000 | 0.0000 | 0.1697 | 0.0551 |
MYO.H3k27me3.GM | QuEST | 0.5000 | 0.5000 | 0.0011 | 0.0000 | 0.0000 | 0.0000 | 0.1696 | 0.0551 |
MYO.H3k27me3.MT | QuEST | 0.5000 | 0.5000 | 0.0011 | 0.0000 | 0.0000 | 0.0000 | 0.1697 | 0.0551 |
ES.H3K4me3 | QuEST | 0.6697 | 0.6697 | −0.1685 | −0.1697 | −0.1696 | −0.1697 | 0.0000 | −0.1146 |
ES.H3K27me3 | QuEST | 0.5551 | 0.5551 | −0.0540 | −0.0551 | −0.0551 | −0.0551 | 0.1146 | 0.0000 |
MYO.H3k27me3.GM.VDA | RSEG | 0.8591 | 0.8591 | 0.0000 | −0.2374 | −0.0600 | −0.1237 | 0.1381 | 0.0863 |
MYO.H3k36me3.GM.VDA | RSEG | 0.6217 | 0.7516 | −0.1824 | 0.0000 | 0.0089 | 0.0866 | 0.0370 | 0.1093 |
MYO.H3k27me3.GM | RSEG | 0.7991 | 0.7991 | 0.0600 | −0.1773 | 0.0000 | −0.0637 | 0.1981 | 0.1463 |
MYO.H3k27me3.MT | RSEG | 0.7354 | 0.8387 | −0.2672 | −0.0927 | −0.0411 | 0.0000 | 0.1273 | 0.0223 |
ES.H3K4me3 | RSEG | 0.9972 | 0.9972 | −0.1381 | −0.3754 | −0.1981 | −0.2618 | 0.0000 | −0.0518 |
ES.H3K27me3 | RSEG | 0.9454 | 0.9469 | −0.0878 | −0.3252 | −0.1478 | −0.2115 | 0.0503 | −0.0015 |
MYO.H3k27me3.GM.VDA | SICER | 0.5000 | 0.5000 | 0.0000 | 0.1212 | 0.0000 | 0.0000 | 0.4970 | 0.3853 |
MYO.H3k36me3.GM.VDA | SICER | 0.6212 | 0.7038 | −0.2038 | 0.0000 | −0.2038 | −0.2038 | 0.1803 | 0.2739 |
MYO.H3k27me3.GM | SICER | 0.5000 | 0.5000 | 0.0000 | 0.1212 | 0.0000 | 0.0000 | 0.4970 | 0.3853 |
MYO.H3k27me3.MT | SICER | 0.5000 | 0.7355 | −0.2355 | −0.1337 | −0.2355 | 0.0000 | 0.2569 | 0.1500 |
ES.H3K4me3 | SICER | 0.9970 | 0.9970 | −0.4970 | −0.3757 | −0.4970 | −0.4970 | 0.0000 | −0.1117 |
ES.H3K27me3 | SICER | 0.8853 | 0.9777 | −0.4777 | −0.2739 | −0.4777 | −0.4777 | −0.0936 | 0.0000 |
MYO.H3k27me3.GM.VDA | SISSRS | 0.5089 | 0.5466 | 0.0000 | −0.0372 | −0.0309 | −0.0431 | 0.0860 | 0.0603 |
MYO.H3k36me3.GM.VDA | SISSRS | 0.5002 | 0.5094 | 0.0372 | 0.0000 | 0.0063 | −0.0059 | 0.1232 | 0.0975 |
MYO.H3k27me3.GM | SISSRS | 0.5010 | 0.5269 | 0.0142 | −0.0266 | 0.0000 | −0.0225 | 0.3081 | 0.1262 |
MYO.H3k27me3.MT | SISSRS | 0.5002 | 0.5068 | 0.0335 | −0.0066 | 0.0168 | 0.0000 | 0.1746 | 0.1189 |
ES.H3K4me3 | SISSRS | 0.5000 | 0.8350 | −0.2939 | −0.3347 | −0.3081 | −0.3306 | 0.0000 | −0.1819 |
ES.H3K27me3 | SISSRS | 0.5000 | 0.6533 | −0.1119 | −0.1478 | −0.1288 | −0.1486 | 0.1517 | 0.0000 |
MYO.H3k27me3.GM.VDA | SWEMBL | 0.8124 | 0.9128 | 0.0000 | −0.2938 | −0.1130 | −0.1766 | 0.0426 | −0.0273 |
MYO.H3k36me3.GM.VDA | SWEMBL | 0.6037 | 0.6190 | 0.2938 | 0.0000 | 0.1807 | 0.1172 | 0.3364 | 0.2665 |
MYO.H3k27me3.GM | SWEMBL | 0.7998 | 0.7998 | 0.0127 | −0.1960 | 0.0000 | −0.0635 | 0.1034 | 0.0750 |
MYO.H3k27me3.MT | SWEMBL | 0.7362 | 0.7362 | 0.0762 | −0.1325 | 0.0635 | 0.0000 | 0.1669 | 0.1385 |
ES.H3K4me3 | SWEMBL | 0.9032 | 0.9741 | −0.1603 | −0.3691 | −0.1743 | −0.2378 | 0.0000 | −0.0965 |
ES.H3K27me3 | SWEMBL | 0.8747 | 0.8855 | 0.0273 | −0.2665 | −0.0857 | −0.1493 | 0.0699 | 0.0000 |
MYO.H3k27me3.GM.VDA | TPIC | 0.8025 | 0.8811 | 0.0000 | −0.2738 | −0.0861 | −0.1745 | 0.0830 | −0.0477 |
MYO.H3k36me3.GM.VDA | TPIC | 0.6200 | 0.6200 | 0.1825 | 0.0000 | 0.1793 | 0.1155 | 0.3614 | 0.2407 |
MYO.H3k27me3.GM | TPIC | 0.7993 | 0.8042 | −0.0253 | −0.1976 | 0.0000 | −0.0812 | 0.1599 | 0.0291 |
MYO.H3k27me3.MT | TPIC | 0.7355 | 0.7355 | 0.0670 | −0.1155 | 0.0637 | 0.0000 | 0.2458 | 0.1251 |
ES.H3K4me3 | TPIC | 0.9814 | 0.9814 | −0.1789 | −0.3614 | −0.1821 | −0.2458 | 0.0000 | −0.1207 |
ES.H3K27me3 | TPIC | 0.8607 | 0.8607 | −0.0582 | −0.2407 | −0.0614 | −0.1251 | 0.1207 | 0.0000 |
MYO.H3k27me3.GM.VDA | W-ChiPeaks | 0.5085 | 0.5136 | 0.0000 | −0.0136 | −0.0030 | −0.0125 | 0.3147 | 0.2409 |
MYO.H3k36me3.GM.VDA | W-ChiPeaks | 0.5000 | 0.5000 | 0.0085 | 0.0000 | 0.0046 | 0.0015 | 0.3373 | 0.2185 |
MYO.H3k27me3.GM | W-ChiPeaks | 0.5046 | 0.5140 | −0.0035 | −0.0140 | 0.0000 | −0.0045 | 0.3227 | 0.2881 |
MYO.H3k27me3.MT | W-ChiPeaks | 0.5015 | 0.5100 | 0.0000 | −0.0100 | 0.0029 | 0.0000 | 0.3208 | 0.2921 |
ES.H3K4me3 | W-ChiPeaks | 0.8373 | 0.8458 | −0.3354 | −0.3458 | −0.3401 | −0.3386 | 0.0000 | −0.0558 |
ES.H3K27me3 | W-ChiPeaks | 0.7185 | 0.8020 | −0.2921 | −0.3020 | −0.2892 | −0.2921 | 0.0288 | 0.0000 |