********************************************************************* * LD Score Regression (LDSC) * Version 1.0.0 * (C) 2014-2015 Brendan Bulik-Sullivan and Hilary Finucane * Broad Institute of MIT and Harvard / MIT Department of Mathematics * GNU General Public License v3 ********************************************************************* Call: ./ldsc.py \ --print-snps hapmap3_snps/hm.8.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.8 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.8 \ --annot 1000G_Phase3_baseline_v1.1/baseline.8.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 549971 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.8.bim Read 53 annotations for 549971 SNPs from 1000G_Phase3_baseline_v1.1/baseline.8.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.8.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.8.bed Estimating LD Score. Reading list of 75345 SNPs for which to print LD Scores from hapmap3_snps/hm.8.snp After merging with --print-snps, LD Scores for 65167 SNPs will be printed. Writing LD Scores for 65167 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.8.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.8.l2.ldscore.gz MAF baseL2 Coding_UCSC.bedL2 Coding_UCSC.extend.500.bedL2 Conserved_LindbladToh.bedL2 Conserved_LindbladToh.extend.500.bedL2 CTCF_Hoffman.bedL2 CTCF_Hoffman.extend.500.bedL2 DGF_ENCODE.bedL2 DGF_ENCODE.extend.500.bedL2 DHS_peaks_Trynka.bedL2 DHS_Trynka.bedL2 DHS_Trynka.extend.500.bedL2 Enhancer_Andersson.bedL2 Enhancer_Andersson.extend.500.bedL2 Enhancer_Hoffman.bedL2 Enhancer_Hoffman.extend.500.bedL2 FetalDHS_Trynka.bedL2 FetalDHS_Trynka.extend.500.bedL2 H3K27ac_Hnisz.bedL2 H3K27ac_Hnisz.extend.500.bedL2 H3K27ac_PGC2.bedL2 H3K27ac_PGC2.extend.500.bedL2 H3K4me1_peaks_Trynka.bedL2 H3K4me1_Trynka.bedL2 H3K4me1_Trynka.extend.500.bedL2 H3K4me3_peaks_Trynka.bedL2 H3K4me3_Trynka.bedL2 H3K4me3_Trynka.extend.500.bedL2 H3K9ac_peaks_Trynka.bedL2 H3K9ac_Trynka.bedL2 H3K9ac_Trynka.extend.500.bedL2 Intron_UCSC.bedL2 Intron_UCSC.extend.500.bedL2 PromoterFlanking_Hoffman.bedL2 PromoterFlanking_Hoffman.extend.500.bedL2 Promoter_UCSC.bedL2 \ mean 0.2368 136.4979 1.2930 6.0766 2.6748 39.7703 2.4509 7.2976 15.5949 65.3194 13.4991 20.7666 62.8065 0.5433 2.2162 4.0907 8.7921 10.1827 34.8756 42.7648 46.7091 30.7107 38.6303 19.3041 49.7138 73.6712 4.6246 14.8800 29.7906 3.6710 12.5226 23.6871 54.4813 55.2931 0.9179 3.4600 4.2588 std 0.1438 129.1677 2.5721 10.2310 3.2524 41.4375 2.9062 8.1737 16.1998 59.4920 12.9602 19.5852 54.7189 1.0722 3.4449 7.4118 14.6138 10.1445 31.6773 50.3928 53.0936 36.0055 43.8736 21.9045 50.8040 69.2657 7.2698 23.3526 43.4558 5.4540 17.2879 30.0948 77.1126 77.6654 1.7566 5.5230 8.6813 min 0.0051 -0.8772 -0.1620 -0.4467 -0.2188 -0.5287 -0.1338 -0.3189 -0.5252 0.1017 -0.2447 -0.4237 -0.2239 -0.0927 -0.1934 -0.2892 -0.5137 -0.2726 -0.1878 -1.2702 -1.1401 -0.4527 -0.5794 -0.5003 -0.5427 -0.4711 -0.3432 -0.5894 -0.5316 -0.3289 -0.5945 -0.6303 -4.1034 -4.1631 -0.1218 -0.2445 -0.3694 25% 0.1094 59.1297 0.0404 0.3047 0.5977 14.8353 0.6945 2.5761 6.2022 29.4520 5.8612 9.2710 29.4035 0.0266 0.2587 0.4075 1.2325 4.2623 15.9820 11.6349 14.1538 9.5001 12.7135 6.7944 20.3297 32.8562 1.1917 4.2665 10.2663 0.7009 2.8626 6.5467 5.5788 5.7654 0.0468 0.3931 0.2469 50% 0.2270 99.3385 0.3000 1.8249 1.6770 29.0435 1.6175 5.0792 11.0792 48.8855 9.9504 15.4689 47.9861 0.1298 0.9531 1.6399 4.0127 7.4129 26.4551 26.9425 30.3471 19.5910 25.4526 12.7765 34.9564 54.2379 2.5841 8.6333 18.8606 1.8381 6.7990 14.1045 26.6665 27.4271 0.2380 1.4204 1.2626 75% 0.3599 165.2008 1.3601 7.3599 3.4982 50.3438 3.1222 9.2149 19.1123 81.2347 16.5613 25.6114 78.0533 0.5523 2.6700 4.6735 10.3609 12.5795 42.8958 54.7055 59.2113 38.1281 47.9887 23.2870 60.1123 89.2503 5.1622 16.8442 34.4021 4.3059 15.0210 28.8871 75.3607 76.7527 0.9778 4.1299 4.6317 max 0.5000 1294.5671 33.6294 82.2248 32.4988 432.2357 38.8666 114.9379 187.8276 661.8133 152.5206 231.7355 611.9841 14.7523 40.6161 98.2001 197.1236 128.0907 388.7994 538.2767 574.6394 427.4727 523.5685 253.3030 584.9665 764.8854 99.2261 364.8478 670.1612 65.7988 217.6196 341.1354 714.7742 715.2642 19.7720 69.5754 137.4521 Promoter_UCSC.extend.500.bedL2 Repressed_Hoffman.bedL2 Repressed_Hoffman.extend.500.bedL2 SuperEnhancer_Hnisz.bedL2 SuperEnhancer_Hnisz.extend.500.bedL2 TFBS_ENCODE.bedL2 TFBS_ENCODE.extend.500.bedL2 Transcribed_Hoffman.bedL2 Transcribed_Hoffman.extend.500.bedL2 TSS_Hoffman.bedL2 TSS_Hoffman.extend.500.bedL2 UTR_3_UCSC.bedL2 UTR_3_UCSC.extend.500.bedL2 UTR_5_UCSC.bedL2 UTR_5_UCSC.extend.500.bedL2 WeakEnhancer_Hoffman.bedL2 WeakEnhancer_Hoffman.extend.500.bedL2 mean 5.2556 67.5844 104.4963 16.3389 16.6476 14.7448 40.1720 40.2201 95.2829 1.5847 2.9927 1.0848 2.5499 0.4873 2.2492 1.8430 7.9054 std 10.4963 66.8937 99.3764 29.7898 30.1372 16.9332 40.0408 49.7782 89.0845 3.5243 6.1973 2.3304 5.5930 1.3452 4.2818 3.1103 11.8679 min -0.4551 -1.4084 -2.0371 -1.8980 -1.9100 -0.3329 -0.1750 -1.1442 -2.0095 -0.1405 -0.2703 -0.1534 -0.2568 -0.1111 -0.2100 -0.2357 -0.3977 25% 0.3234 22.3886 38.3838 0.3384 0.3556 5.3714 16.6643 11.9526 37.8729 0.0457 0.1243 0.0251 0.0804 0.0090 0.1090 0.2600 1.7830 50% 1.6086 47.8139 75.4888 3.1220 3.2618 9.9353 28.9882 23.7698 68.8140 0.2809 0.7114 0.1928 0.5437 0.0728 0.6076 0.8502 4.3045 75% 5.7308 87.2606 132.5993 18.7630 19.2897 17.9773 49.3480 48.0413 118.0767 1.4493 2.9690 1.0482 2.5747 0.3652 2.3859 2.1196 9.1622 max 166.2507 503.3060 741.4284 302.8170 306.1695 219.0237 460.6379 458.5252 677.1149 43.5438 79.4904 36.4137 90.5111 25.0647 49.7665 40.2064 146.2390 MAF/LD Score Correlation Matrix MAF baseL2 Coding_UCSC.bedL2 Coding_UCSC.extend.500.bedL2 Conserved_LindbladToh.bedL2 Conserved_LindbladToh.extend.500.bedL2 CTCF_Hoffman.bedL2 CTCF_Hoffman.extend.500.bedL2 DGF_ENCODE.bedL2 DGF_ENCODE.extend.500.bedL2 DHS_peaks_Trynka.bedL2 DHS_Trynka.bedL2 DHS_Trynka.extend.500.bedL2 Enhancer_Andersson.bedL2 Enhancer_Andersson.extend.500.bedL2 Enhancer_Hoffman.bedL2 Enhancer_Hoffman.extend.500.bedL2 FetalDHS_Trynka.bedL2 FetalDHS_Trynka.extend.500.bedL2 H3K27ac_Hnisz.bedL2 H3K27ac_Hnisz.extend.500.bedL2 H3K27ac_PGC2.bedL2 H3K27ac_PGC2.extend.500.bedL2 H3K4me1_peaks_Trynka.bedL2 H3K4me1_Trynka.bedL2 H3K4me1_Trynka.extend.500.bedL2 H3K4me3_peaks_Trynka.bedL2 H3K4me3_Trynka.bedL2 H3K4me3_Trynka.extend.500.bedL2 H3K9ac_peaks_Trynka.bedL2 H3K9ac_Trynka.bedL2 H3K9ac_Trynka.extend.500.bedL2 Intron_UCSC.bedL2 Intron_UCSC.extend.500.bedL2 PromoterFlanking_Hoffman.bedL2 PromoterFlanking_Hoffman.extend.500.bedL2 \ MAF 1.0000 0.1669 0.1074 0.1158 0.1184 0.1635 0.1716 0.1749 0.1888 0.1975 0.1927 0.1994 0.2052 0.1142 0.1428 0.1398 0.1485 0.1957 0.2105 0.1708 0.1736 0.1664 0.1696 0.1755 0.1829 0.1882 0.1090 0.0988 0.1074 0.1551 0.1643 0.1671 0.1248 0.1261 0.0997 0.1283 baseL2 0.1669 1.0000 0.3560 0.4348 0.5295 0.7055 0.6336 0.6801 0.7032 0.8244 0.7494 0.7707 0.8572 0.3365 0.3714 0.4343 0.4807 0.6786 0.7547 0.5785 0.6095 0.6473 0.6701 0.6346 0.7205 0.8101 0.7182 0.7280 0.7859 0.4896 0.5171 0.5932 0.6174 0.6201 0.5041 0.5432 Coding_UCSC.bedL2 0.1074 0.3560 1.0000 0.8274 0.3743 0.4880 0.5441 0.5651 0.6254 0.5696 0.5652 0.5557 0.5222 0.3543 0.3879 0.5406 0.5886 0.5618 0.5399 0.5990 0.6024 0.5953 0.5967 0.6119 0.6072 0.5795 0.5183 0.4993 0.4519 0.6831 0.6893 0.6771 0.3865 0.3997 0.5950 0.6418 Coding_UCSC.extend.500.bedL2 0.1158 0.4348 0.8274 1.0000 0.4250 0.5748 0.5191 0.5400 0.6250 0.6084 0.5817 0.5737 0.5671 0.3550 0.3769 0.4990 0.5551 0.5587 0.5585 0.6234 0.6301 0.6143 0.6171 0.6258 0.6440 0.6337 0.5355 0.5191 0.4807 0.6731 0.6745 0.6752 0.5542 0.5659 0.6624 0.6849 Conserved_LindbladToh.bedL2 0.1184 0.5295 0.3743 0.4250 1.0000 0.8418 0.4171 0.4654 0.5777 0.6403 0.6236 0.6376 0.6563 0.2169 0.2727 0.4114 0.4398 0.6046 0.6321 0.5298 0.5464 0.5144 0.5285 0.5535 0.6024 0.6387 0.3531 0.3426 0.3635 0.4287 0.4467 0.4830 0.5337 0.5366 0.4481 0.4281 Conserved_LindbladToh.extend.500.bedL2 0.1635 0.7055 0.4880 0.5748 0.8418 1.0000 0.6130 0.6801 0.7919 0.8534 0.8323 0.8465 0.8673 0.3663 0.4427 0.6026 0.6478 0.8026 0.8397 0.7422 0.7618 0.7432 0.7591 0.7763 0.8277 0.8602 0.5245 0.5042 0.5326 0.6229 0.6465 0.7083 0.6963 0.6998 0.6567 0.6553 CTCF_Hoffman.bedL2 0.1716 0.6336 0.5441 0.5191 0.4171 0.6130 1.0000 0.9431 0.7727 0.7618 0.7582 0.7563 0.7464 0.4669 0.5335 0.6215 0.6581 0.7270 0.7404 0.6947 0.7072 0.6995 0.7115 0.7212 0.7469 0.7560 0.6302 0.6005 0.6220 0.6817 0.7005 0.7385 0.4653 0.4724 0.5774 0.6433 CTCF_Hoffman.extend.500.bedL2 0.1749 0.6801 0.5651 0.5400 0.4654 0.6801 0.9431 1.0000 0.8409 0.8361 0.8274 0.8274 0.8194 0.4841 0.5696 0.6900 0.7294 0.7935 0.8166 0.7590 0.7732 0.7613 0.7753 0.7912 0.8180 0.8266 0.6595 0.6266 0.6501 0.7387 0.7587 0.8013 0.5187 0.5261 0.6482 0.7056 DGF_ENCODE.bedL2 0.1888 0.7032 0.6254 0.6250 0.5777 0.7919 0.7727 0.8409 1.0000 0.9595 0.9679 0.9638 0.9281 0.5657 0.6526 0.8345 0.8771 0.9373 0.9370 0.9234 0.9337 0.9259 0.9340 0.9564 0.9652 0.9481 0.7288 0.6898 0.6979 0.8589 0.8815 0.9225 0.6108 0.6179 0.7576 0.8227 DGF_ENCODE.extend.500.bedL2 0.1975 0.8244 0.5696 0.6084 0.6403 0.8534 0.7618 0.8361 0.9595 1.0000 0.9645 0.9730 0.9836 0.4924 0.5787 0.7418 0.7934 0.9191 0.9548 0.8776 0.8983 0.8889 0.9058 0.9154 0.9581 0.9809 0.7045 0.6778 0.7090 0.7754 0.8021 0.8627 0.6755 0.6813 0.7320 0.7813 DHS_peaks_Trynka.bedL2 0.1927 0.7494 0.5652 0.5817 0.6236 0.8323 0.7582 0.8274 0.9679 0.9645 1.0000 0.9919 0.9618 0.5419 0.6283 0.7957 0.8382 0.9691 0.9710 0.9070 0.9205 0.9146 0.9248 0.9419 0.9637 0.9617 0.7108 0.6738 0.6941 0.8123 0.8399 0.8907 0.6430 0.6485 0.7227 0.7781 DHS_Trynka.bedL2 0.1994 0.7707 0.5557 0.5737 0.6376 0.8465 0.7563 0.8274 0.9638 0.9730 0.9919 1.0000 0.9757 0.5346 0.6227 0.7853 0.8273 0.9656 0.9770 0.9030 0.9180 0.9106 0.9232 0.9391 0.9658 0.9701 0.7026 0.6680 0.6928 0.7996 0.8278 0.8825 0.6516 0.6567 0.7171 0.7699 DHS_Trynka.extend.500.bedL2 0.2052 0.8572 0.5222 0.5671 0.6563 0.8673 0.7464 0.8194 0.9281 0.9836 0.9618 0.9757 1.0000 0.4764 0.5628 0.7063 0.7545 0.9203 0.9657 0.8494 0.8713 0.8668 0.8851 0.8927 0.9418 0.9754 0.6904 0.6663 0.7048 0.7356 0.7635 0.8300 0.6813 0.6859 0.6951 0.7408 Enhancer_Andersson.bedL2 0.1142 0.3365 0.3543 0.3550 0.2169 0.3663 0.4669 0.4841 0.5657 0.4924 0.5419 0.5346 0.4764 1.0000 0.8970 0.5299 0.5447 0.5425 0.5186 0.5779 0.5711 0.5857 0.5755 0.5669 0.5498 0.5014 0.5124 0.4934 0.4718 0.5613 0.5760 0.5780 0.3208 0.3248 0.3840 0.4418 Enhancer_Andersson.extend.500.bedL2 0.1428 0.3714 0.3879 0.3769 0.2727 0.4427 0.5335 0.5696 0.6526 0.5787 0.6283 0.6227 0.5628 0.8970 1.0000 0.6296 0.6451 0.6283 0.6137 0.6619 0.6559 0.6617 0.6542 0.6487 0.6323 0.5826 0.5116 0.4821 0.4657 0.6255 0.6407 0.6458 0.3478 0.3525 0.4552 0.5208 Enhancer_Hoffman.bedL2 0.1398 0.4343 0.5406 0.4990 0.4114 0.6026 0.6215 0.6900 0.8345 0.7418 0.7957 0.7853 0.7063 0.5299 0.6296 1.0000 0.9802 0.7942 0.7610 0.8193 0.8131 0.8204 0.8111 0.8418 0.7999 0.7422 0.6156 0.5585 0.5369 0.8379 0.8449 0.8411 0.4834 0.4889 0.6726 0.7495 Enhancer_Hoffman.extend.500.bedL2 0.1485 0.4807 0.5886 0.5551 0.4398 0.6478 0.6581 0.7294 0.8771 0.7934 0.8382 0.8273 0.7545 0.5447 0.6451 0.9802 1.0000 0.8336 0.8045 0.8612 0.8576 0.8637 0.8568 0.8828 0.8484 0.7940 0.6542 0.5984 0.5785 0.8668 0.8774 0.8822 0.5129 0.5191 0.7298 0.8125 FetalDHS_Trynka.bedL2 0.1957 0.6786 0.5618 0.5587 0.6046 0.8026 0.7270 0.7935 0.9373 0.9191 0.9691 0.9656 0.9203 0.5425 0.6283 0.7942 0.8336 1.0000 0.9745 0.8975 0.9063 0.8986 0.9057 0.9342 0.9420 0.9253 0.6723 0.6287 0.6429 0.8056 0.8303 0.8763 0.5996 0.6049 0.6972 0.7567 FetalDHS_Trynka.extend.500.bedL2 0.2105 0.7547 0.5399 0.5585 0.6321 0.8397 0.7404 0.8166 0.9370 0.9548 0.9710 0.9770 0.9657 0.5186 0.6137 0.7610 0.8045 0.9745 1.0000 0.8891 0.9035 0.8931 0.9060 0.9297 0.9543 0.9576 0.6676 0.6330 0.6620 0.7771 0.8048 0.8638 0.6432 0.6480 0.6940 0.7487 H3K27ac_Hnisz.bedL2 0.1708 0.5785 0.5990 0.6234 0.5298 0.7422 0.6947 0.7590 0.9234 0.8776 0.9070 0.9030 0.8494 0.5779 0.6619 0.8193 0.8612 0.8975 0.8891 1.0000 0.9979 0.9518 0.9545 0.9493 0.9443 0.8992 0.7040 0.6663 0.6685 0.8589 0.8891 0.9275 0.5742 0.5804 0.7355 0.7952 H3K27ac_Hnisz.extend.500.bedL2 0.1736 0.6095 0.6024 0.6301 0.5464 0.7618 0.7072 0.7732 0.9337 0.8983 0.9205 0.9180 0.8713 0.5711 0.6559 0.8131 0.8576 0.9063 0.9035 0.9979 1.0000 0.9545 0.9596 0.9540 0.9555 0.9180 0.7116 0.6752 0.6814 0.8548 0.8859 0.9290 0.5914 0.5977 0.7442 0.8018 H3K27ac_PGC2.bedL2 0.1664 0.6473 0.5953 0.6143 0.5144 0.7432 0.6995 0.7613 0.9259 0.8889 0.9146 0.9106 0.8668 0.5857 0.6617 0.8204 0.8637 0.8986 0.8931 0.9518 0.9545 1.0000 0.9965 0.9547 0.9515 0.9116 0.7782 0.7489 0.7544 0.8608 0.8918 0.9367 0.5734 0.5795 0.7305 0.7984 H3K27ac_PGC2.extend.500.bedL2 0.1696 0.6701 0.5967 0.6171 0.5285 0.7591 0.7115 0.7753 0.9340 0.9058 0.9248 0.9232 0.8851 0.5755 0.6542 0.8111 0.8568 0.9057 0.9060 0.9545 0.9596 0.9965 1.0000 0.9591 0.9620 0.9288 0.7760 0.7472 0.7582 0.8533 0.8844 0.9359 0.5886 0.5946 0.7378 0.8031 H3K4me1_peaks_Trynka.bedL2 0.1755 0.6346 0.6119 0.6258 0.5535 0.7763 0.7212 0.7912 0.9564 0.9154 0.9419 0.9391 0.8927 0.5669 0.6487 0.8418 0.8828 0.9342 0.9297 0.9493 0.9540 0.9547 0.9591 1.0000 0.9796 0.9388 0.7336 0.6906 0.6924 0.8907 0.9128 0.9517 0.6134 0.6192 0.7721 0.8314 H3K4me1_Trynka.bedL2 0.1829 0.7205 0.6072 0.6440 0.6024 0.8277 0.7469 0.8180 0.9652 0.9581 0.9637 0.9658 0.9418 0.5498 0.6323 0.7999 0.8484 0.9420 0.9543 0.9443 0.9555 0.9515 0.9620 0.9796 1.0000 0.9819 0.7437 0.7105 0.7247 0.8552 0.8837 0.9356 0.6549 0.6608 0.7743 0.8248 H3K4me1_Trynka.extend.500.bedL2 0.1882 0.8101 0.5795 0.6337 0.6387 0.8602 0.7560 0.8266 0.9481 0.9809 0.9617 0.9701 0.9754 0.5014 0.5826 0.7422 0.7940 0.9253 0.9576 0.8992 0.9180 0.9116 0.9288 0.9388 0.9819 1.0000 0.7308 0.7037 0.7326 0.7951 0.8227 0.8869 0.6996 0.7050 0.7530 0.7977 H3K4me3_peaks_Trynka.bedL2 0.1090 0.7182 0.5183 0.5355 0.3531 0.5245 0.6302 0.6595 0.7288 0.7045 0.7108 0.7026 0.6904 0.5124 0.5116 0.6156 0.6542 0.6723 0.6676 0.7040 0.7116 0.7782 0.7760 0.7336 0.7437 0.7308 1.0000 0.9808 0.9638 0.7346 0.7523 0.7802 0.4596 0.4659 0.6069 0.6771 H3K4me3_Trynka.bedL2 0.0988 0.7280 0.4993 0.5191 0.3426 0.5042 0.6005 0.6266 0.6898 0.6778 0.6738 0.6680 0.6663 0.4934 0.4821 0.5585 0.5984 0.6287 0.6330 0.6663 0.6752 0.7489 0.7472 0.6906 0.7105 0.7037 0.9808 1.0000 0.9827 0.6836 0.7111 0.7428 0.4405 0.4467 0.5633 0.6301 H3K4me3_Trynka.extend.500.bedL2 0.1074 0.7859 0.4519 0.4807 0.3635 0.5326 0.6220 0.6501 0.6979 0.7090 0.6941 0.6928 0.7048 0.4718 0.4657 0.5369 0.5785 0.6429 0.6620 0.6685 0.6814 0.7544 0.7582 0.6924 0.7247 0.7326 0.9638 0.9827 1.0000 0.6437 0.6747 0.7289 0.4646 0.4698 0.5460 0.6073 H3K9ac_peaks_Trynka.bedL2 0.1551 0.4896 0.6831 0.6731 0.4287 0.6229 0.6817 0.7387 0.8589 0.7754 0.8123 0.7996 0.7356 0.5613 0.6255 0.8379 0.8668 0.8056 0.7771 0.8589 0.8548 0.8608 0.8533 0.8907 0.8552 0.7951 0.7346 0.6836 0.6437 1.0000 0.9722 0.9494 0.5137 0.5220 0.7395 0.8189 H3K9ac_Trynka.bedL2 0.1643 0.5171 0.6893 0.6745 0.4467 0.6465 0.7005 0.7587 0.8815 0.8021 0.8399 0.8278 0.7635 0.5760 0.6407 0.8449 0.8774 0.8303 0.8048 0.8891 0.8859 0.8918 0.8844 0.9128 0.8837 0.8227 0.7523 0.7111 0.6747 0.9722 1.0000 0.9782 0.5233 0.5318 0.7413 0.8195 H3K9ac_Trynka.extend.500.bedL2 0.1671 0.5932 0.6771 0.6752 0.4830 0.7083 0.7385 0.8013 0.9225 0.8627 0.8907 0.8825 0.8300 0.5780 0.6458 0.8411 0.8822 0.8763 0.8638 0.9275 0.9290 0.9367 0.9359 0.9517 0.9356 0.8869 0.7802 0.7428 0.7289 0.9494 0.9782 1.0000 0.5632 0.5709 0.7642 0.8368 Intron_UCSC.bedL2 0.1248 0.6174 0.3865 0.5542 0.5337 0.6963 0.4653 0.5187 0.6108 0.6755 0.6430 0.6516 0.6813 0.3208 0.3478 0.4834 0.5129 0.5996 0.6432 0.5742 0.5914 0.5734 0.5886 0.6134 0.6549 0.6996 0.4596 0.4405 0.4646 0.5137 0.5233 0.5632 1.0000 0.9998 0.5212 0.5268 Intron_UCSC.extend.500.bedL2 0.1261 0.6201 0.3997 0.5659 0.5366 0.6998 0.4724 0.5261 0.6179 0.6813 0.6485 0.6567 0.6859 0.3248 0.3525 0.4889 0.5191 0.6049 0.6480 0.5804 0.5977 0.5795 0.5946 0.6192 0.6608 0.7050 0.4659 0.4467 0.4698 0.5220 0.5318 0.5709 0.9998 1.0000 0.5282 0.5347 PromoterFlanking_Hoffman.bedL2 0.0997 0.5041 0.5950 0.6624 0.4481 0.6567 0.5774 0.6482 0.7576 0.7320 0.7227 0.7171 0.6951 0.3840 0.4552 0.6726 0.7298 0.6972 0.6940 0.7355 0.7442 0.7305 0.7378 0.7721 0.7743 0.7530 0.6069 0.5633 0.5460 0.7395 0.7413 0.7642 0.5212 0.5282 1.0000 0.9284 PromoterFlanking_Hoffman.extend.500.bedL2 0.1283 0.5432 0.6418 0.6849 0.4281 0.6553 0.6433 0.7056 0.8227 0.7813 0.7781 0.7699 0.7408 0.4418 0.5208 0.7495 0.8125 0.7567 0.7487 0.7952 0.8018 0.7984 0.8031 0.8314 0.8248 0.7977 0.6771 0.6301 0.6073 0.8189 0.8195 0.8368 0.5268 0.5347 0.9284 1.0000 Promoter_UCSC.bedL2 0.1268 0.4777 0.7211 0.7361 0.3816 0.5673 0.6725 0.7238 0.7439 0.6930 0.6929 0.6830 0.6536 0.4705 0.5408 0.6773 0.7231 0.6620 0.6568 0.6955 0.7028 0.6802 0.6809 0.7126 0.7209 0.7005 0.6144 0.5728 0.5384 0.7872 0.7895 0.7689 0.5050 0.5168 0.7205 0.7693 Promoter_UCSC.extend.500.bedL2 0.1278 0.4797 0.7232 0.7426 0.3768 0.5641 0.6689 0.7210 0.7455 0.6947 0.6940 0.6840 0.6550 0.4678 0.5397 0.6778 0.7244 0.6631 0.6587 0.6982 0.7053 0.6812 0.6823 0.7144 0.7225 0.7027 0.6118 0.5696 0.5353 0.7857 0.7892 0.7686 0.5130 0.5247 0.7215 0.7715 Repressed_Hoffman.bedL2 0.1606 0.8459 0.1082 0.1499 0.3917 0.5123 0.4266 0.4610 0.4108 0.5735 0.4830 0.5155 0.6342 0.1223 0.1728 0.1333 0.1629 0.4245 0.5188 0.2390 0.2740 0.2905 0.3187 0.3063 0.4086 0.5320 0.3338 0.3509 0.4180 0.1584 0.1831 0.2416 0.4127 0.4126 0.1960 0.2271 Repressed_Hoffman.extend.500.bedL2 0.1620 0.8893 0.1411 0.1926 0.4578 0.5797 0.4610 0.5024 0.4736 0.6425 0.5498 0.5819 0.6991 0.1462 0.1947 0.1837 0.2186 0.4879 0.5832 0.3073 0.3438 0.3578 0.3870 0.3748 0.4791 0.6040 0.3830 0.3992 0.4710 0.2065 0.2337 0.3008 0.4859 0.4858 0.2557 0.2827 SuperEnhancer_Hnisz.bedL2 0.1339 0.3287 0.4783 0.5161 0.3513 0.5172 0.5313 0.5681 0.6995 0.6157 0.6705 0.6584 0.5868 0.5705 0.6448 0.7394 0.7491 0.6694 0.6424 0.8165 0.7972 0.7821 0.7627 0.7494 0.7135 0.6409 0.5442 0.5065 0.4783 0.7711 0.7918 0.7767 0.4261 0.4313 0.5496 0.6213 SuperEnhancer_Hnisz.extend.500.bedL2 0.1349 0.3300 0.4814 0.5187 0.3532 0.5195 0.5332 0.5702 0.7018 0.6181 0.6726 0.6605 0.5889 0.5700 0.6448 0.7405 0.7505 0.6714 0.6446 0.8187 0.7996 0.7839 0.7647 0.7514 0.7158 0.6433 0.5457 0.5080 0.4797 0.7730 0.7939 0.7789 0.4269 0.4322 0.5515 0.6235 TFBS_ENCODE.bedL2 0.1853 0.6577 0.6567 0.6447 0.5556 0.7624 0.7716 0.8319 0.9607 0.9208 0.9367 0.9314 0.8890 0.5469 0.6395 0.8738 0.9112 0.9136 0.9048 0.9028 0.9104 0.9099 0.9111 0.9357 0.9356 0.9131 0.7144 0.6684 0.6619 0.8823 0.8987 0.9209 0.5958 0.6032 0.7654 0.8369 TFBS_ENCODE.extend.500.bedL2 0.1990 0.7577 0.6142 0.6254 0.6044 0.8226 0.7732 0.8479 0.9693 0.9733 0.9632 0.9666 0.9536 0.5210 0.6174 0.8187 0.8653 0.9312 0.9485 0.9019 0.9164 0.9150 0.9248 0.9394 0.9603 0.9626 0.7109 0.6759 0.6915 0.8306 0.8551 0.9009 0.6445 0.6509 0.7558 0.8192 Transcribed_Hoffman.bedL2 0.1233 0.7554 0.4986 0.6458 0.6055 0.7552 0.5443 0.6068 0.7634 0.8286 0.7769 0.7849 0.8205 0.3651 0.3871 0.5841 0.6348 0.7228 0.7633 0.7203 0.7393 0.7443 0.7576 0.7571 0.8001 0.8369 0.6317 0.6134 0.6376 0.6467 0.6540 0.7106 0.7497 0.7533 0.6908 0.6952 Transcribed_Hoffman.extend.500.bedL2 0.1639 0.9391 0.3377 0.4529 0.5849 0.7346 0.5390 0.5932 0.6675 0.8070 0.7208 0.7453 0.8403 0.2705 0.3053 0.4060 0.4515 0.6557 0.7364 0.5458 0.5770 0.5966 0.6197 0.6089 0.6937 0.7905 0.5573 0.5608 0.6153 0.4543 0.4719 0.5414 0.6901 0.6917 0.5033 0.5230 TSS_Hoffman.bedL2 0.1157 0.3782 0.6955 0.6777 0.3459 0.5010 0.5735 0.6050 0.7116 0.6224 0.6530 0.6326 0.5764 0.4500 0.4986 0.7318 0.7721 0.6434 0.6011 0.6872 0.6841 0.6945 0.6808 0.7047 0.6811 0.6343 0.6196 0.5648 0.5011 0.8153 0.7994 0.7635 0.4155 0.4259 0.7076 0.7847 TSS_Hoffman.extend.500.bedL2 0.1207 0.4051 0.7002 0.6739 0.3426 0.5191 0.6032 0.6475 0.7526 0.6627 0.6929 0.6736 0.6157 0.4659 0.5280 0.7780 0.8209 0.6854 0.6478 0.7291 0.7264 0.7377 0.7253 0.7502 0.7237 0.6733 0.6448 0.5916 0.5331 0.8379 0.8301 0.8030 0.4211 0.4313 0.7447 0.8285 UTR_3_UCSC.bedL2 0.0956 0.4200 0.8300 0.6574 0.2854 0.4608 0.5975 0.6403 0.6586 0.6056 0.6015 0.5899 0.5600 0.3624 0.4246 0.5767 0.6211 0.5885 0.5755 0.5933 0.6030 0.6038 0.6103 0.6143 0.6207 0.6012 0.5308 0.5068 0.4925 0.6396 0.6542 0.6607 0.3590 0.3716 0.5936 0.6427 UTR_3_UCSC.extend.500.bedL2 0.0967 0.4781 0.7400 0.6846 0.3261 0.5210 0.6492 0.7057 0.7041 0.6617 0.6546 0.6448 0.6200 0.4119 0.4818 0.6309 0.6773 0.6277 0.6228 0.6387 0.6482 0.6400 0.6468 0.6525 0.6682 0.6550 0.5666 0.5384 0.5288 0.6811 0.6909 0.6948 0.4305 0.4429 0.6615 0.6991 UTR_5_UCSC.bedL2 0.1161 0.2317 0.6515 0.5456 0.2307 0.3159 0.4320 0.4658 0.4755 0.4138 0.4205 0.4096 0.3728 0.3075 0.3354 0.4566 0.4805 0.4044 0.3859 0.4460 0.4459 0.4191 0.4150 0.4495 0.4397 0.4100 0.3743 0.3528 0.3069 0.5700 0.5711 0.5257 0.2940 0.3044 0.4507 0.5059 UTR_5_UCSC.extend.500.bedL2 0.1319 0.3554 0.7337 0.7715 0.3247 0.4597 0.5276 0.5635 0.6178 0.5663 0.5657 0.5545 0.5230 0.3882 0.4258 0.5583 0.5990 0.5472 0.5311 0.6068 0.6095 0.5900 0.5872 0.6112 0.6098 0.5831 0.5198 0.4865 0.4390 0.7086 0.7072 0.6783 0.4461 0.4577 0.6342 0.6868 WeakEnhancer_Hoffman.bedL2 0.1370 0.4793 0.5396 0.4726 0.4217 0.6252 0.6346 0.7132 0.8318 0.7604 0.8028 0.7942 0.7327 0.5120 0.6034 0.7972 0.8328 0.8117 0.7915 0.7871 0.7873 0.7960 0.7972 0.8420 0.8076 0.7596 0.5992 0.5556 0.5478 0.7689 0.7835 0.8167 0.4592 0.4642 0.6677 0.7390 WeakEnhancer_Hoffman.extend.500.bedL2 0.1549 0.5309 0.5786 0.5284 0.4582 0.6740 0.6880 0.7713 0.8914 0.8280 0.8555 0.8500 0.7947 0.5337 0.6309 0.8448 0.8837 0.8540 0.8442 0.8482 0.8507 0.8518 0.8559 0.8968 0.8697 0.8268 0.6446 0.6006 0.5996 0.8172 0.8295 0.8699 0.5118 0.5176 0.7258 0.7974 Promoter_UCSC.bedL2 Promoter_UCSC.extend.500.bedL2 Repressed_Hoffman.bedL2 Repressed_Hoffman.extend.500.bedL2 SuperEnhancer_Hnisz.bedL2 SuperEnhancer_Hnisz.extend.500.bedL2 TFBS_ENCODE.bedL2 TFBS_ENCODE.extend.500.bedL2 Transcribed_Hoffman.bedL2 Transcribed_Hoffman.extend.500.bedL2 TSS_Hoffman.bedL2 TSS_Hoffman.extend.500.bedL2 UTR_3_UCSC.bedL2 UTR_3_UCSC.extend.500.bedL2 UTR_5_UCSC.bedL2 UTR_5_UCSC.extend.500.bedL2 WeakEnhancer_Hoffman.bedL2 WeakEnhancer_Hoffman.extend.500.bedL2 MAF 0.1268 0.1278 0.1606 0.1620 0.1339 0.1349 0.1853 0.1990 0.1233 0.1639 0.1157 0.1207 0.0956 0.0967 0.1161 0.1319 0.1370 0.1549 baseL2 0.4777 0.4797 0.8459 0.8893 0.3287 0.3300 0.6577 0.7577 0.7554 0.9391 0.3782 0.4051 0.4200 0.4781 0.2317 0.3554 0.4793 0.5309 Coding_UCSC.bedL2 0.7211 0.7232 0.1082 0.1411 0.4783 0.4814 0.6567 0.6142 0.4986 0.3377 0.6955 0.7002 0.8300 0.7400 0.6515 0.7337 0.5396 0.5786 Coding_UCSC.extend.500.bedL2 0.7361 0.7426 0.1499 0.1926 0.5161 0.5187 0.6447 0.6254 0.6458 0.4529 0.6777 0.6739 0.6574 0.6846 0.5456 0.7715 0.4726 0.5284 Conserved_LindbladToh.bedL2 0.3816 0.3768 0.3917 0.4578 0.3513 0.3532 0.5556 0.6044 0.6055 0.5849 0.3459 0.3426 0.2854 0.3261 0.2307 0.3247 0.4217 0.4582 Conserved_LindbladToh.extend.500.bedL2 0.5673 0.5641 0.5123 0.5797 0.5172 0.5195 0.7624 0.8226 0.7552 0.7346 0.5010 0.5191 0.4608 0.5210 0.3159 0.4597 0.6252 0.6740 CTCF_Hoffman.bedL2 0.6725 0.6689 0.4266 0.4610 0.5313 0.5332 0.7716 0.7732 0.5443 0.5390 0.5735 0.6032 0.5975 0.6492 0.4320 0.5276 0.6346 0.6880 CTCF_Hoffman.extend.500.bedL2 0.7238 0.7210 0.4610 0.5024 0.5681 0.5702 0.8319 0.8479 0.6068 0.5932 0.6050 0.6475 0.6403 0.7057 0.4658 0.5635 0.7132 0.7713 DGF_ENCODE.bedL2 0.7439 0.7455 0.4108 0.4736 0.6995 0.7018 0.9607 0.9693 0.7634 0.6675 0.7116 0.7526 0.6586 0.7041 0.4755 0.6178 0.8318 0.8914 DGF_ENCODE.extend.500.bedL2 0.6930 0.6947 0.5735 0.6425 0.6157 0.6181 0.9208 0.9733 0.8286 0.8070 0.6224 0.6627 0.6056 0.6617 0.4138 0.5663 0.7604 0.8280 DHS_peaks_Trynka.bedL2 0.6929 0.6940 0.4830 0.5498 0.6705 0.6726 0.9367 0.9632 0.7769 0.7208 0.6530 0.6929 0.6015 0.6546 0.4205 0.5657 0.8028 0.8555 DHS_Trynka.bedL2 0.6830 0.6840 0.5155 0.5819 0.6584 0.6605 0.9314 0.9666 0.7849 0.7453 0.6326 0.6736 0.5899 0.6448 0.4096 0.5545 0.7942 0.8500 DHS_Trynka.extend.500.bedL2 0.6536 0.6550 0.6342 0.6991 0.5868 0.5889 0.8890 0.9536 0.8205 0.8403 0.5764 0.6157 0.5600 0.6200 0.3728 0.5230 0.7327 0.7947 Enhancer_Andersson.bedL2 0.4705 0.4678 0.1223 0.1462 0.5705 0.5700 0.5469 0.5210 0.3651 0.2705 0.4500 0.4659 0.3624 0.4119 0.3075 0.3882 0.5120 0.5337 Enhancer_Andersson.extend.500.bedL2 0.5408 0.5397 0.1728 0.1947 0.6448 0.6448 0.6395 0.6174 0.3871 0.3053 0.4986 0.5280 0.4246 0.4818 0.3354 0.4258 0.6034 0.6309 Enhancer_Hoffman.bedL2 0.6773 0.6778 0.1333 0.1837 0.7394 0.7405 0.8738 0.8187 0.5841 0.4060 0.7318 0.7780 0.5767 0.6309 0.4566 0.5583 0.7972 0.8448 Enhancer_Hoffman.extend.500.bedL2 0.7231 0.7244 0.1629 0.2186 0.7491 0.7505 0.9112 0.8653 0.6348 0.4515 0.7721 0.8209 0.6211 0.6773 0.4805 0.5990 0.8328 0.8837 FetalDHS_Trynka.bedL2 0.6620 0.6631 0.4245 0.4879 0.6694 0.6714 0.9136 0.9312 0.7228 0.6557 0.6434 0.6854 0.5885 0.6277 0.4044 0.5472 0.8117 0.8540 FetalDHS_Trynka.extend.500.bedL2 0.6568 0.6587 0.5188 0.5832 0.6424 0.6446 0.9048 0.9485 0.7633 0.7364 0.6011 0.6478 0.5755 0.6228 0.3859 0.5311 0.7915 0.8442 H3K27ac_Hnisz.bedL2 0.6955 0.6982 0.2390 0.3073 0.8165 0.8187 0.9028 0.9019 0.7203 0.5458 0.6872 0.7291 0.5933 0.6387 0.4460 0.6068 0.7871 0.8482 H3K27ac_Hnisz.extend.500.bedL2 0.7028 0.7053 0.2740 0.3438 0.7972 0.7996 0.9104 0.9164 0.7393 0.5770 0.6841 0.7264 0.6030 0.6482 0.4459 0.6095 0.7873 0.8507 H3K27ac_PGC2.bedL2 0.6802 0.6812 0.2905 0.3578 0.7821 0.7839 0.9099 0.9150 0.7443 0.5966 0.6945 0.7377 0.6038 0.6400 0.4191 0.5900 0.7960 0.8518 H3K27ac_PGC2.extend.500.bedL2 0.6809 0.6823 0.3187 0.3870 0.7627 0.7647 0.9111 0.9248 0.7576 0.6197 0.6808 0.7253 0.6103 0.6468 0.4150 0.5872 0.7972 0.8559 H3K4me1_peaks_Trynka.bedL2 0.7126 0.7144 0.3063 0.3748 0.7494 0.7514 0.9357 0.9394 0.7571 0.6089 0.7047 0.7502 0.6143 0.6525 0.4495 0.6112 0.8420 0.8968 H3K4me1_Trynka.bedL2 0.7209 0.7225 0.4086 0.4791 0.7135 0.7158 0.9356 0.9603 0.8001 0.6937 0.6811 0.7237 0.6207 0.6682 0.4397 0.6098 0.8076 0.8697 H3K4me1_Trynka.extend.500.bedL2 0.7005 0.7027 0.5320 0.6040 0.6409 0.6433 0.9131 0.9626 0.8369 0.7905 0.6343 0.6733 0.6012 0.6550 0.4100 0.5831 0.7596 0.8268 H3K4me3_peaks_Trynka.bedL2 0.6144 0.6118 0.3338 0.3830 0.5442 0.5457 0.7144 0.7109 0.6317 0.5573 0.6196 0.6448 0.5308 0.5666 0.3743 0.5198 0.5992 0.6446 H3K4me3_Trynka.bedL2 0.5728 0.5696 0.3509 0.3992 0.5065 0.5080 0.6684 0.6759 0.6134 0.5608 0.5648 0.5916 0.5068 0.5384 0.3528 0.4865 0.5556 0.6006 H3K4me3_Trynka.extend.500.bedL2 0.5384 0.5353 0.4180 0.4710 0.4783 0.4797 0.6619 0.6915 0.6376 0.6153 0.5011 0.5331 0.4925 0.5288 0.3069 0.4390 0.5478 0.5996 H3K9ac_peaks_Trynka.bedL2 0.7872 0.7857 0.1584 0.2065 0.7711 0.7730 0.8823 0.8306 0.6467 0.4543 0.8153 0.8379 0.6396 0.6811 0.5700 0.7086 0.7689 0.8172 H3K9ac_Trynka.bedL2 0.7895 0.7892 0.1831 0.2337 0.7918 0.7939 0.8987 0.8551 0.6540 0.4719 0.7994 0.8301 0.6542 0.6909 0.5711 0.7072 0.7835 0.8295 H3K9ac_Trynka.extend.500.bedL2 0.7689 0.7686 0.2416 0.3008 0.7767 0.7789 0.9209 0.9009 0.7106 0.5414 0.7635 0.8030 0.6607 0.6948 0.5257 0.6783 0.8167 0.8699 Intron_UCSC.bedL2 0.5050 0.5130 0.4127 0.4859 0.4261 0.4269 0.5958 0.6445 0.7497 0.6901 0.4155 0.4211 0.3590 0.4305 0.2940 0.4461 0.4592 0.5118 Intron_UCSC.extend.500.bedL2 0.5168 0.5247 0.4126 0.4858 0.4313 0.4322 0.6032 0.6509 0.7533 0.6917 0.4259 0.4313 0.3716 0.4429 0.3044 0.4577 0.4642 0.5176 PromoterFlanking_Hoffman.bedL2 0.7205 0.7215 0.1960 0.2557 0.5496 0.5515 0.7654 0.7558 0.6908 0.5033 0.7076 0.7447 0.5936 0.6615 0.4507 0.6342 0.6677 0.7258 PromoterFlanking_Hoffman.extend.500.bedL2 0.7693 0.7715 0.2271 0.2827 0.6213 0.6235 0.8369 0.8192 0.6952 0.5230 0.7847 0.8285 0.6427 0.6991 0.5059 0.6868 0.7390 0.7974 Promoter_UCSC.bedL2 1.0000 0.9969 0.2338 0.2625 0.5971 0.5993 0.7742 0.7303 0.5540 0.4252 0.7909 0.7974 0.7390 0.8327 0.6778 0.8278 0.6145 0.6807 Promoter_UCSC.extend.500.bedL2 0.9969 1.0000 0.2363 0.2651 0.5994 0.6016 0.7750 0.7329 0.5598 0.4303 0.7881 0.7961 0.7402 0.8321 0.6756 0.8318 0.6145 0.6805 Repressed_Hoffman.bedL2 0.2338 0.2363 1.0000 0.9860 0.0384 0.0390 0.3607 0.4865 0.4088 0.8123 0.0780 0.0994 0.2018 0.2579 0.0590 0.0973 0.2122 0.2335 Repressed_Hoffman.extend.500.bedL2 0.2625 0.2651 0.9860 1.0000 0.0789 0.0799 0.4224 0.5531 0.5077 0.8741 0.1137 0.1363 0.2251 0.2802 0.0765 0.1304 0.2676 0.2958 SuperEnhancer_Hnisz.bedL2 0.5971 0.5994 0.0384 0.0789 1.0000 0.9999 0.7143 0.6700 0.5181 0.3126 0.6193 0.6423 0.4458 0.5062 0.4034 0.5189 0.6256 0.6625 SuperEnhancer_Hnisz.extend.500.bedL2 0.5993 0.6016 0.0390 0.0799 0.9999 1.0000 0.7164 0.6723 0.5195 0.3138 0.6211 0.6441 0.4483 0.5081 0.4059 0.5218 0.6270 0.6643 TFBS_ENCODE.bedL2 0.7742 0.7750 0.3607 0.4224 0.7143 0.7164 1.0000 0.9724 0.7455 0.6311 0.7897 0.8259 0.6609 0.7080 0.5212 0.6590 0.8306 0.8859 TFBS_ENCODE.extend.500.bedL2 0.7303 0.7329 0.4865 0.5531 0.6700 0.6723 0.9724 1.0000 0.7951 0.7366 0.6982 0.7408 0.6384 0.6862 0.4599 0.6097 0.8122 0.8739 Transcribed_Hoffman.bedL2 0.5540 0.5598 0.4088 0.5077 0.5181 0.5195 0.7455 0.7951 1.0000 0.8474 0.5663 0.5736 0.4654 0.5027 0.3276 0.5243 0.5674 0.6378 Transcribed_Hoffman.extend.500.bedL2 0.4252 0.4303 0.8123 0.8741 0.3126 0.3138 0.6311 0.7366 0.8474 1.0000 0.3649 0.3794 0.3591 0.4044 0.2072 0.3457 0.4428 0.4945 TSS_Hoffman.bedL2 0.7909 0.7881 0.0780 0.1137 0.6193 0.6211 0.7897 0.6982 0.5663 0.3649 1.0000 0.9753 0.6273 0.6657 0.5913 0.7421 0.6197 0.6656 TSS_Hoffman.extend.500.bedL2 0.7974 0.7961 0.0994 0.1363 0.6423 0.6441 0.8259 0.7408 0.5736 0.3794 0.9753 1.0000 0.6571 0.6919 0.5874 0.7318 0.6779 0.7210 UTR_3_UCSC.bedL2 0.7390 0.7402 0.2018 0.2251 0.4458 0.4483 0.6609 0.6384 0.4654 0.3591 0.6273 0.6571 1.0000 0.9032 0.5698 0.6432 0.5510 0.6057 UTR_3_UCSC.extend.500.bedL2 0.8327 0.8321 0.2579 0.2802 0.5062 0.5081 0.7080 0.6862 0.5027 0.4044 0.6657 0.6919 0.9032 1.0000 0.5736 0.6753 0.5903 0.6522 UTR_5_UCSC.bedL2 0.6778 0.6756 0.0590 0.0765 0.4034 0.4059 0.5212 0.4599 0.3276 0.2072 0.5913 0.5874 0.5698 0.5736 1.0000 0.8204 0.3978 0.4338 UTR_5_UCSC.extend.500.bedL2 0.8278 0.8318 0.0973 0.1304 0.5189 0.5218 0.6590 0.6097 0.5243 0.3457 0.7421 0.7318 0.6432 0.6753 0.8204 1.0000 0.4912 0.5462 WeakEnhancer_Hoffman.bedL2 0.6145 0.6145 0.2122 0.2676 0.6256 0.6270 0.8306 0.8122 0.5674 0.4428 0.6197 0.6779 0.5510 0.5903 0.3978 0.4912 1.0000 0.9584 WeakEnhancer_Hoffman.extend.500.bedL2 0.6807 0.6805 0.2335 0.2958 0.6625 0.6643 0.8859 0.8739 0.6378 0.4945 0.6656 0.7210 0.6057 0.6522 0.4338 0.5462 0.9584 1.0000 LD Score Matrix Condition Number 1178.6574 Annotation Correlation Matrix base Coding_UCSC.bed Coding_UCSC.extend.500.bed Conserved_LindbladToh.bed Conserved_LindbladToh.extend.500.bed CTCF_Hoffman.bed CTCF_Hoffman.extend.500.bed DGF_ENCODE.bed DGF_ENCODE.extend.500.bed DHS_peaks_Trynka.bed DHS_Trynka.bed DHS_Trynka.extend.500.bed Enhancer_Andersson.bed Enhancer_Andersson.extend.500.bed Enhancer_Hoffman.bed Enhancer_Hoffman.extend.500.bed FetalDHS_Trynka.bed FetalDHS_Trynka.extend.500.bed H3K27ac_Hnisz.bed H3K27ac_Hnisz.extend.500.bed H3K27ac_PGC2.bed H3K27ac_PGC2.extend.500.bed H3K4me1_peaks_Trynka.bed H3K4me1_Trynka.bed H3K4me1_Trynka.extend.500.bed H3K4me3_peaks_Trynka.bed H3K4me3_Trynka.bed H3K4me3_Trynka.extend.500.bed H3K9ac_peaks_Trynka.bed H3K9ac_Trynka.bed H3K9ac_Trynka.extend.500.bed Intron_UCSC.bed Intron_UCSC.extend.500.bed PromoterFlanking_Hoffman.bed PromoterFlanking_Hoffman.extend.500.bed Promoter_UCSC.bed Promoter_UCSC.extend.500.bed Repressed_Hoffman.bed \ base NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN Coding_UCSC.bed NaN 1.0000 0.4728 0.2187 0.1177 0.0119 0.0158 0.0468 0.0453 0.0413 0.0402 0.0339 -0.0070 -0.0134 0.0408 0.0421 0.0446 0.0364 0.0547 0.0532 0.0523 0.0548 0.0417 0.0630 0.0561 0.0647 0.0780 0.0600 0.0589 0.0853 0.0771 -0.0593 0.0368 0.0036 0.0123 0.1246 0.1212 -0.0684 Coding_UCSC.extend.500.bed NaN 0.4728 1.0000 0.1218 0.2812 0.0126 0.0253 0.0610 0.0743 0.0570 0.0581 0.0627 -0.0122 -0.0190 0.0532 0.0685 0.0696 0.0631 0.1049 0.1023 0.0970 0.1018 0.0650 0.1144 0.1121 0.0976 0.1213 0.0992 0.0996 0.1438 0.1423 0.1500 0.2051 0.0188 0.0513 0.2439 0.2358 -0.1313 Conserved_LindbladToh.bed NaN 0.2187 0.1218 1.0000 0.2307 0.0089 0.0091 0.0871 0.0608 0.1288 0.1338 0.0835 0.0198 0.0145 0.0473 0.0431 0.1441 0.1002 0.0550 0.0536 0.0566 0.0522 0.0702 0.0873 0.0725 0.0571 0.0766 0.0590 0.0414 0.0737 0.0682 -0.0065 0.0284 0.0108 0.0191 0.0438 0.0435 -0.0304 Conserved_LindbladToh.extend.500.bed NaN 0.1177 0.2812 0.2307 1.0000 0.0421 0.0498 0.1154 0.1830 0.1625 0.1961 0.2453 0.0317 0.0517 0.1073 0.1255 0.1893 0.2621 0.1871 0.1859 0.1838 0.1827 0.1730 0.2430 0.2345 0.1010 0.1446 0.1416 0.1131 0.1860 0.1916 0.1095 0.1252 0.0360 0.0640 0.0932 0.0936 -0.0916 CTCF_Hoffman.bed NaN 0.0119 0.0126 0.0089 0.0421 1.0000 0.5680 0.1120 0.1139 0.1206 0.1277 0.1056 0.0071 0.0127 0.0352 0.0604 0.1200 0.1120 0.0423 0.0447 0.0497 0.0507 0.0731 0.0767 0.0692 0.0430 0.0548 0.0635 0.0612 0.0894 0.0966 -0.0016 0.0005 -0.0035 0.0201 0.0197 0.0199 -0.1428 CTCF_Hoffman.extend.500.bed NaN 0.0158 0.0253 0.0091 0.0498 0.5680 1.0000 0.0839 0.1601 0.0903 0.1008 0.1511 0.0118 0.0253 0.0540 0.0849 0.0923 0.1434 0.0708 0.0761 0.0797 0.0836 0.0823 0.1008 0.1087 0.0507 0.0705 0.0914 0.0724 0.1160 0.1412 0.0008 0.0031 0.0065 0.0326 0.0342 0.0355 -0.1179 DGF_ENCODE.bed NaN 0.0468 0.0610 0.0871 0.1154 0.1120 0.0839 1.0000 0.3709 0.5170 0.4934 0.2622 0.0942 0.0845 0.1893 0.1859 0.3446 0.2226 0.2144 0.2087 0.2299 0.2159 0.2901 0.2905 0.2227 0.1744 0.2321 0.2021 0.1596 0.2411 0.2293 0.0368 0.0463 0.0614 0.1011 0.0956 0.0948 -0.1711 DGF_ENCODE.extend.500.bed NaN 0.0453 0.0743 0.0608 0.1830 0.1139 0.1601 0.3709 1.0000 0.2670 0.3324 0.5581 0.0544 0.0984 0.1746 0.2341 0.2206 0.3712 0.3476 0.3515 0.3483 0.3505 0.3156 0.4698 0.4649 0.1460 0.2466 0.2992 0.1534 0.2771 0.3335 0.0625 0.0697 0.0694 0.1309 0.1002 0.1046 -0.2333 DHS_peaks_Trynka.bed NaN 0.0413 0.0570 0.1288 0.1625 0.1206 0.0903 0.5170 0.2670 1.0000 0.7689 0.3564 0.1049 0.0950 0.2087 0.1948 0.6460 0.3670 0.2035 0.1964 0.2337 0.2112 0.3062 0.3018 0.2279 0.2113 0.2550 0.2129 0.1931 0.2663 0.2376 0.0321 0.0418 0.0427 0.0909 0.0876 0.0816 -0.1491 DHS_Trynka.bed NaN 0.0402 0.0581 0.1338 0.1961 0.1277 0.1008 0.4934 0.3324 0.7689 1.0000 0.4540 0.1023 0.1110 0.2341 0.2223 0.6802 0.4321 0.2422 0.2344 0.2754 0.2493 0.3531 0.3691 0.2817 0.2257 0.2851 0.2436 0.2114 0.3000 0.2730 0.0380 0.0476 0.0431 0.0922 0.0893 0.0835 -0.1740 DHS_Trynka.extend.500.bed NaN 0.0339 0.0627 0.0835 0.2453 0.1056 0.1511 0.2622 0.5581 0.3564 0.4540 1.0000 0.0544 0.1033 0.1765 0.2346 0.3088 0.6383 0.3275 0.3338 0.3410 0.3337 0.3178 0.4849 0.4861 0.1377 0.2234 0.2781 0.1485 0.2692 0.3207 0.0650 0.0713 0.0489 0.1035 0.0839 0.0804 -0.1900 Enhancer_Andersson.bed NaN -0.0070 -0.0122 0.0198 0.0317 0.0071 0.0118 0.0942 0.0544 0.1049 0.1023 0.0544 1.0000 0.4854 0.1140 0.0957 0.1220 0.0745 0.0723 0.0691 0.0878 0.0767 0.0757 0.0667 0.0499 0.0755 0.0964 0.0772 0.0594 0.0903 0.0801 0.0113 0.0103 0.0174 0.0406 0.0105 0.0125 -0.0451 Enhancer_Andersson.extend.500.bed NaN -0.0134 -0.0190 0.0145 0.0517 0.0127 0.0253 0.0845 0.0984 0.0950 0.1110 0.1033 0.4854 1.0000 0.1723 0.1689 0.1127 0.1365 0.1314 0.1252 0.1575 0.1416 0.1219 0.1218 0.0937 0.1044 0.1512 0.1339 0.0996 0.1530 0.1407 0.0174 0.0157 0.0242 0.0602 0.0161 0.0177 -0.0761 Enhancer_Hoffman.bed NaN 0.0408 0.0532 0.0473 0.1073 0.0352 0.0540 0.1893 0.1746 0.2087 0.2341 0.1765 0.1140 0.1723 1.0000 0.6745 0.2137 0.2156 0.2296 0.2178 0.2994 0.2613 0.2490 0.2157 0.1556 0.2308 0.2825 0.2422 0.2281 0.3073 0.2638 0.0387 0.0461 0.0461 0.1345 0.1187 0.1119 -0.1849 Enhancer_Hoffman.extend.500.bed NaN 0.0421 0.0685 0.0431 0.1255 0.0604 0.0849 0.1859 0.2341 0.1948 0.2223 0.2346 0.0957 0.1689 0.6745 1.0000 0.2029 0.2642 0.3113 0.3058 0.4067 0.3716 0.2642 0.2881 0.2264 0.2172 0.3162 0.3234 0.2196 0.3534 0.3568 0.0548 0.0634 0.0996 0.2267 0.1665 0.1605 -0.2561 FetalDHS_Trynka.bed NaN 0.0446 0.0696 0.1441 0.1893 0.1200 0.0923 0.3446 0.2206 0.6460 0.6802 0.3088 0.1220 0.1127 0.2137 0.2029 1.0000 0.4838 0.1992 0.1911 0.2302 0.2062 0.2927 0.2825 0.2122 0.2458 0.2802 0.2260 0.2224 0.2904 0.2507 0.0305 0.0417 0.0381 0.1002 0.1067 0.0984 -0.1320 FetalDHS_Trynka.extend.500.bed NaN 0.0364 0.0631 0.1002 0.2621 0.1120 0.1434 0.2226 0.3712 0.3670 0.4321 0.6383 0.0745 0.1365 0.2156 0.2642 0.4838 1.0000 0.3096 0.3091 0.3378 0.3206 0.3282 0.4345 0.3891 0.1823 0.2738 0.3094 0.1903 0.3195 0.3500 0.0616 0.0687 0.0510 0.1177 0.1080 0.1021 -0.1679 H3K27ac_Hnisz.bed NaN 0.0547 0.1049 0.0550 0.1871 0.0423 0.0708 0.2144 0.3476 0.2035 0.2422 0.3275 0.0723 0.1314 0.2296 0.3113 0.1992 0.3096 1.0000 0.9377 0.5477 0.5778 0.3251 0.4796 0.4470 0.1649 0.2815 0.3432 0.1903 0.3588 0.4383 0.1489 0.1568 0.0688 0.1302 0.1202 0.1298 -0.2681 H3K27ac_Hnisz.extend.500.bed NaN 0.0532 0.1023 0.0536 0.1859 0.0447 0.0761 0.2087 0.3515 0.1964 0.2344 0.3338 0.0691 0.1252 0.2178 0.3058 0.1911 0.3091 0.9377 1.0000 0.5561 0.5971 0.3167 0.4827 0.4700 0.1563 0.2706 0.3419 0.1812 0.3451 0.4374 0.1462 0.1538 0.0675 0.1307 0.1183 0.1285 -0.2662 H3K27ac_PGC2.bed NaN 0.0523 0.0970 0.0566 0.1838 0.0497 0.0797 0.2299 0.3483 0.2337 0.2754 0.3410 0.0878 0.1575 0.2994 0.4067 0.2302 0.3378 0.5477 0.5561 1.0000 0.8558 0.3565 0.4928 0.4221 0.2179 0.3709 0.4366 0.2380 0.4413 0.5150 0.1249 0.1339 0.0989 0.1827 0.1610 0.1664 -0.2739 H3K27ac_PGC2.extend.500.bed NaN 0.0548 0.1018 0.0522 0.1827 0.0507 0.0836 0.2159 0.3505 0.2112 0.2493 0.3337 0.0767 0.1416 0.2613 0.3716 0.2062 0.3206 0.5778 0.5971 0.8558 1.0000 0.3396 0.5004 0.4565 0.1918 0.3338 0.4121 0.2125 0.4024 0.4975 0.1326 0.1412 0.0925 0.1744 0.1546 0.1634 -0.2774 H3K4me1_peaks_Trynka.bed NaN 0.0417 0.0650 0.0702 0.1730 0.0731 0.0823 0.2901 0.3156 0.3062 0.3531 0.3178 0.0757 0.1219 0.2490 0.2642 0.2927 0.3282 0.3251 0.3167 0.3565 0.3396 1.0000 0.5280 0.3706 0.2632 0.3570 0.3223 0.2773 0.3922 0.3678 0.1023 0.1091 0.1170 0.1682 0.1147 0.1164 -0.2267 H3K4me1_Trynka.bed NaN 0.0630 0.1144 0.0873 0.2430 0.0767 0.1008 0.2905 0.4698 0.3018 0.3691 0.4849 0.0667 0.1218 0.2157 0.2881 0.2825 0.4345 0.4796 0.4827 0.4928 0.5004 0.5280 1.0000 0.6950 0.1887 0.3246 0.3994 0.2050 0.3861 0.4743 0.1539 0.1631 0.0902 0.1616 0.1294 0.1352 -0.2835 H3K4me1_Trynka.extend.500.bed NaN 0.0561 0.1121 0.0725 0.2345 0.0692 0.1087 0.2227 0.4649 0.2279 0.2817 0.4861 0.0499 0.0937 0.1556 0.2264 0.2122 0.3891 0.4470 0.4700 0.4221 0.4565 0.3706 0.6950 1.0000 0.1297 0.2283 0.3170 0.1465 0.2803 0.3903 0.1594 0.1672 0.0663 0.1298 0.1118 0.1189 -0.2523 H3K4me3_peaks_Trynka.bed NaN 0.0647 0.0976 0.0571 0.1010 0.0430 0.0507 0.1744 0.1460 0.2113 0.2257 0.1377 0.0755 0.1044 0.2308 0.2172 0.2458 0.1823 0.1649 0.1563 0.2179 0.1918 0.2632 0.1887 0.1297 1.0000 0.5339 0.3590 0.3682 0.3560 0.2735 0.0383 0.0515 0.1002 0.1665 0.1644 0.1585 -0.1329 H3K4me3_Trynka.bed NaN 0.0780 0.1213 0.0766 0.1446 0.0548 0.0705 0.2321 0.2466 0.2550 0.2851 0.2234 0.0964 0.1512 0.2825 0.3162 0.2802 0.2738 0.2815 0.2706 0.3709 0.3338 0.3570 0.3246 0.2283 0.5339 1.0000 0.6652 0.3335 0.5373 0.4595 0.0761 0.0918 0.1650 0.2600 0.2290 0.2319 -0.2162 H3K4me3_Trynka.extend.500.bed NaN 0.0600 0.0992 0.0590 0.1416 0.0635 0.0914 0.2021 0.2992 0.2129 0.2436 0.2781 0.0772 0.1339 0.2422 0.3234 0.2260 0.3094 0.3432 0.3419 0.4366 0.4121 0.3223 0.3994 0.3170 0.3590 0.6652 1.0000 0.2535 0.4701 0.5346 0.0808 0.0919 0.1269 0.2389 0.1860 0.1903 -0.2347 H3K9ac_peaks_Trynka.bed NaN 0.0589 0.0996 0.0414 0.1131 0.0612 0.0724 0.1596 0.1534 0.1931 0.2114 0.1485 0.0594 0.0996 0.2281 0.2196 0.2224 0.1903 0.1903 0.1812 0.2380 0.2125 0.2773 0.2050 0.1465 0.3682 0.3335 0.2535 1.0000 0.5168 0.3623 0.0554 0.0661 0.0849 0.1492 0.1530 0.1479 -0.1358 H3K9ac_Trynka.bed NaN 0.0853 0.1438 0.0737 0.1860 0.0894 0.1160 0.2411 0.2771 0.2663 0.3000 0.2692 0.0903 0.1530 0.3073 0.3534 0.2904 0.3195 0.3588 0.3451 0.4413 0.4024 0.3922 0.3861 0.2803 0.3560 0.5373 0.4701 0.5168 1.0000 0.6960 0.0990 0.1154 0.1444 0.2332 0.2286 0.2293 -0.2296 H3K9ac_Trynka.extend.500.bed NaN 0.0771 0.1423 0.0682 0.1916 0.0966 0.1412 0.2293 0.3335 0.2376 0.2730 0.3207 0.0801 0.1407 0.2638 0.3568 0.2507 0.3500 0.4383 0.4374 0.5150 0.4975 0.3678 0.4743 0.3903 0.2735 0.4595 0.5346 0.3623 0.6960 1.0000 0.1227 0.1363 0.1254 0.2330 0.2048 0.2092 -0.2663 Intron_UCSC.bed NaN -0.0593 0.1500 -0.0065 0.1095 -0.0016 0.0008 0.0368 0.0625 0.0321 0.0380 0.0650 0.0113 0.0174 0.0387 0.0548 0.0305 0.0616 0.1489 0.1462 0.1249 0.1326 0.1023 0.1539 0.1594 0.0383 0.0761 0.0808 0.0554 0.0990 0.1227 1.0000 0.9854 0.0345 0.0354 0.0644 0.0739 -0.1764 Intron_UCSC.extend.500.bed NaN 0.0368 0.2051 0.0284 0.1252 0.0005 0.0031 0.0463 0.0697 0.0418 0.0476 0.0713 0.0103 0.0157 0.0461 0.0634 0.0417 0.0687 0.1568 0.1538 0.1339 0.1412 0.1091 0.1631 0.1672 0.0515 0.0918 0.0919 0.0661 0.1154 0.1363 0.9854 1.0000 0.0359 0.0420 0.0957 0.1032 -0.1845 PromoterFlanking_Hoffman.bed NaN 0.0036 0.0188 0.0108 0.0360 -0.0035 0.0065 0.0614 0.0694 0.0427 0.0431 0.0489 0.0174 0.0242 0.0461 0.0996 0.0381 0.0510 0.0688 0.0675 0.0989 0.0925 0.1170 0.0902 0.0663 0.1002 0.1650 0.1269 0.0849 0.1444 0.1254 0.0345 0.0359 1.0000 0.4967 0.1223 0.1329 -0.0822 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0123 0.0513 0.0191 0.0640 0.0201 0.0326 0.1011 0.1309 0.0909 0.0922 0.1035 0.0406 0.0602 0.1345 0.2267 0.1002 0.1177 0.1302 0.1307 0.1827 0.1744 0.1682 0.1616 0.1298 0.1665 0.2600 0.2389 0.1492 0.2332 0.2330 0.0354 0.0420 0.4967 1.0000 0.2131 0.2187 -0.1403 Promoter_UCSC.bed NaN 0.1246 0.2439 0.0438 0.0932 0.0197 0.0342 0.0956 0.1002 0.0876 0.0893 0.0839 0.0105 0.0161 0.1187 0.1665 0.1067 0.1080 0.1202 0.1183 0.1610 0.1546 0.1147 0.1294 0.1118 0.1644 0.2290 0.1860 0.1530 0.2286 0.2048 0.0644 0.0957 0.1223 0.2131 1.0000 0.8978 -0.1052 Promoter_UCSC.extend.500.bed NaN 0.1212 0.2358 0.0435 0.0936 0.0199 0.0355 0.0948 0.1046 0.0816 0.0835 0.0804 0.0125 0.0177 0.1119 0.1605 0.0984 0.1021 0.1298 0.1285 0.1664 0.1634 0.1164 0.1352 0.1189 0.1585 0.2319 0.1903 0.1479 0.2293 0.2092 0.0739 0.1032 0.1329 0.2187 0.8978 1.0000 -0.1095 Repressed_Hoffman.bed NaN -0.0684 -0.1313 -0.0304 -0.0916 -0.1428 -0.1179 -0.1711 -0.2333 -0.1491 -0.1740 -0.1900 -0.0451 -0.0761 -0.1849 -0.2561 -0.1320 -0.1679 -0.2681 -0.2662 -0.2739 -0.2774 -0.2267 -0.2835 -0.2523 -0.1329 -0.2162 -0.2347 -0.1358 -0.2296 -0.2663 -0.1764 -0.1845 -0.0822 -0.1403 -0.1052 -0.1095 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1181 -0.2331 -0.0466 -0.1475 -0.0608 -0.0820 -0.1923 -0.2630 -0.1635 -0.1875 -0.2147 -0.0663 -0.1145 -0.3123 -0.3962 -0.1567 -0.2091 -0.3877 -0.3800 -0.4005 -0.3965 -0.2792 -0.3569 -0.3165 -0.1909 -0.3062 -0.3233 -0.2042 -0.3382 -0.3827 -0.2732 -0.2876 -0.1116 -0.1904 -0.1727 -0.1811 0.5412 SuperEnhancer_Hnisz.bed NaN 0.0478 0.0907 0.0380 0.1325 0.0283 0.0508 0.1549 0.2289 0.1243 0.1426 0.1920 0.0861 0.1443 0.2070 0.2646 0.1248 0.1905 0.5498 0.5155 0.4141 0.4176 0.2366 0.3222 0.2805 0.1356 0.2291 0.2571 0.1656 0.3052 0.3458 0.1645 0.1710 0.0389 0.0875 0.0952 0.1042 -0.2166 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0477 0.0905 0.0381 0.1328 0.0296 0.0528 0.1545 0.2299 0.1234 0.1416 0.1929 0.0860 0.1440 0.2054 0.2652 0.1239 0.1910 0.5489 0.5213 0.4163 0.4214 0.2354 0.3235 0.2835 0.1345 0.2281 0.2575 0.1646 0.3044 0.3473 0.1634 0.1698 0.0391 0.0892 0.0960 0.1056 -0.2173 TFBS_ENCODE.bed NaN 0.0638 0.0896 0.0783 0.1360 0.2439 0.1752 0.3723 0.2902 0.3683 0.4206 0.2743 0.1121 0.1331 0.3113 0.3134 0.3279 0.2718 0.2386 0.2307 0.2858 0.2599 0.2857 0.2859 0.2206 0.2364 0.3067 0.2669 0.2157 0.3051 0.2813 0.0300 0.0430 0.0696 0.1424 0.1474 0.1423 -0.2272 TFBS_ENCODE.extend.500.bed NaN 0.0524 0.0816 0.0590 0.1666 0.1802 0.2742 0.2441 0.4308 0.2452 0.3005 0.4245 0.0680 0.1246 0.2529 0.3334 0.2232 0.3517 0.3232 0.3229 0.3673 0.3532 0.2934 0.3825 0.3478 0.1750 0.2813 0.3197 0.1810 0.3099 0.3447 0.0454 0.0542 0.0824 0.1586 0.1244 0.1246 -0.2525 Transcribed_Hoffman.bed NaN 0.0678 0.1420 0.0056 0.0417 -0.0278 -0.0129 0.0290 0.0633 -0.0053 -0.0042 0.0266 -0.0003 -0.0019 0.0070 0.0208 -0.0163 0.0025 0.1294 0.1279 0.0904 0.1046 0.0700 0.1105 0.1159 0.0069 0.0364 0.0516 0.0264 0.0548 0.0900 0.2640 0.2675 0.0065 0.0023 0.0070 0.0149 -0.6213 Transcribed_Hoffman.extend.500.bed NaN 0.0128 0.0326 -0.0149 -0.0263 -0.0287 -0.0370 -0.0380 -0.0355 -0.0576 -0.0634 -0.0490 -0.0202 -0.0328 -0.0710 -0.0726 -0.0660 -0.0671 -0.0226 -0.0232 -0.0413 -0.0347 -0.0401 -0.0381 -0.0215 -0.0613 -0.0658 -0.0555 -0.0438 -0.0618 -0.0482 0.1616 0.1579 -0.0126 -0.0376 -0.0664 -0.0612 -0.1857 TSS_Hoffman.bed NaN 0.0978 0.1669 0.0454 0.0879 0.0247 0.0347 0.1641 0.1097 0.1775 0.1725 0.1065 0.0681 0.0898 0.1601 0.2323 0.2095 0.1496 0.1372 0.1297 0.1925 0.1654 0.1525 0.1262 0.0936 0.2832 0.2810 0.1967 0.2545 0.2803 0.2077 0.0318 0.0580 0.0864 0.2327 0.3347 0.3161 -0.1129 TSS_Hoffman.extend.500.bed NaN 0.0850 0.1504 0.0419 0.0967 0.0377 0.0570 0.1521 0.1458 0.1599 0.1631 0.1379 0.0692 0.1133 0.2563 0.3484 0.1901 0.1825 0.1810 0.1744 0.2509 0.2215 0.1907 0.1709 0.1277 0.2686 0.3425 0.2637 0.2486 0.3349 0.2754 0.0425 0.0650 0.1920 0.3608 0.3518 0.3379 -0.1547 UTR_3_UCSC.bed NaN 0.6074 0.3073 0.0625 0.0709 0.0090 0.0140 0.0235 0.0298 0.0193 0.0191 0.0243 -0.0059 -0.0114 0.0209 0.0246 0.0175 0.0223 0.0408 0.0415 0.0356 0.0396 0.0273 0.0471 0.0454 0.0220 0.0352 0.0320 0.0288 0.0474 0.0499 -0.0295 0.0051 0.0033 0.0054 0.0698 0.0744 -0.0529 UTR_3_UCSC.extend.500.bed NaN 0.4490 0.4440 0.0623 0.1155 0.0131 0.0204 0.0344 0.0446 0.0238 0.0263 0.0346 -0.0068 -0.0127 0.0306 0.0393 0.0246 0.0304 0.0629 0.0638 0.0570 0.0616 0.0420 0.0704 0.0668 0.0354 0.0586 0.0531 0.0448 0.0714 0.0769 0.0228 0.0576 0.0083 0.0195 0.1497 0.1515 -0.0763 UTR_5_UCSC.bed NaN 0.3112 0.1687 0.0639 0.0461 0.0105 0.0139 0.0495 0.0398 0.0557 0.0547 0.0350 -0.0044 -0.0084 0.0489 0.0533 0.0641 0.0420 0.0427 0.0413 0.0556 0.0519 0.0392 0.0467 0.0397 0.0806 0.0846 0.0606 0.0641 0.0877 0.0694 -0.0105 0.0415 0.0151 0.0332 0.2003 0.1867 -0.0430 UTR_5_UCSC.extend.500.bed NaN 0.1877 0.4317 0.0600 0.1218 0.0160 0.0271 0.0777 0.0735 0.0882 0.0886 0.0655 -0.0078 -0.0104 0.0840 0.1058 0.1112 0.0843 0.0804 0.0781 0.1089 0.1021 0.0746 0.0920 0.0821 0.1445 0.1579 0.1204 0.1292 0.1643 0.1401 0.0659 0.1128 0.0371 0.0961 0.4227 0.3892 -0.0834 WeakEnhancer_Hoffman.bed NaN 0.0049 0.0061 0.0205 0.0506 0.0301 0.0475 0.1494 0.1159 0.1560 0.1716 0.1131 0.0572 0.0677 0.0814 0.1399 0.1428 0.1206 0.1038 0.1020 0.1361 0.1266 0.1928 0.1426 0.1029 0.1196 0.1586 0.1372 0.1169 0.1599 0.1481 0.0202 0.0211 0.0203 0.0767 0.0235 0.0260 -0.1248 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0090 0.0148 0.0260 0.0834 0.0654 0.0989 0.1497 0.2242 0.1565 0.1865 0.2204 0.0624 0.1097 0.1887 0.2817 0.1547 0.2190 0.1997 0.1996 0.2497 0.2414 0.2455 0.2606 0.2114 0.1314 0.2113 0.2477 0.1423 0.2350 0.2692 0.0366 0.0378 0.0669 0.1446 0.0475 0.0526 -0.2060 Repressed_Hoffman.extend.500.bed SuperEnhancer_Hnisz.bed SuperEnhancer_Hnisz.extend.500.bed TFBS_ENCODE.bed TFBS_ENCODE.extend.500.bed Transcribed_Hoffman.bed Transcribed_Hoffman.extend.500.bed TSS_Hoffman.bed TSS_Hoffman.extend.500.bed UTR_3_UCSC.bed UTR_3_UCSC.extend.500.bed UTR_5_UCSC.bed UTR_5_UCSC.extend.500.bed WeakEnhancer_Hoffman.bed WeakEnhancer_Hoffman.extend.500.bed base NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN Coding_UCSC.bed -0.1181 0.0478 0.0477 0.0638 0.0524 0.0678 0.0128 0.0978 0.0850 0.6074 0.4490 0.3112 0.1877 0.0049 0.0090 Coding_UCSC.extend.500.bed -0.2331 0.0907 0.0905 0.0896 0.0816 0.1420 0.0326 0.1669 0.1504 0.3073 0.4440 0.1687 0.4317 0.0061 0.0148 Conserved_LindbladToh.bed -0.0466 0.0380 0.0381 0.0783 0.0590 0.0056 -0.0149 0.0454 0.0419 0.0625 0.0623 0.0639 0.0600 0.0205 0.0260 Conserved_LindbladToh.extend.500.bed -0.1475 0.1325 0.1328 0.1360 0.1666 0.0417 -0.0263 0.0879 0.0967 0.0709 0.1155 0.0461 0.1218 0.0506 0.0834 CTCF_Hoffman.bed -0.0608 0.0283 0.0296 0.2439 0.1802 -0.0278 -0.0287 0.0247 0.0377 0.0090 0.0131 0.0105 0.0160 0.0301 0.0654 CTCF_Hoffman.extend.500.bed -0.0820 0.0508 0.0528 0.1752 0.2742 -0.0129 -0.0370 0.0347 0.0570 0.0140 0.0204 0.0139 0.0271 0.0475 0.0989 DGF_ENCODE.bed -0.1923 0.1549 0.1545 0.3723 0.2441 0.0290 -0.0380 0.1641 0.1521 0.0235 0.0344 0.0495 0.0777 0.1494 0.1497 DGF_ENCODE.extend.500.bed -0.2630 0.2289 0.2299 0.2902 0.4308 0.0633 -0.0355 0.1097 0.1458 0.0298 0.0446 0.0398 0.0735 0.1159 0.2242 DHS_peaks_Trynka.bed -0.1635 0.1243 0.1234 0.3683 0.2452 -0.0053 -0.0576 0.1775 0.1599 0.0193 0.0238 0.0557 0.0882 0.1560 0.1565 DHS_Trynka.bed -0.1875 0.1426 0.1416 0.4206 0.3005 -0.0042 -0.0634 0.1725 0.1631 0.0191 0.0263 0.0547 0.0886 0.1716 0.1865 DHS_Trynka.extend.500.bed -0.2147 0.1920 0.1929 0.2743 0.4245 0.0266 -0.0490 0.1065 0.1379 0.0243 0.0346 0.0350 0.0655 0.1131 0.2204 Enhancer_Andersson.bed -0.0663 0.0861 0.0860 0.1121 0.0680 -0.0003 -0.0202 0.0681 0.0692 -0.0059 -0.0068 -0.0044 -0.0078 0.0572 0.0624 Enhancer_Andersson.extend.500.bed -0.1145 0.1443 0.1440 0.1331 0.1246 -0.0019 -0.0328 0.0898 0.1133 -0.0114 -0.0127 -0.0084 -0.0104 0.0677 0.1097 Enhancer_Hoffman.bed -0.3123 0.2070 0.2054 0.3113 0.2529 0.0070 -0.0710 0.1601 0.2563 0.0209 0.0306 0.0489 0.0840 0.0814 0.1887 Enhancer_Hoffman.extend.500.bed -0.3962 0.2646 0.2652 0.3134 0.3334 0.0208 -0.0726 0.2323 0.3484 0.0246 0.0393 0.0533 0.1058 0.1399 0.2817 FetalDHS_Trynka.bed -0.1567 0.1248 0.1239 0.3279 0.2232 -0.0163 -0.0660 0.2095 0.1901 0.0175 0.0246 0.0641 0.1112 0.1428 0.1547 FetalDHS_Trynka.extend.500.bed -0.2091 0.1905 0.1910 0.2718 0.3517 0.0025 -0.0671 0.1496 0.1825 0.0223 0.0304 0.0420 0.0843 0.1206 0.2190 H3K27ac_Hnisz.bed -0.3877 0.5498 0.5489 0.2386 0.3232 0.1294 -0.0226 0.1372 0.1810 0.0408 0.0629 0.0427 0.0804 0.1038 0.1997 H3K27ac_Hnisz.extend.500.bed -0.3800 0.5155 0.5213 0.2307 0.3229 0.1279 -0.0232 0.1297 0.1744 0.0415 0.0638 0.0413 0.0781 0.1020 0.1996 H3K27ac_PGC2.bed -0.4005 0.4141 0.4163 0.2858 0.3673 0.0904 -0.0413 0.1925 0.2509 0.0356 0.0570 0.0556 0.1089 0.1361 0.2497 H3K27ac_PGC2.extend.500.bed -0.3965 0.4176 0.4214 0.2599 0.3532 0.1046 -0.0347 0.1654 0.2215 0.0396 0.0616 0.0519 0.1021 0.1266 0.2414 H3K4me1_peaks_Trynka.bed -0.2792 0.2366 0.2354 0.2857 0.2934 0.0700 -0.0401 0.1525 0.1907 0.0273 0.0420 0.0392 0.0746 0.1928 0.2455 H3K4me1_Trynka.bed -0.3569 0.3222 0.3235 0.2859 0.3825 0.1105 -0.0381 0.1262 0.1709 0.0471 0.0704 0.0467 0.0920 0.1426 0.2606 H3K4me1_Trynka.extend.500.bed -0.3165 0.2805 0.2835 0.2206 0.3478 0.1159 -0.0215 0.0936 0.1277 0.0454 0.0668 0.0397 0.0821 0.1029 0.2114 H3K4me3_peaks_Trynka.bed -0.1909 0.1356 0.1345 0.2364 0.1750 0.0069 -0.0613 0.2832 0.2686 0.0220 0.0354 0.0806 0.1445 0.1196 0.1314 H3K4me3_Trynka.bed -0.3062 0.2291 0.2281 0.3067 0.2813 0.0364 -0.0658 0.2810 0.3425 0.0352 0.0586 0.0846 0.1579 0.1586 0.2113 H3K4me3_Trynka.extend.500.bed -0.3233 0.2571 0.2575 0.2669 0.3197 0.0516 -0.0555 0.1967 0.2637 0.0320 0.0531 0.0606 0.1204 0.1372 0.2477 H3K9ac_peaks_Trynka.bed -0.2042 0.1656 0.1646 0.2157 0.1810 0.0264 -0.0438 0.2545 0.2486 0.0288 0.0448 0.0641 0.1292 0.1169 0.1423 H3K9ac_Trynka.bed -0.3382 0.3052 0.3044 0.3051 0.3099 0.0548 -0.0618 0.2803 0.3349 0.0474 0.0714 0.0877 0.1643 0.1599 0.2350 H3K9ac_Trynka.extend.500.bed -0.3827 0.3458 0.3473 0.2813 0.3447 0.0900 -0.0482 0.2077 0.2754 0.0499 0.0769 0.0694 0.1401 0.1481 0.2692 Intron_UCSC.bed -0.2732 0.1645 0.1634 0.0300 0.0454 0.2640 0.1616 0.0318 0.0425 -0.0295 0.0228 -0.0105 0.0659 0.0202 0.0366 Intron_UCSC.extend.500.bed -0.2876 0.1710 0.1698 0.0430 0.0542 0.2675 0.1579 0.0580 0.0650 0.0051 0.0576 0.0415 0.1128 0.0211 0.0378 PromoterFlanking_Hoffman.bed -0.1116 0.0389 0.0391 0.0696 0.0824 0.0065 -0.0126 0.0864 0.1920 0.0033 0.0083 0.0151 0.0371 0.0203 0.0669 PromoterFlanking_Hoffman.extend.500.bed -0.1904 0.0875 0.0892 0.1424 0.1586 0.0023 -0.0376 0.2327 0.3608 0.0054 0.0195 0.0332 0.0961 0.0767 0.1446 Promoter_UCSC.bed -0.1727 0.0952 0.0960 0.1474 0.1244 0.0070 -0.0664 0.3347 0.3518 0.0698 0.1497 0.2003 0.4227 0.0235 0.0475 Promoter_UCSC.extend.500.bed -0.1811 0.1042 0.1056 0.1423 0.1246 0.0149 -0.0612 0.3161 0.3379 0.0744 0.1515 0.1867 0.3892 0.0260 0.0526 Repressed_Hoffman.bed 0.5412 -0.2166 -0.2173 -0.2272 -0.2525 -0.6213 -0.1857 -0.1129 -0.1547 -0.0529 -0.0763 -0.0430 -0.0834 -0.1248 -0.2060 Repressed_Hoffman.extend.500.bed 1.0000 -0.3420 -0.3422 -0.2696 -0.2978 -0.3976 -0.0807 -0.2049 -0.2638 -0.0899 -0.1331 -0.0728 -0.1430 -0.1431 -0.2421 SuperEnhancer_Hnisz.bed -0.3420 1.0000 0.9889 0.1855 0.2301 0.1450 0.0154 0.1310 0.1676 0.0308 0.0520 0.0332 0.0626 0.0782 0.1464 SuperEnhancer_Hnisz.extend.500.bed -0.3422 0.9889 1.0000 0.1850 0.2302 0.1449 0.0150 0.1306 0.1682 0.0310 0.0520 0.0331 0.0627 0.0783 0.1474 TFBS_ENCODE.bed -0.2696 0.1855 0.1850 1.0000 0.5387 0.0120 -0.0626 0.2644 0.2718 0.0330 0.0485 0.0687 0.1187 0.1744 0.2095 TFBS_ENCODE.extend.500.bed -0.2978 0.2301 0.2302 0.5387 1.0000 0.0377 -0.0531 0.1632 0.2167 0.0367 0.0519 0.0478 0.0893 0.1388 0.2637 Transcribed_Hoffman.bed -0.3976 0.1450 0.1449 0.0120 0.0377 1.0000 0.4206 -0.0262 -0.0127 0.0682 0.0910 0.0124 0.0283 0.0095 0.0166 Transcribed_Hoffman.extend.500.bed -0.0807 0.0154 0.0150 -0.0626 -0.0531 0.4206 1.0000 -0.0848 -0.0785 0.0254 0.0266 -0.0207 -0.0357 -0.0264 -0.0403 TSS_Hoffman.bed -0.2049 0.1310 0.1306 0.2644 0.1632 -0.0262 -0.0848 1.0000 0.7205 0.0261 0.0560 0.1385 0.2660 0.0369 0.0577 TSS_Hoffman.extend.500.bed -0.2638 0.1676 0.1682 0.2718 0.2167 -0.0127 -0.0785 0.7205 1.0000 0.0281 0.0573 0.1172 0.2409 0.0595 0.1063 UTR_3_UCSC.bed -0.0899 0.0308 0.0310 0.0330 0.0367 0.0682 0.0254 0.0261 0.0281 1.0000 0.6686 0.1044 0.0597 0.0075 0.0115 UTR_3_UCSC.extend.500.bed -0.1331 0.0520 0.0520 0.0485 0.0519 0.0910 0.0266 0.0560 0.0573 0.6686 1.0000 0.0886 0.1157 0.0136 0.0207 UTR_5_UCSC.bed -0.0728 0.0332 0.0331 0.0687 0.0478 0.0124 -0.0207 0.1385 0.1172 0.1044 0.0886 1.0000 0.4737 0.0037 0.0088 UTR_5_UCSC.extend.500.bed -0.1430 0.0626 0.0627 0.1187 0.0893 0.0283 -0.0357 0.2660 0.2409 0.0597 0.1157 0.4737 1.0000 0.0115 0.0200 WeakEnhancer_Hoffman.bed -0.1431 0.0782 0.0783 0.1744 0.1388 0.0095 -0.0264 0.0369 0.0595 0.0075 0.0136 0.0037 0.0115 1.0000 0.4732 WeakEnhancer_Hoffman.extend.500.bed -0.2421 0.1464 0.1474 0.2095 0.2637 0.0166 -0.0403 0.0577 0.1063 0.0115 0.0207 0.0088 0.0200 0.4732 1.0000 Annotation Matrix Column Sums base 549971.0 Coding_UCSC.bed 5896.0 Coding_UCSC.extend.500.bed 25427.0 Conserved_LindbladToh.bed 12191.0 Conserved_LindbladToh.extend.500.bed 164284.0 CTCF_Hoffman.bed 11033.0 CTCF_Hoffman.extend.500.bed 32816.0 DGF_ENCODE.bed 68253.0 DGF_ENCODE.extend.500.bed 279058.0 DHS_peaks_Trynka.bed 58932.0 DHS_Trynka.bed 89634.0 DHS_Trynka.extend.500.bed 267162.0 Enhancer_Andersson.bed 2496.0 Enhancer_Andersson.extend.500.bed 10438.0 Enhancer_Hoffman.bed 18147.0 Enhancer_Hoffman.extend.500.bed 38371.0 FetalDHS_Trynka.bed 45457.0 FetalDHS_Trynka.extend.500.bed 152848.0 H3K27ac_Hnisz.bed 190256.0 H3K27ac_Hnisz.extend.500.bed 206572.0 H3K27ac_PGC2.bed 135638.0 H3K27ac_PGC2.extend.500.bed 169887.0 H3K4me1_peaks_Trynka.bed 85459.0 H3K4me1_Trynka.bed 216074.0 H3K4me1_Trynka.extend.500.bed 314925.0 H3K4me3_peaks_Trynka.bed 19921.0 H3K4me3_Trynka.bed 62857.0 H3K4me3_Trynka.extend.500.bed 124162.0 H3K9ac_peaks_Trynka.bed 16853.0 H3K9ac_Trynka.bed 57448.0 H3K9ac_Trynka.extend.500.bed 106735.0 Intron_UCSC.bed 210634.0 Intron_UCSC.extend.500.bed 214462.0 PromoterFlanking_Hoffman.bed 3680.0 PromoterFlanking_Hoffman.extend.500.bed 14618.0 Promoter_UCSC.bed 17726.0 Promoter_UCSC.extend.500.bed 21822.0 Repressed_Hoffman.bed 275286.0 Repressed_Hoffman.extend.500.bed 425582.0 SuperEnhancer_Hnisz.bed 75800.0 SuperEnhancer_Hnisz.extend.500.bed 77277.0 TFBS_ENCODE.bed 64322.0 TFBS_ENCODE.extend.500.bed 172328.0 Transcribed_Hoffman.bed 154562.0 Transcribed_Hoffman.extend.500.bed 378611.0 TSS_Hoffman.bed 6913.0 TSS_Hoffman.extend.500.bed 13164.0 UTR_3_UCSC.bed 4579.0 UTR_3_UCSC.extend.500.bed 10140.0 UTR_5_UCSC.bed 2288.0 UTR_5_UCSC.extend.500.bed 10051.0 WeakEnhancer_Hoffman.bed 8417.0 WeakEnhancer_Hoffman.extend.500.bed 35694.0 Summary of Annotation Matrix Row Sums count 549971.0000 mean 10.4317 std 6.4744 min 1.0000 25% 5.0000 50% 9.0000 75% 14.0000 max 41.0000 Analysis finished at Tue Oct 17 17:56:13 2017 Total time elapsed: 1.0h:14.0m:58.12s