********************************************************************* * 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.2.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.2 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.2 \ --annot 1000G_Phase3_baseline_v1.1/baseline.2.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 839590 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.2.bim Read 53 annotations for 839590 SNPs from 1000G_Phase3_baseline_v1.1/baseline.2.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.2.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.2.bed Estimating LD Score. Reading list of 116575 SNPs for which to print LD Scores from hapmap3_snps/hm.2.snp After merging with --print-snps, LD Scores for 100038 SNPs will be printed. Writing LD Scores for 100038 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.2.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.2.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 0.2371 126.3415 1.6760 8.2241 3.4251 42.2409 2.7121 8.0489 16.0963 65.1650 13.5144 20.2763 61.1166 0.4769 2.1001 4.6880 10.1649 10.0448 34.3432 44.7875 48.9248 31.8757 39.8407 20.2564 51.6547 74.9797 4.4794 14.3351 28.2044 3.9947 13.3309 24.9441 52.5484 53.5203 1.0871 3.9466 4.6704 std 0.1439 95.2725 3.0859 13.3096 3.4253 33.2346 2.6943 7.1911 12.9730 47.6854 9.9070 14.3605 41.9160 0.8830 3.0071 6.0581 12.1569 7.5715 23.9130 42.4238 44.6160 30.7789 37.2896 17.8957 42.0570 56.8680 4.7265 14.2485 25.0021 4.8834 15.1590 26.1566 67.2178 68.1717 1.7507 5.2881 7.3930 min 0.0051 -3.7934 -0.2536 -0.4707 -0.2225 -0.7889 -0.1503 -0.4658 -0.8500 -2.1257 -0.6501 -1.0083 -2.7262 -0.0675 -0.1902 -0.3916 -0.8076 -0.4867 -1.7309 -1.6822 -1.8368 -1.5617 -1.8953 -1.0221 -1.4311 -2.2936 -0.3027 -0.7734 -1.3748 -0.2531 -0.8117 -1.5159 -2.5105 -2.5104 -0.1773 -0.2970 -0.2946 25% 0.1115 59.9470 0.0436 0.2895 1.0121 18.7359 0.8344 3.0333 6.9288 31.7663 6.4655 10.0390 31.3915 0.0246 0.2511 0.5944 1.6624 4.6610 17.2646 13.8884 16.6976 9.8848 13.1567 7.8534 22.3158 35.8426 1.2740 4.6405 10.9012 0.7324 2.8994 6.6910 3.7359 3.8728 0.0764 0.5404 0.2505 50% 0.2280 99.9679 0.3598 2.2676 2.4131 33.7106 1.8755 5.9223 12.3630 52.1397 10.9219 16.6101 50.4860 0.1226 0.9609 2.3540 5.5299 8.0950 28.4109 31.0177 34.7145 21.7692 27.7188 14.4573 39.0428 58.7424 2.8453 9.4363 20.3215 2.0955 7.6787 15.4962 27.5000 28.2911 0.3557 1.8543 1.5118 75% 0.3609 164.0208 1.8911 10.5072 4.8341 55.9928 3.6698 10.6940 21.2949 85.0399 17.7997 26.6985 79.8433 0.5398 2.7532 6.5657 14.3974 13.3429 45.1691 62.9100 67.6604 44.0109 54.5621 26.9440 67.1240 96.2556 6.0644 19.2340 37.4805 5.4604 18.4472 34.4645 76.3472 77.8024 1.3327 5.2306 6.0430 max 0.5000 667.1842 38.5989 116.1534 40.8481 232.3159 24.6575 64.2284 88.5993 313.3722 77.7610 111.2507 284.1494 17.6762 36.7425 71.8734 98.3717 59.9655 193.9232 378.2652 397.9445 231.6448 297.8092 133.4068 333.4064 414.5783 50.8592 110.5359 198.1239 41.8873 125.0767 202.3850 468.7203 476.4553 20.9607 45.9489 73.9573 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 5.7385 58.5405 90.6504 17.7091 18.0443 15.3222 41.5732 49.8055 102.7861 1.9017 3.6448 1.1685 2.7663 0.5845 3.0444 2.1332 9.5231 std 8.9608 56.3360 80.9214 26.5411 26.8639 12.9615 31.7701 52.1089 82.5358 3.4002 5.8517 2.1894 4.9594 1.3342 5.6326 2.4885 9.8388 min -0.3711 -2.2837 -2.4299 -1.5801 -1.5837 -0.8768 -2.1884 -1.9428 -3.0209 -0.2137 -0.2982 -0.1920 -0.3678 -0.0974 -0.3902 -0.1882 -0.5219 25% 0.3164 20.7502 36.1751 0.5691 0.5868 6.2574 19.1224 16.9134 45.4884 0.0579 0.1782 0.0291 0.1074 0.0077 0.1040 0.4023 2.6313 50% 1.9116 41.7031 67.9134 5.1765 5.3682 11.4589 32.6916 32.7872 79.8716 0.4454 1.1388 0.2182 0.6984 0.0862 0.8014 1.2444 6.2113 75% 7.4744 77.2753 118.4087 25.0615 25.7499 20.2198 54.5356 63.2822 134.8022 2.2907 4.7030 1.2985 3.1827 0.5461 3.5572 2.9465 13.0361 max 87.2437 473.5211 651.9329 226.6357 231.9685 96.0217 229.3685 472.1999 562.5073 48.6275 66.0968 29.0078 103.2704 31.0822 74.7636 21.6131 86.8442 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 0.1861 0.0657 0.0760 0.1025 0.1674 0.1284 0.1520 0.1712 0.1903 0.1901 0.1910 0.2036 0.0857 0.1075 0.1130 0.1234 0.1869 0.2043 0.1396 0.1468 0.1420 0.1457 0.1528 0.1681 0.1825 0.1319 0.1406 0.1546 0.1212 0.1240 0.1359 0.0918 0.0925 0.0806 0.1124 baseL2 0.1861 1.0000 0.3918 0.4685 0.5139 0.7898 0.6004 0.6644 0.6936 0.8553 0.7337 0.7699 0.8817 0.1989 0.2838 0.3790 0.4503 0.6643 0.7627 0.5321 0.5732 0.5559 0.5890 0.5936 0.6950 0.8060 0.5380 0.5939 0.6868 0.4002 0.4361 0.5034 0.5922 0.5940 0.5200 0.5529 Coding_UCSC.bedL2 0.0657 0.3918 1.0000 0.8655 0.3879 0.5093 0.4453 0.4862 0.5763 0.5594 0.5079 0.4956 0.4918 0.2702 0.3034 0.4617 0.5400 0.4975 0.4831 0.5725 0.5836 0.5756 0.5876 0.5605 0.6048 0.5999 0.5806 0.5870 0.5784 0.5810 0.5827 0.6167 0.5279 0.5403 0.5505 0.5921 Coding_UCSC.extend.500.bedL2 0.0760 0.4685 0.8655 1.0000 0.3718 0.6047 0.5203 0.5689 0.6853 0.6652 0.6018 0.5922 0.5919 0.3137 0.3773 0.5455 0.6280 0.5818 0.5767 0.6794 0.6928 0.6919 0.7085 0.6700 0.7236 0.7155 0.6606 0.6773 0.6726 0.6795 0.6893 0.7324 0.6758 0.6878 0.6416 0.6807 Conserved_LindbladToh.bedL2 0.1025 0.5139 0.3879 0.3718 1.0000 0.7900 0.3460 0.3757 0.4481 0.5243 0.4854 0.5046 0.5415 0.1397 0.1821 0.2475 0.2953 0.4584 0.5087 0.3667 0.3888 0.3867 0.4027 0.4254 0.4843 0.5346 0.3400 0.3735 0.4220 0.2694 0.3013 0.3321 0.4589 0.4597 0.3296 0.3496 Conserved_LindbladToh.extend.500.bedL2 0.1674 0.7898 0.5093 0.6047 0.7900 1.0000 0.5873 0.6397 0.7644 0.8502 0.7954 0.8174 0.8633 0.2769 0.3736 0.4970 0.5734 0.7525 0.8187 0.6625 0.6930 0.6884 0.7137 0.7404 0.8077 0.8618 0.6219 0.6672 0.7331 0.5429 0.5800 0.6356 0.7274 0.7293 0.5868 0.6298 CTCF_Hoffman.bedL2 0.1284 0.6004 0.4453 0.5203 0.3460 0.5873 1.0000 0.9311 0.7161 0.7223 0.6977 0.6995 0.6958 0.3325 0.3963 0.5341 0.5905 0.6631 0.6904 0.6316 0.6484 0.6353 0.6486 0.6599 0.6904 0.7020 0.6131 0.6391 0.6795 0.5783 0.5958 0.6386 0.5347 0.5400 0.4866 0.5528 CTCF_Hoffman.extend.500.bedL2 0.1520 0.6644 0.4862 0.5689 0.3757 0.6397 0.9311 1.0000 0.7787 0.7907 0.7508 0.7542 0.7586 0.3543 0.4300 0.5895 0.6512 0.7127 0.7503 0.6918 0.7107 0.6983 0.7143 0.7220 0.7562 0.7713 0.6752 0.6953 0.7421 0.6330 0.6490 0.6959 0.5796 0.5854 0.5430 0.6165 DGF_ENCODE.bedL2 0.1712 0.6936 0.5763 0.6853 0.4481 0.7644 0.7161 0.7787 1.0000 0.9444 0.9439 0.9413 0.9012 0.4786 0.5835 0.7811 0.8423 0.9026 0.9104 0.9045 0.9182 0.9185 0.9286 0.9415 0.9495 0.9284 0.8651 0.8814 0.9140 0.8090 0.8427 0.8863 0.6889 0.6947 0.6640 0.7337 DGF_ENCODE.extend.500.bedL2 0.1903 0.8553 0.5594 0.6652 0.5243 0.8502 0.7223 0.7907 0.9444 1.0000 0.9316 0.9477 0.9747 0.3888 0.5006 0.6674 0.7473 0.8722 0.9288 0.8405 0.8682 0.8538 0.8782 0.8825 0.9389 0.9711 0.7906 0.8267 0.8930 0.7005 0.7417 0.8074 0.7145 0.7191 0.6679 0.7312 DHS_peaks_Trynka.bedL2 0.1901 0.7337 0.5079 0.6018 0.4854 0.7954 0.6977 0.7508 0.9439 0.9316 1.0000 0.9852 0.9385 0.4369 0.5387 0.7154 0.7706 0.9539 0.9553 0.8538 0.8713 0.8644 0.8780 0.9081 0.9284 0.9246 0.8001 0.8220 0.8695 0.7344 0.7694 0.8172 0.6718 0.6756 0.6073 0.6743 DHS_Trynka.bedL2 0.1910 0.7699 0.4956 0.5922 0.5046 0.8174 0.6995 0.7542 0.9413 0.9477 0.9852 1.0000 0.9600 0.4299 0.5377 0.6988 0.7555 0.9461 0.9611 0.8496 0.8691 0.8583 0.8740 0.9007 0.9301 0.9346 0.7888 0.8176 0.8733 0.7133 0.7539 0.8036 0.6813 0.6847 0.6032 0.6680 DHS_Trynka.extend.500.bedL2 0.2036 0.8817 0.4918 0.5919 0.5415 0.8633 0.6958 0.7586 0.9012 0.9747 0.9385 0.9600 1.0000 0.3590 0.4735 0.6090 0.6842 0.8804 0.9515 0.7901 0.8197 0.8003 0.8263 0.8446 0.9078 0.9530 0.7298 0.7729 0.8496 0.6353 0.6763 0.7432 0.6990 0.7018 0.6134 0.6721 Enhancer_Andersson.bedL2 0.0857 0.1989 0.2702 0.3137 0.1397 0.2769 0.3325 0.3543 0.4786 0.3888 0.4369 0.4299 0.3590 1.0000 0.8556 0.5147 0.5020 0.4648 0.4233 0.4983 0.4885 0.5078 0.4933 0.4838 0.4509 0.3871 0.4951 0.4928 0.4632 0.4884 0.5010 0.4894 0.2540 0.2580 0.2740 0.3212 Enhancer_Andersson.extend.500.bedL2 0.1075 0.2838 0.3034 0.3773 0.1821 0.3736 0.3963 0.4300 0.5835 0.5006 0.5387 0.5377 0.4735 0.8556 1.0000 0.5871 0.5865 0.5624 0.5372 0.6091 0.6001 0.6209 0.6087 0.5924 0.5648 0.5004 0.5776 0.5920 0.5709 0.5737 0.6007 0.5925 0.3346 0.3390 0.3365 0.3910 Enhancer_Hoffman.bedL2 0.1130 0.3790 0.4617 0.5455 0.2475 0.4970 0.5341 0.5895 0.7811 0.6674 0.7154 0.6988 0.6090 0.5147 0.5871 1.0000 0.9598 0.7089 0.6714 0.7719 0.7650 0.8130 0.7989 0.7949 0.7350 0.6635 0.7920 0.7730 0.7471 0.7933 0.7959 0.7909 0.4828 0.4889 0.5381 0.6201 Enhancer_Hoffman.extend.500.bedL2 0.1234 0.4503 0.5400 0.6280 0.2953 0.5734 0.5905 0.6512 0.8423 0.7473 0.7706 0.7555 0.6842 0.5020 0.5865 0.9598 1.0000 0.7582 0.7332 0.8326 0.8317 0.8709 0.8659 0.8581 0.8144 0.7526 0.8388 0.8316 0.8184 0.8355 0.8401 0.8542 0.5634 0.5704 0.6439 0.7311 FetalDHS_Trynka.bedL2 0.1869 0.6643 0.4975 0.5818 0.4584 0.7525 0.6631 0.7127 0.9026 0.8722 0.9539 0.9461 0.8804 0.4648 0.5624 0.7089 0.7582 1.0000 0.9532 0.8424 0.8551 0.8492 0.8574 0.8944 0.8994 0.8798 0.7945 0.8096 0.8469 0.7402 0.7637 0.8025 0.6258 0.6302 0.5712 0.6441 FetalDHS_Trynka.extend.500.bedL2 0.2043 0.7627 0.4831 0.5767 0.5087 0.8187 0.6904 0.7503 0.9104 0.9288 0.9553 0.9611 0.9515 0.4233 0.5372 0.6714 0.7332 0.9532 1.0000 0.8422 0.8618 0.8426 0.8588 0.8929 0.9211 0.9286 0.7683 0.7967 0.8570 0.6989 0.7304 0.7846 0.6726 0.6756 0.5841 0.6553 H3K27ac_Hnisz.bedL2 0.1396 0.5321 0.5725 0.6794 0.3667 0.6625 0.6316 0.6918 0.9045 0.8405 0.8538 0.8496 0.7901 0.4983 0.6091 0.7719 0.8326 0.8424 0.8422 1.0000 0.9971 0.9427 0.9485 0.9256 0.9228 0.8650 0.8403 0.8600 0.8768 0.8260 0.8647 0.8999 0.6336 0.6399 0.6405 0.7089 H3K27ac_Hnisz.extend.500.bedL2 0.1468 0.5732 0.5836 0.6928 0.3888 0.6930 0.6484 0.7107 0.9182 0.8682 0.8713 0.8691 0.8197 0.4885 0.6001 0.7650 0.8317 0.8551 0.8618 0.9971 1.0000 0.9450 0.9544 0.9326 0.9388 0.8915 0.8440 0.8655 0.8889 0.8204 0.8600 0.9019 0.6561 0.6624 0.6577 0.7253 H3K27ac_PGC2.bedL2 0.1420 0.5559 0.5756 0.6919 0.3867 0.6884 0.6353 0.6983 0.9185 0.8538 0.8644 0.8583 0.8003 0.5078 0.6209 0.8130 0.8709 0.8492 0.8426 0.9427 0.9450 1.0000 0.9944 0.9435 0.9342 0.8764 0.8876 0.9102 0.9154 0.8550 0.8948 0.9214 0.6584 0.6646 0.6547 0.7248 H3K27ac_PGC2.extend.500.bedL2 0.1457 0.5890 0.5876 0.7085 0.4027 0.7137 0.6486 0.7143 0.9286 0.8782 0.8780 0.8740 0.8263 0.4933 0.6087 0.7989 0.8659 0.8574 0.8588 0.9485 0.9544 0.9944 1.0000 0.9485 0.9506 0.9033 0.8781 0.9035 0.9191 0.8447 0.8852 0.9220 0.6795 0.6857 0.6761 0.7450 H3K4me1_peaks_Trynka.bedL2 0.1528 0.5936 0.5605 0.6700 0.4254 0.7404 0.6599 0.7220 0.9415 0.8825 0.9081 0.9007 0.8446 0.4838 0.5924 0.7949 0.8581 0.8944 0.8929 0.9256 0.9326 0.9435 0.9485 1.0000 0.9651 0.9135 0.8814 0.8969 0.9147 0.8547 0.8783 0.9161 0.7035 0.7084 0.6860 0.7488 H3K4me1_Trynka.bedL2 0.1681 0.6950 0.6048 0.7236 0.4843 0.8077 0.6904 0.7562 0.9495 0.9389 0.9284 0.9301 0.9078 0.4509 0.5648 0.7350 0.8144 0.8994 0.9211 0.9228 0.9388 0.9342 0.9506 0.9651 1.0000 0.9763 0.8548 0.8871 0.9255 0.8040 0.8465 0.9028 0.7385 0.7439 0.6985 0.7658 H3K4me1_Trynka.extend.500.bedL2 0.1825 0.8060 0.5999 0.7155 0.5346 0.8618 0.7020 0.7713 0.9284 0.9711 0.9246 0.9346 0.9530 0.3871 0.5004 0.6635 0.7526 0.8798 0.9286 0.8650 0.8915 0.8764 0.9033 0.9135 0.9763 1.0000 0.8003 0.8378 0.8978 0.7271 0.7686 0.8398 0.7628 0.7676 0.7020 0.7614 H3K4me3_peaks_Trynka.bedL2 0.1319 0.5380 0.5806 0.6606 0.3400 0.6219 0.6131 0.6752 0.8651 0.7906 0.8001 0.7888 0.7298 0.4951 0.5776 0.7920 0.8388 0.7945 0.7683 0.8403 0.8440 0.8876 0.8781 0.8814 0.8548 0.8003 1.0000 0.9514 0.9218 0.8684 0.8837 0.8861 0.6087 0.6158 0.6673 0.7359 H3K4me3_Trynka.bedL2 0.1406 0.5939 0.5870 0.6773 0.3735 0.6672 0.6391 0.6953 0.8814 0.8267 0.8220 0.8176 0.7729 0.4928 0.5920 0.7730 0.8316 0.8096 0.7967 0.8600 0.8655 0.9102 0.9035 0.8969 0.8871 0.8378 0.9514 1.0000 0.9741 0.8507 0.8930 0.8998 0.6356 0.6425 0.6757 0.7486 H3K4me3_Trynka.extend.500.bedL2 0.1546 0.6868 0.5784 0.6726 0.4220 0.7331 0.6795 0.7421 0.9140 0.8930 0.8695 0.8733 0.8496 0.4632 0.5709 0.7471 0.8184 0.8469 0.8570 0.8768 0.8889 0.9154 0.9191 0.9147 0.9255 0.8978 0.9218 0.9741 1.0000 0.8202 0.8686 0.8962 0.6738 0.6797 0.6791 0.7532 H3K9ac_peaks_Trynka.bedL2 0.1212 0.4002 0.5810 0.6795 0.2694 0.5429 0.5783 0.6330 0.8090 0.7005 0.7344 0.7133 0.6353 0.4884 0.5737 0.7933 0.8355 0.7402 0.6989 0.8260 0.8204 0.8550 0.8447 0.8547 0.8040 0.7271 0.8684 0.8507 0.8202 1.0000 0.9541 0.9385 0.5538 0.5622 0.6443 0.7147 H3K9ac_Trynka.bedL2 0.1240 0.4361 0.5827 0.6893 0.3013 0.5800 0.5958 0.6490 0.8427 0.7417 0.7694 0.7539 0.6763 0.5010 0.6007 0.7959 0.8401 0.7637 0.7304 0.8647 0.8600 0.8948 0.8852 0.8783 0.8465 0.7686 0.8837 0.8930 0.8686 0.9541 1.0000 0.9777 0.5705 0.5786 0.6397 0.7116 H3K9ac_Trynka.extend.500.bedL2 0.1359 0.5034 0.6167 0.7324 0.3321 0.6356 0.6386 0.6959 0.8863 0.8074 0.8172 0.8036 0.7432 0.4894 0.5925 0.7909 0.8542 0.8025 0.7846 0.8999 0.9019 0.9214 0.9220 0.9161 0.9028 0.8398 0.8861 0.8998 0.8962 0.9385 0.9777 1.0000 0.6310 0.6389 0.6879 0.7577 Intron_UCSC.bedL2 0.0918 0.5922 0.5279 0.6758 0.4589 0.7274 0.5347 0.5796 0.6889 0.7145 0.6718 0.6813 0.6990 0.2540 0.3346 0.4828 0.5634 0.6258 0.6726 0.6336 0.6561 0.6584 0.6795 0.7035 0.7385 0.7628 0.6087 0.6356 0.6738 0.5538 0.5705 0.6310 1.0000 0.9998 0.5758 0.5927 Intron_UCSC.extend.500.bedL2 0.0925 0.5940 0.5403 0.6878 0.4597 0.7293 0.5400 0.5854 0.6947 0.7191 0.6756 0.6847 0.7018 0.2580 0.3390 0.4889 0.5704 0.6302 0.6756 0.6399 0.6624 0.6646 0.6857 0.7084 0.7439 0.7676 0.6158 0.6425 0.6797 0.5622 0.5786 0.6389 0.9998 1.0000 0.5819 0.6004 PromoterFlanking_Hoffman.bedL2 0.0806 0.5200 0.5505 0.6416 0.3296 0.5868 0.4866 0.5430 0.6640 0.6679 0.6073 0.6032 0.6134 0.2740 0.3365 0.5381 0.6439 0.5712 0.5841 0.6405 0.6577 0.6547 0.6761 0.6860 0.6985 0.7020 0.6673 0.6757 0.6791 0.6443 0.6397 0.6879 0.5758 0.5819 1.0000 0.9137 PromoterFlanking_Hoffman.extend.500.bedL2 0.1124 0.5529 0.5921 0.6807 0.3496 0.6298 0.5528 0.6165 0.7337 0.7312 0.6743 0.6680 0.6721 0.3212 0.3910 0.6201 0.7311 0.6441 0.6553 0.7089 0.7253 0.7248 0.7450 0.7488 0.7658 0.7614 0.7359 0.7486 0.7532 0.7147 0.7116 0.7577 0.5927 0.6004 0.9137 1.0000 Promoter_UCSC.bedL2 0.0989 0.4185 0.7090 0.7922 0.2745 0.5055 0.5345 0.5863 0.6506 0.6156 0.5672 0.5536 0.5387 0.3569 0.4232 0.5579 0.6391 0.5535 0.5388 0.6522 0.6622 0.6682 0.6796 0.6478 0.6798 0.6564 0.6931 0.7052 0.6816 0.7015 0.7034 0.7315 0.5619 0.5740 0.6458 0.7010 Promoter_UCSC.extend.500.bedL2 0.0986 0.4186 0.7105 0.7968 0.2783 0.5092 0.5349 0.5877 0.6542 0.6188 0.5699 0.5559 0.5410 0.3571 0.4242 0.5619 0.6440 0.5560 0.5416 0.6557 0.6659 0.6737 0.6851 0.6529 0.6845 0.6608 0.6961 0.7096 0.6856 0.7048 0.7076 0.7357 0.5662 0.5782 0.6478 0.7031 Repressed_Hoffman.bedL2 0.1480 0.7883 0.0079 -0.0075 0.3400 0.4412 0.2606 0.2921 0.2152 0.4318 0.3143 0.3658 0.5104 -0.0278 0.0007 -0.0718 -0.0517 0.2625 0.3685 0.0446 0.0823 0.0546 0.0791 0.0835 0.2016 0.3449 0.0777 0.1416 0.2336 -0.0839 -0.0468 -0.0111 0.1614 0.1590 0.0816 0.0892 Repressed_Hoffman.extend.500.bedL2 0.1579 0.8420 0.0623 0.0530 0.3944 0.5177 0.3319 0.3671 0.2989 0.5142 0.3953 0.4475 0.5881 0.0084 0.0492 -0.0058 0.0259 0.3394 0.4471 0.1230 0.1628 0.1374 0.1646 0.1710 0.2906 0.4323 0.1545 0.2217 0.3191 -0.0171 0.0256 0.0681 0.2386 0.2364 0.1448 0.1626 SuperEnhancer_Hnisz.bedL2 0.0760 0.2143 0.3957 0.4720 0.1540 0.3572 0.4139 0.4407 0.6482 0.5146 0.5883 0.5739 0.4686 0.5076 0.5969 0.6745 0.6750 0.6120 0.5676 0.7783 0.7506 0.7603 0.7304 0.7085 0.6456 0.5338 0.6882 0.7013 0.6595 0.7214 0.7558 0.7251 0.3789 0.3845 0.3707 0.4413 SuperEnhancer_Hnisz.extend.500.bedL2 0.0769 0.2179 0.3997 0.4770 0.1570 0.3618 0.4176 0.4446 0.6524 0.5194 0.5921 0.5777 0.4730 0.5084 0.5984 0.6768 0.6786 0.6152 0.5713 0.7824 0.7551 0.7640 0.7346 0.7124 0.6507 0.5393 0.6915 0.7049 0.6635 0.7246 0.7592 0.7295 0.3832 0.3888 0.3751 0.4463 TFBS_ENCODE.bedL2 0.1668 0.6788 0.5965 0.6961 0.4356 0.7499 0.7226 0.7785 0.9460 0.9106 0.9054 0.9041 0.8715 0.4840 0.5844 0.8092 0.8703 0.8717 0.8799 0.8816 0.8946 0.9067 0.9153 0.9178 0.9250 0.9054 0.8689 0.8804 0.9026 0.8222 0.8464 0.8838 0.6732 0.6799 0.6912 0.7726 TFBS_ENCODE.extend.500.bedL2 0.1860 0.8056 0.5660 0.6692 0.4883 0.8193 0.7323 0.8013 0.9423 0.9680 0.9256 0.9362 0.9465 0.4249 0.5359 0.7266 0.8033 0.8761 0.9203 0.8578 0.8808 0.8774 0.8957 0.8984 0.9358 0.9510 0.8196 0.8475 0.8999 0.7476 0.7823 0.8368 0.6996 0.7048 0.6835 0.7553 Transcribed_Hoffman.bedL2 0.1321 0.7937 0.5631 0.7068 0.4514 0.7731 0.6200 0.6912 0.7976 0.8602 0.7730 0.7816 0.8365 0.2742 0.3708 0.5706 0.6593 0.7095 0.7744 0.7047 0.7344 0.7318 0.7623 0.7735 0.8228 0.8720 0.6806 0.7057 0.7676 0.6291 0.6421 0.7171 0.7555 0.7596 0.7024 0.7249 Transcribed_Hoffman.extend.500.bedL2 0.1768 0.9816 0.3940 0.4839 0.4991 0.7789 0.5816 0.6469 0.6835 0.8403 0.7202 0.7552 0.8681 0.1946 0.2806 0.3846 0.4564 0.6508 0.7510 0.5271 0.5675 0.5543 0.5879 0.5961 0.6924 0.8015 0.5299 0.5839 0.6756 0.4042 0.4352 0.5055 0.6099 0.6114 0.5368 0.5627 TSS_Hoffman.bedL2 0.0932 0.3663 0.5770 0.6523 0.2466 0.4883 0.4698 0.5289 0.6981 0.6086 0.6087 0.5847 0.5334 0.4151 0.4759 0.7244 0.7830 0.6197 0.5757 0.6836 0.6852 0.7250 0.7188 0.7128 0.6850 0.6306 0.7883 0.7565 0.7116 0.8101 0.7838 0.7812 0.4854 0.4953 0.6613 0.7405 TSS_Hoffman.extend.500.bedL2 0.1033 0.3823 0.5843 0.6574 0.2505 0.4982 0.4997 0.5631 0.7248 0.6341 0.6300 0.6076 0.5575 0.4265 0.4893 0.7591 0.8218 0.6368 0.5997 0.7167 0.7179 0.7522 0.7464 0.7429 0.7104 0.6549 0.8077 0.7798 0.7366 0.8237 0.7995 0.8011 0.4981 0.5077 0.6977 0.7807 UTR_3_UCSC.bedL2 0.0644 0.3457 0.8578 0.7342 0.2811 0.4444 0.4124 0.4458 0.5318 0.5117 0.4670 0.4514 0.4464 0.2549 0.2741 0.4482 0.5191 0.4547 0.4432 0.5312 0.5399 0.5351 0.5437 0.5269 0.5556 0.5488 0.5460 0.5398 0.5320 0.5663 0.5535 0.5885 0.4665 0.4765 0.5357 0.5647 UTR_3_UCSC.extend.500.bedL2 0.0675 0.3589 0.7820 0.7703 0.2791 0.4529 0.4434 0.4786 0.5489 0.5265 0.4678 0.4532 0.4456 0.2705 0.3088 0.4605 0.5321 0.4544 0.4383 0.5491 0.5596 0.5509 0.5631 0.5377 0.5697 0.5644 0.5636 0.5593 0.5474 0.5950 0.5868 0.6232 0.4995 0.5111 0.5688 0.5955 UTR_5_UCSC.bedL2 0.0787 0.2992 0.5572 0.5768 0.2146 0.3752 0.3465 0.3916 0.4759 0.4459 0.4206 0.4065 0.3875 0.2427 0.3008 0.4311 0.4823 0.4227 0.4011 0.4850 0.4924 0.5000 0.5059 0.4759 0.4981 0.4802 0.5251 0.5234 0.4994 0.5365 0.5336 0.5478 0.3960 0.4062 0.4875 0.5395 UTR_5_UCSC.extend.500.bedL2 0.0799 0.4211 0.6315 0.7584 0.2735 0.5090 0.4924 0.5475 0.6231 0.5968 0.5481 0.5369 0.5353 0.2962 0.3891 0.5249 0.6052 0.5332 0.5319 0.6139 0.6258 0.6314 0.6473 0.6163 0.6485 0.6417 0.6287 0.6292 0.6205 0.6510 0.6492 0.6853 0.5856 0.5958 0.6303 0.6656 WeakEnhancer_Hoffman.bedL2 0.1252 0.3897 0.4308 0.4813 0.2566 0.4873 0.5446 0.5978 0.7308 0.6459 0.6922 0.6782 0.6047 0.4374 0.5150 0.7268 0.7661 0.6867 0.6572 0.6935 0.6933 0.7203 0.7188 0.7660 0.7133 0.6573 0.7099 0.7015 0.6992 0.7314 0.7231 0.7417 0.4847 0.4900 0.5171 0.6073 WeakEnhancer_Hoffman.extend.500.bedL2 0.1467 0.4926 0.4816 0.5597 0.3255 0.5956 0.6232 0.6798 0.8245 0.7576 0.7800 0.7720 0.7151 0.4647 0.5589 0.8001 0.8551 0.7659 0.7564 0.7890 0.7925 0.8172 0.8200 0.8544 0.8180 0.7697 0.7892 0.7908 0.8003 0.7884 0.7936 0.8229 0.5740 0.5793 0.6209 0.7084 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 0.0989 0.0986 0.1480 0.1579 0.0760 0.0769 0.1668 0.1860 0.1321 0.1768 0.0932 0.1033 0.0644 0.0675 0.0787 0.0799 0.1252 0.1467 baseL2 0.4185 0.4186 0.7883 0.8420 0.2143 0.2179 0.6788 0.8056 0.7937 0.9816 0.3663 0.3823 0.3457 0.3589 0.2992 0.4211 0.3897 0.4926 Coding_UCSC.bedL2 0.7090 0.7105 0.0079 0.0623 0.3957 0.3997 0.5965 0.5660 0.5631 0.3940 0.5770 0.5843 0.8578 0.7820 0.5572 0.6315 0.4308 0.4816 Coding_UCSC.extend.500.bedL2 0.7922 0.7968 -0.0075 0.0530 0.4720 0.4770 0.6961 0.6692 0.7068 0.4839 0.6523 0.6574 0.7342 0.7703 0.5768 0.7584 0.4813 0.5597 Conserved_LindbladToh.bedL2 0.2745 0.2783 0.3400 0.3944 0.1540 0.1570 0.4356 0.4883 0.4514 0.4991 0.2466 0.2505 0.2811 0.2791 0.2146 0.2735 0.2566 0.3255 Conserved_LindbladToh.extend.500.bedL2 0.5055 0.5092 0.4412 0.5177 0.3572 0.3618 0.7499 0.8193 0.7731 0.7789 0.4883 0.4982 0.4444 0.4529 0.3752 0.5090 0.4873 0.5956 CTCF_Hoffman.bedL2 0.5345 0.5349 0.2606 0.3319 0.4139 0.4176 0.7226 0.7323 0.6200 0.5816 0.4698 0.4997 0.4124 0.4434 0.3465 0.4924 0.5446 0.6232 CTCF_Hoffman.extend.500.bedL2 0.5863 0.5877 0.2921 0.3671 0.4407 0.4446 0.7785 0.8013 0.6912 0.6469 0.5289 0.5631 0.4458 0.4786 0.3916 0.5475 0.5978 0.6798 DGF_ENCODE.bedL2 0.6506 0.6542 0.2152 0.2989 0.6482 0.6524 0.9460 0.9423 0.7976 0.6835 0.6981 0.7248 0.5318 0.5489 0.4759 0.6231 0.7308 0.8245 DGF_ENCODE.extend.500.bedL2 0.6156 0.6188 0.4318 0.5142 0.5146 0.5194 0.9106 0.9680 0.8602 0.8403 0.6086 0.6341 0.5117 0.5265 0.4459 0.5968 0.6459 0.7576 DHS_peaks_Trynka.bedL2 0.5672 0.5699 0.3143 0.3953 0.5883 0.5921 0.9054 0.9256 0.7730 0.7202 0.6087 0.6300 0.4670 0.4678 0.4206 0.5481 0.6922 0.7800 DHS_Trynka.bedL2 0.5536 0.5559 0.3658 0.4475 0.5739 0.5777 0.9041 0.9362 0.7816 0.7552 0.5847 0.6076 0.4514 0.4532 0.4065 0.5369 0.6782 0.7720 DHS_Trynka.extend.500.bedL2 0.5387 0.5410 0.5104 0.5881 0.4686 0.4730 0.8715 0.9465 0.8365 0.8681 0.5334 0.5575 0.4464 0.4456 0.3875 0.5353 0.6047 0.7151 Enhancer_Andersson.bedL2 0.3569 0.3571 -0.0278 0.0084 0.5076 0.5084 0.4840 0.4249 0.2742 0.1946 0.4151 0.4265 0.2549 0.2705 0.2427 0.2962 0.4374 0.4647 Enhancer_Andersson.extend.500.bedL2 0.4232 0.4242 0.0007 0.0492 0.5969 0.5984 0.5844 0.5359 0.3708 0.2806 0.4759 0.4893 0.2741 0.3088 0.3008 0.3891 0.5150 0.5589 Enhancer_Hoffman.bedL2 0.5579 0.5619 -0.0718 -0.0058 0.6745 0.6768 0.8092 0.7266 0.5706 0.3846 0.7244 0.7591 0.4482 0.4605 0.4311 0.5249 0.7268 0.8001 Enhancer_Hoffman.extend.500.bedL2 0.6391 0.6440 -0.0517 0.0259 0.6750 0.6786 0.8703 0.8033 0.6593 0.4564 0.7830 0.8218 0.5191 0.5321 0.4823 0.6052 0.7661 0.8551 FetalDHS_Trynka.bedL2 0.5535 0.5560 0.2625 0.3394 0.6120 0.6152 0.8717 0.8761 0.7095 0.6508 0.6197 0.6368 0.4547 0.4544 0.4227 0.5332 0.6867 0.7659 FetalDHS_Trynka.extend.500.bedL2 0.5388 0.5416 0.3685 0.4471 0.5676 0.5713 0.8799 0.9203 0.7744 0.7510 0.5757 0.5997 0.4432 0.4383 0.4011 0.5319 0.6572 0.7564 H3K27ac_Hnisz.bedL2 0.6522 0.6557 0.0446 0.1230 0.7783 0.7824 0.8816 0.8578 0.7047 0.5271 0.6836 0.7167 0.5312 0.5491 0.4850 0.6139 0.6935 0.7890 H3K27ac_Hnisz.extend.500.bedL2 0.6622 0.6659 0.0823 0.1628 0.7506 0.7551 0.8946 0.8808 0.7344 0.5675 0.6852 0.7179 0.5399 0.5596 0.4924 0.6258 0.6933 0.7925 H3K27ac_PGC2.bedL2 0.6682 0.6737 0.0546 0.1374 0.7603 0.7640 0.9067 0.8774 0.7318 0.5543 0.7250 0.7522 0.5351 0.5509 0.5000 0.6314 0.7203 0.8172 H3K27ac_PGC2.extend.500.bedL2 0.6796 0.6851 0.0791 0.1646 0.7304 0.7346 0.9153 0.8957 0.7623 0.5879 0.7188 0.7464 0.5437 0.5631 0.5059 0.6473 0.7188 0.8200 H3K4me1_peaks_Trynka.bedL2 0.6478 0.6529 0.0835 0.1710 0.7085 0.7124 0.9178 0.8984 0.7735 0.5961 0.7128 0.7429 0.5269 0.5377 0.4759 0.6163 0.7660 0.8544 H3K4me1_Trynka.bedL2 0.6798 0.6845 0.2016 0.2906 0.6456 0.6507 0.9250 0.9358 0.8228 0.6924 0.6850 0.7104 0.5556 0.5697 0.4981 0.6485 0.7133 0.8180 H3K4me1_Trynka.extend.500.bedL2 0.6564 0.6608 0.3449 0.4323 0.5338 0.5393 0.9054 0.9510 0.8720 0.8015 0.6306 0.6549 0.5488 0.5644 0.4802 0.6417 0.6573 0.7697 H3K4me3_peaks_Trynka.bedL2 0.6931 0.6961 0.0777 0.1545 0.6882 0.6915 0.8689 0.8196 0.6806 0.5299 0.7883 0.8077 0.5460 0.5636 0.5251 0.6287 0.7099 0.7892 H3K4me3_Trynka.bedL2 0.7052 0.7096 0.1416 0.2217 0.7013 0.7049 0.8804 0.8475 0.7057 0.5839 0.7565 0.7798 0.5398 0.5593 0.5234 0.6292 0.7015 0.7908 H3K4me3_Trynka.extend.500.bedL2 0.6816 0.6856 0.2336 0.3191 0.6595 0.6635 0.9026 0.8999 0.7676 0.6756 0.7116 0.7366 0.5320 0.5474 0.4994 0.6205 0.6992 0.8003 H3K9ac_peaks_Trynka.bedL2 0.7015 0.7048 -0.0839 -0.0171 0.7214 0.7246 0.8222 0.7476 0.6291 0.4042 0.8101 0.8237 0.5663 0.5950 0.5365 0.6510 0.7314 0.7884 H3K9ac_Trynka.bedL2 0.7034 0.7076 -0.0468 0.0256 0.7558 0.7592 0.8464 0.7823 0.6421 0.4352 0.7838 0.7995 0.5535 0.5868 0.5336 0.6492 0.7231 0.7936 H3K9ac_Trynka.extend.500.bedL2 0.7315 0.7357 -0.0111 0.0681 0.7251 0.7295 0.8838 0.8368 0.7171 0.5055 0.7812 0.8011 0.5885 0.6232 0.5478 0.6853 0.7417 0.8229 Intron_UCSC.bedL2 0.5619 0.5662 0.1614 0.2386 0.3789 0.3832 0.6732 0.6996 0.7555 0.6099 0.4854 0.4981 0.4665 0.4995 0.3960 0.5856 0.4847 0.5740 Intron_UCSC.extend.500.bedL2 0.5740 0.5782 0.1590 0.2364 0.3845 0.3888 0.6799 0.7048 0.7596 0.6114 0.4953 0.5077 0.4765 0.5111 0.4062 0.5958 0.4900 0.5793 PromoterFlanking_Hoffman.bedL2 0.6458 0.6478 0.0816 0.1448 0.3707 0.3751 0.6912 0.6835 0.7024 0.5368 0.6613 0.6977 0.5357 0.5688 0.4875 0.6303 0.5171 0.6209 PromoterFlanking_Hoffman.extend.500.bedL2 0.7010 0.7031 0.0892 0.1626 0.4413 0.4463 0.7726 0.7553 0.7249 0.5627 0.7405 0.7807 0.5647 0.5955 0.5395 0.6656 0.6073 0.7084 Promoter_UCSC.bedL2 1.0000 0.9958 -0.0010 0.0555 0.4695 0.4752 0.6941 0.6473 0.5930 0.4091 0.7053 0.7163 0.6349 0.7307 0.6457 0.7910 0.5025 0.5734 Promoter_UCSC.extend.500.bedL2 0.9958 1.0000 -0.0049 0.0528 0.4705 0.4764 0.6970 0.6498 0.5967 0.4103 0.7077 0.7206 0.6365 0.7337 0.6468 0.7892 0.5069 0.5791 Repressed_Hoffman.bedL2 -0.0010 -0.0049 1.0000 0.9856 -0.1380 -0.1373 0.1984 0.3629 0.2757 0.7270 -0.0823 -0.0792 -0.0203 -0.0286 -0.0223 -0.0266 -0.0231 0.0259 Repressed_Hoffman.extend.500.bedL2 0.0555 0.0528 0.9856 1.0000 -0.0896 -0.0882 0.2804 0.4456 0.3653 0.7918 -0.0283 -0.0217 0.0271 0.0193 0.0171 0.0275 0.0559 0.1165 SuperEnhancer_Hnisz.bedL2 0.4695 0.4705 -0.1380 -0.0896 1.0000 0.9998 0.6348 0.5636 0.3904 0.2154 0.5452 0.5663 0.3763 0.3784 0.3409 0.4027 0.5637 0.6046 SuperEnhancer_Hnisz.extend.500.bedL2 0.4752 0.4764 -0.1373 -0.0882 0.9998 1.0000 0.6391 0.5683 0.3950 0.2191 0.5498 0.5707 0.3805 0.3836 0.3456 0.4080 0.5674 0.6088 TFBS_ENCODE.bedL2 0.6941 0.6970 0.1984 0.2804 0.6348 0.6391 1.0000 0.9615 0.7850 0.6693 0.7615 0.7849 0.5579 0.5789 0.5125 0.6476 0.7493 0.8408 TFBS_ENCODE.extend.500.bedL2 0.6473 0.6498 0.3629 0.4456 0.5636 0.5683 0.9615 1.0000 0.8380 0.7922 0.6716 0.6988 0.5234 0.5398 0.4650 0.6099 0.6923 0.8012 Transcribed_Hoffman.bedL2 0.5930 0.5967 0.2757 0.3653 0.3904 0.3950 0.7850 0.8380 1.0000 0.8494 0.5824 0.5969 0.5228 0.5494 0.4481 0.6525 0.5523 0.6619 Transcribed_Hoffman.extend.500.bedL2 0.4091 0.4103 0.7270 0.7918 0.2154 0.2191 0.6693 0.7922 0.8494 1.0000 0.3748 0.3880 0.3474 0.3588 0.2983 0.4333 0.3994 0.5055 TSS_Hoffman.bedL2 0.7053 0.7077 -0.0823 -0.0283 0.5452 0.5498 0.7615 0.6716 0.5824 0.3748 1.0000 0.9695 0.5446 0.5890 0.5665 0.6487 0.6251 0.6852 TSS_Hoffman.extend.500.bedL2 0.7163 0.7206 -0.0792 -0.0217 0.5663 0.5707 0.7849 0.6988 0.5969 0.3880 0.9695 1.0000 0.5605 0.5966 0.5627 0.6567 0.6461 0.7183 UTR_3_UCSC.bedL2 0.6349 0.6365 -0.0203 0.0271 0.3763 0.3805 0.5579 0.5234 0.5228 0.3474 0.5446 0.5605 1.0000 0.8739 0.5188 0.5755 0.4241 0.4622 UTR_3_UCSC.extend.500.bedL2 0.7307 0.7337 -0.0286 0.0193 0.3784 0.3836 0.5789 0.5398 0.5494 0.3588 0.5890 0.5966 0.8739 1.0000 0.5402 0.6344 0.4356 0.4773 UTR_5_UCSC.bedL2 0.6457 0.6468 -0.0223 0.0171 0.3409 0.3456 0.5125 0.4650 0.4481 0.2983 0.5665 0.5627 0.5188 0.5402 1.0000 0.7934 0.3884 0.4272 UTR_5_UCSC.extend.500.bedL2 0.7910 0.7892 -0.0266 0.0275 0.4027 0.4080 0.6476 0.6099 0.6525 0.4333 0.6487 0.6567 0.5755 0.6344 0.7934 1.0000 0.4607 0.5424 WeakEnhancer_Hoffman.bedL2 0.5025 0.5069 -0.0231 0.0559 0.5637 0.5674 0.7493 0.6923 0.5523 0.3994 0.6251 0.6461 0.4241 0.4356 0.3884 0.4607 1.0000 0.9152 WeakEnhancer_Hoffman.extend.500.bedL2 0.5734 0.5791 0.0259 0.1165 0.6046 0.6088 0.8408 0.8012 0.6619 0.5055 0.6852 0.7183 0.4622 0.4773 0.4272 0.5424 0.9152 1.0000 LD Score Matrix Condition Number 974.085 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 1.0000e+00 0.4553 0.2443 0.1292 0.0059 0.0109 0.0486 0.0463 0.0369 0.0380 0.0328 -0.0076 -0.0142 0.0280 0.0298 0.0404 0.0299 0.0541 0.0538 0.0554 0.0561 0.0378 0.0640 0.0588 0.0575 0.0628 0.0479 0.0549 0.0760 0.0729 -0.0604 0.0478 0.0059 0.0142 0.1126 0.1084 -0.0743 Coding_UCSC.extend.500.bed NaN 4.5533e-01 1.0000 0.1282 0.3167 0.0081 0.0178 0.0623 0.0803 0.0521 0.0552 0.0604 -0.0136 -0.0205 0.0436 0.0526 0.0599 0.0532 0.0981 0.0978 0.0984 0.1011 0.0544 0.1175 0.1219 0.0812 0.0945 0.0792 0.0933 0.1336 0.1414 0.1862 0.2446 0.0122 0.0415 0.2269 0.2189 -0.1523 Conserved_LindbladToh.bed NaN 2.4430e-01 0.1282 1.0000 0.2462 0.0050 0.0031 0.0845 0.0616 0.1319 0.1350 0.0870 0.0177 0.0111 0.0399 0.0367 0.1462 0.1063 0.0429 0.0420 0.0562 0.0503 0.0680 0.0902 0.0750 0.0578 0.0758 0.0609 0.0438 0.0708 0.0621 -0.0124 0.0303 0.0135 0.0180 0.0486 0.0465 -0.0294 Conserved_LindbladToh.extend.500.bed NaN 1.2917e-01 0.3167 0.2462 1.0000 0.0324 0.0314 0.1086 0.1787 0.1628 0.1949 0.2444 0.0267 0.0454 0.0987 0.1103 0.1880 0.2628 0.1522 0.1524 0.1695 0.1630 0.1672 0.2417 0.2363 0.1018 0.1445 0.1415 0.1105 0.1763 0.1807 0.1304 0.1496 0.0297 0.0566 0.1003 0.0991 -0.1034 CTCF_Hoffman.bed NaN 5.9320e-03 0.0081 0.0050 0.0324 1.0000 0.5658 0.1100 0.1054 0.1100 0.1173 0.0952 0.0114 0.0131 0.0370 0.0582 0.1082 0.1038 0.0469 0.0474 0.0466 0.0466 0.0726 0.0703 0.0604 0.0389 0.0506 0.0572 0.0582 0.0808 0.0876 -0.0023 -0.0005 -0.0051 0.0139 0.0114 0.0135 -0.1458 CTCF_Hoffman.extend.500.bed NaN 1.0884e-02 0.0178 0.0031 0.0314 0.5658 1.0000 0.0850 0.1509 0.0826 0.0915 0.1352 0.0120 0.0239 0.0555 0.0862 0.0826 0.1344 0.0786 0.0808 0.0821 0.0833 0.0797 0.0935 0.0969 0.0443 0.0665 0.0877 0.0698 0.1099 0.1337 -0.0027 0.0002 0.0061 0.0278 0.0281 0.0300 -0.1247 DGF_ENCODE.bed NaN 4.8555e-02 0.0623 0.0845 0.1086 0.1100 0.0850 1.0000 0.3705 0.5203 0.5009 0.2670 0.0962 0.0888 0.2033 0.1960 0.3483 0.2276 0.2168 0.2097 0.2434 0.2275 0.2947 0.2962 0.2203 0.1881 0.2530 0.2237 0.1674 0.2505 0.2398 0.0434 0.0544 0.0614 0.0906 0.0955 0.0973 -0.1838 DGF_ENCODE.extend.500.bed NaN 4.6283e-02 0.0803 0.0616 0.1787 0.1054 0.1509 0.3705 1.0000 0.2677 0.3316 0.5621 0.0513 0.0984 0.1860 0.2489 0.2215 0.3742 0.3537 0.3563 0.3653 0.3641 0.3177 0.4712 0.4588 0.1536 0.2642 0.3216 0.1560 0.2841 0.3407 0.0857 0.0934 0.0695 0.1287 0.1008 0.1065 -0.2467 DHS_peaks_Trynka.bed NaN 3.6942e-02 0.0521 0.1319 0.1628 0.1100 0.0826 0.5203 0.2677 1.0000 0.7744 0.3563 0.1068 0.0998 0.2183 0.1990 0.6472 0.3679 0.1970 0.1889 0.2330 0.2086 0.3075 0.3006 0.2218 0.2163 0.2661 0.2264 0.1946 0.2636 0.2349 0.0291 0.0397 0.0400 0.0759 0.0868 0.0817 -0.1519 DHS_Trynka.bed NaN 3.8001e-02 0.0552 0.1350 0.1949 0.1173 0.0915 0.5009 0.3316 0.7744 1.0000 0.4506 0.1036 0.1158 0.2482 0.2295 0.6794 0.4327 0.2361 0.2264 0.2779 0.2485 0.3548 0.3657 0.2725 0.2340 0.3003 0.2634 0.2141 0.2991 0.2715 0.0347 0.0452 0.0421 0.0812 0.0873 0.0822 -0.1771 DHS_Trynka.extend.500.bed NaN 3.2814e-02 0.0604 0.0870 0.2444 0.0952 0.1352 0.2670 0.5621 0.3563 0.4506 1.0000 0.0532 0.1034 0.1883 0.2481 0.3062 0.6358 0.3185 0.3237 0.3428 0.3304 0.3204 0.4826 0.4744 0.1472 0.2408 0.3008 0.1515 0.2705 0.3200 0.0699 0.0760 0.0440 0.0961 0.0787 0.0756 -0.1950 Enhancer_Andersson.bed NaN -7.6414e-03 -0.0136 0.0177 0.0267 0.0114 0.0120 0.0962 0.0513 0.1068 0.1036 0.0532 1.0000 0.4778 0.1115 0.0940 0.1206 0.0728 0.0651 0.0615 0.0817 0.0711 0.0699 0.0618 0.0438 0.0765 0.0972 0.0786 0.0563 0.0895 0.0782 0.0070 0.0059 0.0163 0.0308 0.0139 0.0168 -0.0431 Enhancer_Andersson.extend.500.bed NaN -1.4223e-02 -0.0205 0.0111 0.0454 0.0131 0.0239 0.0888 0.0984 0.0998 0.1158 0.1034 0.4778 1.0000 0.1741 0.1682 0.1163 0.1360 0.1278 0.1212 0.1553 0.1381 0.1192 0.1163 0.0868 0.1177 0.1630 0.1443 0.1062 0.1618 0.1429 0.0137 0.0118 0.0219 0.0458 0.0195 0.0233 -0.0761 Enhancer_Hoffman.bed NaN 2.7955e-02 0.0436 0.0399 0.0987 0.0370 0.0555 0.2033 0.1860 0.2183 0.2482 0.1883 0.1115 0.1741 1.0000 0.6710 0.2231 0.2258 0.2317 0.2196 0.3121 0.2728 0.2633 0.2235 0.1597 0.2428 0.3043 0.2624 0.2294 0.3182 0.2782 0.0357 0.0424 0.0472 0.1230 0.1122 0.1085 -0.1969 Enhancer_Hoffman.extend.500.bed NaN 2.9765e-02 0.0526 0.0367 0.1103 0.0582 0.0862 0.1960 0.2489 0.1990 0.2295 0.2481 0.0940 0.1682 0.6710 1.0000 0.2064 0.2747 0.3159 0.3114 0.4218 0.3878 0.2759 0.2957 0.2334 0.2256 0.3310 0.3462 0.2209 0.3616 0.3738 0.0526 0.0604 0.0889 0.2078 0.1531 0.1507 -0.2714 FetalDHS_Trynka.bed NaN 4.0438e-02 0.0599 0.1462 0.1880 0.1082 0.0826 0.3483 0.2215 0.6472 0.6794 0.3062 0.1206 0.1163 0.2231 0.2064 1.0000 0.4815 0.1958 0.1868 0.2316 0.2057 0.2968 0.2816 0.2058 0.2532 0.2937 0.2433 0.2262 0.2878 0.2479 0.0210 0.0335 0.0355 0.0829 0.1073 0.1006 -0.1333 FetalDHS_Trynka.extend.500.bed NaN 2.9949e-02 0.0532 0.1063 0.2628 0.1038 0.1344 0.2276 0.3742 0.3679 0.4327 0.6358 0.0728 0.1360 0.2258 0.2747 0.4815 1.0000 0.3065 0.3057 0.3389 0.3172 0.3328 0.4327 0.3789 0.1917 0.2889 0.3280 0.1939 0.3182 0.3443 0.0511 0.0582 0.0432 0.1018 0.1002 0.0950 -0.1679 H3K27ac_Hnisz.bed NaN 5.4128e-02 0.0981 0.0429 0.1522 0.0469 0.0786 0.2168 0.3537 0.1970 0.2361 0.3185 0.0651 0.1278 0.2317 0.3159 0.1958 0.3065 1.0000 0.9347 0.5569 0.5861 0.3237 0.4763 0.4402 0.1710 0.2989 0.3651 0.1905 0.3570 0.4378 0.1592 0.1670 0.0696 0.1284 0.1129 0.1241 -0.2798 H3K27ac_Hnisz.extend.500.bed NaN 5.3794e-02 0.0978 0.0420 0.1524 0.0474 0.0808 0.2097 0.3563 0.1889 0.2264 0.3237 0.0615 0.1212 0.2196 0.3114 0.1868 0.3057 0.9347 1.0000 0.5635 0.6034 0.3142 0.4789 0.4639 0.1623 0.2854 0.3612 0.1810 0.3425 0.4352 0.1579 0.1656 0.0700 0.1304 0.1128 0.1242 -0.2779 H3K27ac_PGC2.bed NaN 5.5434e-02 0.0984 0.0562 0.1695 0.0466 0.0821 0.2434 0.3653 0.2330 0.2779 0.3428 0.0817 0.1553 0.3121 0.4218 0.2316 0.3389 0.5569 0.5635 1.0000 0.8550 0.3648 0.4974 0.4214 0.2328 0.4018 0.4695 0.2440 0.4515 0.5223 0.1360 0.1459 0.1006 0.1802 0.1607 0.1675 -0.2917 H3K27ac_PGC2.extend.500.bed NaN 5.6082e-02 0.1011 0.0503 0.1630 0.0466 0.0833 0.2275 0.3641 0.2086 0.2485 0.3304 0.0711 0.1381 0.2728 0.3878 0.2057 0.3172 0.5861 0.6034 0.8550 1.0000 0.3438 0.5025 0.4531 0.2047 0.3613 0.4431 0.2178 0.4092 0.5020 0.1464 0.1558 0.0952 0.1740 0.1554 0.1652 -0.2987 H3K4me1_peaks_Trynka.bed NaN 3.7815e-02 0.0544 0.0680 0.1672 0.0726 0.0797 0.2947 0.3177 0.3075 0.3548 0.3204 0.0699 0.1192 0.2633 0.2759 0.2968 0.3328 0.3237 0.3142 0.3648 0.3438 1.0000 0.5236 0.3628 0.2717 0.3715 0.3393 0.2830 0.3945 0.3683 0.1059 0.1125 0.1162 0.1576 0.1117 0.1155 -0.2371 H3K4me1_Trynka.bed NaN 6.4025e-02 0.1175 0.0902 0.2417 0.0703 0.0935 0.2962 0.4712 0.3006 0.3657 0.4826 0.0618 0.1163 0.2235 0.2957 0.2816 0.4327 0.4763 0.4789 0.4974 0.5025 0.5236 1.0000 0.6872 0.1935 0.3348 0.4125 0.2057 0.3811 0.4678 0.1745 0.1841 0.0891 0.1536 0.1252 0.1339 -0.3046 H3K4me1_Trynka.extend.500.bed NaN 5.8831e-02 0.1219 0.0750 0.2363 0.0604 0.0969 0.2203 0.4588 0.2218 0.2725 0.4744 0.0438 0.0868 0.1597 0.2334 0.2058 0.3789 0.4402 0.4639 0.4214 0.4531 0.3628 0.6872 1.0000 0.1339 0.2387 0.3269 0.1458 0.2756 0.3840 0.1891 0.1975 0.0639 0.1228 0.1098 0.1186 -0.2761 H3K4me3_peaks_Trynka.bed NaN 5.7503e-02 0.0812 0.0578 0.1018 0.0389 0.0443 0.1881 0.1536 0.2163 0.2340 0.1472 0.0765 0.1177 0.2428 0.2256 0.2532 0.1917 0.1710 0.1623 0.2328 0.2047 0.2717 0.1935 0.1339 1.0000 0.5347 0.3614 0.3786 0.3614 0.2779 0.0416 0.0542 0.1038 0.1569 0.1642 0.1599 -0.1343 H3K4me3_Trynka.bed NaN 6.2790e-02 0.0945 0.0758 0.1445 0.0506 0.0665 0.2530 0.2642 0.2661 0.3003 0.2408 0.0972 0.1630 0.3043 0.3310 0.2937 0.2889 0.2989 0.2854 0.4018 0.3613 0.3715 0.3348 0.2387 0.5347 1.0000 0.6685 0.3424 0.5422 0.4654 0.0813 0.0963 0.1737 0.2619 0.2326 0.2369 -0.2125 H3K4me3_Trynka.extend.500.bed NaN 4.7938e-02 0.0792 0.0609 0.1415 0.0572 0.0877 0.2237 0.3216 0.2264 0.2634 0.3008 0.0786 0.1443 0.2624 0.3462 0.2433 0.3280 0.3651 0.3612 0.4695 0.4431 0.3393 0.4125 0.3269 0.3614 0.6685 1.0000 0.2617 0.4787 0.5405 0.0878 0.0988 0.1323 0.2411 0.1895 0.1972 -0.2299 H3K9ac_peaks_Trynka.bed NaN 5.4911e-02 0.0933 0.0438 0.1105 0.0582 0.0698 0.1674 0.1560 0.1946 0.2141 0.1515 0.0563 0.1062 0.2294 0.2209 0.2262 0.1939 0.1905 0.1810 0.2440 0.2178 0.2830 0.2057 0.1458 0.3786 0.3424 0.2617 1.0000 0.5216 0.3666 0.0610 0.0724 0.0857 0.1330 0.1527 0.1501 -0.1427 H3K9ac_Trynka.bed NaN 7.5974e-02 0.1336 0.0708 0.1763 0.0808 0.1099 0.2505 0.2841 0.2636 0.2991 0.2705 0.0895 0.1618 0.3182 0.3616 0.2878 0.3182 0.3570 0.3425 0.4515 0.4092 0.3945 0.3811 0.2756 0.3614 0.5422 0.4787 0.5216 1.0000 0.6962 0.1063 0.1231 0.1453 0.2246 0.2254 0.2281 -0.2422 H3K9ac_Trynka.extend.500.bed NaN 7.2881e-02 0.1414 0.0621 0.1807 0.0876 0.1337 0.2398 0.3407 0.2349 0.2715 0.3200 0.0782 0.1429 0.2782 0.3738 0.2479 0.3443 0.4378 0.4352 0.5223 0.5020 0.3683 0.4678 0.3840 0.2779 0.4654 0.5405 0.3666 0.6962 1.0000 0.1386 0.1527 0.1261 0.2269 0.2022 0.2101 -0.2832 Intron_UCSC.bed NaN -6.0411e-02 0.1862 -0.0124 0.1304 -0.0023 -0.0027 0.0434 0.0857 0.0291 0.0347 0.0699 0.0070 0.0137 0.0357 0.0526 0.0210 0.0511 0.1592 0.1579 0.1360 0.1464 0.1059 0.1745 0.1891 0.0416 0.0813 0.0878 0.0610 0.1063 0.1386 1.0000 0.9829 0.0367 0.0404 0.0816 0.0932 -0.2432 Intron_UCSC.extend.500.bed NaN 4.7784e-02 0.2446 0.0303 0.1496 -0.0005 0.0002 0.0544 0.0934 0.0397 0.0452 0.0760 0.0059 0.0118 0.0424 0.0604 0.0335 0.0582 0.1670 0.1656 0.1459 0.1558 0.1125 0.1841 0.1975 0.0542 0.0963 0.0988 0.0724 0.1231 0.1527 0.9829 1.0000 0.0375 0.0455 0.1120 0.1216 -0.2531 PromoterFlanking_Hoffman.bed NaN 5.9497e-03 0.0122 0.0135 0.0297 -0.0051 0.0061 0.0614 0.0695 0.0400 0.0421 0.0440 0.0163 0.0219 0.0472 0.0889 0.0355 0.0432 0.0696 0.0700 0.1006 0.0952 0.1162 0.0891 0.0639 0.1038 0.1737 0.1323 0.0857 0.1453 0.1261 0.0367 0.0375 1.0000 0.5038 0.1195 0.1283 -0.0842 PromoterFlanking_Hoffman.extend.500.bed NaN 1.4229e-02 0.0415 0.0180 0.0566 0.0139 0.0278 0.0906 0.1287 0.0759 0.0812 0.0961 0.0308 0.0458 0.1230 0.2078 0.0829 0.1018 0.1284 0.1304 0.1802 0.1740 0.1576 0.1536 0.1228 0.1569 0.2619 0.2411 0.1330 0.2246 0.2269 0.0404 0.0455 0.5038 1.0000 0.2090 0.2166 -0.1406 Promoter_UCSC.bed NaN 1.1259e-01 0.2269 0.0486 0.1003 0.0114 0.0281 0.0955 0.1008 0.0868 0.0873 0.0787 0.0139 0.0195 0.1122 0.1531 0.1073 0.1002 0.1129 0.1128 0.1607 0.1554 0.1117 0.1252 0.1098 0.1642 0.2326 0.1895 0.1527 0.2254 0.2022 0.0816 0.1120 0.1195 0.2090 1.0000 0.8961 -0.1085 Promoter_UCSC.extend.500.bed NaN 1.0838e-01 0.2189 0.0465 0.0991 0.0135 0.0300 0.0973 0.1065 0.0817 0.0822 0.0756 0.0168 0.0233 0.1085 0.1507 0.1006 0.0950 0.1241 0.1242 0.1675 0.1652 0.1155 0.1339 0.1186 0.1599 0.2369 0.1972 0.1501 0.2281 0.2101 0.0932 0.1216 0.1283 0.2166 0.8961 1.0000 -0.1154 Repressed_Hoffman.bed NaN -7.4330e-02 -0.1523 -0.0294 -0.1034 -0.1458 -0.1247 -0.1838 -0.2467 -0.1519 -0.1771 -0.1950 -0.0431 -0.0761 -0.1969 -0.2714 -0.1333 -0.1679 -0.2798 -0.2779 -0.2917 -0.2987 -0.2371 -0.3046 -0.2761 -0.1343 -0.2125 -0.2299 -0.1427 -0.2422 -0.2832 -0.2432 -0.2531 -0.0842 -0.1406 -0.1085 -0.1154 1.0000 Repressed_Hoffman.extend.500.bed NaN -1.1834e-01 -0.2509 -0.0370 -0.1457 -0.0625 -0.0851 -0.1929 -0.2677 -0.1555 -0.1784 -0.2073 -0.0599 -0.1068 -0.3064 -0.3865 -0.1487 -0.1957 -0.3739 -0.3687 -0.3975 -0.3994 -0.2738 -0.3597 -0.3322 -0.1776 -0.2779 -0.2958 -0.2001 -0.3346 -0.3850 -0.3625 -0.3779 -0.1084 -0.1798 -0.1681 -0.1781 0.5746 SuperEnhancer_Hnisz.bed NaN 3.8727e-02 0.0698 0.0183 0.0975 0.0316 0.0542 0.1639 0.2348 0.1256 0.1463 0.1921 0.0784 0.1431 0.2020 0.2585 0.1277 0.1942 0.5605 0.5239 0.4269 0.4267 0.2474 0.3248 0.2767 0.1517 0.2610 0.2866 0.1742 0.3169 0.3506 0.1491 0.1546 0.0419 0.0806 0.0977 0.1079 -0.2193 SuperEnhancer_Hnisz.extend.500.bed NaN 3.9479e-02 0.0705 0.0180 0.0973 0.0326 0.0559 0.1636 0.2358 0.1247 0.1453 0.1927 0.0778 0.1428 0.2014 0.2599 0.1264 0.1941 0.5599 0.5295 0.4297 0.4313 0.2469 0.3262 0.2795 0.1507 0.2605 0.2877 0.1736 0.3167 0.3527 0.1485 0.1541 0.0432 0.0820 0.0987 0.1091 -0.2205 TFBS_ENCODE.bed NaN 5.2255e-02 0.0800 0.0725 0.1288 0.2326 0.1692 0.3654 0.2831 0.3647 0.4157 0.2714 0.1076 0.1317 0.3226 0.3151 0.3285 0.2715 0.2314 0.2235 0.2820 0.2557 0.2786 0.2754 0.2087 0.2410 0.3111 0.2733 0.2129 0.2997 0.2742 0.0390 0.0516 0.0638 0.1273 0.1390 0.1369 -0.2256 TFBS_ENCODE.extend.500.bed NaN 3.9793e-02 0.0702 0.0533 0.1537 0.1714 0.2636 0.2416 0.4178 0.2409 0.2940 0.4132 0.0654 0.1226 0.2629 0.3461 0.2205 0.3474 0.3132 0.3136 0.3588 0.3435 0.2849 0.3665 0.3297 0.1789 0.2891 0.3297 0.1775 0.3021 0.3337 0.0594 0.0675 0.0765 0.1496 0.1197 0.1215 -0.2523 Transcribed_Hoffman.bed NaN 6.1348e-02 0.1392 -0.0006 0.0323 -0.0373 -0.0179 0.0163 0.0490 -0.0150 -0.0143 0.0116 -0.0080 -0.0117 -0.0147 -0.0043 -0.0288 -0.0166 0.1012 0.1008 0.0722 0.0913 0.0532 0.1042 0.1146 -0.0077 0.0084 0.0272 0.0123 0.0311 0.0712 0.2931 0.2961 0.0028 -0.0044 -0.0074 0.0015 -0.7109 Transcribed_Hoffman.extend.500.bed NaN -5.4248e-06 0.0125 -0.0184 -0.0229 -0.0335 -0.0378 -0.0502 -0.0377 -0.0671 -0.0705 -0.0456 -0.0228 -0.0379 -0.0855 -0.0883 -0.0776 -0.0716 -0.0380 -0.0355 -0.0519 -0.0400 -0.0487 -0.0370 -0.0116 -0.0762 -0.0860 -0.0688 -0.0631 -0.0867 -0.0667 0.1319 0.1262 -0.0161 -0.0448 -0.0853 -0.0790 -0.1908 TSS_Hoffman.bed NaN 9.0106e-02 0.1465 0.0488 0.0947 0.0244 0.0332 0.1742 0.1158 0.1822 0.1832 0.1133 0.0831 0.1112 0.1610 0.2204 0.2191 0.1586 0.1423 0.1335 0.2021 0.1738 0.1628 0.1328 0.0980 0.2916 0.2974 0.2117 0.2647 0.2940 0.2204 0.0302 0.0569 0.0917 0.2205 0.3149 0.2984 -0.1200 TSS_Hoffman.extend.500.bed NaN 7.1630e-02 0.1239 0.0413 0.0957 0.0425 0.0620 0.1618 0.1566 0.1619 0.1704 0.1435 0.0766 0.1263 0.2611 0.3442 0.1961 0.1909 0.1912 0.1844 0.2672 0.2369 0.1981 0.1805 0.1361 0.2722 0.3580 0.2847 0.2523 0.3497 0.2943 0.0374 0.0587 0.1922 0.3467 0.3290 0.3189 -0.1665 UTR_3_UCSC.bed NaN 5.9963e-01 0.2937 0.0691 0.0781 0.0072 0.0104 0.0241 0.0323 0.0116 0.0141 0.0218 -0.0062 -0.0118 0.0114 0.0141 0.0107 0.0134 0.0435 0.0441 0.0385 0.0405 0.0235 0.0463 0.0460 0.0166 0.0265 0.0241 0.0242 0.0426 0.0489 -0.0292 0.0056 0.0039 0.0062 0.0488 0.0504 -0.0574 UTR_3_UCSC.extend.500.bed NaN 4.3003e-01 0.4319 0.0689 0.1289 0.0097 0.0164 0.0345 0.0473 0.0196 0.0217 0.0298 -0.0073 -0.0116 0.0192 0.0262 0.0198 0.0214 0.0611 0.0625 0.0544 0.0582 0.0335 0.0652 0.0658 0.0282 0.0445 0.0414 0.0377 0.0659 0.0750 0.0314 0.0655 0.0052 0.0139 0.1195 0.1187 -0.0845 UTR_5_UCSC.bed NaN 3.0571e-01 0.1597 0.0730 0.0539 0.0066 0.0135 0.0451 0.0351 0.0489 0.0478 0.0285 -0.0013 -0.0059 0.0323 0.0381 0.0603 0.0384 0.0408 0.0393 0.0535 0.0505 0.0314 0.0427 0.0369 0.0732 0.0760 0.0565 0.0639 0.0783 0.0670 -0.0075 0.0470 0.0073 0.0306 0.2002 0.1876 -0.0442 UTR_5_UCSC.extend.500.bed NaN 1.7380e-01 0.4227 0.0647 0.1447 0.0086 0.0185 0.0706 0.0682 0.0762 0.0781 0.0575 -0.0063 -0.0089 0.0664 0.0833 0.0970 0.0724 0.0778 0.0759 0.1028 0.0960 0.0629 0.0891 0.0818 0.1299 0.1426 0.1093 0.1243 0.1523 0.1340 0.0866 0.1321 0.0321 0.0867 0.4111 0.3801 -0.0928 WeakEnhancer_Hoffman.bed NaN 3.4394e-03 0.0011 0.0263 0.0506 0.0306 0.0479 0.1748 0.1252 0.1829 0.1997 0.1261 0.0636 0.0701 0.1133 0.1625 0.1582 0.1334 0.1128 0.1095 0.1441 0.1336 0.1995 0.1495 0.1063 0.1292 0.1690 0.1489 0.1257 0.1656 0.1529 0.0130 0.0141 0.0193 0.0604 0.0224 0.0247 -0.1341 WeakEnhancer_Hoffman.extend.500.bed NaN 2.7079e-03 0.0017 0.0261 0.0870 0.0661 0.0988 0.1700 0.2453 0.1753 0.2109 0.2467 0.0637 0.1163 0.2264 0.3276 0.1684 0.2404 0.2234 0.2224 0.2720 0.2621 0.2598 0.2769 0.2225 0.1440 0.2393 0.2741 0.1537 0.2549 0.2837 0.0307 0.0322 0.0582 0.1344 0.0471 0.0527 -0.2261 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 -0.1183 0.0387 0.0395 0.0523 0.0398 0.0613 -5.4248e-06 0.0901 0.0716 0.5996 0.4300 0.3057 0.1738 0.0034 0.0027 Coding_UCSC.extend.500.bed -0.2509 0.0698 0.0705 0.0800 0.0702 0.1392 1.2496e-02 0.1465 0.1239 0.2937 0.4319 0.1597 0.4227 0.0011 0.0017 Conserved_LindbladToh.bed -0.0370 0.0183 0.0180 0.0725 0.0533 -0.0006 -1.8354e-02 0.0488 0.0413 0.0691 0.0689 0.0730 0.0647 0.0263 0.0261 Conserved_LindbladToh.extend.500.bed -0.1457 0.0975 0.0973 0.1288 0.1537 0.0323 -2.2886e-02 0.0947 0.0957 0.0781 0.1289 0.0539 0.1447 0.0506 0.0870 CTCF_Hoffman.bed -0.0625 0.0316 0.0326 0.2326 0.1714 -0.0373 -3.3527e-02 0.0244 0.0425 0.0072 0.0097 0.0066 0.0086 0.0306 0.0661 CTCF_Hoffman.extend.500.bed -0.0851 0.0542 0.0559 0.1692 0.2636 -0.0179 -3.7798e-02 0.0332 0.0620 0.0104 0.0164 0.0135 0.0185 0.0479 0.0988 DGF_ENCODE.bed -0.1929 0.1639 0.1636 0.3654 0.2416 0.0163 -5.0218e-02 0.1742 0.1618 0.0241 0.0345 0.0451 0.0706 0.1748 0.1700 DGF_ENCODE.extend.500.bed -0.2677 0.2348 0.2358 0.2831 0.4178 0.0490 -3.7708e-02 0.1158 0.1566 0.0323 0.0473 0.0351 0.0682 0.1252 0.2453 DHS_peaks_Trynka.bed -0.1555 0.1256 0.1247 0.3647 0.2409 -0.0150 -6.7087e-02 0.1822 0.1619 0.0116 0.0196 0.0489 0.0762 0.1829 0.1753 DHS_Trynka.bed -0.1784 0.1463 0.1453 0.4157 0.2940 -0.0143 -7.0472e-02 0.1832 0.1704 0.0141 0.0217 0.0478 0.0781 0.1997 0.2109 DHS_Trynka.extend.500.bed -0.2073 0.1921 0.1927 0.2714 0.4132 0.0116 -4.5626e-02 0.1133 0.1435 0.0218 0.0298 0.0285 0.0575 0.1261 0.2467 Enhancer_Andersson.bed -0.0599 0.0784 0.0778 0.1076 0.0654 -0.0080 -2.2790e-02 0.0831 0.0766 -0.0062 -0.0073 -0.0013 -0.0063 0.0636 0.0637 Enhancer_Andersson.extend.500.bed -0.1068 0.1431 0.1428 0.1317 0.1226 -0.0117 -3.7855e-02 0.1112 0.1263 -0.0118 -0.0116 -0.0059 -0.0089 0.0701 0.1163 Enhancer_Hoffman.bed -0.3064 0.2020 0.2014 0.3226 0.2629 -0.0147 -8.5493e-02 0.1610 0.2611 0.0114 0.0192 0.0323 0.0664 0.1133 0.2264 Enhancer_Hoffman.extend.500.bed -0.3865 0.2585 0.2599 0.3151 0.3461 -0.0043 -8.8304e-02 0.2204 0.3442 0.0141 0.0262 0.0381 0.0833 0.1625 0.3276 FetalDHS_Trynka.bed -0.1487 0.1277 0.1264 0.3285 0.2205 -0.0288 -7.7592e-02 0.2191 0.1961 0.0107 0.0198 0.0603 0.0970 0.1582 0.1684 FetalDHS_Trynka.extend.500.bed -0.1957 0.1942 0.1941 0.2715 0.3474 -0.0166 -7.1591e-02 0.1586 0.1909 0.0134 0.0214 0.0384 0.0724 0.1334 0.2404 H3K27ac_Hnisz.bed -0.3739 0.5605 0.5599 0.2314 0.3132 0.1012 -3.7953e-02 0.1423 0.1912 0.0435 0.0611 0.0408 0.0778 0.1128 0.2234 H3K27ac_Hnisz.extend.500.bed -0.3687 0.5239 0.5295 0.2235 0.3136 0.1008 -3.5497e-02 0.1335 0.1844 0.0441 0.0625 0.0393 0.0759 0.1095 0.2224 H3K27ac_PGC2.bed -0.3975 0.4269 0.4297 0.2820 0.3588 0.0722 -5.1874e-02 0.2021 0.2672 0.0385 0.0544 0.0535 0.1028 0.1441 0.2720 H3K27ac_PGC2.extend.500.bed -0.3994 0.4267 0.4313 0.2557 0.3435 0.0913 -4.0014e-02 0.1738 0.2369 0.0405 0.0582 0.0505 0.0960 0.1336 0.2621 H3K4me1_peaks_Trynka.bed -0.2738 0.2474 0.2469 0.2786 0.2849 0.0532 -4.8668e-02 0.1628 0.1981 0.0235 0.0335 0.0314 0.0629 0.1995 0.2598 H3K4me1_Trynka.bed -0.3597 0.3248 0.3262 0.2754 0.3665 0.1042 -3.6963e-02 0.1328 0.1805 0.0463 0.0652 0.0427 0.0891 0.1495 0.2769 H3K4me1_Trynka.extend.500.bed -0.3322 0.2767 0.2795 0.2087 0.3297 0.1146 -1.1607e-02 0.0980 0.1361 0.0460 0.0658 0.0369 0.0818 0.1063 0.2225 H3K4me3_peaks_Trynka.bed -0.1776 0.1517 0.1507 0.2410 0.1789 -0.0077 -7.6248e-02 0.2916 0.2722 0.0166 0.0282 0.0732 0.1299 0.1292 0.1440 H3K4me3_Trynka.bed -0.2779 0.2610 0.2605 0.3111 0.2891 0.0084 -8.6000e-02 0.2974 0.3580 0.0265 0.0445 0.0760 0.1426 0.1690 0.2393 H3K4me3_Trynka.extend.500.bed -0.2958 0.2866 0.2877 0.2733 0.3297 0.0272 -6.8841e-02 0.2117 0.2847 0.0241 0.0414 0.0565 0.1093 0.1489 0.2741 H3K9ac_peaks_Trynka.bed -0.2001 0.1742 0.1736 0.2129 0.1775 0.0123 -6.3051e-02 0.2647 0.2523 0.0242 0.0377 0.0639 0.1243 0.1257 0.1537 H3K9ac_Trynka.bed -0.3346 0.3169 0.3167 0.2997 0.3021 0.0311 -8.6702e-02 0.2940 0.3497 0.0426 0.0659 0.0783 0.1523 0.1656 0.2549 H3K9ac_Trynka.extend.500.bed -0.3850 0.3506 0.3527 0.2742 0.3337 0.0712 -6.6652e-02 0.2204 0.2943 0.0489 0.0750 0.0670 0.1340 0.1529 0.2837 Intron_UCSC.bed -0.3625 0.1491 0.1485 0.0390 0.0594 0.2931 1.3185e-01 0.0302 0.0374 -0.0292 0.0314 -0.0075 0.0866 0.0130 0.0307 Intron_UCSC.extend.500.bed -0.3779 0.1546 0.1541 0.0516 0.0675 0.2961 1.2617e-01 0.0569 0.0587 0.0056 0.0655 0.0470 0.1321 0.0141 0.0322 PromoterFlanking_Hoffman.bed -0.1084 0.0419 0.0432 0.0638 0.0765 0.0028 -1.6080e-02 0.0917 0.1922 0.0039 0.0052 0.0073 0.0321 0.0193 0.0582 PromoterFlanking_Hoffman.extend.500.bed -0.1798 0.0806 0.0820 0.1273 0.1496 -0.0044 -4.4804e-02 0.2205 0.3467 0.0062 0.0139 0.0306 0.0867 0.0604 0.1344 Promoter_UCSC.bed -0.1681 0.0977 0.0987 0.1390 0.1197 -0.0074 -8.5287e-02 0.3149 0.3290 0.0488 0.1195 0.2002 0.4111 0.0224 0.0471 Promoter_UCSC.extend.500.bed -0.1781 0.1079 0.1091 0.1369 0.1215 0.0015 -7.8969e-02 0.2984 0.3189 0.0504 0.1187 0.1876 0.3801 0.0247 0.0527 Repressed_Hoffman.bed 0.5746 -0.2193 -0.2205 -0.2256 -0.2523 -0.7109 -1.9079e-01 -0.1200 -0.1665 -0.0574 -0.0845 -0.0442 -0.0928 -0.1341 -0.2261 Repressed_Hoffman.extend.500.bed 1.0000 -0.3185 -0.3194 -0.2546 -0.2841 -0.4191 -9.4350e-02 -0.2050 -0.2662 -0.0921 -0.1363 -0.0701 -0.1477 -0.1479 -0.2491 SuperEnhancer_Hnisz.bed -0.3185 1.0000 0.9894 0.1764 0.2195 0.0976 -9.1954e-03 0.1406 0.1791 0.0343 0.0440 0.0355 0.0562 0.0916 0.1752 SuperEnhancer_Hnisz.extend.500.bed -0.3194 0.9894 1.0000 0.1761 0.2206 0.0977 -9.5269e-03 0.1396 0.1792 0.0350 0.0451 0.0358 0.0566 0.0915 0.1762 TFBS_ENCODE.bed -0.2546 0.1764 0.1761 1.0000 0.5325 -0.0075 -7.6003e-02 0.2773 0.2805 0.0243 0.0396 0.0610 0.1049 0.2003 0.2318 TFBS_ENCODE.extend.500.bed -0.2841 0.2195 0.2206 0.5325 1.0000 0.0186 -5.8246e-02 0.1715 0.2290 0.0245 0.0405 0.0410 0.0776 0.1508 0.2884 Transcribed_Hoffman.bed -0.4191 0.0976 0.0977 -0.0075 0.0186 1.0000 3.8963e-01 -0.0457 -0.0369 0.0617 0.0845 0.0090 0.0322 -0.0040 -0.0023 Transcribed_Hoffman.extend.500.bed -0.0943 -0.0092 -0.0095 -0.0760 -0.0582 0.3896 1.0000e+00 -0.1183 -0.1120 0.0171 0.0148 -0.0268 -0.0428 -0.0293 -0.0455 TSS_Hoffman.bed -0.2050 0.1406 0.1396 0.2773 0.1715 -0.0457 -1.1832e-01 1.0000 0.7094 0.0220 0.0442 0.1432 0.2452 0.0547 0.0782 TSS_Hoffman.extend.500.bed -0.2662 0.1791 0.1792 0.2805 0.2290 -0.0369 -1.1200e-01 0.7094 1.0000 0.0208 0.0419 0.1109 0.2104 0.0733 0.1357 UTR_3_UCSC.bed -0.0921 0.0343 0.0350 0.0243 0.0245 0.0617 1.7110e-02 0.0220 0.0208 1.0000 0.6370 0.0998 0.0567 0.0025 0.0041 UTR_3_UCSC.extend.500.bed -0.1363 0.0440 0.0451 0.0396 0.0405 0.0845 1.4816e-02 0.0442 0.0419 0.6370 1.0000 0.0820 0.1115 0.0039 0.0068 UTR_5_UCSC.bed -0.0701 0.0355 0.0358 0.0610 0.0410 0.0090 -2.6802e-02 0.1432 0.1109 0.0998 0.0820 1.0000 0.4531 0.0064 0.0084 UTR_5_UCSC.extend.500.bed -0.1477 0.0562 0.0566 0.1049 0.0776 0.0322 -4.2800e-02 0.2452 0.2104 0.0567 0.1115 0.4531 1.0000 0.0103 0.0188 WeakEnhancer_Hoffman.bed -0.1479 0.0916 0.0915 0.2003 0.1508 -0.0040 -2.9259e-02 0.0547 0.0733 0.0025 0.0039 0.0064 0.0103 1.0000 0.4670 WeakEnhancer_Hoffman.extend.500.bed -0.2491 0.1752 0.1762 0.2318 0.2884 -0.0023 -4.5527e-02 0.0782 0.1357 0.0041 0.0068 0.0084 0.0188 0.4670 1.0000 Annotation Matrix Column Sums base 839590.0 Coding_UCSC.bed 10899.0 Coding_UCSC.extend.500.bed 50084.0 Conserved_LindbladToh.bed 25003.0 Conserved_LindbladToh.extend.500.bed 282234.0 CTCF_Hoffman.bed 19828.0 CTCF_Hoffman.extend.500.bed 58981.0 DGF_ENCODE.bed 116632.0 DGF_ENCODE.extend.500.bed 453563.0 DHS_peaks_Trynka.bed 96974.0 DHS_Trynka.bed 145095.0 DHS_Trynka.extend.500.bed 425756.0 Enhancer_Andersson.bed 3711.0 Enhancer_Andersson.extend.500.bed 16015.0 Enhancer_Hoffman.bed 35279.0 Enhancer_Hoffman.extend.500.bed 74529.0 FetalDHS_Trynka.bed 73841.0 FetalDHS_Trynka.extend.500.bed 246630.0 H3K27ac_Hnisz.bed 327393.0 H3K27ac_Hnisz.extend.500.bed 354718.0 H3K27ac_PGC2.bed 230108.0 H3K27ac_PGC2.extend.500.bed 285959.0 H3K4me1_peaks_Trynka.bed 146878.0 H3K4me1_Trynka.bed 362814.0 H3K4me1_Trynka.extend.500.bed 518062.0 H3K4me3_peaks_Trynka.bed 33024.0 H3K4me3_Trynka.bed 103153.0 H3K4me3_Trynka.extend.500.bed 200368.0 H3K9ac_peaks_Trynka.bed 30418.0 H3K9ac_Trynka.bed 100222.0 H3K9ac_Trynka.extend.500.bed 183472.0 Intron_UCSC.bed 321879.0 Intron_UCSC.extend.500.bed 328737.0 PromoterFlanking_Hoffman.bed 6683.0 PromoterFlanking_Hoffman.extend.500.bed 25725.0 Promoter_UCSC.bed 31313.0 Promoter_UCSC.extend.500.bed 38645.0 Repressed_Hoffman.bed 393897.0 Repressed_Hoffman.extend.500.bed 611229.0 SuperEnhancer_Hnisz.bed 140398.0 SuperEnhancer_Hnisz.extend.500.bed 142898.0 TFBS_ENCODE.bed 109506.0 TFBS_ENCODE.extend.500.bed 290496.0 Transcribed_Hoffman.bed 308326.0 Transcribed_Hoffman.extend.500.bed 665510.0 TSS_Hoffman.bed 13455.0 TSS_Hoffman.extend.500.bed 26322.0 UTR_3_UCSC.bed 7727.0 UTR_3_UCSC.extend.500.bed 18790.0 UTR_5_UCSC.bed 4121.0 UTR_5_UCSC.extend.500.bed 19701.0 WeakEnhancer_Hoffman.bed 16740.0 WeakEnhancer_Hoffman.extend.500.bed 71649.0 Summary of Annotation Matrix Row Sums count 839590.0000 mean 11.2495 std 6.7030 min 1.0000 25% 6.0000 50% 9.0000 75% 15.0000 max 42.0000 Analysis finished at Tue Oct 17 18:27:52 2017 Total time elapsed: 1.0h:46.0m:36.48s