********************************************************************* * 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.10.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.10 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.10 \ --annot 1000G_Phase3_baseline_v1.1/baseline.10.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 510501 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.10.bim Read 53 annotations for 510501 SNPs from 1000G_Phase3_baseline_v1.1/baseline.10.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.10.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.10.bed Estimating LD Score. Reading list of 73929 SNPs for which to print LD Scores from hapmap3_snps/hm.10.snp After merging with --print-snps, LD Scores for 64236 SNPs will be printed. Writing LD Scores for 64236 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.10.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.10.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 0.2316 125.2852 1.5484 7.5469 3.1209 42.7087 2.7366 7.9780 15.1820 61.9184 12.8428 19.1676 57.9089 0.4583 2.0173 4.9029 10.1511 9.6458 32.7503 43.3926 47.3094 31.5383 39.0954 19.4142 48.7105 70.6587 5.5167 16.6934 31.0092 4.3162 13.9718 26.2796 53.8339 54.8401 1.0656 3.9337 4.9528 std 0.1438 148.6896 3.0166 14.5579 3.6721 40.4141 2.9828 8.0890 13.9170 54.5490 10.2618 14.8753 46.5074 0.8614 3.0465 7.0033 13.4908 7.5451 25.0612 44.7687 47.4661 41.1757 47.7248 18.4246 43.9398 62.6837 15.3487 41.2207 58.5125 6.1869 17.8620 32.2501 74.3535 75.4487 2.0506 6.2542 9.4289 min 0.0051 -1.6238 -0.1725 -0.5403 -0.1753 -0.9538 -0.1710 -0.4137 -0.5687 -1.6298 -0.3779 -0.6569 -1.2210 -0.0682 -0.2672 -0.3318 -0.4758 -0.3528 -1.0831 -1.9189 -1.9344 -0.9362 -1.1324 -0.4551 -1.3602 -1.2649 -0.7920 -2.0254 -0.7324 -0.2817 -0.7282 -1.2294 -2.1450 -2.2685 -0.1563 -0.3502 -0.3347 25% 0.1053 50.9371 0.0460 0.3238 0.9094 17.9513 0.8132 2.8386 6.4307 28.5278 6.0597 9.3005 28.2126 0.0199 0.2085 0.6954 1.8112 4.4870 15.9945 13.7314 16.3653 9.5549 12.8920 7.4931 20.9534 32.3303 1.2663 4.3140 10.3136 0.8438 3.1792 7.2888 4.6219 4.8617 0.0584 0.4320 0.3276 50% 0.2188 86.5903 0.3527 2.2596 2.0126 31.7516 1.8657 5.7665 11.2003 47.3732 10.1527 15.2584 45.8548 0.1148 0.8712 2.3068 5.2878 7.7057 26.3615 30.1708 33.8395 20.3390 26.3478 13.8986 36.1939 53.5822 2.7640 9.0321 19.3729 2.1966 7.9360 16.3858 29.8026 30.4892 0.2847 1.6483 1.7177 75% 0.3538 151.4745 1.7292 8.9395 3.9668 54.0589 3.6860 10.5729 19.2567 78.2609 16.5386 24.7029 73.9485 0.5052 2.5494 6.1771 13.2161 12.6087 41.9360 58.0584 62.1996 39.6171 49.1147 25.1468 62.8375 88.8020 5.8488 18.4058 35.8852 5.3417 18.0350 33.4235 73.2466 74.7670 1.1360 4.7721 5.8850 max 0.5000 2515.6402 34.0844 220.3887 38.7909 485.5004 34.2117 96.3591 131.9497 619.8113 97.7534 129.4503 517.3909 11.3414 31.8676 61.2300 113.3441 52.5104 235.3246 366.9418 405.2752 678.3654 720.8835 159.8631 450.3632 678.1204 343.6289 924.0707 1259.7744 66.6950 193.9055 350.7935 777.4046 798.8907 23.6391 73.5246 138.9794 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 6.1213 58.6962 90.2317 17.6077 17.9296 14.2029 38.0218 48.1312 102.8955 1.7063 3.2956 1.4026 3.3224 0.6653 3.2170 2.4138 10.4126 std 11.7065 74.7434 106.8212 26.6158 26.9719 13.3166 32.8529 60.8754 110.0246 3.2110 5.6104 3.2900 7.4122 1.8749 7.1931 2.9551 11.7300 min -0.3869 -1.6510 -2.3862 -1.6367 -1.6728 -0.5757 -0.8106 -1.4716 -1.5559 -0.1563 -0.2581 -0.2106 -0.3350 -0.1348 -0.2975 -0.2194 -0.8280 25% 0.4104 17.2061 30.1691 0.6579 0.6847 5.8028 17.1679 15.4386 40.3362 0.0639 0.1959 0.0354 0.1277 0.0108 0.1269 0.5022 2.9934 50% 2.1662 36.1689 58.8777 4.8985 5.1012 10.4018 29.2953 29.8874 70.4216 0.3967 1.0630 0.2513 0.7635 0.0930 0.8231 1.3998 6.6398 75% 7.3574 70.3111 109.5252 24.1187 24.6931 18.2068 48.9706 58.7337 127.6546 1.8370 3.8506 1.3380 3.3052 0.5454 3.2111 3.2518 13.5827 max 177.4874 923.1643 1366.1896 209.9063 210.8958 124.2968 330.3884 712.6966 1437.6875 34.1425 62.1245 41.6982 86.6323 36.8040 96.3879 26.1724 99.8011 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 0.0935 0.0263 0.0266 0.0952 0.1224 0.1401 0.1336 0.1426 0.1370 0.1695 0.1783 0.1631 0.1021 0.1159 0.1088 0.1127 0.1731 0.1852 0.1284 0.1298 0.1022 0.1087 0.1397 0.1393 0.1357 0.0312 0.0392 0.0543 0.0827 0.1034 0.1037 0.0784 0.0778 0.0355 0.0534 baseL2 0.0935 1.0000 0.5500 0.4624 0.4590 0.6490 0.6293 0.7366 0.7327 0.8541 0.7269 0.7281 0.8544 0.2317 0.3221 0.3278 0.3855 0.6132 0.7269 0.5262 0.5758 0.7781 0.7783 0.5169 0.6548 0.7701 0.8187 0.8330 0.8709 0.5414 0.5256 0.6379 0.5898 0.5964 0.5574 0.5793 Coding_UCSC.bedL2 0.0263 0.5500 1.0000 0.8444 0.4852 0.5674 0.5638 0.6377 0.6862 0.6674 0.6004 0.5672 0.5972 0.2779 0.3608 0.5099 0.5672 0.5416 0.5447 0.6162 0.6361 0.6537 0.6702 0.6207 0.6841 0.6858 0.5455 0.5603 0.6002 0.7297 0.7223 0.7535 0.5462 0.5601 0.6830 0.7093 Coding_UCSC.extend.500.bedL2 0.0266 0.4624 0.8444 1.0000 0.5377 0.6661 0.4969 0.5899 0.6667 0.6479 0.5791 0.5510 0.5782 0.2789 0.3716 0.5373 0.5979 0.5434 0.5299 0.6300 0.6463 0.5601 0.5930 0.6497 0.7196 0.7186 0.3545 0.3734 0.4309 0.7260 0.7442 0.7588 0.6750 0.6874 0.7227 0.7699 Conserved_LindbladToh.bedL2 0.0952 0.4590 0.4852 0.5377 1.0000 0.8567 0.3696 0.4315 0.6043 0.6298 0.6397 0.6556 0.6562 0.2249 0.3119 0.4425 0.4789 0.6367 0.6536 0.5413 0.5628 0.4333 0.4736 0.6024 0.6591 0.6788 0.2136 0.2339 0.3004 0.5007 0.5398 0.5556 0.6219 0.6243 0.4721 0.5095 Conserved_LindbladToh.extend.500.bedL2 0.1224 0.6490 0.5674 0.6661 0.8567 1.0000 0.5289 0.6165 0.7817 0.8284 0.8108 0.8317 0.8536 0.3279 0.4279 0.5657 0.6166 0.7813 0.8255 0.6984 0.7260 0.5923 0.6366 0.7594 0.8381 0.8745 0.3308 0.3570 0.4385 0.6352 0.6742 0.7071 0.7811 0.7838 0.6177 0.6681 CTCF_Hoffman.bedL2 0.1401 0.6293 0.5638 0.4969 0.3696 0.5289 1.0000 0.9290 0.7377 0.7378 0.7155 0.7011 0.7038 0.3380 0.4144 0.5093 0.5540 0.6409 0.6769 0.6292 0.6507 0.6704 0.6855 0.6438 0.6881 0.7007 0.5597 0.5786 0.6266 0.6133 0.6341 0.6796 0.4910 0.4981 0.5113 0.5790 CTCF_Hoffman.extend.500.bedL2 0.1336 0.7366 0.6377 0.5899 0.4315 0.6165 0.9290 1.0000 0.8165 0.8336 0.7877 0.7724 0.7982 0.3571 0.4549 0.5464 0.6000 0.7096 0.7527 0.6875 0.7156 0.7612 0.7762 0.7080 0.7686 0.7954 0.6442 0.6620 0.7136 0.6965 0.7017 0.7648 0.5705 0.5790 0.6033 0.6649 DGF_ENCODE.bedL2 0.1426 0.7327 0.6862 0.6667 0.6043 0.7817 0.7377 0.8165 1.0000 0.9594 0.9476 0.9381 0.9201 0.4861 0.6011 0.7493 0.8010 0.8820 0.8949 0.8870 0.9078 0.8621 0.8892 0.9093 0.9471 0.9414 0.6106 0.6369 0.7095 0.8338 0.8627 0.9023 0.6911 0.6981 0.7174 0.7876 DGF_ENCODE.extend.500.bedL2 0.1370 0.8541 0.6674 0.6479 0.6298 0.8284 0.7378 0.8336 0.9594 1.0000 0.9354 0.9396 0.9756 0.4110 0.5285 0.6432 0.7056 0.8554 0.9130 0.8312 0.8648 0.8578 0.8851 0.8453 0.9277 0.9673 0.6610 0.6869 0.7621 0.7592 0.7839 0.8538 0.7230 0.7296 0.7083 0.7674 DHS_peaks_Trynka.bedL2 0.1695 0.7269 0.6004 0.5791 0.6397 0.8108 0.7155 0.7877 0.9476 0.9354 1.0000 0.9847 0.9465 0.4657 0.5764 0.7016 0.7479 0.9514 0.9543 0.8559 0.8775 0.8124 0.8418 0.8967 0.9306 0.9310 0.5637 0.5899 0.6624 0.7721 0.8049 0.8465 0.6817 0.6865 0.6474 0.7190 DHS_Trynka.bedL2 0.1783 0.7281 0.5672 0.5510 0.6556 0.8317 0.7011 0.7724 0.9381 0.9396 0.9847 1.0000 0.9619 0.4521 0.5641 0.6866 0.7318 0.9454 0.9618 0.8448 0.8680 0.7844 0.8168 0.8866 0.9277 0.9332 0.5252 0.5532 0.6318 0.7342 0.7759 0.8167 0.6756 0.6795 0.6195 0.6911 DHS_Trynka.extend.500.bedL2 0.1631 0.8544 0.5972 0.5782 0.6562 0.8536 0.7038 0.7982 0.9201 0.9756 0.9465 0.9619 1.0000 0.3887 0.5009 0.5990 0.6567 0.8788 0.9511 0.7938 0.8286 0.8088 0.8374 0.8208 0.9053 0.9530 0.6137 0.6407 0.7162 0.6996 0.7288 0.7999 0.7115 0.7161 0.6466 0.7045 Enhancer_Andersson.bedL2 0.1021 0.2317 0.2779 0.2789 0.2249 0.3279 0.3380 0.3571 0.4861 0.4110 0.4657 0.4521 0.3887 1.0000 0.8586 0.5585 0.5580 0.4867 0.4473 0.5150 0.5070 0.4397 0.4459 0.4996 0.4677 0.4193 0.2511 0.2602 0.2904 0.4756 0.4912 0.4666 0.3382 0.3390 0.3013 0.3673 Enhancer_Andersson.extend.500.bedL2 0.1159 0.3221 0.3608 0.3716 0.3119 0.4279 0.4144 0.4549 0.6011 0.5285 0.5764 0.5641 0.5009 0.8586 1.0000 0.6672 0.6780 0.5912 0.5595 0.6378 0.6300 0.5625 0.5721 0.6195 0.5955 0.5399 0.3337 0.3489 0.3882 0.5986 0.6173 0.5965 0.4153 0.4177 0.3947 0.4728 Enhancer_Hoffman.bedL2 0.1088 0.3278 0.5099 0.5373 0.4425 0.5657 0.5093 0.5464 0.7493 0.6432 0.7016 0.6866 0.5990 0.5585 0.6672 1.0000 0.9726 0.7078 0.6572 0.8007 0.7891 0.6463 0.6693 0.8176 0.7625 0.6835 0.3199 0.3421 0.3958 0.7668 0.8003 0.7676 0.5040 0.5084 0.5941 0.6780 Enhancer_Hoffman.extend.500.bedL2 0.1127 0.3855 0.5672 0.5979 0.4789 0.6166 0.5540 0.6000 0.8010 0.7056 0.7479 0.7318 0.6567 0.5580 0.6780 0.9726 1.0000 0.7449 0.7049 0.8498 0.8425 0.7013 0.7280 0.8628 0.8220 0.7499 0.3639 0.3892 0.4488 0.8108 0.8447 0.8238 0.5565 0.5615 0.6619 0.7453 FetalDHS_Trynka.bedL2 0.1731 0.6132 0.5416 0.5434 0.6367 0.7813 0.6409 0.7096 0.8820 0.8554 0.9514 0.9454 0.8788 0.4867 0.5912 0.7078 0.7449 1.0000 0.9512 0.8362 0.8501 0.7338 0.7653 0.8875 0.8960 0.8753 0.4502 0.4760 0.5488 0.7495 0.7855 0.8046 0.6388 0.6426 0.5908 0.6691 FetalDHS_Trynka.extend.500.bedL2 0.1852 0.7269 0.5447 0.5299 0.6536 0.8255 0.6769 0.7527 0.8949 0.9130 0.9543 0.9618 0.9511 0.4473 0.5595 0.6572 0.7049 0.9512 1.0000 0.8269 0.8500 0.7797 0.8091 0.8653 0.9075 0.9175 0.5253 0.5531 0.6268 0.7151 0.7494 0.7978 0.6787 0.6820 0.5915 0.6620 H3K27ac_Hnisz.bedL2 0.1284 0.5262 0.6162 0.6300 0.5413 0.6984 0.6292 0.6875 0.8870 0.8312 0.8559 0.8448 0.7938 0.5150 0.6378 0.8007 0.8498 0.8362 0.8269 1.0000 0.9966 0.8178 0.8520 0.9286 0.9316 0.8753 0.4705 0.5003 0.5741 0.8252 0.8767 0.8913 0.6381 0.6432 0.6698 0.7458 H3K27ac_Hnisz.extend.500.bedL2 0.1298 0.5758 0.6361 0.6463 0.5628 0.7260 0.6507 0.7156 0.9078 0.8648 0.8775 0.8680 0.8286 0.5070 0.6300 0.7891 0.8425 0.8501 0.8500 0.9966 1.0000 0.8376 0.8721 0.9314 0.9479 0.9041 0.5038 0.5336 0.6088 0.8296 0.8788 0.9024 0.6585 0.6639 0.6875 0.7621 H3K27ac_PGC2.bedL2 0.1022 0.7781 0.6537 0.5601 0.4333 0.5923 0.6704 0.7612 0.8621 0.8578 0.8124 0.7844 0.8088 0.4397 0.5625 0.6463 0.7013 0.7338 0.7797 0.8178 0.8376 1.0000 0.9953 0.7702 0.8194 0.8244 0.8490 0.8661 0.8960 0.8097 0.8083 0.8800 0.5850 0.5935 0.6735 0.7148 H3K27ac_PGC2.extend.500.bedL2 0.1087 0.7783 0.6702 0.5930 0.4736 0.6366 0.6855 0.7762 0.8892 0.8851 0.8418 0.8168 0.8374 0.4459 0.5721 0.6693 0.7280 0.7653 0.8091 0.8520 0.8721 0.9953 1.0000 0.8055 0.8579 0.8615 0.8194 0.8386 0.8767 0.8232 0.8300 0.9008 0.6161 0.6245 0.6975 0.7446 H3K4me1_peaks_Trynka.bedL2 0.1397 0.5169 0.6207 0.6497 0.6024 0.7594 0.6438 0.7080 0.9093 0.8453 0.8967 0.8866 0.8208 0.4996 0.6195 0.8176 0.8628 0.8875 0.8653 0.9286 0.9314 0.7702 0.8055 1.0000 0.9591 0.8981 0.4169 0.4450 0.5233 0.8542 0.8881 0.8928 0.6840 0.6886 0.6956 0.7706 H3K4me1_Trynka.bedL2 0.1393 0.6548 0.6841 0.7196 0.6591 0.8381 0.6881 0.7686 0.9471 0.9277 0.9306 0.9277 0.9053 0.4677 0.5955 0.7625 0.8220 0.8960 0.9075 0.9316 0.9479 0.8194 0.8579 0.9591 1.0000 0.9762 0.5039 0.5347 0.6181 0.8415 0.8852 0.9188 0.7439 0.7497 0.7370 0.8092 H3K4me1_Trynka.extend.500.bedL2 0.1357 0.7701 0.6858 0.7186 0.6788 0.8745 0.7007 0.7954 0.9414 0.9673 0.9310 0.9332 0.9530 0.4193 0.5399 0.6835 0.7499 0.8753 0.9175 0.8753 0.9041 0.8244 0.8615 0.8981 0.9762 1.0000 0.5664 0.5953 0.6773 0.7918 0.8277 0.8859 0.7727 0.7787 0.7415 0.8044 H3K4me3_peaks_Trynka.bedL2 0.0312 0.8187 0.5455 0.3545 0.2136 0.3308 0.5597 0.6442 0.6106 0.6610 0.5637 0.5252 0.6137 0.2511 0.3337 0.3199 0.3639 0.4502 0.5253 0.4705 0.5038 0.8490 0.8194 0.4169 0.5039 0.5664 1.0000 0.9942 0.9807 0.5823 0.5326 0.6381 0.3727 0.3823 0.5071 0.5118 H3K4me3_Trynka.bedL2 0.0392 0.8330 0.5603 0.3734 0.2339 0.3570 0.5786 0.6620 0.6369 0.6869 0.5899 0.5532 0.6407 0.2602 0.3489 0.3421 0.3892 0.4760 0.5531 0.5003 0.5336 0.8661 0.8386 0.4450 0.5347 0.5953 0.9942 1.0000 0.9904 0.5963 0.5561 0.6599 0.3944 0.4040 0.5260 0.5337 H3K4me3_Trynka.extend.500.bedL2 0.0543 0.8709 0.6002 0.4309 0.3004 0.4385 0.6266 0.7136 0.7095 0.7621 0.6624 0.6318 0.7162 0.2904 0.3882 0.3958 0.4488 0.5488 0.6268 0.5741 0.6088 0.8960 0.8767 0.5233 0.6181 0.6773 0.9807 0.9904 1.0000 0.6428 0.6132 0.7163 0.4606 0.4700 0.5689 0.5866 H3K9ac_peaks_Trynka.bedL2 0.0827 0.5414 0.7297 0.7260 0.5007 0.6352 0.6133 0.6965 0.8338 0.7592 0.7721 0.7342 0.6996 0.4756 0.5986 0.7668 0.8108 0.7495 0.7151 0.8252 0.8296 0.8097 0.8232 0.8542 0.8415 0.7918 0.5823 0.5963 0.6428 1.0000 0.9620 0.9482 0.6031 0.6122 0.7142 0.7856 H3K9ac_Trynka.bedL2 0.1034 0.5256 0.7223 0.7442 0.5398 0.6742 0.6341 0.7017 0.8627 0.7839 0.8049 0.7759 0.7288 0.4912 0.6173 0.8003 0.8447 0.7855 0.7494 0.8767 0.8788 0.8083 0.8300 0.8881 0.8852 0.8277 0.5326 0.5561 0.6132 0.9620 1.0000 0.9742 0.6342 0.6428 0.7179 0.7945 H3K9ac_Trynka.extend.500.bedL2 0.1037 0.6379 0.7535 0.7588 0.5556 0.7071 0.6796 0.7648 0.9023 0.8538 0.8465 0.8167 0.7999 0.4666 0.5965 0.7676 0.8238 0.8046 0.7978 0.8913 0.9024 0.8800 0.9008 0.8928 0.9188 0.8859 0.6381 0.6599 0.7163 0.9482 0.9742 1.0000 0.6725 0.6818 0.7595 0.8305 Intron_UCSC.bedL2 0.0784 0.5898 0.5462 0.6750 0.6219 0.7811 0.4910 0.5705 0.6911 0.7230 0.6817 0.6756 0.7115 0.3382 0.4153 0.5040 0.5565 0.6388 0.6787 0.6381 0.6585 0.5850 0.6161 0.6840 0.7439 0.7727 0.3727 0.3944 0.4606 0.6031 0.6342 0.6725 1.0000 0.9997 0.5906 0.6282 Intron_UCSC.extend.500.bedL2 0.0778 0.5964 0.5601 0.6874 0.6243 0.7838 0.4981 0.5790 0.6981 0.7296 0.6865 0.6795 0.7161 0.3390 0.4177 0.5084 0.5615 0.6426 0.6820 0.6432 0.6639 0.5935 0.6245 0.6886 0.7497 0.7787 0.3823 0.4040 0.4700 0.6122 0.6428 0.6818 0.9997 1.0000 0.6000 0.6380 PromoterFlanking_Hoffman.bedL2 0.0355 0.5574 0.6830 0.7227 0.4721 0.6177 0.5113 0.6033 0.7174 0.7083 0.6474 0.6195 0.6466 0.3013 0.3947 0.5941 0.6619 0.5908 0.5915 0.6698 0.6875 0.6735 0.6975 0.6956 0.7370 0.7415 0.5071 0.5260 0.5689 0.7142 0.7179 0.7595 0.5906 0.6000 1.0000 0.9276 PromoterFlanking_Hoffman.extend.500.bedL2 0.0534 0.5793 0.7093 0.7699 0.5095 0.6681 0.5790 0.6649 0.7876 0.7674 0.7190 0.6911 0.7045 0.3673 0.4728 0.6780 0.7453 0.6691 0.6620 0.7458 0.7621 0.7148 0.7446 0.7706 0.8092 0.8044 0.5118 0.5337 0.5866 0.7856 0.7945 0.8305 0.6282 0.6380 0.9276 1.0000 Promoter_UCSC.bedL2 0.0298 0.5432 0.7673 0.8730 0.5016 0.6408 0.5524 0.6495 0.7229 0.7079 0.6413 0.6136 0.6404 0.3271 0.4384 0.5726 0.6422 0.5969 0.5897 0.6705 0.6882 0.6626 0.6889 0.6823 0.7448 0.7475 0.4875 0.5025 0.5526 0.7681 0.7782 0.8044 0.6170 0.6297 0.7472 0.8154 Promoter_UCSC.extend.500.bedL2 0.0286 0.5343 0.7651 0.8764 0.5020 0.6422 0.5447 0.6434 0.7214 0.7055 0.6394 0.6119 0.6375 0.3314 0.4422 0.5782 0.6482 0.5961 0.5876 0.6745 0.6916 0.6567 0.6840 0.6852 0.7466 0.7479 0.4761 0.4914 0.5428 0.7685 0.7791 0.8037 0.6190 0.6315 0.7512 0.8191 Repressed_Hoffman.bedL2 0.0928 0.8730 0.2373 0.1425 0.3092 0.4559 0.4246 0.5031 0.4268 0.5986 0.4702 0.4959 0.6433 0.0386 0.0853 -0.0079 0.0213 0.3707 0.5015 0.1819 0.2332 0.4459 0.4396 0.1804 0.3276 0.4784 0.5856 0.5965 0.6236 0.1662 0.1526 0.2548 0.3580 0.3606 0.2312 0.2351 Repressed_Hoffman.extend.500.bedL2 0.0990 0.9042 0.2809 0.1925 0.3513 0.5108 0.4729 0.5557 0.4921 0.6596 0.5334 0.5592 0.7014 0.0747 0.1296 0.0525 0.0882 0.4318 0.5616 0.2492 0.3013 0.4972 0.4950 0.2528 0.3991 0.5460 0.6104 0.6227 0.6567 0.2247 0.2144 0.3183 0.4140 0.4167 0.2836 0.2956 SuperEnhancer_Hnisz.bedL2 0.1073 0.2221 0.4357 0.4504 0.3072 0.3986 0.4183 0.4412 0.6168 0.5009 0.5752 0.5507 0.4593 0.4999 0.6012 0.7145 0.7240 0.5976 0.5364 0.7666 0.7375 0.6068 0.6151 0.7216 0.6497 0.5444 0.2846 0.3094 0.3509 0.6996 0.7305 0.6849 0.4094 0.4129 0.4656 0.5249 SuperEnhancer_Hnisz.extend.500.bedL2 0.1067 0.2298 0.4416 0.4570 0.3110 0.4035 0.4237 0.4477 0.6223 0.5076 0.5801 0.5553 0.4655 0.5001 0.6027 0.7160 0.7268 0.6011 0.5407 0.7707 0.7422 0.6129 0.6215 0.7248 0.6549 0.5511 0.2920 0.3167 0.3586 0.7043 0.7350 0.6908 0.4143 0.4178 0.4729 0.5314 TFBS_ENCODE.bedL2 0.1426 0.6398 0.6885 0.7028 0.6049 0.7846 0.7225 0.7852 0.9392 0.8988 0.9011 0.8940 0.8635 0.5217 0.6385 0.8278 0.8738 0.8609 0.8596 0.8902 0.9038 0.7982 0.8305 0.9175 0.9391 0.9177 0.5103 0.5363 0.6105 0.8463 0.8815 0.8995 0.6993 0.7060 0.7313 0.8075 TFBS_ENCODE.extend.500.bedL2 0.1455 0.7455 0.6829 0.6989 0.6381 0.8366 0.7409 0.8259 0.9496 0.9550 0.9244 0.9262 0.9321 0.4661 0.5866 0.7420 0.8023 0.8681 0.8995 0.8732 0.8968 0.8112 0.8451 0.8988 0.9514 0.9611 0.5494 0.5772 0.6587 0.8038 0.8377 0.8805 0.7344 0.7406 0.7283 0.7980 Transcribed_Hoffman.bedL2 0.0797 0.8269 0.7046 0.7375 0.6114 0.8087 0.6113 0.7306 0.8531 0.9048 0.8138 0.8080 0.8799 0.3437 0.4533 0.5890 0.6637 0.7372 0.7984 0.7449 0.7805 0.7922 0.8191 0.7673 0.8605 0.9135 0.6272 0.6495 0.7161 0.7536 0.7573 0.8312 0.7664 0.7732 0.7548 0.7956 Transcribed_Hoffman.extend.500.bedL2 0.1044 0.9741 0.5564 0.5231 0.5427 0.7450 0.6140 0.7267 0.7652 0.8850 0.7671 0.7790 0.8957 0.2512 0.3444 0.3804 0.4415 0.6690 0.7747 0.5704 0.6188 0.7323 0.7458 0.5828 0.7162 0.8262 0.6963 0.7166 0.7738 0.5600 0.5577 0.6549 0.6618 0.6672 0.5870 0.6174 TSS_Hoffman.bedL2 0.0489 0.4636 0.7053 0.7334 0.4563 0.5909 0.5072 0.5857 0.7373 0.6716 0.6575 0.6213 0.6019 0.4629 0.5442 0.7277 0.7773 0.6394 0.5993 0.7112 0.7192 0.6815 0.7018 0.7323 0.7442 0.7154 0.4669 0.4798 0.5172 0.8105 0.8082 0.8088 0.5583 0.5684 0.7838 0.8472 TSS_Hoffman.extend.500.bedL2 0.0679 0.4566 0.7037 0.7182 0.4636 0.5971 0.5389 0.6074 0.7623 0.6875 0.6850 0.6514 0.6222 0.4736 0.5622 0.7718 0.8207 0.6674 0.6311 0.7465 0.7514 0.6963 0.7177 0.7684 0.7698 0.7294 0.4589 0.4779 0.5193 0.8283 0.8328 0.8297 0.5586 0.5683 0.7872 0.8555 UTR_3_UCSC.bedL2 0.0153 0.6205 0.8604 0.7329 0.3946 0.4967 0.5435 0.6327 0.6423 0.6501 0.5588 0.5266 0.5873 0.2411 0.3233 0.3986 0.4572 0.4791 0.5116 0.5378 0.5638 0.6847 0.6871 0.5272 0.6090 0.6371 0.6513 0.6591 0.6854 0.6625 0.6381 0.6944 0.4887 0.5020 0.6069 0.6194 UTR_3_UCSC.extend.500.bedL2 0.0184 0.6232 0.8238 0.8191 0.4423 0.5693 0.5300 0.6361 0.6642 0.6776 0.5749 0.5447 0.6112 0.2494 0.3396 0.4249 0.4793 0.4987 0.5261 0.5517 0.5791 0.6562 0.6670 0.5571 0.6434 0.6765 0.5896 0.5988 0.6338 0.6718 0.6574 0.7080 0.5838 0.5973 0.6575 0.6742 UTR_5_UCSC.bedL2 -0.0007 0.6756 0.7030 0.6327 0.3396 0.4367 0.5219 0.6047 0.6067 0.6416 0.5385 0.5040 0.5786 0.2011 0.2889 0.3557 0.4245 0.4553 0.4870 0.5120 0.5408 0.6927 0.6921 0.4779 0.5750 0.6193 0.7454 0.7493 0.7685 0.6097 0.5928 0.6634 0.4616 0.4739 0.6074 0.6187 UTR_5_UCSC.extend.500.bedL2 0.0140 0.6131 0.7676 0.8298 0.4605 0.5849 0.5409 0.6341 0.6818 0.6929 0.6061 0.5754 0.6246 0.2803 0.3868 0.5155 0.5843 0.5472 0.5566 0.6252 0.6479 0.6918 0.7067 0.6078 0.6954 0.7179 0.6006 0.6137 0.6534 0.7247 0.7311 0.7764 0.5876 0.6006 0.7027 0.7537 WeakEnhancer_Hoffman.bedL2 0.1465 0.3200 0.4664 0.4668 0.4068 0.5432 0.5352 0.5594 0.7377 0.6358 0.7129 0.7017 0.6084 0.4843 0.5820 0.7625 0.7921 0.7044 0.6622 0.7557 0.7478 0.5975 0.6241 0.8154 0.7501 0.6697 0.2847 0.3052 0.3651 0.7278 0.7417 0.7203 0.4782 0.4815 0.5169 0.6098 WeakEnhancer_Hoffman.extend.500.bedL2 0.1445 0.3802 0.5152 0.5217 0.4621 0.6187 0.5842 0.6172 0.8031 0.7164 0.7721 0.7667 0.6869 0.5035 0.6142 0.8341 0.8768 0.7642 0.7394 0.8297 0.8253 0.6591 0.6919 0.8819 0.8286 0.7557 0.3120 0.3384 0.4074 0.7657 0.7928 0.7814 0.5426 0.5461 0.5861 0.6813 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 0.0298 0.0286 0.0928 0.0990 0.1073 0.1067 0.1426 0.1455 0.0797 0.1044 0.0489 0.0679 0.0153 0.0184 -0.0007 0.0140 0.1465 0.1445 baseL2 0.5432 0.5343 0.8730 0.9042 0.2221 0.2298 0.6398 0.7455 0.8269 0.9741 0.4636 0.4566 0.6205 0.6232 0.6756 0.6131 0.3200 0.3802 Coding_UCSC.bedL2 0.7673 0.7651 0.2373 0.2809 0.4357 0.4416 0.6885 0.6829 0.7046 0.5564 0.7053 0.7037 0.8604 0.8238 0.7030 0.7676 0.4664 0.5152 Coding_UCSC.extend.500.bedL2 0.8730 0.8764 0.1425 0.1925 0.4504 0.4570 0.7028 0.6989 0.7375 0.5231 0.7334 0.7182 0.7329 0.8191 0.6327 0.8298 0.4668 0.5217 Conserved_LindbladToh.bedL2 0.5016 0.5020 0.3092 0.3513 0.3072 0.3110 0.6049 0.6381 0.6114 0.5427 0.4563 0.4636 0.3946 0.4423 0.3396 0.4605 0.4068 0.4621 Conserved_LindbladToh.extend.500.bedL2 0.6408 0.6422 0.4559 0.5108 0.3986 0.4035 0.7846 0.8366 0.8087 0.7450 0.5909 0.5971 0.4967 0.5693 0.4367 0.5849 0.5432 0.6187 CTCF_Hoffman.bedL2 0.5524 0.5447 0.4246 0.4729 0.4183 0.4237 0.7225 0.7409 0.6113 0.6140 0.5072 0.5389 0.5435 0.5300 0.5219 0.5409 0.5352 0.5842 CTCF_Hoffman.extend.500.bedL2 0.6495 0.6434 0.5031 0.5557 0.4412 0.4477 0.7852 0.8259 0.7306 0.7267 0.5857 0.6074 0.6327 0.6361 0.6047 0.6341 0.5594 0.6172 DGF_ENCODE.bedL2 0.7229 0.7214 0.4268 0.4921 0.6168 0.6223 0.9392 0.9496 0.8531 0.7652 0.7373 0.7623 0.6423 0.6642 0.6067 0.6818 0.7377 0.8031 DGF_ENCODE.extend.500.bedL2 0.7079 0.7055 0.5986 0.6596 0.5009 0.5076 0.8988 0.9550 0.9048 0.8850 0.6716 0.6875 0.6501 0.6776 0.6416 0.6929 0.6358 0.7164 DHS_peaks_Trynka.bedL2 0.6413 0.6394 0.4702 0.5334 0.5752 0.5801 0.9011 0.9244 0.8138 0.7671 0.6575 0.6850 0.5588 0.5749 0.5385 0.6061 0.7129 0.7721 DHS_Trynka.bedL2 0.6136 0.6119 0.4959 0.5592 0.5507 0.5553 0.8940 0.9262 0.8080 0.7790 0.6213 0.6514 0.5266 0.5447 0.5040 0.5754 0.7017 0.7667 DHS_Trynka.extend.500.bedL2 0.6404 0.6375 0.6433 0.7014 0.4593 0.4655 0.8635 0.9321 0.8799 0.8957 0.6019 0.6222 0.5873 0.6112 0.5786 0.6246 0.6084 0.6869 Enhancer_Andersson.bedL2 0.3271 0.3314 0.0386 0.0747 0.4999 0.5001 0.5217 0.4661 0.3437 0.2512 0.4629 0.4736 0.2411 0.2494 0.2011 0.2803 0.4843 0.5035 Enhancer_Andersson.extend.500.bedL2 0.4384 0.4422 0.0853 0.1296 0.6012 0.6027 0.6385 0.5866 0.4533 0.3444 0.5442 0.5622 0.3233 0.3396 0.2889 0.3868 0.5820 0.6142 Enhancer_Hoffman.bedL2 0.5726 0.5782 -0.0079 0.0525 0.7145 0.7160 0.8278 0.7420 0.5890 0.3804 0.7277 0.7718 0.3986 0.4249 0.3557 0.5155 0.7625 0.8341 Enhancer_Hoffman.extend.500.bedL2 0.6422 0.6482 0.0213 0.0882 0.7240 0.7268 0.8738 0.8023 0.6637 0.4415 0.7773 0.8207 0.4572 0.4793 0.4245 0.5843 0.7921 0.8768 FetalDHS_Trynka.bedL2 0.5969 0.5961 0.3707 0.4318 0.5976 0.6011 0.8609 0.8681 0.7372 0.6690 0.6394 0.6674 0.4791 0.4987 0.4553 0.5472 0.7044 0.7642 FetalDHS_Trynka.extend.500.bedL2 0.5897 0.5876 0.5015 0.5616 0.5364 0.5407 0.8596 0.8995 0.7984 0.7747 0.5993 0.6311 0.5116 0.5261 0.4870 0.5566 0.6622 0.7394 H3K27ac_Hnisz.bedL2 0.6705 0.6745 0.1819 0.2492 0.7666 0.7707 0.8902 0.8732 0.7449 0.5704 0.7112 0.7465 0.5378 0.5517 0.5120 0.6252 0.7557 0.8297 H3K27ac_Hnisz.extend.500.bedL2 0.6882 0.6916 0.2332 0.3013 0.7375 0.7422 0.9038 0.8968 0.7805 0.6188 0.7192 0.7514 0.5638 0.5791 0.5408 0.6479 0.7478 0.8253 H3K27ac_PGC2.bedL2 0.6626 0.6567 0.4459 0.4972 0.6068 0.6129 0.7982 0.8112 0.7922 0.7323 0.6815 0.6963 0.6847 0.6562 0.6927 0.6918 0.5975 0.6591 H3K27ac_PGC2.extend.500.bedL2 0.6889 0.6840 0.4396 0.4950 0.6151 0.6215 0.8305 0.8451 0.8191 0.7458 0.7018 0.7177 0.6871 0.6670 0.6921 0.7067 0.6241 0.6919 H3K4me1_peaks_Trynka.bedL2 0.6823 0.6852 0.1804 0.2528 0.7216 0.7248 0.9175 0.8988 0.7673 0.5828 0.7323 0.7684 0.5272 0.5571 0.4779 0.6078 0.8154 0.8819 H3K4me1_Trynka.bedL2 0.7448 0.7466 0.3276 0.3991 0.6497 0.6549 0.9391 0.9514 0.8605 0.7162 0.7442 0.7698 0.6090 0.6434 0.5750 0.6954 0.7501 0.8286 H3K4me1_Trynka.extend.500.bedL2 0.7475 0.7479 0.4784 0.5460 0.5444 0.5511 0.9177 0.9611 0.9135 0.8262 0.7154 0.7294 0.6371 0.6765 0.6193 0.7179 0.6697 0.7557 H3K4me3_peaks_Trynka.bedL2 0.4875 0.4761 0.5856 0.6104 0.2846 0.2920 0.5103 0.5494 0.6272 0.6963 0.4669 0.4589 0.6513 0.5896 0.7454 0.6006 0.2847 0.3120 H3K4me3_Trynka.bedL2 0.5025 0.4914 0.5965 0.6227 0.3094 0.3167 0.5363 0.5772 0.6495 0.7166 0.4798 0.4779 0.6591 0.5988 0.7493 0.6137 0.3052 0.3384 H3K4me3_Trynka.extend.500.bedL2 0.5526 0.5428 0.6236 0.6567 0.3509 0.3586 0.6105 0.6587 0.7161 0.7738 0.5172 0.5193 0.6854 0.6338 0.7685 0.6534 0.3651 0.4074 H3K9ac_peaks_Trynka.bedL2 0.7681 0.7685 0.1662 0.2247 0.6996 0.7043 0.8463 0.8038 0.7536 0.5600 0.8105 0.8283 0.6625 0.6718 0.6097 0.7247 0.7278 0.7657 H3K9ac_Trynka.bedL2 0.7782 0.7791 0.1526 0.2144 0.7305 0.7350 0.8815 0.8377 0.7573 0.5577 0.8082 0.8328 0.6381 0.6574 0.5928 0.7311 0.7417 0.7928 H3K9ac_Trynka.extend.500.bedL2 0.8044 0.8037 0.2548 0.3183 0.6849 0.6908 0.8995 0.8805 0.8312 0.6549 0.8088 0.8297 0.6944 0.7080 0.6634 0.7764 0.7203 0.7814 Intron_UCSC.bedL2 0.6170 0.6190 0.3580 0.4140 0.4094 0.4143 0.6993 0.7344 0.7664 0.6618 0.5583 0.5586 0.4887 0.5838 0.4616 0.5876 0.4782 0.5426 Intron_UCSC.extend.500.bedL2 0.6297 0.6315 0.3606 0.4167 0.4129 0.4178 0.7060 0.7406 0.7732 0.6672 0.5684 0.5683 0.5020 0.5973 0.4739 0.6006 0.4815 0.5461 PromoterFlanking_Hoffman.bedL2 0.7472 0.7512 0.2312 0.2836 0.4656 0.4729 0.7313 0.7283 0.7548 0.5870 0.7838 0.7872 0.6069 0.6575 0.6074 0.7027 0.5169 0.5861 PromoterFlanking_Hoffman.extend.500.bedL2 0.8154 0.8191 0.2351 0.2956 0.5249 0.5314 0.8075 0.7980 0.7956 0.6174 0.8472 0.8555 0.6194 0.6742 0.6187 0.7537 0.6098 0.6813 Promoter_UCSC.bedL2 1.0000 0.9970 0.2152 0.2691 0.4739 0.4808 0.7485 0.7432 0.7525 0.5750 0.7766 0.7623 0.7373 0.7896 0.7011 0.8856 0.5260 0.5793 Promoter_UCSC.extend.500.bedL2 0.9970 1.0000 0.2031 0.2578 0.4788 0.4857 0.7490 0.7439 0.7532 0.5696 0.7777 0.7637 0.7349 0.7887 0.6971 0.8840 0.5279 0.5831 Repressed_Hoffman.bedL2 0.2152 0.2031 1.0000 0.9932 -0.0569 -0.0518 0.3151 0.4553 0.5115 0.8450 0.1048 0.0946 0.3414 0.3432 0.3998 0.2911 0.0270 0.0556 Repressed_Hoffman.extend.500.bedL2 0.2691 0.2578 0.9932 1.0000 -0.0155 -0.0099 0.3839 0.5237 0.5774 0.8857 0.1588 0.1503 0.3764 0.3840 0.4370 0.3396 0.0930 0.1289 SuperEnhancer_Hnisz.bedL2 0.4739 0.4788 -0.0569 -0.0155 1.0000 0.9998 0.6533 0.5848 0.4318 0.2508 0.5724 0.6057 0.3556 0.3456 0.3238 0.4240 0.6613 0.6806 SuperEnhancer_Hnisz.extend.500.bedL2 0.4808 0.4857 -0.0518 -0.0099 0.9998 1.0000 0.6583 0.5910 0.4391 0.2581 0.5776 0.6098 0.3621 0.3525 0.3324 0.4317 0.6621 0.6822 TFBS_ENCODE.bedL2 0.7485 0.7490 0.3151 0.3839 0.6533 0.6583 1.0000 0.9669 0.8269 0.6931 0.8001 0.8251 0.6015 0.6359 0.5699 0.6923 0.7814 0.8546 TFBS_ENCODE.extend.500.bedL2 0.7432 0.7439 0.4553 0.5237 0.5848 0.5910 0.9669 1.0000 0.8858 0.8015 0.7341 0.7551 0.6227 0.6599 0.6013 0.7016 0.7204 0.8051 Transcribed_Hoffman.bedL2 0.7525 0.7532 0.5115 0.5774 0.4318 0.4391 0.8269 0.8858 1.0000 0.8864 0.7096 0.7045 0.6780 0.7254 0.6745 0.7516 0.5390 0.6278 Transcribed_Hoffman.extend.500.bedL2 0.5750 0.5696 0.8450 0.8857 0.2508 0.2581 0.6931 0.8015 0.8864 1.0000 0.4988 0.4934 0.5915 0.6214 0.6227 0.6139 0.3719 0.4424 TSS_Hoffman.bedL2 0.7766 0.7777 0.1048 0.1588 0.5724 0.5776 0.8001 0.7341 0.7096 0.4988 1.0000 0.9673 0.6034 0.6401 0.5727 0.7140 0.6187 0.6789 TSS_Hoffman.extend.500.bedL2 0.7623 0.7637 0.0946 0.1503 0.6057 0.6098 0.8251 0.7551 0.7045 0.4934 0.9673 1.0000 0.5923 0.6285 0.5448 0.6908 0.6626 0.7261 UTR_3_UCSC.bedL2 0.7373 0.7349 0.3414 0.3764 0.3556 0.3621 0.6015 0.6227 0.6780 0.5915 0.6034 0.5923 1.0000 0.9104 0.7447 0.7489 0.3651 0.4069 UTR_3_UCSC.extend.500.bedL2 0.7896 0.7887 0.3432 0.3840 0.3456 0.3525 0.6359 0.6599 0.7254 0.6214 0.6401 0.6285 0.9104 1.0000 0.7112 0.7779 0.3799 0.4220 UTR_5_UCSC.bedL2 0.7011 0.6971 0.3998 0.4370 0.3238 0.3324 0.5699 0.6013 0.6745 0.6227 0.5727 0.5448 0.7447 0.7112 1.0000 0.8587 0.3013 0.3512 UTR_5_UCSC.extend.500.bedL2 0.8856 0.8840 0.2911 0.3396 0.4240 0.4317 0.6923 0.7016 0.7516 0.6139 0.7140 0.6908 0.7489 0.7779 0.8587 1.0000 0.4385 0.4958 WeakEnhancer_Hoffman.bedL2 0.5260 0.5279 0.0270 0.0930 0.6613 0.6621 0.7814 0.7204 0.5390 0.3719 0.6187 0.6626 0.3651 0.3799 0.3013 0.4385 1.0000 0.9255 WeakEnhancer_Hoffman.extend.500.bedL2 0.5793 0.5831 0.0556 0.1289 0.6806 0.6822 0.8546 0.8051 0.6278 0.4424 0.6789 0.7261 0.4069 0.4220 0.3512 0.4958 0.9255 1.0000 LD Score Matrix Condition Number 1171.8058 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 0.4560 2.3939e-01 0.1211 0.0083 0.0135 0.0507 0.0482 0.0401 0.0422 0.0347 -0.0069 -0.0144 0.0332 0.0361 0.0401 0.0302 0.0531 0.0522 0.0501 0.0507 0.0398 0.0659 0.0580 0.0538 0.0631 0.0511 0.0545 0.0788 0.0744 -7.0133e-02 0.0356 0.0028 0.0178 0.1099 0.1079 -0.0746 Coding_UCSC.extend.500.bed NaN 0.4560 1.0000 1.2998e-01 0.2964 0.0199 0.0270 0.0657 0.0796 0.0566 0.0600 0.0631 -0.0151 -0.0211 0.0473 0.0578 0.0616 0.0526 0.0949 0.0940 0.0928 0.0966 0.0616 0.1216 0.1193 0.0808 0.0966 0.0806 0.0957 0.1404 0.1475 1.6030e-01 0.2190 0.0171 0.0478 0.2331 0.2259 -0.1539 Conserved_LindbladToh.bed NaN 0.2394 0.1300 1.0000e+00 0.2267 0.0098 0.0101 0.0932 0.0687 0.1381 0.1415 0.0907 0.0224 0.0149 0.0461 0.0442 0.1505 0.1061 0.0512 0.0498 0.0589 0.0539 0.0698 0.0938 0.0757 0.0567 0.0780 0.0636 0.0507 0.0828 0.0717 7.5494e-05 0.0409 0.0136 0.0224 0.0485 0.0477 -0.0329 Conserved_LindbladToh.extend.500.bed NaN 0.1211 0.2964 2.2673e-01 1.0000 0.0432 0.0444 0.1197 0.1938 0.1730 0.2072 0.2584 0.0290 0.0477 0.1052 0.1171 0.1940 0.2654 0.1716 0.1725 0.1716 0.1680 0.1790 0.2549 0.2437 0.0945 0.1373 0.1359 0.1192 0.1887 0.1924 1.4508e-01 0.1629 0.0375 0.0657 0.0957 0.0984 -0.1046 CTCF_Hoffman.bed NaN 0.0083 0.0199 9.7888e-03 0.0432 1.0000 0.5713 0.1169 0.1157 0.1272 0.1326 0.1083 0.0104 0.0108 0.0411 0.0641 0.1245 0.1162 0.0511 0.0523 0.0481 0.0496 0.0818 0.0827 0.0702 0.0412 0.0561 0.0647 0.0642 0.0904 0.0956 3.1994e-03 0.0050 -0.0056 0.0209 0.0096 0.0113 -0.1488 CTCF_Hoffman.extend.500.bed NaN 0.0135 0.0270 1.0143e-02 0.0444 0.5713 1.0000 0.0915 0.1602 0.0990 0.1073 0.1487 0.0137 0.0218 0.0589 0.0855 0.0972 0.1464 0.0774 0.0818 0.0737 0.0770 0.0883 0.1077 0.1087 0.0443 0.0628 0.0864 0.0714 0.1097 0.1364 3.8957e-03 0.0063 0.0065 0.0322 0.0230 0.0256 -0.1257 DGF_ENCODE.bed NaN 0.0507 0.0657 9.3165e-02 0.1197 0.1169 0.0915 1.0000 0.3668 0.5203 0.5003 0.2639 0.0986 0.0938 0.2043 0.2017 0.3595 0.2298 0.2060 0.1980 0.2322 0.2148 0.2893 0.2885 0.2181 0.1871 0.2429 0.2118 0.1707 0.2523 0.2328 5.2393e-02 0.0636 0.0627 0.1036 0.0952 0.0954 -0.1790 DGF_ENCODE.extend.500.bed NaN 0.0482 0.0796 6.8692e-02 0.1938 0.1157 0.1602 0.3668 1.0000 0.2657 0.3298 0.5569 0.0536 0.1038 0.1910 0.2521 0.2240 0.3776 0.3451 0.3478 0.3473 0.3473 0.3196 0.4691 0.4523 0.1415 0.2398 0.2967 0.1597 0.2855 0.3370 9.8593e-02 0.1066 0.0719 0.1328 0.0960 0.1007 -0.2413 DHS_peaks_Trynka.bed NaN 0.0401 0.0566 1.3812e-01 0.1730 0.1272 0.0990 0.5203 0.2657 1.0000 0.7783 0.3567 0.1085 0.1032 0.2227 0.2072 0.6585 0.3743 0.1951 0.1872 0.2289 0.2050 0.3061 0.2982 0.2206 0.2243 0.2691 0.2261 0.2089 0.2767 0.2406 4.2768e-02 0.0537 0.0472 0.0936 0.0889 0.0819 -0.1518 DHS_Trynka.bed NaN 0.0422 0.0600 1.4146e-01 0.2072 0.1326 0.1073 0.5003 0.3298 0.7783 1.0000 0.4488 0.1071 0.1195 0.2526 0.2362 0.6893 0.4368 0.2308 0.2225 0.2699 0.2429 0.3528 0.3610 0.2697 0.2398 0.3001 0.2598 0.2270 0.3118 0.2749 4.7695e-02 0.0590 0.0477 0.0975 0.0920 0.0847 -0.1745 DHS_Trynka.extend.500.bed NaN 0.0347 0.0631 9.0681e-02 0.2584 0.1083 0.1487 0.2639 0.5569 0.3567 0.4488 1.0000 0.0564 0.1088 0.1971 0.2548 0.3093 0.6407 0.3165 0.3222 0.3371 0.3273 0.3250 0.4848 0.4736 0.1444 0.2356 0.2929 0.1613 0.2853 0.3348 8.2224e-02 0.0885 0.0501 0.1078 0.0816 0.0783 -0.1998 Enhancer_Andersson.bed NaN -0.0069 -0.0151 2.2351e-02 0.0290 0.0104 0.0137 0.0986 0.0536 0.1085 0.1071 0.0564 1.0000 0.4829 0.1171 0.1036 0.1222 0.0772 0.0689 0.0647 0.0866 0.0754 0.0754 0.0651 0.0471 0.0847 0.1072 0.0839 0.0697 0.0991 0.0809 1.5917e-02 0.0146 0.0167 0.0406 0.0175 0.0225 -0.0440 Enhancer_Andersson.extend.500.bed NaN -0.0144 -0.0211 1.4934e-02 0.0477 0.0108 0.0218 0.0938 0.1038 0.1032 0.1195 0.1088 0.4829 1.0000 0.1942 0.1920 0.1225 0.1456 0.1304 0.1235 0.1646 0.1461 0.1299 0.1256 0.0942 0.1254 0.1723 0.1518 0.1198 0.1657 0.1484 2.6423e-02 0.0244 0.0293 0.0680 0.0295 0.0337 -0.0814 Enhancer_Hoffman.bed NaN 0.0332 0.0473 4.6094e-02 0.1052 0.0411 0.0589 0.2043 0.1910 0.2227 0.2526 0.1971 0.1171 0.1942 1.0000 0.6793 0.2246 0.2326 0.2349 0.2221 0.3199 0.2797 0.2747 0.2305 0.1648 0.2500 0.3120 0.2710 0.2439 0.3290 0.2760 4.1410e-02 0.0483 0.0510 0.1429 0.1137 0.1098 -0.2041 Enhancer_Hoffman.extend.500.bed NaN 0.0361 0.0578 4.4239e-02 0.1171 0.0641 0.0855 0.2017 0.2521 0.2072 0.2362 0.2548 0.1036 0.1920 0.6793 1.0000 0.2109 0.2773 0.3159 0.3103 0.4296 0.3947 0.2828 0.3026 0.2379 0.2265 0.3401 0.3533 0.2306 0.3689 0.3698 5.9393e-02 0.0681 0.0985 0.2321 0.1512 0.1495 -0.2795 FetalDHS_Trynka.bed NaN 0.0401 0.0616 1.5054e-01 0.1940 0.1245 0.0972 0.3595 0.2240 0.6585 0.6893 0.3093 0.1222 0.1225 0.2246 0.2109 1.0000 0.4828 0.1949 0.1870 0.2316 0.2059 0.2973 0.2825 0.2073 0.2566 0.2964 0.2448 0.2375 0.2985 0.2532 3.8516e-02 0.0506 0.0451 0.1022 0.1073 0.0992 -0.1342 FetalDHS_Trynka.extend.500.bed NaN 0.0302 0.0526 1.0608e-01 0.2654 0.1162 0.1464 0.2298 0.3776 0.3743 0.4368 0.6407 0.0772 0.1456 0.2326 0.2773 0.4828 1.0000 0.3043 0.3045 0.3401 0.3181 0.3378 0.4383 0.3829 0.1923 0.2897 0.3268 0.2040 0.3323 0.3559 7.3595e-02 0.0806 0.0555 0.1230 0.1028 0.0967 -0.1762 H3K27ac_Hnisz.bed NaN 0.0531 0.0949 5.1232e-02 0.1716 0.0511 0.0774 0.2060 0.3451 0.1951 0.2308 0.3165 0.0689 0.1304 0.2349 0.3159 0.1949 0.3043 1.0000 0.9355 0.5416 0.5746 0.3246 0.4769 0.4437 0.1551 0.2722 0.3380 0.1933 0.3590 0.4370 1.8930e-01 0.1959 0.0713 0.1326 0.1060 0.1158 -0.2772 H3K27ac_Hnisz.extend.500.bed NaN 0.0522 0.0940 4.9764e-02 0.1725 0.0523 0.0818 0.1980 0.3478 0.1872 0.2225 0.3222 0.0647 0.1235 0.2221 0.3103 0.1870 0.3045 0.9355 1.0000 0.5473 0.5916 0.3144 0.4795 0.4672 0.1462 0.2600 0.3359 0.1832 0.3442 0.4358 1.8421e-01 0.1905 0.0709 0.1338 0.1041 0.1144 -0.2760 H3K27ac_PGC2.bed NaN 0.0501 0.0928 5.8889e-02 0.1716 0.0481 0.0737 0.2322 0.3473 0.2289 0.2699 0.3371 0.0866 0.1646 0.3199 0.4296 0.2316 0.3401 0.5416 0.5473 1.0000 0.8548 0.3637 0.4877 0.4113 0.2360 0.4042 0.4662 0.2500 0.4559 0.5240 1.5398e-01 0.1626 0.1048 0.1909 0.1549 0.1601 -0.3047 H3K27ac_PGC2.extend.500.bed NaN 0.0507 0.0966 5.3882e-02 0.1680 0.0496 0.0770 0.2148 0.3473 0.2050 0.2429 0.3273 0.0754 0.1461 0.2797 0.3947 0.2059 0.3181 0.5746 0.5916 0.8548 1.0000 0.3436 0.4946 0.4466 0.2057 0.3603 0.4373 0.2222 0.4147 0.5064 1.6665e-01 0.1747 0.0984 0.1810 0.1528 0.1616 -0.3091 H3K4me1_peaks_Trynka.bed NaN 0.0398 0.0616 6.9796e-02 0.1790 0.0818 0.0883 0.2893 0.3196 0.3061 0.3528 0.3250 0.0754 0.1299 0.2747 0.2828 0.2973 0.3378 0.3246 0.3144 0.3637 0.3436 1.0000 0.5251 0.3654 0.2642 0.3606 0.3287 0.2952 0.4092 0.3762 1.3001e-01 0.1359 0.1207 0.1651 0.1114 0.1131 -0.2379 H3K4me1_Trynka.bed NaN 0.0659 0.1216 9.3810e-02 0.2549 0.0827 0.1077 0.2885 0.4691 0.2982 0.3610 0.4848 0.0651 0.1256 0.2305 0.3026 0.2825 0.4383 0.4769 0.4795 0.4877 0.4946 0.5251 1.0000 0.6894 0.1818 0.3142 0.3964 0.2131 0.3958 0.4798 1.9367e-01 0.2026 0.0929 0.1600 0.1232 0.1296 -0.3072 H3K4me1_Trynka.extend.500.bed NaN 0.0580 0.1193 7.5745e-02 0.2437 0.0702 0.1087 0.2181 0.4523 0.2206 0.2697 0.4736 0.0471 0.0942 0.1648 0.2379 0.2073 0.3829 0.4437 0.4672 0.4113 0.4466 0.3654 0.6894 1.0000 0.1217 0.2165 0.3076 0.1508 0.2848 0.3970 1.9702e-01 0.2049 0.0680 0.1298 0.1089 0.1164 -0.2742 H3K4me3_peaks_Trynka.bed NaN 0.0538 0.0808 5.6657e-02 0.0945 0.0412 0.0443 0.1871 0.1415 0.2243 0.2398 0.1444 0.0847 0.1254 0.2500 0.2265 0.2566 0.1923 0.1551 0.1462 0.2360 0.2057 0.2642 0.1818 0.1217 1.0000 0.5433 0.3681 0.3743 0.3526 0.2670 3.8827e-02 0.0506 0.0965 0.1590 0.1540 0.1501 -0.1434 H3K4me3_Trynka.bed NaN 0.0631 0.0966 7.7972e-02 0.1373 0.0561 0.0628 0.2429 0.2398 0.2691 0.3001 0.2356 0.1072 0.1723 0.3120 0.3401 0.2964 0.2897 0.2722 0.2600 0.4042 0.3603 0.3606 0.3142 0.2165 0.5433 1.0000 0.6704 0.3419 0.5303 0.4490 7.7522e-02 0.0914 0.1730 0.2663 0.2133 0.2185 -0.2290 H3K4me3_Trynka.extend.500.bed NaN 0.0511 0.0806 6.3647e-02 0.1359 0.0647 0.0864 0.2118 0.2967 0.2261 0.2598 0.2929 0.0839 0.1518 0.2710 0.3533 0.2448 0.3268 0.3380 0.3359 0.4662 0.4373 0.3287 0.3964 0.3076 0.3681 0.6704 1.0000 0.2621 0.4718 0.5289 9.0127e-02 0.1001 0.1314 0.2453 0.1776 0.1848 -0.2462 H3K9ac_peaks_Trynka.bed NaN 0.0545 0.0957 5.0708e-02 0.1192 0.0642 0.0714 0.1707 0.1597 0.2089 0.2270 0.1613 0.0697 0.1198 0.2439 0.2306 0.2375 0.2040 0.1933 0.1832 0.2500 0.2222 0.2952 0.2131 0.1508 0.3743 0.3419 0.2621 1.0000 0.5240 0.3652 7.7897e-02 0.0885 0.0834 0.1439 0.1458 0.1436 -0.1492 H3K9ac_Trynka.bed NaN 0.0788 0.1404 8.2814e-02 0.1887 0.0904 0.1097 0.2523 0.2855 0.2767 0.3118 0.2853 0.0991 0.1657 0.3290 0.3689 0.2985 0.3323 0.3590 0.3442 0.4559 0.4147 0.4092 0.3958 0.2848 0.3526 0.5303 0.4718 0.5240 1.0000 0.6897 1.3950e-01 0.1542 0.1484 0.2321 0.2186 0.2203 -0.2553 H3K9ac_Trynka.extend.500.bed NaN 0.0744 0.1475 7.1704e-02 0.1924 0.0956 0.1364 0.2328 0.3370 0.2406 0.2749 0.3348 0.0809 0.1484 0.2760 0.3698 0.2532 0.3559 0.4370 0.4358 0.5240 0.5064 0.3762 0.4798 0.3970 0.2670 0.4490 0.5289 0.3652 0.6897 1.0000 1.7205e-01 0.1847 0.1291 0.2313 0.1965 0.2025 -0.2993 Intron_UCSC.bed NaN -0.0701 0.1603 7.5494e-05 0.1451 0.0032 0.0039 0.0524 0.0986 0.0428 0.0477 0.0822 0.0159 0.0264 0.0414 0.0594 0.0385 0.0736 0.1893 0.1842 0.1540 0.1666 0.1300 0.1937 0.1970 0.0388 0.0775 0.0901 0.0779 0.1395 0.1721 1.0000e+00 0.9822 0.0343 0.0378 0.0745 0.0857 -0.2320 Intron_UCSC.extend.500.bed NaN 0.0356 0.2190 4.0862e-02 0.1629 0.0050 0.0063 0.0636 0.1066 0.0537 0.0590 0.0885 0.0146 0.0244 0.0483 0.0681 0.0506 0.0806 0.1959 0.1905 0.1626 0.1747 0.1359 0.2026 0.2049 0.0506 0.0914 0.1001 0.0885 0.1542 0.1847 9.8217e-01 1.0000 0.0353 0.0446 0.1061 0.1151 -0.2418 PromoterFlanking_Hoffman.bed NaN 0.0028 0.0171 1.3650e-02 0.0375 -0.0056 0.0065 0.0627 0.0719 0.0472 0.0477 0.0501 0.0167 0.0293 0.0510 0.0985 0.0451 0.0555 0.0713 0.0709 0.1048 0.0984 0.1207 0.0929 0.0680 0.0965 0.1730 0.1314 0.0834 0.1484 0.1291 3.4294e-02 0.0353 1.0000 0.5037 0.1263 0.1380 -0.0859 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0178 0.0478 2.2406e-02 0.0657 0.0209 0.0322 0.1036 0.1328 0.0936 0.0975 0.1078 0.0406 0.0680 0.1429 0.2321 0.1022 0.1230 0.1326 0.1338 0.1909 0.1810 0.1651 0.1600 0.1298 0.1590 0.2663 0.2453 0.1439 0.2321 0.2313 3.7770e-02 0.0446 0.5037 1.0000 0.2121 0.2220 -0.1460 Promoter_UCSC.bed NaN 0.1099 0.2331 4.8469e-02 0.0957 0.0096 0.0230 0.0952 0.0960 0.0889 0.0920 0.0816 0.0175 0.0295 0.1137 0.1512 0.1073 0.1028 0.1060 0.1041 0.1549 0.1528 0.1114 0.1232 0.1089 0.1540 0.2133 0.1776 0.1458 0.2186 0.1965 7.4511e-02 0.1061 0.1263 0.2121 1.0000 0.8957 -0.1084 Promoter_UCSC.extend.500.bed NaN 0.1079 0.2259 4.7741e-02 0.0984 0.0113 0.0256 0.0954 0.1007 0.0819 0.0847 0.0783 0.0225 0.0337 0.1098 0.1495 0.0992 0.0967 0.1158 0.1144 0.1601 0.1616 0.1131 0.1296 0.1164 0.1501 0.2185 0.1848 0.1436 0.2203 0.2025 8.5685e-02 0.1151 0.1380 0.2220 0.8957 1.0000 -0.1156 Repressed_Hoffman.bed NaN -0.0746 -0.1539 -3.2945e-02 -0.1046 -0.1488 -0.1257 -0.1790 -0.2413 -0.1518 -0.1745 -0.1998 -0.0440 -0.0814 -0.2041 -0.2795 -0.1342 -0.1762 -0.2772 -0.2760 -0.3047 -0.3091 -0.2379 -0.3072 -0.2742 -0.1434 -0.2290 -0.2462 -0.1492 -0.2553 -0.2993 -2.3197e-01 -0.2418 -0.0859 -0.1460 -0.1084 -0.1156 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1179 -0.2479 -4.5669e-02 -0.1451 -0.0679 -0.0878 -0.1906 -0.2553 -0.1608 -0.1818 -0.2135 -0.0674 -0.1161 -0.3173 -0.3947 -0.1567 -0.2064 -0.3611 -0.3555 -0.4097 -0.4089 -0.2758 -0.3597 -0.3234 -0.1965 -0.3099 -0.3203 -0.2122 -0.3552 -0.4049 -3.3041e-01 -0.3453 -0.1117 -0.1846 -0.1689 -0.1789 0.5807 SuperEnhancer_Hnisz.bed NaN 0.0431 0.0803 3.3559e-02 0.1198 0.0262 0.0477 0.1565 0.2292 0.1267 0.1448 0.1967 0.0814 0.1503 0.2234 0.2789 0.1289 0.1985 0.5645 0.5281 0.4284 0.4323 0.2570 0.3323 0.2879 0.1430 0.2467 0.2760 0.1845 0.3224 0.3581 1.9755e-01 0.2023 0.0471 0.0879 0.0968 0.1071 -0.2323 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0437 0.0816 3.3410e-02 0.1194 0.0277 0.0497 0.1558 0.2298 0.1256 0.1434 0.1971 0.0806 0.1492 0.2225 0.2801 0.1275 0.1984 0.5635 0.5335 0.4310 0.4367 0.2560 0.3334 0.2904 0.1423 0.2465 0.2772 0.1840 0.3224 0.3600 1.9627e-01 0.2010 0.0486 0.0900 0.0980 0.1085 -0.2337 TFBS_ENCODE.bed NaN 0.0592 0.0867 8.1304e-02 0.1340 0.2471 0.1817 0.3684 0.2826 0.3694 0.4198 0.2724 0.1127 0.1348 0.3300 0.3257 0.3365 0.2756 0.2224 0.2156 0.2709 0.2444 0.2770 0.2714 0.2058 0.2382 0.3063 0.2686 0.2165 0.3007 0.2684 4.4857e-02 0.0586 0.0688 0.1456 0.1429 0.1392 -0.2227 TFBS_ENCODE.extend.500.bed NaN 0.0497 0.0722 6.0042e-02 0.1568 0.1859 0.2794 0.2444 0.4230 0.2447 0.2961 0.4180 0.0695 0.1307 0.2759 0.3558 0.2267 0.3540 0.3056 0.3069 0.3473 0.3309 0.2885 0.3704 0.3295 0.1734 0.2756 0.3192 0.1840 0.3089 0.3353 6.8665e-02 0.0777 0.0824 0.1639 0.1210 0.1229 -0.2551 Transcribed_Hoffman.bed NaN 0.0577 0.1292 3.9147e-03 0.0450 -0.0417 -0.0218 0.0167 0.0522 -0.0157 -0.0165 0.0137 -0.0126 -0.0139 -0.0156 -0.0035 -0.0281 -0.0116 0.1122 0.1109 0.0761 0.0960 0.0619 0.1130 0.1178 -0.0156 0.0003 0.0249 0.0151 0.0424 0.0824 2.7367e-01 0.2757 -0.0012 -0.0115 -0.0027 0.0055 -0.7111 Transcribed_Hoffman.extend.500.bed NaN -0.0043 0.0014 -1.9335e-02 -0.0111 -0.0384 -0.0433 -0.0434 -0.0194 -0.0645 -0.0675 -0.0413 -0.0273 -0.0378 -0.0843 -0.0866 -0.0770 -0.0695 -0.0062 -0.0045 -0.0511 -0.0336 -0.0382 -0.0150 0.0090 -0.0989 -0.1155 -0.0825 -0.0674 -0.0808 -0.0619 1.2436e-01 0.1173 -0.0218 -0.0550 -0.0838 -0.0771 -0.1536 TSS_Hoffman.bed NaN 0.0806 0.1466 5.8758e-02 0.0914 0.0210 0.0320 0.1769 0.1131 0.1923 0.1933 0.1145 0.1040 0.1209 0.1710 0.2348 0.2264 0.1617 0.1304 0.1228 0.1948 0.1675 0.1549 0.1287 0.0951 0.2862 0.2875 0.2038 0.2632 0.2784 0.2061 3.4391e-02 0.0622 0.0966 0.2380 0.3169 0.2994 -0.1164 TSS_Hoffman.extend.500.bed NaN 0.0666 0.1282 4.8564e-02 0.0953 0.0366 0.0535 0.1638 0.1520 0.1716 0.1781 0.1469 0.0938 0.1411 0.2632 0.3510 0.2025 0.1961 0.1770 0.1701 0.2571 0.2278 0.1930 0.1747 0.1317 0.2691 0.3478 0.2742 0.2540 0.3326 0.2739 4.2798e-02 0.0647 0.2019 0.3615 0.3371 0.3255 -0.1606 UTR_3_UCSC.bed NaN 0.5939 0.2986 7.7615e-02 0.0764 0.0081 0.0133 0.0275 0.0368 0.0177 0.0177 0.0231 -0.0058 -0.0136 0.0147 0.0179 0.0130 0.0174 0.0400 0.0410 0.0348 0.0368 0.0256 0.0473 0.0472 0.0188 0.0318 0.0293 0.0280 0.0478 0.0517 -3.7698e-02 -0.0001 0.0023 0.0068 0.0705 0.0764 -0.0622 UTR_3_UCSC.extend.500.bed NaN 0.4350 0.4415 7.4167e-02 0.1229 0.0121 0.0162 0.0360 0.0495 0.0249 0.0270 0.0342 -0.0093 -0.0173 0.0198 0.0277 0.0239 0.0262 0.0514 0.0531 0.0499 0.0537 0.0354 0.0665 0.0665 0.0305 0.0465 0.0409 0.0405 0.0693 0.0781 2.2195e-02 0.0580 0.0102 0.0204 0.1404 0.1407 -0.0864 UTR_5_UCSC.bed NaN 0.2996 0.1623 7.7790e-02 0.0476 0.0059 0.0078 0.0429 0.0349 0.0448 0.0479 0.0295 -0.0043 -0.0099 0.0352 0.0410 0.0546 0.0321 0.0341 0.0326 0.0408 0.0377 0.0274 0.0414 0.0363 0.0638 0.0693 0.0537 0.0526 0.0715 0.0571 -1.0727e-02 0.0449 0.0093 0.0320 0.1805 0.1675 -0.0413 UTR_5_UCSC.extend.500.bed NaN 0.1712 0.4396 6.8462e-02 0.1391 0.0096 0.0167 0.0692 0.0654 0.0786 0.0816 0.0604 -0.0100 -0.0103 0.0743 0.0899 0.0981 0.0697 0.0728 0.0699 0.0906 0.0867 0.0657 0.0888 0.0814 0.1266 0.1363 0.1076 0.1181 0.1473 0.1290 8.5484e-02 0.1323 0.0350 0.0902 0.3981 0.3685 -0.0927 WeakEnhancer_Hoffman.bed NaN 0.0051 0.0011 2.9419e-02 0.0598 0.0351 0.0538 0.1871 0.1343 0.1949 0.2133 0.1377 0.0751 0.0790 0.1151 0.1707 0.1605 0.1379 0.1218 0.1183 0.1542 0.1422 0.2072 0.1582 0.1128 0.1221 0.1669 0.1479 0.1308 0.1729 0.1552 2.9068e-02 0.0290 0.0273 0.0696 0.0202 0.0245 -0.1443 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0051 0.0042 2.9807e-02 0.0973 0.0745 0.1061 0.1729 0.2610 0.1805 0.2156 0.2641 0.0670 0.1289 0.2322 0.3350 0.1669 0.2491 0.2345 0.2333 0.2860 0.2773 0.2669 0.2904 0.2347 0.1357 0.2261 0.2661 0.1594 0.2632 0.2884 5.4789e-02 0.0550 0.0585 0.1372 0.0403 0.0480 -0.2419 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 -0.1179 0.0431 0.0437 0.0592 0.0497 0.0577 -0.0043 0.0806 0.0666 0.5939 0.4350 0.2996 0.1712 0.0051 0.0051 Coding_UCSC.extend.500.bed -0.2479 0.0803 0.0816 0.0867 0.0722 0.1292 0.0014 0.1466 0.1282 0.2986 0.4415 0.1623 0.4396 0.0011 0.0042 Conserved_LindbladToh.bed -0.0457 0.0336 0.0334 0.0813 0.0600 0.0039 -0.0193 0.0588 0.0486 0.0776 0.0742 0.0778 0.0685 0.0294 0.0298 Conserved_LindbladToh.extend.500.bed -0.1451 0.1198 0.1194 0.1340 0.1568 0.0450 -0.0111 0.0914 0.0953 0.0764 0.1229 0.0476 0.1391 0.0598 0.0973 CTCF_Hoffman.bed -0.0679 0.0262 0.0277 0.2471 0.1859 -0.0417 -0.0384 0.0210 0.0366 0.0081 0.0121 0.0059 0.0096 0.0351 0.0745 CTCF_Hoffman.extend.500.bed -0.0878 0.0477 0.0497 0.1817 0.2794 -0.0218 -0.0433 0.0320 0.0535 0.0133 0.0162 0.0078 0.0167 0.0538 0.1061 DGF_ENCODE.bed -0.1906 0.1565 0.1558 0.3684 0.2444 0.0167 -0.0434 0.1769 0.1638 0.0275 0.0360 0.0429 0.0692 0.1871 0.1729 DGF_ENCODE.extend.500.bed -0.2553 0.2292 0.2298 0.2826 0.4230 0.0522 -0.0194 0.1131 0.1520 0.0368 0.0495 0.0349 0.0654 0.1343 0.2610 DHS_peaks_Trynka.bed -0.1608 0.1267 0.1256 0.3694 0.2447 -0.0157 -0.0645 0.1923 0.1716 0.0177 0.0249 0.0448 0.0786 0.1949 0.1805 DHS_Trynka.bed -0.1818 0.1448 0.1434 0.4198 0.2961 -0.0165 -0.0675 0.1933 0.1781 0.0177 0.0270 0.0479 0.0816 0.2133 0.2156 DHS_Trynka.extend.500.bed -0.2135 0.1967 0.1971 0.2724 0.4180 0.0137 -0.0413 0.1145 0.1469 0.0231 0.0342 0.0295 0.0604 0.1377 0.2641 Enhancer_Andersson.bed -0.0674 0.0814 0.0806 0.1127 0.0695 -0.0126 -0.0273 0.1040 0.0938 -0.0058 -0.0093 -0.0043 -0.0100 0.0751 0.0670 Enhancer_Andersson.extend.500.bed -0.1161 0.1503 0.1492 0.1348 0.1307 -0.0139 -0.0378 0.1209 0.1411 -0.0136 -0.0173 -0.0099 -0.0103 0.0790 0.1289 Enhancer_Hoffman.bed -0.3173 0.2234 0.2225 0.3300 0.2759 -0.0156 -0.0843 0.1710 0.2632 0.0147 0.0198 0.0352 0.0743 0.1151 0.2322 Enhancer_Hoffman.extend.500.bed -0.3947 0.2789 0.2801 0.3257 0.3558 -0.0035 -0.0866 0.2348 0.3510 0.0179 0.0277 0.0410 0.0899 0.1707 0.3350 FetalDHS_Trynka.bed -0.1567 0.1289 0.1275 0.3365 0.2267 -0.0281 -0.0770 0.2264 0.2025 0.0130 0.0239 0.0546 0.0981 0.1605 0.1669 FetalDHS_Trynka.extend.500.bed -0.2064 0.1985 0.1984 0.2756 0.3540 -0.0116 -0.0695 0.1617 0.1961 0.0174 0.0262 0.0321 0.0697 0.1379 0.2491 H3K27ac_Hnisz.bed -0.3611 0.5645 0.5635 0.2224 0.3056 0.1122 -0.0062 0.1304 0.1770 0.0400 0.0514 0.0341 0.0728 0.1218 0.2345 H3K27ac_Hnisz.extend.500.bed -0.3555 0.5281 0.5335 0.2156 0.3069 0.1109 -0.0045 0.1228 0.1701 0.0410 0.0531 0.0326 0.0699 0.1183 0.2333 H3K27ac_PGC2.bed -0.4097 0.4284 0.4310 0.2709 0.3473 0.0761 -0.0511 0.1948 0.2571 0.0348 0.0499 0.0408 0.0906 0.1542 0.2860 H3K27ac_PGC2.extend.500.bed -0.4089 0.4323 0.4367 0.2444 0.3309 0.0960 -0.0336 0.1675 0.2278 0.0368 0.0537 0.0377 0.0867 0.1422 0.2773 H3K4me1_peaks_Trynka.bed -0.2758 0.2570 0.2560 0.2770 0.2885 0.0619 -0.0382 0.1549 0.1930 0.0256 0.0354 0.0274 0.0657 0.2072 0.2669 H3K4me1_Trynka.bed -0.3597 0.3323 0.3334 0.2714 0.3704 0.1130 -0.0150 0.1287 0.1747 0.0473 0.0665 0.0414 0.0888 0.1582 0.2904 H3K4me1_Trynka.extend.500.bed -0.3234 0.2879 0.2904 0.2058 0.3295 0.1178 0.0090 0.0951 0.1317 0.0472 0.0665 0.0363 0.0814 0.1128 0.2347 H3K4me3_peaks_Trynka.bed -0.1965 0.1430 0.1423 0.2382 0.1734 -0.0156 -0.0989 0.2862 0.2691 0.0188 0.0305 0.0638 0.1266 0.1221 0.1357 H3K4me3_Trynka.bed -0.3099 0.2467 0.2465 0.3063 0.2756 0.0003 -0.1155 0.2875 0.3478 0.0318 0.0465 0.0693 0.1363 0.1669 0.2261 H3K4me3_Trynka.extend.500.bed -0.3203 0.2760 0.2772 0.2686 0.3192 0.0249 -0.0825 0.2038 0.2742 0.0293 0.0409 0.0537 0.1076 0.1479 0.2661 H3K9ac_peaks_Trynka.bed -0.2122 0.1845 0.1840 0.2165 0.1840 0.0151 -0.0674 0.2632 0.2540 0.0280 0.0405 0.0526 0.1181 0.1308 0.1594 H3K9ac_Trynka.bed -0.3552 0.3224 0.3224 0.3007 0.3089 0.0424 -0.0808 0.2784 0.3326 0.0478 0.0693 0.0715 0.1473 0.1729 0.2632 H3K9ac_Trynka.extend.500.bed -0.4049 0.3581 0.3600 0.2684 0.3353 0.0824 -0.0619 0.2061 0.2739 0.0517 0.0781 0.0571 0.1290 0.1552 0.2884 Intron_UCSC.bed -0.3304 0.1975 0.1963 0.0449 0.0687 0.2737 0.1244 0.0344 0.0428 -0.0377 0.0222 -0.0107 0.0855 0.0291 0.0548 Intron_UCSC.extend.500.bed -0.3453 0.2023 0.2010 0.0586 0.0777 0.2757 0.1173 0.0622 0.0647 -0.0001 0.0580 0.0449 0.1323 0.0290 0.0550 PromoterFlanking_Hoffman.bed -0.1117 0.0471 0.0486 0.0688 0.0824 -0.0012 -0.0218 0.0966 0.2019 0.0023 0.0102 0.0093 0.0350 0.0273 0.0585 PromoterFlanking_Hoffman.extend.500.bed -0.1846 0.0879 0.0900 0.1456 0.1639 -0.0115 -0.0550 0.2380 0.3615 0.0068 0.0204 0.0320 0.0902 0.0696 0.1372 Promoter_UCSC.bed -0.1689 0.0968 0.0980 0.1429 0.1210 -0.0027 -0.0838 0.3169 0.3371 0.0705 0.1404 0.1805 0.3981 0.0202 0.0403 Promoter_UCSC.extend.500.bed -0.1789 0.1071 0.1085 0.1392 0.1229 0.0055 -0.0771 0.2994 0.3255 0.0764 0.1407 0.1675 0.3685 0.0245 0.0480 Repressed_Hoffman.bed 0.5807 -0.2323 -0.2337 -0.2227 -0.2551 -0.7111 -0.1536 -0.1164 -0.1606 -0.0622 -0.0864 -0.0413 -0.0927 -0.1443 -0.2419 Repressed_Hoffman.extend.500.bed 1.0000 -0.3442 -0.3455 -0.2512 -0.2811 -0.3661 -0.0275 -0.1965 -0.2547 -0.0935 -0.1329 -0.0612 -0.1446 -0.1602 -0.2646 SuperEnhancer_Hnisz.bed -0.3442 1.0000 0.9899 0.1797 0.2250 0.1218 0.0079 0.1376 0.1718 0.0322 0.0396 0.0334 0.0643 0.0976 0.1814 SuperEnhancer_Hnisz.extend.500.bed -0.3455 0.9899 1.0000 0.1795 0.2262 0.1218 0.0076 0.1363 0.1727 0.0332 0.0408 0.0335 0.0649 0.0973 0.1818 TFBS_ENCODE.bed -0.2512 0.1797 0.1795 1.0000 0.5376 -0.0144 -0.0814 0.2771 0.2780 0.0312 0.0427 0.0593 0.1088 0.2167 0.2437 TFBS_ENCODE.extend.500.bed -0.2811 0.2250 0.2262 0.5376 1.0000 0.0177 -0.0545 0.1703 0.2248 0.0343 0.0451 0.0394 0.0771 0.1673 0.3154 Transcribed_Hoffman.bed -0.3661 0.1218 0.1218 -0.0144 0.0177 1.0000 0.3690 -0.0490 -0.0411 0.0633 0.0817 0.0079 0.0305 -0.0081 -0.0073 Transcribed_Hoffman.extend.500.bed -0.0275 0.0079 0.0076 -0.0814 -0.0545 0.3690 1.0000 -0.1290 -0.1218 0.0169 0.0200 -0.0284 -0.0487 -0.0412 -0.0534 TSS_Hoffman.bed -0.1965 0.1376 0.1363 0.2771 0.1703 -0.0490 -0.1290 1.0000 0.7137 0.0183 0.0460 0.1387 0.2480 0.0498 0.0690 TSS_Hoffman.extend.500.bed -0.2547 0.1718 0.1727 0.2780 0.2248 -0.0411 -0.1218 0.7137 1.0000 0.0201 0.0474 0.1086 0.2153 0.0692 0.1232 UTR_3_UCSC.bed -0.0935 0.0322 0.0332 0.0312 0.0343 0.0633 0.0169 0.0183 0.0201 1.0000 0.6538 0.0975 0.0602 0.0061 0.0075 UTR_3_UCSC.extend.500.bed -0.1329 0.0396 0.0408 0.0427 0.0451 0.0817 0.0200 0.0460 0.0474 0.6538 1.0000 0.0859 0.1146 0.0062 0.0065 UTR_5_UCSC.bed -0.0612 0.0334 0.0335 0.0593 0.0394 0.0079 -0.0284 0.1387 0.1086 0.0975 0.0859 1.0000 0.4468 0.0028 0.0076 UTR_5_UCSC.extend.500.bed -0.1446 0.0643 0.0649 0.1088 0.0771 0.0305 -0.0487 0.2480 0.2153 0.0602 0.1146 0.4468 1.0000 0.0078 0.0161 WeakEnhancer_Hoffman.bed -0.1602 0.0976 0.0973 0.2167 0.1673 -0.0081 -0.0412 0.0498 0.0692 0.0061 0.0062 0.0028 0.0078 1.0000 0.4685 WeakEnhancer_Hoffman.extend.500.bed -0.2646 0.1814 0.1818 0.2437 0.3154 -0.0073 -0.0534 0.0690 0.1232 0.0075 0.0065 0.0076 0.0161 0.4685 1.0000 Annotation Matrix Column Sums base 510501.0 Coding_UCSC.bed 6840.0 Coding_UCSC.extend.500.bed 31295.0 Conserved_LindbladToh.bed 14506.0 Conserved_LindbladToh.extend.500.bed 185120.0 CTCF_Hoffman.bed 12994.0 CTCF_Hoffman.extend.500.bed 37820.0 DGF_ENCODE.bed 71382.0 DGF_ENCODE.extend.500.bed 279310.0 DHS_peaks_Trynka.bed 60539.0 DHS_Trynka.bed 89613.0 DHS_Trynka.extend.500.bed 262345.0 Enhancer_Andersson.bed 2493.0 Enhancer_Andersson.extend.500.bed 10523.0 Enhancer_Hoffman.bed 23765.0 Enhancer_Hoffman.extend.500.bed 48852.0 FetalDHS_Trynka.bed 46899.0 FetalDHS_Trynka.extend.500.bed 154502.0 H3K27ac_Hnisz.bed 208446.0 H3K27ac_Hnisz.extend.500.bed 225064.0 H3K27ac_PGC2.bed 145400.0 H3K27ac_PGC2.extend.500.bed 180084.0 H3K4me1_peaks_Trynka.bed 93507.0 H3K4me1_Trynka.bed 226588.0 H3K4me1_Trynka.extend.500.bed 319951.0 H3K4me3_peaks_Trynka.bed 22870.0 H3K4me3_Trynka.bed 68719.0 H3K4me3_Trynka.extend.500.bed 131252.0 H3K9ac_peaks_Trynka.bed 20813.0 H3K9ac_Trynka.bed 67213.0 H3K9ac_Trynka.extend.500.bed 123390.0 Intron_UCSC.bed 217448.0 Intron_UCSC.extend.500.bed 221952.0 PromoterFlanking_Hoffman.bed 4374.0 PromoterFlanking_Hoffman.extend.500.bed 16815.0 Promoter_UCSC.bed 20995.0 Promoter_UCSC.extend.500.bed 25908.0 Repressed_Hoffman.bed 235081.0 Repressed_Hoffman.extend.500.bed 365941.0 SuperEnhancer_Hnisz.bed 92020.0 SuperEnhancer_Hnisz.extend.500.bed 93562.0 TFBS_ENCODE.bed 67266.0 TFBS_ENCODE.extend.500.bed 175788.0 Transcribed_Hoffman.bed 191910.0 Transcribed_Hoffman.extend.500.bed 416363.0 TSS_Hoffman.bed 7980.0 TSS_Hoffman.extend.500.bed 15436.0 UTR_3_UCSC.bed 5703.0 UTR_3_UCSC.extend.500.bed 13146.0 UTR_5_UCSC.bed 2629.0 UTR_5_UCSC.extend.500.bed 12901.0 WeakEnhancer_Hoffman.bed 12159.0 WeakEnhancer_Hoffman.extend.500.bed 51076.0 Summary of Annotation Matrix Row Sums count 510501.0000 mean 11.6534 std 6.8675 min 1.0000 25% 6.0000 50% 10.0000 75% 16.0000 max 42.0000 Analysis finished at Tue Oct 17 17:53:21 2017 Total time elapsed: 1.0h:12.0m:5.47s