********************************************************************* * 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.16.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.16 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.16 \ --annot 1000G_Phase3_baseline_v1.1/baseline.16.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 316981 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.16.bim Read 53 annotations for 316981 SNPs from 1000G_Phase3_baseline_v1.1/baseline.16.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.16.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.16.bed Estimating LD Score. Reading list of 44710 SNPs for which to print LD Scores from hapmap3_snps/hm.16.snp After merging with --print-snps, LD Scores for 37656 SNPs will be printed. Writing LD Scores for 37656 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.16.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.16.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 0.2370 98.2918 2.2433 9.5329 3.3359 37.6778 2.8150 8.2257 14.4975 55.4866 11.1814 16.9171 50.8633 0.4387 2.0740 5.2521 11.4377 8.9387 30.1989 42.4094 45.6916 30.5334 37.8310 18.6015 46.2097 64.2571 4.9525 16.4326 30.2926 5.1716 16.2344 29.1587 45.4031 46.9150 1.0574 4.1160 6.6300 std 0.1437 102.7458 4.5148 17.8128 4.1747 39.2337 3.4553 9.5503 15.6294 51.7079 10.3597 15.2791 44.3235 0.8034 3.1072 7.3930 15.8105 8.4621 26.8888 48.2899 50.6844 38.3422 45.9085 20.1702 46.4201 59.6405 9.2262 31.2384 54.7255 8.2939 24.6934 41.1741 57.2492 59.1516 2.0160 6.6702 12.5609 min 0.0051 -2.3855 -0.1805 -0.5138 -0.2097 -1.0410 -0.3838 -0.6840 -0.2788 -0.4008 -0.2515 -0.2448 -0.3795 -0.0692 -0.1969 -0.3247 -0.3718 -0.1912 -0.4092 -0.7351 -0.7800 -0.6568 -0.7364 -0.3182 -0.4278 -0.2109 -0.5210 -0.9154 -1.1418 -0.2535 -0.6562 -0.7396 -1.8977 -1.8756 -0.1157 -0.3023 -0.6762 25% 0.1115 43.6580 0.0122 0.1098 0.5600 12.1054 0.6613 2.3653 4.7287 22.9458 4.4220 7.0241 22.9209 0.0174 0.2081 0.4773 1.2569 3.3947 13.0627 10.3611 12.2287 7.4251 9.9252 5.8799 16.3197 26.0828 0.8039 3.0623 7.7123 0.5081 2.1972 5.2918 2.9940 3.1356 0.0405 0.3198 0.0823 50% 0.2290 72.5854 0.2516 1.5679 1.9683 26.6006 1.6521 5.0408 9.4022 39.9842 8.0213 12.2358 38.1048 0.1006 0.8878 2.3054 5.3461 6.2880 22.2842 26.1805 28.8315 17.6585 22.7590 11.9991 31.3637 45.6130 2.2050 7.2456 15.8165 1.9653 6.9460 14.1817 25.3098 26.3400 0.2341 1.3681 1.1775 75% 0.3589 121.6837 2.2471 10.9543 4.5474 50.0631 3.6360 10.4290 18.1951 68.6060 14.2154 21.4250 62.5988 0.4763 2.6143 7.0550 15.5175 11.5090 37.4287 56.4061 60.0565 38.8003 47.4024 23.0431 57.0978 79.6114 5.5597 17.9469 34.1524 6.1587 19.4747 35.7702 65.6634 67.1293 1.1921 4.9703 7.4407 max 0.5000 1858.7749 40.8372 164.8315 37.6387 287.4607 38.6389 96.7230 125.6403 444.1059 77.9716 114.5624 383.1574 10.1432 27.3209 68.3948 118.2064 56.5140 253.0731 374.6281 408.6916 493.9776 581.9830 147.7606 340.1030 444.7132 172.9748 599.9701 1115.3600 65.8970 210.0205 401.3277 418.7585 439.1352 22.1674 59.5896 105.6685 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 8.1142 35.0247 58.8162 17.6815 18.0638 14.7618 37.4106 47.8937 85.8697 2.8835 5.4866 1.6269 3.6089 0.7768 3.9797 2.5467 10.5665 std 15.1975 44.6418 70.4096 30.1371 30.6483 16.1822 36.0406 55.2757 82.8044 5.3842 9.7611 3.3407 7.2230 1.8445 8.0568 3.2619 12.3322 min -0.7488 -1.7337 -1.8217 -1.3139 -1.1328 -0.1686 -0.4828 -1.4253 -0.8290 -0.2413 -0.4000 -0.1459 -0.2385 -0.1103 -0.3102 -0.1532 -0.2135 25% 0.1054 9.8021 19.5065 0.1443 0.1532 4.3780 13.9205 14.7949 36.2581 0.0293 0.0977 0.0047 0.0301 0.0000 0.0337 0.4387 2.5854 50% 1.5042 23.6884 42.0164 3.4032 3.5708 9.1233 26.1011 29.3027 63.3373 0.4478 1.1439 0.1653 0.4580 0.0474 0.5109 1.3778 6.3295 75% 9.1422 47.2649 78.2559 23.0415 23.6660 19.2673 47.6550 57.0930 108.3928 3.2870 6.5792 1.5771 3.5747 0.5741 3.9126 3.3542 13.8469 max 116.1322 760.8610 1230.4548 218.5873 223.1774 130.5042 269.4539 435.5891 1168.0114 43.8784 87.2858 28.8607 68.0684 32.9192 61.4369 34.6991 84.5568 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 0.0463 0.0012 0.0176 0.0266 0.0527 0.0315 0.0316 0.0635 0.0774 0.0876 0.0885 0.0891 0.0729 0.0784 0.0588 0.0583 0.0914 0.1002 0.0715 0.0704 0.0434 0.0430 0.0756 0.0798 0.0834 -0.0214 -0.0166 -0.0148 0.0342 0.0459 0.0456 0.0702 0.0676 0.0128 0.0383 baseL2 0.0463 1.0000 0.4465 0.4598 0.5713 0.6917 0.7314 0.7708 0.7533 0.8426 0.7509 0.7704 0.8573 0.4133 0.5328 0.4790 0.5103 0.6596 0.7261 0.6153 0.6516 0.7806 0.7998 0.6239 0.6802 0.7782 0.8273 0.8177 0.8581 0.5055 0.5330 0.5956 0.5695 0.5745 0.5299 0.5420 Coding_UCSC.bedL2 0.0012 0.4465 1.0000 0.9257 0.4712 0.5843 0.6165 0.6825 0.7277 0.6916 0.6540 0.6392 0.6210 0.3646 0.3922 0.6522 0.7123 0.6240 0.6134 0.7233 0.7311 0.6603 0.6772 0.7247 0.7486 0.7140 0.5707 0.5825 0.5348 0.7831 0.8105 0.8099 0.6123 0.6422 0.7003 0.7782 Coding_UCSC.extend.500.bedL2 0.0176 0.4598 0.9257 1.0000 0.4459 0.6151 0.6252 0.6977 0.7641 0.7277 0.6854 0.6655 0.6532 0.3535 0.3828 0.6821 0.7431 0.6615 0.6555 0.7666 0.7733 0.6926 0.7084 0.7707 0.7967 0.7611 0.5921 0.6052 0.5602 0.8407 0.8729 0.8775 0.6908 0.7178 0.7251 0.7965 Conserved_LindbladToh.bedL2 0.0266 0.5713 0.4712 0.4459 1.0000 0.8735 0.4410 0.4884 0.5221 0.6058 0.6131 0.6275 0.6462 0.2420 0.2811 0.3928 0.4365 0.6050 0.6350 0.5007 0.5205 0.4882 0.5047 0.5360 0.5875 0.6369 0.4017 0.4013 0.3956 0.4367 0.4454 0.4635 0.5370 0.5461 0.4433 0.4863 Conserved_LindbladToh.extend.500.bedL2 0.0527 0.6917 0.5843 0.6151 0.8735 1.0000 0.5968 0.6579 0.7171 0.7974 0.7885 0.8042 0.8229 0.3412 0.4028 0.5681 0.6105 0.7700 0.8099 0.6963 0.7168 0.6577 0.6787 0.7298 0.7785 0.8291 0.5210 0.5097 0.5114 0.6003 0.6232 0.6623 0.7208 0.7285 0.6061 0.6416 CTCF_Hoffman.bedL2 0.0315 0.7314 0.6165 0.6252 0.4410 0.5968 1.0000 0.9464 0.7955 0.7993 0.7562 0.7556 0.7709 0.4886 0.5667 0.6415 0.6819 0.7000 0.7142 0.7217 0.7396 0.7817 0.7894 0.7139 0.7341 0.7547 0.7536 0.7533 0.7500 0.6680 0.6948 0.7207 0.6014 0.6146 0.5868 0.6445 CTCF_Hoffman.extend.500.bedL2 0.0316 0.7708 0.6825 0.6977 0.4884 0.6579 0.9464 1.0000 0.8682 0.8739 0.8208 0.8216 0.8420 0.5102 0.6017 0.7057 0.7519 0.7640 0.7881 0.7819 0.8022 0.8236 0.8361 0.7892 0.8067 0.8291 0.7868 0.7860 0.7811 0.7373 0.7634 0.7967 0.6628 0.6768 0.6469 0.7106 DGF_ENCODE.bedL2 0.0635 0.7533 0.7277 0.7641 0.5221 0.7171 0.7955 0.8682 1.0000 0.9664 0.9489 0.9405 0.9271 0.5930 0.6775 0.8425 0.8794 0.8968 0.9089 0.9263 0.9388 0.9208 0.9312 0.9413 0.9448 0.9371 0.8021 0.7868 0.7790 0.8679 0.8861 0.9171 0.7509 0.7645 0.6985 0.7676 DGF_ENCODE.extend.500.bedL2 0.0774 0.8426 0.6916 0.7277 0.6058 0.7974 0.7993 0.8739 0.9664 1.0000 0.9550 0.9604 0.9811 0.5427 0.6458 0.7732 0.8163 0.8978 0.9355 0.8976 0.9189 0.9036 0.9221 0.9124 0.9440 0.9730 0.7840 0.7677 0.7762 0.7961 0.8222 0.8707 0.7737 0.7843 0.6958 0.7527 DHS_peaks_Trynka.bedL2 0.0876 0.7509 0.6540 0.6854 0.6131 0.7885 0.7562 0.8208 0.9489 0.9550 1.0000 0.9872 0.9587 0.5430 0.6348 0.7980 0.8334 0.9598 0.9603 0.9081 0.9218 0.8814 0.8936 0.9337 0.9474 0.9525 0.7198 0.6957 0.6962 0.8058 0.8201 0.8558 0.7740 0.7828 0.6532 0.7183 DHS_Trynka.bedL2 0.0885 0.7704 0.6392 0.6655 0.6275 0.8042 0.7556 0.8216 0.9405 0.9604 0.9872 1.0000 0.9731 0.5415 0.6366 0.7785 0.8143 0.9609 0.9657 0.8893 0.9053 0.8640 0.8782 0.9204 0.9393 0.9550 0.6992 0.6757 0.6812 0.7738 0.7899 0.8289 0.7756 0.7832 0.6473 0.7035 DHS_Trynka.extend.500.bedL2 0.0891 0.8573 0.6210 0.6532 0.6462 0.8229 0.7709 0.8420 0.9271 0.9811 0.9587 0.9731 1.0000 0.5132 0.6222 0.7244 0.7644 0.9112 0.9582 0.8582 0.8818 0.8668 0.8862 0.8846 0.9211 0.9643 0.7398 0.7209 0.7382 0.7377 0.7604 0.8119 0.7724 0.7791 0.6531 0.6989 Enhancer_Andersson.bedL2 0.0729 0.4133 0.3646 0.3535 0.2420 0.3412 0.4886 0.5102 0.5930 0.5427 0.5430 0.5415 0.5132 1.0000 0.8249 0.5748 0.5707 0.5251 0.5166 0.5603 0.5579 0.5871 0.5806 0.5803 0.5497 0.5152 0.4864 0.4695 0.4601 0.5112 0.5092 0.5168 0.4299 0.4337 0.3820 0.4328 Enhancer_Andersson.extend.500.bedL2 0.0784 0.5328 0.3922 0.3828 0.2811 0.4028 0.5667 0.6017 0.6775 0.6458 0.6348 0.6366 0.6222 0.8249 1.0000 0.6064 0.6199 0.6035 0.6106 0.6389 0.6406 0.6771 0.6730 0.6397 0.6147 0.6001 0.5908 0.5657 0.5658 0.5578 0.5559 0.5738 0.4788 0.4828 0.4077 0.4531 Enhancer_Hoffman.bedL2 0.0588 0.4790 0.6522 0.6821 0.3928 0.5681 0.6415 0.7057 0.8425 0.7732 0.7980 0.7785 0.7244 0.5748 0.6064 1.0000 0.9754 0.7757 0.7585 0.8597 0.8550 0.8118 0.8045 0.8734 0.8337 0.7778 0.6218 0.6016 0.5672 0.8288 0.8316 0.8335 0.6341 0.6481 0.6565 0.7438 Enhancer_Hoffman.extend.500.bedL2 0.0583 0.5103 0.7123 0.7431 0.4365 0.6105 0.6819 0.7519 0.8794 0.8163 0.8334 0.8143 0.7644 0.5707 0.6199 0.9754 1.0000 0.8157 0.8004 0.8881 0.8863 0.8374 0.8344 0.9104 0.8786 0.8257 0.6515 0.6331 0.5959 0.8683 0.8719 0.8760 0.6765 0.6923 0.6901 0.7875 FetalDHS_Trynka.bedL2 0.0914 0.6596 0.6240 0.6615 0.6050 0.7700 0.7000 0.7640 0.8968 0.8978 0.9598 0.9609 0.9112 0.5251 0.6035 0.7757 0.8157 1.0000 0.9621 0.8744 0.8834 0.8065 0.8178 0.9175 0.9234 0.9180 0.6283 0.6026 0.5959 0.7856 0.7935 0.8185 0.7623 0.7704 0.6142 0.6787 FetalDHS_Trynka.extend.500.bedL2 0.1002 0.7261 0.6134 0.6555 0.6350 0.8099 0.7142 0.7881 0.9089 0.9355 0.9603 0.9657 0.9582 0.5166 0.6106 0.7585 0.8004 0.9621 1.0000 0.8784 0.8931 0.8259 0.8396 0.9148 0.9291 0.9434 0.6563 0.6350 0.6387 0.7749 0.7879 0.8263 0.7794 0.7860 0.6373 0.6904 H3K27ac_Hnisz.bedL2 0.0715 0.6153 0.7233 0.7666 0.5007 0.6963 0.7217 0.7819 0.9263 0.8976 0.9081 0.8893 0.8582 0.5603 0.6389 0.8597 0.8881 0.8744 0.8784 1.0000 0.9977 0.9078 0.9141 0.9473 0.9496 0.9136 0.7077 0.6863 0.6702 0.8842 0.9003 0.9237 0.7739 0.7868 0.6880 0.7585 H3K27ac_Hnisz.extend.500.bedL2 0.0704 0.6516 0.7311 0.7733 0.5205 0.7168 0.7396 0.8022 0.9388 0.9189 0.9218 0.9053 0.8818 0.5579 0.6406 0.8550 0.8863 0.8834 0.8931 0.9977 1.0000 0.9177 0.9262 0.9493 0.9575 0.9307 0.7258 0.7057 0.6932 0.8785 0.8973 0.9255 0.7835 0.7965 0.6974 0.7670 H3K27ac_PGC2.bedL2 0.0434 0.7806 0.6603 0.6926 0.4882 0.6577 0.7817 0.8236 0.9208 0.9036 0.8814 0.8640 0.8668 0.5871 0.6771 0.8118 0.8374 0.8065 0.8259 0.9078 0.9177 1.0000 0.9964 0.8852 0.8892 0.8776 0.8707 0.8532 0.8524 0.8289 0.8396 0.8707 0.7139 0.7258 0.6485 0.7147 H3K27ac_PGC2.extend.500.bedL2 0.0430 0.7998 0.6772 0.7084 0.5047 0.6787 0.7894 0.8361 0.9312 0.9221 0.8936 0.8782 0.8862 0.5806 0.6730 0.8045 0.8344 0.8178 0.8396 0.9141 0.9262 0.9964 1.0000 0.8907 0.9028 0.8986 0.8694 0.8528 0.8542 0.8270 0.8421 0.8778 0.7293 0.7414 0.6645 0.7296 H3K4me1_peaks_Trynka.bedL2 0.0756 0.6239 0.7247 0.7707 0.5360 0.7298 0.7139 0.7892 0.9413 0.9124 0.9337 0.9204 0.8846 0.5803 0.6397 0.8734 0.9104 0.9175 0.9148 0.9473 0.9493 0.8852 0.8907 1.0000 0.9772 0.9402 0.6922 0.6689 0.6451 0.9058 0.9120 0.9282 0.7979 0.8099 0.7124 0.7838 H3K4me1_Trynka.bedL2 0.0798 0.6802 0.7486 0.7967 0.5875 0.7785 0.7341 0.8067 0.9448 0.9440 0.9474 0.9393 0.9211 0.5497 0.6147 0.8337 0.8786 0.9234 0.9291 0.9496 0.9575 0.8892 0.9028 0.9772 1.0000 0.9796 0.6947 0.6757 0.6614 0.8774 0.8964 0.9247 0.8185 0.8308 0.7134 0.7860 H3K4me1_Trynka.extend.500.bedL2 0.0834 0.7782 0.7140 0.7611 0.6369 0.8291 0.7547 0.8291 0.9371 0.9730 0.9525 0.9550 0.9643 0.5152 0.6001 0.7778 0.8257 0.9180 0.9434 0.9136 0.9307 0.8776 0.8986 0.9402 0.9796 1.0000 0.7101 0.6908 0.6916 0.8127 0.8390 0.8828 0.8244 0.8346 0.7141 0.7720 H3K4me3_peaks_Trynka.bedL2 -0.0214 0.8273 0.5707 0.5921 0.4017 0.5210 0.7536 0.7868 0.8021 0.7840 0.7198 0.6992 0.7398 0.4864 0.5908 0.6218 0.6515 0.6283 0.6563 0.7077 0.7258 0.8707 0.8694 0.6922 0.6947 0.7101 1.0000 0.9852 0.9800 0.7268 0.7367 0.7583 0.5305 0.5456 0.5689 0.6228 H3K4me3_Trynka.bedL2 -0.0166 0.8177 0.5825 0.6052 0.4013 0.5097 0.7533 0.7860 0.7868 0.7677 0.6957 0.6757 0.7209 0.4695 0.5657 0.6016 0.6331 0.6026 0.6350 0.6863 0.7057 0.8532 0.8528 0.6689 0.6757 0.6908 0.9852 1.0000 0.9895 0.7164 0.7361 0.7535 0.5140 0.5306 0.5531 0.6132 H3K4me3_Trynka.extend.500.bedL2 -0.0148 0.8581 0.5348 0.5602 0.3956 0.5114 0.7500 0.7811 0.7790 0.7762 0.6962 0.6812 0.7382 0.4601 0.5658 0.5672 0.5959 0.5959 0.6387 0.6702 0.6932 0.8524 0.8542 0.6451 0.6614 0.6916 0.9800 0.9895 1.0000 0.6685 0.6894 0.7219 0.5132 0.5267 0.5246 0.5744 H3K9ac_peaks_Trynka.bedL2 0.0342 0.5055 0.7831 0.8407 0.4367 0.6003 0.6680 0.7373 0.8679 0.7961 0.8058 0.7738 0.7377 0.5112 0.5578 0.8288 0.8683 0.7856 0.7749 0.8842 0.8785 0.8289 0.8270 0.9058 0.8774 0.8127 0.7268 0.7164 0.6685 1.0000 0.9811 0.9644 0.7010 0.7211 0.6914 0.7725 H3K9ac_Trynka.bedL2 0.0459 0.5330 0.8105 0.8729 0.4454 0.6232 0.6948 0.7634 0.8861 0.8222 0.8201 0.7899 0.7604 0.5092 0.5559 0.8316 0.8719 0.7935 0.7879 0.9003 0.8973 0.8396 0.8421 0.9120 0.8964 0.8390 0.7367 0.7361 0.6894 0.9811 1.0000 0.9867 0.7160 0.7370 0.7178 0.7997 H3K9ac_Trynka.extend.500.bedL2 0.0456 0.5956 0.8099 0.8775 0.4635 0.6623 0.7207 0.7967 0.9171 0.8707 0.8558 0.8289 0.8119 0.5168 0.5738 0.8335 0.8760 0.8185 0.8263 0.9237 0.9255 0.8707 0.8778 0.9282 0.9247 0.8828 0.7583 0.7535 0.7219 0.9644 0.9867 1.0000 0.7495 0.7689 0.7381 0.8140 Intron_UCSC.bedL2 0.0702 0.5695 0.6123 0.6908 0.5370 0.7208 0.6014 0.6628 0.7509 0.7737 0.7740 0.7756 0.7724 0.4299 0.4788 0.6341 0.6765 0.7623 0.7794 0.7739 0.7835 0.7139 0.7293 0.7979 0.8185 0.8244 0.5305 0.5140 0.5132 0.7010 0.7160 0.7495 1.0000 0.9990 0.5853 0.6198 Intron_UCSC.extend.500.bedL2 0.0676 0.5745 0.6422 0.7178 0.5461 0.7285 0.6146 0.6768 0.7645 0.7843 0.7828 0.7832 0.7791 0.4337 0.4828 0.6481 0.6923 0.7704 0.7860 0.7868 0.7965 0.7258 0.7414 0.8099 0.8308 0.8346 0.5456 0.5306 0.5267 0.7211 0.7370 0.7689 0.9990 1.0000 0.6028 0.6404 PromoterFlanking_Hoffman.bedL2 0.0128 0.5299 0.7003 0.7251 0.4433 0.6061 0.5868 0.6469 0.6985 0.6958 0.6532 0.6473 0.6531 0.3820 0.4077 0.6565 0.6901 0.6142 0.6373 0.6880 0.6974 0.6485 0.6645 0.7124 0.7134 0.7141 0.5689 0.5531 0.5246 0.6914 0.7178 0.7381 0.5853 0.6028 1.0000 0.9326 PromoterFlanking_Hoffman.extend.500.bedL2 0.0383 0.5420 0.7782 0.7965 0.4863 0.6416 0.6445 0.7106 0.7676 0.7527 0.7183 0.7035 0.6989 0.4328 0.4531 0.7438 0.7875 0.6787 0.6904 0.7585 0.7670 0.7147 0.7296 0.7838 0.7860 0.7720 0.6228 0.6132 0.5744 0.7725 0.7997 0.8140 0.6198 0.6404 0.9326 1.0000 Promoter_UCSC.bedL2 0.0236 0.5482 0.8287 0.8820 0.4348 0.5756 0.6819 0.7326 0.7678 0.7282 0.6868 0.6605 0.6574 0.3889 0.4334 0.7038 0.7560 0.6425 0.6389 0.7456 0.7544 0.7383 0.7489 0.7513 0.7658 0.7376 0.7261 0.7418 0.6882 0.8274 0.8592 0.8536 0.6096 0.6370 0.7230 0.8120 Promoter_UCSC.extend.500.bedL2 0.0262 0.5481 0.8365 0.8899 0.4369 0.5808 0.6819 0.7351 0.7778 0.7369 0.6958 0.6682 0.6657 0.3969 0.4403 0.7114 0.7639 0.6517 0.6492 0.7572 0.7655 0.7443 0.7555 0.7621 0.7767 0.7472 0.7277 0.7418 0.6892 0.8401 0.8711 0.8663 0.6191 0.6463 0.7266 0.8170 Repressed_Hoffman.bedL2 0.0576 0.7660 -0.0554 -0.0699 0.4027 0.3962 0.3338 0.3321 0.2335 0.3822 0.2939 0.3382 0.4576 0.0873 0.1982 -0.0593 -0.0517 0.2225 0.3052 0.0661 0.1061 0.2688 0.2869 0.0885 0.1581 0.3078 0.4327 0.4294 0.4931 -0.0486 -0.0267 0.0275 0.1123 0.1066 0.1004 0.0636 Repressed_Hoffman.extend.500.bedL2 0.0540 0.8067 -0.0080 -0.0242 0.4496 0.4493 0.3958 0.3927 0.2889 0.4402 0.3526 0.3957 0.5145 0.1200 0.2332 -0.0046 0.0063 0.2769 0.3607 0.1261 0.1672 0.3283 0.3469 0.1454 0.2158 0.3657 0.4791 0.4746 0.5382 0.0004 0.0241 0.0801 0.1781 0.1726 0.1470 0.1170 SuperEnhancer_Hnisz.bedL2 0.0686 0.3316 0.4956 0.5544 0.2940 0.4259 0.5023 0.5288 0.6844 0.6019 0.6422 0.6159 0.5550 0.5399 0.5629 0.7779 0.7677 0.6503 0.6131 0.8028 0.7772 0.7240 0.7041 0.7643 0.7197 0.6345 0.5390 0.5138 0.4766 0.7822 0.7699 0.7470 0.5731 0.5827 0.4911 0.5516 SuperEnhancer_Hnisz.extend.500.bedL2 0.0680 0.3362 0.5047 0.5635 0.2992 0.4323 0.5078 0.5355 0.6903 0.6082 0.6475 0.6210 0.5607 0.5406 0.5637 0.7826 0.7733 0.6552 0.6187 0.8084 0.7832 0.7282 0.7089 0.7699 0.7258 0.6411 0.5436 0.5187 0.4811 0.7882 0.7768 0.7544 0.5786 0.5885 0.4985 0.5595 TFBS_ENCODE.bedL2 0.0635 0.6673 0.7615 0.7989 0.4976 0.6883 0.7841 0.8532 0.9571 0.9212 0.9129 0.9021 0.8797 0.5842 0.6640 0.8739 0.9159 0.8788 0.8837 0.9137 0.9224 0.8839 0.8919 0.9378 0.9347 0.9105 0.7586 0.7482 0.7249 0.8925 0.9088 0.9259 0.7263 0.7429 0.7058 0.7960 TFBS_ENCODE.extend.500.bedL2 0.0744 0.7848 0.7136 0.7516 0.5700 0.7671 0.8068 0.8796 0.9648 0.9744 0.9467 0.9459 0.9518 0.5577 0.6612 0.8234 0.8686 0.8997 0.9272 0.9107 0.9270 0.9061 0.9204 0.9328 0.9492 0.9584 0.7776 0.7622 0.7593 0.8344 0.8563 0.8939 0.7566 0.7693 0.7117 0.7849 Transcribed_Hoffman.bedL2 0.0449 0.8267 0.6988 0.7400 0.5731 0.7666 0.7390 0.8164 0.8998 0.9332 0.8756 0.8785 0.9102 0.5013 0.5737 0.7120 0.7601 0.8245 0.8547 0.8397 0.8603 0.8675 0.8888 0.8622 0.8994 0.9306 0.7563 0.7415 0.7501 0.7641 0.7875 0.8389 0.8040 0.8129 0.6976 0.7306 Transcribed_Hoffman.extend.500.bedL2 0.0644 0.9808 0.5001 0.5185 0.6280 0.7643 0.7305 0.7840 0.7915 0.8858 0.8039 0.8268 0.9045 0.4293 0.5361 0.5286 0.5671 0.7316 0.7938 0.6693 0.7038 0.7870 0.8099 0.6949 0.7534 0.8462 0.7764 0.7638 0.7992 0.5551 0.5832 0.6448 0.6565 0.6607 0.5734 0.5880 TSS_Hoffman.bedL2 0.0469 0.4288 0.7650 0.7948 0.3562 0.5146 0.6224 0.6925 0.8031 0.7221 0.7250 0.6974 0.6538 0.5171 0.5623 0.8061 0.8607 0.7145 0.6978 0.7865 0.7843 0.7299 0.7315 0.8199 0.7950 0.7341 0.6471 0.6423 0.5840 0.8613 0.8703 0.8575 0.6033 0.6245 0.6789 0.7977 TSS_Hoffman.extend.500.bedL2 0.0524 0.4420 0.7700 0.8136 0.3610 0.5329 0.6457 0.7191 0.8207 0.7455 0.7408 0.7127 0.6767 0.5138 0.5539 0.8340 0.8858 0.7275 0.7225 0.8110 0.8098 0.7449 0.7470 0.8387 0.8145 0.7575 0.6527 0.6520 0.5970 0.8782 0.8931 0.8864 0.6254 0.6465 0.7170 0.8277 UTR_3_UCSC.bedL2 0.0063 0.4930 0.9027 0.8302 0.3420 0.4885 0.6272 0.6935 0.7164 0.6792 0.6255 0.6100 0.6101 0.3660 0.4126 0.6139 0.6697 0.5771 0.5816 0.6774 0.6898 0.6599 0.6780 0.6755 0.7014 0.6768 0.6166 0.6355 0.6006 0.7160 0.7520 0.7637 0.5595 0.5843 0.6075 0.7029 UTR_3_UCSC.extend.500.bedL2 0.0056 0.5054 0.8738 0.8737 0.3671 0.5140 0.6503 0.7203 0.7500 0.7033 0.6507 0.6288 0.6293 0.3653 0.4188 0.6548 0.7103 0.6037 0.6155 0.7150 0.7249 0.6860 0.7013 0.7043 0.7200 0.6933 0.6749 0.6968 0.6534 0.7881 0.8254 0.8261 0.5747 0.6018 0.6640 0.7475 UTR_5_UCSC.bedL2 0.0034 0.3927 0.7721 0.7514 0.4269 0.5079 0.5380 0.5620 0.6075 0.5737 0.5540 0.5323 0.5111 0.2973 0.3148 0.5800 0.6210 0.5320 0.5033 0.6278 0.6262 0.5980 0.6063 0.6338 0.6430 0.6077 0.5442 0.5423 0.4911 0.7143 0.7237 0.7072 0.5160 0.5425 0.6104 0.6795 UTR_5_UCSC.extend.500.bedL2 0.0204 0.4599 0.8419 0.8941 0.4391 0.5711 0.6114 0.6627 0.7097 0.6763 0.6352 0.6088 0.6029 0.3326 0.3552 0.6468 0.6974 0.5981 0.5947 0.7093 0.7147 0.6644 0.6780 0.7150 0.7315 0.7038 0.6104 0.6164 0.5677 0.7945 0.8201 0.8190 0.6158 0.6429 0.6958 0.7836 WeakEnhancer_Hoffman.bedL2 0.0768 0.4354 0.6255 0.6509 0.3636 0.5295 0.6276 0.6698 0.7722 0.7092 0.7397 0.7189 0.6660 0.5346 0.5671 0.7938 0.8174 0.7206 0.6997 0.7779 0.7723 0.7288 0.7270 0.8097 0.7684 0.7156 0.5771 0.5598 0.5264 0.7912 0.7971 0.7893 0.5974 0.6118 0.5848 0.6627 WeakEnhancer_Hoffman.extend.500.bedL2 0.0770 0.5230 0.6893 0.7110 0.4351 0.6212 0.7003 0.7599 0.8576 0.8087 0.8248 0.8105 0.7668 0.5746 0.6249 0.8644 0.8961 0.8021 0.7926 0.8582 0.8562 0.8008 0.8039 0.8886 0.8565 0.8134 0.6354 0.6170 0.5878 0.8484 0.8524 0.8585 0.6720 0.6868 0.6609 0.7452 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 0.0236 0.0262 0.0576 0.0540 0.0686 0.0680 0.0635 0.0744 0.0449 0.0644 0.0469 0.0524 0.0063 0.0056 0.0034 0.0204 0.0768 0.0770 baseL2 0.5482 0.5481 0.7660 0.8067 0.3316 0.3362 0.6673 0.7848 0.8267 0.9808 0.4288 0.4420 0.4930 0.5054 0.3927 0.4599 0.4354 0.5230 Coding_UCSC.bedL2 0.8287 0.8365 -0.0554 -0.0080 0.4956 0.5047 0.7615 0.7136 0.6988 0.5001 0.7650 0.7700 0.9027 0.8738 0.7721 0.8419 0.6255 0.6893 Coding_UCSC.extend.500.bedL2 0.8820 0.8899 -0.0699 -0.0242 0.5544 0.5635 0.7989 0.7516 0.7400 0.5185 0.7948 0.8136 0.8302 0.8737 0.7514 0.8941 0.6509 0.7110 Conserved_LindbladToh.bedL2 0.4348 0.4369 0.4027 0.4496 0.2940 0.2992 0.4976 0.5700 0.5731 0.6280 0.3562 0.3610 0.3420 0.3671 0.4269 0.4391 0.3636 0.4351 Conserved_LindbladToh.extend.500.bedL2 0.5756 0.5808 0.3962 0.4493 0.4259 0.4323 0.6883 0.7671 0.7666 0.7643 0.5146 0.5329 0.4885 0.5140 0.5079 0.5711 0.5295 0.6212 CTCF_Hoffman.bedL2 0.6819 0.6819 0.3338 0.3958 0.5023 0.5078 0.7841 0.8068 0.7390 0.7305 0.6224 0.6457 0.6272 0.6503 0.5380 0.6114 0.6276 0.7003 CTCF_Hoffman.extend.500.bedL2 0.7326 0.7351 0.3321 0.3927 0.5288 0.5355 0.8532 0.8796 0.8164 0.7840 0.6925 0.7191 0.6935 0.7203 0.5620 0.6627 0.6698 0.7599 DGF_ENCODE.bedL2 0.7678 0.7778 0.2335 0.2889 0.6844 0.6903 0.9571 0.9648 0.8998 0.7915 0.8031 0.8207 0.7164 0.7500 0.6075 0.7097 0.7722 0.8576 DGF_ENCODE.extend.500.bedL2 0.7282 0.7369 0.3822 0.4402 0.6019 0.6082 0.9212 0.9744 0.9332 0.8858 0.7221 0.7455 0.6792 0.7033 0.5737 0.6763 0.7092 0.8087 DHS_peaks_Trynka.bedL2 0.6868 0.6958 0.2939 0.3526 0.6422 0.6475 0.9129 0.9467 0.8756 0.8039 0.7250 0.7408 0.6255 0.6507 0.5540 0.6352 0.7397 0.8248 DHS_Trynka.bedL2 0.6605 0.6682 0.3382 0.3957 0.6159 0.6210 0.9021 0.9459 0.8785 0.8268 0.6974 0.7127 0.6100 0.6288 0.5323 0.6088 0.7189 0.8105 DHS_Trynka.extend.500.bedL2 0.6574 0.6657 0.4576 0.5145 0.5550 0.5607 0.8797 0.9518 0.9102 0.9045 0.6538 0.6767 0.6101 0.6293 0.5111 0.6029 0.6660 0.7668 Enhancer_Andersson.bedL2 0.3889 0.3969 0.0873 0.1200 0.5399 0.5406 0.5842 0.5577 0.5013 0.4293 0.5171 0.5138 0.3660 0.3653 0.2973 0.3326 0.5346 0.5746 Enhancer_Andersson.extend.500.bedL2 0.4334 0.4403 0.1982 0.2332 0.5629 0.5637 0.6640 0.6612 0.5737 0.5361 0.5623 0.5539 0.4126 0.4188 0.3148 0.3552 0.5671 0.6249 Enhancer_Hoffman.bedL2 0.7038 0.7114 -0.0593 -0.0046 0.7779 0.7826 0.8739 0.8234 0.7120 0.5286 0.8061 0.8340 0.6139 0.6548 0.5800 0.6468 0.7938 0.8644 Enhancer_Hoffman.extend.500.bedL2 0.7560 0.7639 -0.0517 0.0063 0.7677 0.7733 0.9159 0.8686 0.7601 0.5671 0.8607 0.8858 0.6697 0.7103 0.6210 0.6974 0.8174 0.8961 FetalDHS_Trynka.bedL2 0.6425 0.6517 0.2225 0.2769 0.6503 0.6552 0.8788 0.8997 0.8245 0.7316 0.7145 0.7275 0.5771 0.6037 0.5320 0.5981 0.7206 0.8021 FetalDHS_Trynka.extend.500.bedL2 0.6389 0.6492 0.3052 0.3607 0.6131 0.6187 0.8837 0.9272 0.8547 0.7938 0.6978 0.7225 0.5816 0.6155 0.5033 0.5947 0.6997 0.7926 H3K27ac_Hnisz.bedL2 0.7456 0.7572 0.0661 0.1261 0.8028 0.8084 0.9137 0.9107 0.8397 0.6693 0.7865 0.8110 0.6774 0.7150 0.6278 0.7093 0.7779 0.8582 H3K27ac_Hnisz.extend.500.bedL2 0.7544 0.7655 0.1061 0.1672 0.7772 0.7832 0.9224 0.9270 0.8603 0.7038 0.7843 0.8098 0.6898 0.7249 0.6262 0.7147 0.7723 0.8562 H3K27ac_PGC2.bedL2 0.7383 0.7443 0.2688 0.3283 0.7240 0.7282 0.8839 0.9061 0.8675 0.7870 0.7299 0.7449 0.6599 0.6860 0.5980 0.6644 0.7288 0.8008 H3K27ac_PGC2.extend.500.bedL2 0.7489 0.7555 0.2869 0.3469 0.7041 0.7089 0.8919 0.9204 0.8888 0.8099 0.7315 0.7470 0.6780 0.7013 0.6063 0.6780 0.7270 0.8039 H3K4me1_peaks_Trynka.bedL2 0.7513 0.7621 0.0885 0.1454 0.7643 0.7699 0.9378 0.9328 0.8622 0.6949 0.8199 0.8387 0.6755 0.7043 0.6338 0.7150 0.8097 0.8886 H3K4me1_Trynka.bedL2 0.7658 0.7767 0.1581 0.2158 0.7197 0.7258 0.9347 0.9492 0.8994 0.7534 0.7950 0.8145 0.7014 0.7200 0.6430 0.7315 0.7684 0.8565 H3K4me1_Trynka.extend.500.bedL2 0.7376 0.7472 0.3078 0.3657 0.6345 0.6411 0.9105 0.9584 0.9306 0.8462 0.7341 0.7575 0.6768 0.6933 0.6077 0.7038 0.7156 0.8134 H3K4me3_peaks_Trynka.bedL2 0.7261 0.7277 0.4327 0.4791 0.5390 0.5436 0.7586 0.7776 0.7563 0.7764 0.6471 0.6527 0.6166 0.6749 0.5442 0.6104 0.5771 0.6354 H3K4me3_Trynka.bedL2 0.7418 0.7418 0.4294 0.4746 0.5138 0.5187 0.7482 0.7622 0.7415 0.7638 0.6423 0.6520 0.6355 0.6968 0.5423 0.6164 0.5598 0.6170 H3K4me3_Trynka.extend.500.bedL2 0.6882 0.6892 0.4931 0.5382 0.4766 0.4811 0.7249 0.7593 0.7501 0.7992 0.5840 0.5970 0.6006 0.6534 0.4911 0.5677 0.5264 0.5878 H3K9ac_peaks_Trynka.bedL2 0.8274 0.8401 -0.0486 0.0004 0.7822 0.7882 0.8925 0.8344 0.7641 0.5551 0.8613 0.8782 0.7160 0.7881 0.7143 0.7945 0.7912 0.8484 H3K9ac_Trynka.bedL2 0.8592 0.8711 -0.0267 0.0241 0.7699 0.7768 0.9088 0.8563 0.7875 0.5832 0.8703 0.8931 0.7520 0.8254 0.7237 0.8201 0.7971 0.8524 H3K9ac_Trynka.extend.500.bedL2 0.8536 0.8663 0.0275 0.0801 0.7470 0.7544 0.9259 0.8939 0.8389 0.6448 0.8575 0.8864 0.7637 0.8261 0.7072 0.8190 0.7893 0.8585 Intron_UCSC.bedL2 0.6096 0.6191 0.1123 0.1781 0.5731 0.5786 0.7263 0.7566 0.8040 0.6565 0.6033 0.6254 0.5595 0.5747 0.5160 0.6158 0.5974 0.6720 Intron_UCSC.extend.500.bedL2 0.6370 0.6463 0.1066 0.1726 0.5827 0.5885 0.7429 0.7693 0.8129 0.6607 0.6245 0.6465 0.5843 0.6018 0.5425 0.6429 0.6118 0.6868 PromoterFlanking_Hoffman.bedL2 0.7230 0.7266 0.1004 0.1470 0.4911 0.4985 0.7058 0.7117 0.6976 0.5734 0.6789 0.7170 0.6075 0.6640 0.6104 0.6958 0.5848 0.6609 PromoterFlanking_Hoffman.extend.500.bedL2 0.8120 0.8170 0.0636 0.1170 0.5516 0.5595 0.7960 0.7849 0.7306 0.5880 0.7977 0.8277 0.7029 0.7475 0.6795 0.7836 0.6627 0.7452 Promoter_UCSC.bedL2 1.0000 0.9974 0.0699 0.1129 0.5671 0.5755 0.8076 0.7605 0.7088 0.5690 0.8222 0.8371 0.7925 0.8741 0.7746 0.8929 0.6654 0.7208 Promoter_UCSC.extend.500.bedL2 0.9974 1.0000 0.0614 0.1045 0.5760 0.5845 0.8171 0.7694 0.7192 0.5719 0.8314 0.8461 0.7984 0.8802 0.7760 0.8973 0.6754 0.7310 Repressed_Hoffman.bedL2 0.0699 0.0614 1.0000 0.9893 -0.1313 -0.1307 0.1333 0.2956 0.3209 0.7067 -0.1091 -0.1092 0.0175 0.0187 -0.0167 -0.0136 -0.0477 0.0073 Repressed_Hoffman.extend.500.bedL2 0.1129 0.1045 0.9893 1.0000 -0.0918 -0.0907 0.1905 0.3555 0.3793 0.7526 -0.0647 -0.0610 0.0606 0.0643 0.0215 0.0297 0.0081 0.0698 SuperEnhancer_Hnisz.bedL2 0.5671 0.5760 -0.1313 -0.0918 1.0000 0.9998 0.7050 0.6464 0.5712 0.3767 0.6609 0.6761 0.4303 0.4878 0.5369 0.5459 0.6902 0.7120 SuperEnhancer_Hnisz.extend.500.bedL2 0.5755 0.5845 -0.1307 -0.0907 0.9998 1.0000 0.7115 0.6528 0.5775 0.3818 0.6676 0.6833 0.4390 0.4973 0.5442 0.5541 0.6950 0.7184 TFBS_ENCODE.bedL2 0.8076 0.8171 0.1333 0.1905 0.7050 0.7115 1.0000 0.9671 0.8539 0.7156 0.8713 0.8869 0.7467 0.7879 0.6343 0.7446 0.8078 0.8856 TFBS_ENCODE.extend.500.bedL2 0.7605 0.7694 0.2956 0.3555 0.6464 0.6528 0.9671 1.0000 0.9081 0.8303 0.7853 0.8067 0.7039 0.7356 0.5905 0.6985 0.7575 0.8558 Transcribed_Hoffman.bedL2 0.7088 0.7192 0.3209 0.3793 0.5712 0.5775 0.8539 0.9081 1.0000 0.8900 0.6926 0.7123 0.6896 0.6921 0.5728 0.6724 0.6421 0.7305 Transcribed_Hoffman.extend.500.bedL2 0.5690 0.5719 0.7067 0.7526 0.3767 0.3818 0.7156 0.8303 0.8900 1.0000 0.4802 0.4965 0.5274 0.5325 0.4252 0.4997 0.4828 0.5760 TSS_Hoffman.bedL2 0.8222 0.8314 -0.1091 -0.0647 0.6609 0.6676 0.8713 0.7853 0.6926 0.4802 1.0000 0.9782 0.7328 0.7811 0.6527 0.7637 0.7233 0.7865 TSS_Hoffman.extend.500.bedL2 0.8371 0.8461 -0.1092 -0.0610 0.6761 0.6833 0.8869 0.8067 0.7123 0.4965 0.9782 1.0000 0.7368 0.7982 0.6501 0.7751 0.7497 0.8164 UTR_3_UCSC.bedL2 0.7925 0.7984 0.0175 0.0606 0.4303 0.4390 0.7467 0.7039 0.6896 0.5274 0.7328 0.7368 1.0000 0.9266 0.6632 0.7614 0.5743 0.6396 UTR_3_UCSC.extend.500.bedL2 0.8741 0.8802 0.0187 0.0643 0.4878 0.4973 0.7879 0.7356 0.6921 0.5325 0.7811 0.7982 0.9266 1.0000 0.6816 0.8125 0.6177 0.6831 UTR_5_UCSC.bedL2 0.7746 0.7760 -0.0167 0.0215 0.5369 0.5442 0.6343 0.5905 0.5728 0.4252 0.6527 0.6501 0.6632 0.6816 1.0000 0.8807 0.5727 0.6151 UTR_5_UCSC.extend.500.bedL2 0.8929 0.8973 -0.0136 0.0297 0.5459 0.5541 0.7446 0.6985 0.6724 0.4997 0.7637 0.7751 0.7614 0.8125 0.8807 1.0000 0.6302 0.6747 WeakEnhancer_Hoffman.bedL2 0.6654 0.6754 -0.0477 0.0081 0.6902 0.6950 0.8078 0.7575 0.6421 0.4828 0.7233 0.7497 0.5743 0.6177 0.5727 0.6302 1.0000 0.9354 WeakEnhancer_Hoffman.extend.500.bedL2 0.7208 0.7310 0.0073 0.0698 0.7120 0.7184 0.8856 0.8558 0.7305 0.5760 0.7865 0.8164 0.6396 0.6831 0.6151 0.6747 0.9354 1.0000 LD Score Matrix Condition Number 951.9708 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 0.4753 2.5670e-01 0.1374 1.9346e-02 0.0272 0.0822 0.0788 0.0448 0.0509 0.0461 -0.0107 -2.1215e-02 0.0245 0.0367 0.0424 0.0328 0.0767 0.0768 0.0663 0.0697 0.0562 0.0990 0.0835 0.0732 0.1249 0.1041 0.0741 0.1220 0.1222 -0.0973 6.2112e-02 0.0020 0.0151 0.1335 0.1354 -0.0916 Coding_UCSC.extend.500.bed NaN 0.4753 1.0000 1.2344e-01 0.3046 2.6869e-02 0.0512 0.1039 0.1403 0.0659 0.0727 0.0840 -0.0188 -3.0786e-02 0.0489 0.0689 0.0674 0.0538 0.1400 0.1415 0.1226 0.1303 0.0836 0.1705 0.1626 0.1162 0.1982 0.1836 0.1258 0.2161 0.2341 0.1724 2.6279e-01 0.0095 0.0458 0.2701 0.2673 -0.1792 Conserved_LindbladToh.bed NaN 0.2567 0.1234 1.0000e+00 0.2463 3.2711e-03 0.0003 0.0634 0.0385 0.1069 0.1115 0.0696 0.0086 -3.1112e-06 0.0130 0.0068 0.1202 0.0818 0.0131 0.0116 0.0212 0.0153 0.0411 0.0641 0.0523 0.0415 0.0629 0.0436 0.0297 0.0492 0.0351 -0.0203 3.9936e-02 0.0025 0.0020 0.0332 0.0313 -0.0012 Conserved_LindbladToh.extend.500.bed NaN 0.1374 0.3046 2.4627e-01 1.0000 3.3518e-02 0.0315 0.0842 0.1288 0.1240 0.1535 0.1874 0.0136 1.9825e-02 0.0554 0.0518 0.1479 0.1990 0.0717 0.0730 0.0828 0.0741 0.1196 0.1658 0.1567 0.0797 0.1204 0.0996 0.0859 0.1313 0.1204 0.1323 1.6252e-01 0.0175 0.0258 0.0788 0.0739 -0.0481 CTCF_Hoffman.bed NaN 0.0193 0.0269 3.2711e-03 0.0335 1.0000e+00 0.5682 0.1166 0.1152 0.1184 0.1239 0.1073 0.0057 1.0609e-02 0.0461 0.0784 0.1117 0.1092 0.0478 0.0476 0.0468 0.0473 0.0765 0.0751 0.0684 0.0473 0.0688 0.0739 0.0615 0.0854 0.0918 -0.0043 8.6297e-05 -0.0062 0.0199 0.0160 0.0196 -0.1358 CTCF_Hoffman.extend.500.bed NaN 0.0272 0.0512 2.7947e-04 0.0315 5.6824e-01 1.0000 0.0895 0.1623 0.0824 0.0898 0.1452 0.0046 1.8546e-02 0.0630 0.1056 0.0797 0.1308 0.0826 0.0861 0.0793 0.0800 0.0859 0.0997 0.1069 0.0521 0.0861 0.1105 0.0772 0.1127 0.1398 0.0030 8.9593e-03 0.0044 0.0364 0.0349 0.0390 -0.1294 DGF_ENCODE.bed NaN 0.0822 0.1039 6.3385e-02 0.0842 1.1658e-01 0.0895 1.0000 0.3641 0.5013 0.4840 0.2541 0.0898 7.9874e-02 0.1971 0.2004 0.3431 0.2173 0.2175 0.2082 0.2331 0.2164 0.2871 0.2869 0.2137 0.1928 0.2657 0.2265 0.1856 0.2683 0.2444 0.0490 6.9774e-02 0.0468 0.0859 0.1114 0.1132 -0.1823 DGF_ENCODE.extend.500.bed NaN 0.0788 0.1403 3.8486e-02 0.1288 1.1517e-01 0.1623 0.3641 1.0000 0.2459 0.3062 0.5310 0.0468 9.2094e-02 0.1989 0.2673 0.2084 0.3540 0.3571 0.3584 0.3456 0.3448 0.3096 0.4572 0.4437 0.1516 0.2701 0.3248 0.1711 0.3031 0.3653 0.1109 1.2748e-01 0.0631 0.1257 0.1252 0.1305 -0.2667 DHS_peaks_Trynka.bed NaN 0.0448 0.0659 1.0692e-01 0.1240 1.1842e-01 0.0824 0.5013 0.2459 1.0000 0.7732 0.3455 0.1010 8.6182e-02 0.2114 0.1996 0.6535 0.3579 0.1778 0.1693 0.2127 0.1880 0.2916 0.2747 0.2023 0.2248 0.2555 0.2039 0.1997 0.2588 0.2167 0.0369 5.2933e-02 0.0248 0.0721 0.0831 0.0753 -0.1318 DHS_Trynka.bed NaN 0.0509 0.0727 1.1145e-01 0.1535 1.2394e-01 0.0898 0.4840 0.3062 0.7732 1.0000 0.4379 0.1034 1.0688e-01 0.2487 0.2298 0.6984 0.4255 0.2140 0.2049 0.2540 0.2245 0.3405 0.3356 0.2491 0.2446 0.2902 0.2376 0.2281 0.2955 0.2502 0.0456 6.2673e-02 0.0261 0.0769 0.0909 0.0820 -0.1552 DHS_Trynka.extend.500.bed NaN 0.0461 0.0840 6.9649e-02 0.1874 1.0727e-01 0.1452 0.2541 0.5310 0.3455 0.4379 1.0000 0.0515 1.0043e-01 0.2069 0.2661 0.3059 0.6460 0.2975 0.3025 0.3190 0.3025 0.3136 0.4568 0.4403 0.1497 0.2405 0.2889 0.1662 0.2790 0.3221 0.0962 1.0652e-01 0.0398 0.0939 0.0842 0.0779 -0.1895 Enhancer_Andersson.bed NaN -0.0107 -0.0188 8.6320e-03 0.0136 5.6953e-03 0.0046 0.0898 0.0468 0.1010 0.1034 0.0515 1.0000 4.6318e-01 0.0964 0.0860 0.1245 0.0727 0.0563 0.0528 0.0747 0.0646 0.0733 0.0559 0.0394 0.0742 0.0850 0.0674 0.0588 0.0773 0.0679 0.0195 1.7097e-02 0.0138 0.0266 0.0088 0.0101 -0.0359 Enhancer_Andersson.extend.500.bed NaN -0.0212 -0.0308 -3.1112e-06 0.0198 1.0609e-02 0.0185 0.0799 0.0921 0.0862 0.1069 0.1004 0.4632 1.0000e+00 0.1602 0.1585 0.1100 0.1353 0.1110 0.1056 0.1438 0.1274 0.1221 0.1078 0.0786 0.1069 0.1456 0.1284 0.0968 0.1369 0.1238 0.0321 2.7914e-02 0.0267 0.0475 0.0147 0.0162 -0.0663 Enhancer_Hoffman.bed NaN 0.0245 0.0489 1.2959e-02 0.0554 4.6101e-02 0.0630 0.1971 0.1989 0.2114 0.2487 0.2069 0.0964 1.6022e-01 1.0000 0.6584 0.2141 0.2407 0.2372 0.2263 0.3233 0.2841 0.2729 0.2372 0.1692 0.2280 0.2930 0.2551 0.2278 0.3081 0.2655 0.0263 3.5837e-02 0.0450 0.1444 0.1172 0.1156 -0.1877 Enhancer_Hoffman.extend.500.bed NaN 0.0367 0.0689 6.7526e-03 0.0518 7.8420e-02 0.1056 0.2004 0.2673 0.1996 0.2298 0.2661 0.0860 1.5847e-01 0.6584 1.0000 0.2040 0.2892 0.3248 0.3212 0.4378 0.4058 0.2849 0.3137 0.2508 0.2179 0.3349 0.3482 0.2262 0.3561 0.3700 0.0374 5.1214e-02 0.0977 0.2396 0.1852 0.1834 -0.2634 FetalDHS_Trynka.bed NaN 0.0424 0.0674 1.2019e-01 0.1479 1.1169e-01 0.0797 0.3431 0.2084 0.6535 0.6984 0.3059 0.1245 1.1000e-01 0.2141 0.2040 1.0000 0.4735 0.1779 0.1686 0.2146 0.1859 0.2844 0.2639 0.1933 0.2589 0.2779 0.2185 0.2258 0.2760 0.2264 0.0332 5.0934e-02 0.0218 0.0788 0.1034 0.0920 -0.1163 FetalDHS_Trynka.extend.500.bed NaN 0.0328 0.0538 8.1817e-02 0.1990 1.0922e-01 0.1308 0.2173 0.3540 0.3579 0.4255 0.6460 0.0727 1.3528e-01 0.2407 0.2892 0.4735 1.0000 0.2811 0.2800 0.3162 0.2893 0.3263 0.4121 0.3567 0.1951 0.2813 0.3057 0.2028 0.3121 0.3281 0.0702 7.9802e-02 0.0445 0.1060 0.1052 0.0949 -0.1564 H3K27ac_Hnisz.bed NaN 0.0767 0.1400 1.3091e-02 0.0717 4.7849e-02 0.0826 0.2175 0.3571 0.1778 0.2140 0.2975 0.0563 1.1100e-01 0.2372 0.3248 0.1779 0.2811 1.0000 0.9367 0.5296 0.5619 0.3169 0.4763 0.4454 0.1666 0.3019 0.3701 0.2046 0.3685 0.4534 0.2064 2.2046e-01 0.0619 0.1277 0.1356 0.1491 -0.3106 H3K27ac_Hnisz.extend.500.bed NaN 0.0768 0.1415 1.1563e-02 0.0730 4.7626e-02 0.0861 0.2082 0.3584 0.1693 0.2049 0.3025 0.0528 1.0561e-01 0.2263 0.3212 0.1686 0.2800 0.9367 1.0000 0.5354 0.5787 0.3067 0.4791 0.4688 0.1567 0.2896 0.3693 0.1943 0.3556 0.4529 0.2085 2.2231e-01 0.0627 0.1294 0.1349 0.1489 -0.3104 H3K27ac_PGC2.bed NaN 0.0663 0.1226 2.1239e-02 0.0828 4.6810e-02 0.0793 0.2331 0.3456 0.2127 0.2540 0.3190 0.0747 1.4375e-01 0.3233 0.4378 0.2146 0.3162 0.5296 0.5354 1.0000 0.8493 0.3604 0.4828 0.4067 0.2329 0.3992 0.4510 0.2571 0.4483 0.5060 0.1706 1.8578e-01 0.0988 0.1918 0.1911 0.1969 -0.3097 H3K27ac_PGC2.extend.500.bed NaN 0.0697 0.1303 1.5319e-02 0.0741 4.7250e-02 0.0800 0.2164 0.3448 0.1880 0.2245 0.3025 0.0646 1.2736e-01 0.2841 0.4058 0.1859 0.2893 0.5619 0.5787 0.8493 1.0000 0.3367 0.4885 0.4395 0.2051 0.3661 0.4338 0.2306 0.4125 0.4988 0.1864 2.0189e-01 0.0961 0.1878 0.1901 0.2015 -0.3262 H3K4me1_peaks_Trynka.bed NaN 0.0562 0.0836 4.1097e-02 0.1196 7.6484e-02 0.0859 0.2871 0.3096 0.2916 0.3405 0.3136 0.0733 1.2213e-01 0.2729 0.2849 0.2844 0.3263 0.3169 0.3067 0.3604 0.3367 1.0000 0.5111 0.3524 0.2752 0.3855 0.3378 0.3136 0.4221 0.3739 0.1212 1.3272e-01 0.1151 0.1655 0.1232 0.1277 -0.2266 H3K4me1_Trynka.bed NaN 0.0990 0.1705 6.4114e-02 0.1658 7.5115e-02 0.0997 0.2869 0.4572 0.2747 0.3356 0.4568 0.0559 1.0783e-01 0.2372 0.3137 0.2639 0.4121 0.4763 0.4791 0.4828 0.4885 0.5111 1.0000 0.6831 0.1964 0.3592 0.4303 0.2271 0.4160 0.4998 0.2033 2.2178e-01 0.0902 0.1569 0.1488 0.1591 -0.3224 H3K4me1_Trynka.extend.500.bed NaN 0.0835 0.1626 5.2344e-02 0.1567 6.8399e-02 0.1069 0.2137 0.4437 0.2023 0.2491 0.4403 0.0394 7.8560e-02 0.1692 0.2508 0.1933 0.3567 0.4454 0.4688 0.4067 0.4395 0.3524 0.6831 1.0000 0.1342 0.2524 0.3451 0.1611 0.3034 0.4241 0.2142 2.2983e-01 0.0643 0.1302 0.1328 0.1417 -0.2941 H3K4me3_peaks_Trynka.bed NaN 0.0732 0.1162 4.1472e-02 0.0797 4.7276e-02 0.0521 0.1928 0.1516 0.2248 0.2446 0.1497 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0.1611 0.3695 0.3541 0.2740 1.0000 0.5247 0.3632 0.0760 9.5852e-02 0.0639 0.1275 0.1620 0.1634 -0.1529 H3K9ac_Trynka.bed NaN 0.1220 0.2161 4.9214e-02 0.1313 8.5388e-02 0.1127 0.2683 0.3031 0.2588 0.2955 0.2790 0.0773 1.3694e-01 0.3081 0.3561 0.2760 0.3121 0.3685 0.3556 0.4483 0.4125 0.4221 0.4160 0.3034 0.3488 0.5646 0.4984 0.5247 1.0000 0.6859 0.1389 1.7018e-01 0.1306 0.2232 0.2576 0.2649 -0.2693 H3K9ac_Trynka.extend.500.bed NaN 0.1222 0.2341 3.5139e-02 0.1204 9.1826e-02 0.1398 0.2444 0.3653 0.2167 0.2502 0.3221 0.0679 1.2383e-01 0.2655 0.3700 0.2264 0.3281 0.4534 0.4529 0.5060 0.4988 0.3739 0.4998 0.4241 0.2616 0.4822 0.5710 0.3632 0.6859 1.0000 0.1785 2.0657e-01 0.1162 0.2237 0.2430 0.2564 -0.3303 Intron_UCSC.bed NaN -0.0973 0.1724 -2.0317e-02 0.1323 -4.3055e-03 0.0030 0.0490 0.1109 0.0369 0.0456 0.0962 0.0195 3.2121e-02 0.0263 0.0374 0.0332 0.0702 0.2064 0.2085 0.1706 0.1864 0.1212 0.2033 0.2142 0.0414 0.0882 0.1073 0.0760 0.1389 0.1785 1.0000 9.6828e-01 0.0283 0.0207 0.0687 0.0779 -0.2299 Intron_UCSC.extend.500.bed NaN 0.0621 0.2628 3.9936e-02 0.1625 8.6297e-05 0.0090 0.0698 0.1275 0.0529 0.0627 0.1065 0.0171 2.7914e-02 0.0358 0.0512 0.0509 0.0798 0.2205 0.2223 0.1858 0.2019 0.1327 0.2218 0.2298 0.0630 0.1216 0.1324 0.0959 0.1702 0.2066 0.9683 1.0000e+00 0.0291 0.0294 0.1172 0.1247 -0.2473 PromoterFlanking_Hoffman.bed NaN 0.0020 0.0095 2.5442e-03 0.0175 -6.1506e-03 0.0044 0.0468 0.0631 0.0248 0.0261 0.0398 0.0138 2.6749e-02 0.0450 0.0977 0.0218 0.0445 0.0619 0.0627 0.0988 0.0961 0.1151 0.0902 0.0643 0.0748 0.1531 0.1225 0.0639 0.1306 0.1162 0.0283 2.9107e-02 1.0000 0.4787 0.1364 0.1461 -0.0747 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0151 0.0458 1.9834e-03 0.0258 1.9927e-02 0.0364 0.0859 0.1257 0.0721 0.0769 0.0939 0.0266 4.7479e-02 0.1444 0.2396 0.0788 0.1060 0.1277 0.1294 0.1918 0.1878 0.1655 0.1569 0.1302 0.1459 0.2537 0.2361 0.1275 0.2232 0.2237 0.0207 2.9391e-02 0.4787 1.0000 0.2502 0.2587 -0.1339 Promoter_UCSC.bed NaN 0.1335 0.2701 3.3245e-02 0.0788 1.6023e-02 0.0349 0.1114 0.1252 0.0831 0.0909 0.0842 0.0088 1.4748e-02 0.1172 0.1852 0.1034 0.1052 0.1356 0.1349 0.1911 0.1901 0.1232 0.1488 0.1328 0.1752 0.2884 0.2420 0.1620 0.2576 0.2430 0.0687 1.1722e-01 0.1364 0.2502 1.0000 0.8984 -0.1399 Promoter_UCSC.extend.500.bed NaN 0.1354 0.2673 3.1347e-02 0.0739 1.9551e-02 0.0390 0.1132 0.1305 0.0753 0.0820 0.0779 0.0101 1.6239e-02 0.1156 0.1834 0.0920 0.0949 0.1491 0.1489 0.1969 0.2015 0.1277 0.1591 0.1417 0.1724 0.2964 0.2540 0.1634 0.2649 0.2564 0.0779 1.2471e-01 0.1461 0.2587 0.8984 1.0000 -0.1509 Repressed_Hoffman.bed NaN -0.0916 -0.1792 -1.2331e-03 -0.0481 -1.3584e-01 -0.1294 -0.1823 -0.2667 -0.1318 -0.1552 -0.1895 -0.0359 -6.6309e-02 -0.1877 -0.2634 -0.1163 -0.1564 -0.3106 -0.3104 -0.3097 -0.3262 -0.2266 -0.3224 -0.2941 -0.1371 -0.2440 -0.2803 -0.1529 -0.2693 -0.3303 -0.2299 -2.4726e-01 -0.0747 -0.1339 -0.1399 -0.1509 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1449 -0.2866 -9.8298e-03 -0.0692 -7.5138e-02 -0.1088 -0.2171 -0.3112 -0.1479 -0.1726 -0.2180 -0.0543 -9.9075e-02 -0.2820 -0.3723 -0.1410 -0.1948 -0.4344 -0.4315 -0.4400 -0.4572 -0.2847 -0.4122 -0.3727 -0.1922 -0.3457 -0.3928 -0.2232 -0.3881 -0.4689 -0.3222 -3.4941e-01 -0.0940 -0.1719 -0.2164 -0.2329 0.6001 SuperEnhancer_Hnisz.bed NaN 0.0413 0.0853 -2.0669e-03 0.0259 3.5003e-02 0.0667 0.1757 0.2433 0.1185 0.1357 0.1828 0.0682 1.2430e-01 0.2088 0.2726 0.1241 0.1893 0.5603 0.5248 0.4154 0.4187 0.2530 0.3340 0.2895 0.1545 0.2674 0.2968 0.1957 0.3336 0.3726 0.1701 1.7757e-01 0.0453 0.0923 0.1118 0.1229 -0.2452 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0425 0.0876 -2.3737e-03 0.0257 3.6193e-02 0.0688 0.1757 0.2443 0.1177 0.1346 0.1832 0.0677 1.2447e-01 0.2090 0.2753 0.1231 0.1891 0.5604 0.5313 0.4185 0.4237 0.2523 0.3359 0.2933 0.1539 0.2692 0.3004 0.1952 0.3349 0.3769 0.1699 1.7764e-01 0.0476 0.0968 0.1158 0.1276 -0.2477 TFBS_ENCODE.bed NaN 0.0892 0.1347 4.5797e-02 0.0982 2.3773e-01 0.1799 0.3769 0.2989 0.3595 0.4132 0.2839 0.0994 1.2652e-01 0.3337 0.3385 0.3297 0.2794 0.2499 0.2405 0.2926 0.2677 0.3025 0.2923 0.2213 0.2625 0.3477 0.2963 0.2422 0.3305 0.2978 0.0375 6.1984e-02 0.0511 0.1317 0.1717 0.1680 -0.2272 TFBS_ENCODE.extend.500.bed NaN 0.0719 0.1267 2.5091e-02 0.1022 1.7773e-01 0.2690 0.2484 0.4299 0.2261 0.2728 0.4088 0.0597 1.1462e-01 0.2768 0.3716 0.2075 0.3351 0.3243 0.3245 0.3555 0.3421 0.2845 0.3687 0.3324 0.1843 0.3077 0.3449 0.1911 0.3191 0.3567 0.0629 8.0402e-02 0.0722 0.1534 0.1510 0.1521 -0.2671 Transcribed_Hoffman.bed NaN 0.0748 0.1455 -2.3158e-03 0.0232 -4.5821e-02 -0.0153 0.0166 0.0624 -0.0276 -0.0260 0.0072 -0.0053 -7.4235e-03 -0.0270 -0.0183 -0.0393 -0.0240 0.1436 0.1426 0.0912 0.1156 0.0528 0.1281 0.1299 -0.0105 0.0393 0.0761 0.0247 0.0717 0.1223 0.2904 2.9456e-01 -0.0083 -0.0308 -0.0035 0.0117 -0.6888 Transcribed_Hoffman.extend.500.bed NaN -0.0046 -0.0121 -4.8143e-03 -0.0055 -3.9705e-02 -0.0372 -0.0711 -0.0482 -0.0834 -0.0902 -0.0675 -0.0252 -3.9662e-02 -0.1006 -0.1093 -0.0949 -0.0934 -0.0361 -0.0341 -0.0716 -0.0592 -0.0532 -0.0347 -0.0143 -0.1095 -0.1141 -0.0864 -0.0765 -0.0930 -0.0699 0.1398 1.2695e-01 -0.0200 -0.0710 -0.1166 -0.1057 -0.1171 TSS_Hoffman.bed NaN 0.0828 0.1551 3.1102e-02 0.0833 3.0015e-02 0.0381 0.2126 0.1497 0.2189 0.2340 0.1527 0.0976 1.3251e-01 0.1971 0.2805 0.2587 0.2075 0.1712 0.1604 0.2553 0.2186 0.2136 0.1717 0.1253 0.3214 0.3427 0.2467 0.2780 0.3259 0.2470 0.0359 7.1365e-02 0.0812 0.2340 0.3302 0.3108 -0.1353 TSS_Hoffman.extend.500.bed NaN 0.0726 0.1387 1.9885e-02 0.0747 5.5700e-02 0.0761 0.1925 0.1980 0.1854 0.2017 0.1902 0.0835 1.4083e-01 0.3143 0.4275 0.2171 0.2443 0.2304 0.2206 0.3311 0.2948 0.2457 0.2300 0.1735 0.2910 0.3990 0.3248 0.2688 0.3775 0.3259 0.0403 6.9980e-02 0.1902 0.3598 0.3630 0.3524 -0.1881 UTR_3_UCSC.bed NaN 0.5837 0.3045 6.3498e-02 0.0745 1.3480e-02 0.0197 0.0482 0.0619 0.0249 0.0281 0.0371 -0.0089 -1.8298e-02 0.0170 0.0265 0.0200 0.0240 0.0659 0.0671 0.0588 0.0626 0.0439 0.0792 0.0654 0.0361 0.0847 0.0799 0.0460 0.0884 0.0969 -0.0446 1.1584e-02 0.0036 0.0119 0.0954 0.1041 -0.0748 UTR_3_UCSC.extend.500.bed NaN 0.4490 0.4540 6.5731e-02 0.1230 2.1985e-02 0.0328 0.0681 0.0890 0.0359 0.0411 0.0490 -0.0112 -2.1909e-02 0.0313 0.0449 0.0323 0.0358 0.0987 0.1001 0.0827 0.0916 0.0590 0.1089 0.0923 0.0630 0.1326 0.1259 0.0711 0.1343 0.1467 0.0084 6.7164e-02 0.0085 0.0265 0.1844 0.1884 -0.1094 UTR_5_UCSC.bed NaN 0.3231 0.1853 8.3765e-02 0.0645 1.4145e-02 0.0185 0.0543 0.0493 0.0475 0.0552 0.0339 -0.0058 -1.1009e-02 0.0302 0.0425 0.0615 0.0387 0.0486 0.0459 0.0559 0.0529 0.0333 0.0546 0.0448 0.0724 0.0914 0.0691 0.0688 0.0930 0.0802 -0.0156 6.4825e-02 0.0016 0.0285 0.2043 0.1933 -0.0464 UTR_5_UCSC.extend.500.bed NaN 0.1927 0.4741 6.6020e-02 0.1530 1.6602e-02 0.0332 0.0895 0.0973 0.0844 0.0925 0.0692 -0.0124 -1.7297e-02 0.0707 0.0963 0.1077 0.0795 0.0951 0.0923 0.1222 0.1163 0.0746 0.1109 0.0988 0.1484 0.1887 0.1481 0.1385 0.1899 0.1692 0.0902 1.5926e-01 0.0221 0.0865 0.4206 0.3937 -0.1054 WeakEnhancer_Hoffman.bed NaN 0.0086 0.0082 9.6430e-03 0.0390 3.6610e-02 0.0648 0.1800 0.1394 0.1829 0.2034 0.1427 0.0568 7.2025e-02 0.1280 0.1815 0.1580 0.1420 0.1201 0.1141 0.1536 0.1408 0.2231 0.1711 0.1200 0.1265 0.1743 0.1537 0.1380 0.1844 0.1672 0.0114 1.2633e-02 0.0191 0.0647 0.0263 0.0265 -0.1350 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0110 0.0103 3.5903e-03 0.0456 8.6065e-02 0.1278 0.1728 0.2633 0.1731 0.2035 0.2634 0.0559 1.1163e-01 0.2368 0.3428 0.1636 0.2472 0.2248 0.2232 0.2719 0.2642 0.2686 0.2930 0.2420 0.1330 0.2321 0.2701 0.1602 0.2578 0.2958 0.0189 2.0556e-02 0.0583 0.1332 0.0541 0.0603 -0.2243 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 -0.1449 0.0413 0.0425 0.0892 0.0719 0.0748 -0.0046 0.0828 0.0726 0.5837 0.4490 0.3231 0.1927 0.0086 0.0110 Coding_UCSC.extend.500.bed -0.2866 0.0853 0.0876 0.1347 0.1267 0.1455 -0.0121 0.1551 0.1387 0.3045 0.4540 0.1853 0.4741 0.0082 0.0103 Conserved_LindbladToh.bed -0.0098 -0.0021 -0.0024 0.0458 0.0251 -0.0023 -0.0048 0.0311 0.0199 0.0635 0.0657 0.0838 0.0660 0.0096 0.0036 Conserved_LindbladToh.extend.500.bed -0.0692 0.0259 0.0257 0.0982 0.1022 0.0232 -0.0055 0.0833 0.0747 0.0745 0.1230 0.0645 0.1530 0.0390 0.0456 CTCF_Hoffman.bed -0.0751 0.0350 0.0362 0.2377 0.1777 -0.0458 -0.0397 0.0300 0.0557 0.0135 0.0220 0.0141 0.0166 0.0366 0.0861 CTCF_Hoffman.extend.500.bed -0.1088 0.0667 0.0688 0.1799 0.2690 -0.0153 -0.0372 0.0381 0.0761 0.0197 0.0328 0.0185 0.0332 0.0648 0.1278 DGF_ENCODE.bed -0.2171 0.1757 0.1757 0.3769 0.2484 0.0166 -0.0711 0.2126 0.1925 0.0482 0.0681 0.0543 0.0895 0.1800 0.1728 DGF_ENCODE.extend.500.bed -0.3112 0.2433 0.2443 0.2989 0.4299 0.0624 -0.0482 0.1497 0.1980 0.0619 0.0890 0.0493 0.0973 0.1394 0.2633 DHS_peaks_Trynka.bed -0.1479 0.1185 0.1177 0.3595 0.2261 -0.0276 -0.0834 0.2189 0.1854 0.0249 0.0359 0.0475 0.0844 0.1829 0.1731 DHS_Trynka.bed -0.1726 0.1357 0.1346 0.4132 0.2728 -0.0260 -0.0902 0.2340 0.2017 0.0281 0.0411 0.0552 0.0925 0.2034 0.2035 DHS_Trynka.extend.500.bed -0.2180 0.1828 0.1832 0.2839 0.4088 0.0072 -0.0675 0.1527 0.1902 0.0371 0.0490 0.0339 0.0692 0.1427 0.2634 Enhancer_Andersson.bed -0.0543 0.0682 0.0677 0.0994 0.0597 -0.0053 -0.0252 0.0976 0.0835 -0.0089 -0.0112 -0.0058 -0.0124 0.0568 0.0559 Enhancer_Andersson.extend.500.bed -0.0991 0.1243 0.1245 0.1265 0.1146 -0.0074 -0.0397 0.1325 0.1408 -0.0183 -0.0219 -0.0110 -0.0173 0.0720 0.1116 Enhancer_Hoffman.bed -0.2820 0.2088 0.2090 0.3337 0.2768 -0.0270 -0.1006 0.1971 0.3143 0.0170 0.0313 0.0302 0.0707 0.1280 0.2368 Enhancer_Hoffman.extend.500.bed -0.3723 0.2726 0.2753 0.3385 0.3716 -0.0183 -0.1093 0.2805 0.4275 0.0265 0.0449 0.0425 0.0963 0.1815 0.3428 FetalDHS_Trynka.bed -0.1410 0.1241 0.1231 0.3297 0.2075 -0.0393 -0.0949 0.2587 0.2171 0.0200 0.0323 0.0615 0.1077 0.1580 0.1636 FetalDHS_Trynka.extend.500.bed -0.1948 0.1893 0.1891 0.2794 0.3351 -0.0240 -0.0934 0.2075 0.2443 0.0240 0.0358 0.0387 0.0795 0.1420 0.2472 H3K27ac_Hnisz.bed -0.4344 0.5603 0.5604 0.2499 0.3243 0.1436 -0.0361 0.1712 0.2304 0.0659 0.0987 0.0486 0.0951 0.1201 0.2248 H3K27ac_Hnisz.extend.500.bed -0.4315 0.5248 0.5313 0.2405 0.3245 0.1426 -0.0341 0.1604 0.2206 0.0671 0.1001 0.0459 0.0923 0.1141 0.2232 H3K27ac_PGC2.bed -0.4400 0.4154 0.4185 0.2926 0.3555 0.0912 -0.0716 0.2553 0.3311 0.0588 0.0827 0.0559 0.1222 0.1536 0.2719 H3K27ac_PGC2.extend.500.bed -0.4572 0.4187 0.4237 0.2677 0.3421 0.1156 -0.0592 0.2186 0.2948 0.0626 0.0916 0.0529 0.1163 0.1408 0.2642 H3K4me1_peaks_Trynka.bed -0.2847 0.2530 0.2523 0.3025 0.2845 0.0528 -0.0532 0.2136 0.2457 0.0439 0.0590 0.0333 0.0746 0.2231 0.2686 H3K4me1_Trynka.bed -0.4122 0.3340 0.3359 0.2923 0.3687 0.1281 -0.0347 0.1717 0.2300 0.0792 0.1089 0.0546 0.1109 0.1711 0.2930 H3K4me1_Trynka.extend.500.bed -0.3727 0.2895 0.2933 0.2213 0.3324 0.1299 -0.0143 0.1253 0.1735 0.0654 0.0923 0.0448 0.0988 0.1200 0.2420 H3K4me3_peaks_Trynka.bed -0.1922 0.1545 0.1539 0.2625 0.1843 -0.0105 -0.1095 0.3214 0.2910 0.0361 0.0630 0.0724 0.1484 0.1265 0.1330 H3K4me3_Trynka.bed -0.3457 0.2674 0.2692 0.3477 0.3077 0.0393 -0.1141 0.3427 0.3990 0.0847 0.1326 0.0914 0.1887 0.1743 0.2321 H3K4me3_Trynka.extend.500.bed -0.3928 0.2968 0.3004 0.2963 0.3449 0.0761 -0.0864 0.2467 0.3248 0.0799 0.1259 0.0691 0.1481 0.1537 0.2701 H3K9ac_peaks_Trynka.bed -0.2232 0.1957 0.1952 0.2422 0.1911 0.0247 -0.0765 0.2780 0.2688 0.0460 0.0711 0.0688 0.1385 0.1380 0.1602 H3K9ac_Trynka.bed -0.3881 0.3336 0.3349 0.3305 0.3191 0.0717 -0.0930 0.3259 0.3775 0.0884 0.1343 0.0930 0.1899 0.1844 0.2578 H3K9ac_Trynka.extend.500.bed -0.4689 0.3726 0.3769 0.2978 0.3567 0.1223 -0.0699 0.2470 0.3259 0.0969 0.1467 0.0802 0.1692 0.1672 0.2958 Intron_UCSC.bed -0.3222 0.1701 0.1699 0.0375 0.0629 0.2904 0.1398 0.0359 0.0403 -0.0446 0.0084 -0.0156 0.0902 0.0114 0.0189 Intron_UCSC.extend.500.bed -0.3494 0.1776 0.1776 0.0620 0.0804 0.2946 0.1269 0.0714 0.0700 0.0116 0.0672 0.0648 0.1593 0.0126 0.0206 PromoterFlanking_Hoffman.bed -0.0940 0.0453 0.0476 0.0511 0.0722 -0.0083 -0.0200 0.0812 0.1902 0.0036 0.0085 0.0016 0.0221 0.0191 0.0583 PromoterFlanking_Hoffman.extend.500.bed -0.1719 0.0923 0.0968 0.1317 0.1534 -0.0308 -0.0710 0.2340 0.3598 0.0119 0.0265 0.0285 0.0865 0.0647 0.1332 Promoter_UCSC.bed -0.2164 0.1118 0.1158 0.1717 0.1510 -0.0035 -0.1166 0.3302 0.3630 0.0954 0.1844 0.2043 0.4206 0.0263 0.0541 Promoter_UCSC.extend.500.bed -0.2329 0.1229 0.1276 0.1680 0.1521 0.0117 -0.1057 0.3108 0.3524 0.1041 0.1884 0.1933 0.3937 0.0265 0.0603 Repressed_Hoffman.bed 0.6001 -0.2452 -0.2477 -0.2272 -0.2671 -0.6888 -0.1171 -0.1353 -0.1881 -0.0748 -0.1094 -0.0464 -0.1054 -0.1350 -0.2243 Repressed_Hoffman.extend.500.bed 1.0000 -0.3638 -0.3672 -0.2775 -0.3197 -0.3892 -0.0150 -0.2231 -0.2933 -0.1194 -0.1742 -0.0749 -0.1664 -0.1538 -0.2542 SuperEnhancer_Hnisz.bed -0.3638 1.0000 0.9879 0.2052 0.2388 0.1233 -0.0324 0.1783 0.2282 0.0395 0.0660 0.0410 0.0743 0.1087 0.1856 SuperEnhancer_Hnisz.extend.500.bed -0.3672 0.9879 1.0000 0.2053 0.2408 0.1240 -0.0329 0.1786 0.2306 0.0414 0.0683 0.0416 0.0752 0.1082 0.1860 TFBS_ENCODE.bed -0.2775 0.2052 0.2053 1.0000 0.5400 -0.0074 -0.1033 0.3436 0.3383 0.0610 0.0907 0.0671 0.1323 0.2041 0.2419 TFBS_ENCODE.extend.500.bed -0.3197 0.2388 0.2408 0.5400 1.0000 0.0296 -0.0709 0.2166 0.2862 0.0580 0.0860 0.0509 0.1039 0.1626 0.3033 Transcribed_Hoffman.bed -0.3892 0.1233 0.1240 -0.0074 0.0296 1.0000 0.3714 -0.0653 -0.0476 0.0790 0.1004 0.0132 0.0297 -0.0156 -0.0216 Transcribed_Hoffman.extend.500.bed -0.0150 -0.0324 -0.0329 -0.1033 -0.0709 0.3714 1.0000 -0.1686 -0.1480 0.0201 0.0132 -0.0359 -0.0728 -0.0469 -0.0704 TSS_Hoffman.bed -0.2231 0.1783 0.1786 0.3436 0.2166 -0.0653 -0.1686 1.0000 0.7121 0.0288 0.0658 0.1221 0.2422 0.0699 0.1032 TSS_Hoffman.extend.500.bed -0.2933 0.2282 0.2306 0.3383 0.2862 -0.0476 -0.1480 0.7121 1.0000 0.0326 0.0676 0.1009 0.2197 0.1025 0.1880 UTR_3_UCSC.bed -0.1194 0.0395 0.0414 0.0610 0.0580 0.0790 0.0201 0.0288 0.0326 1.0000 0.6566 0.1111 0.0714 0.0069 0.0125 UTR_3_UCSC.extend.500.bed -0.1742 0.0660 0.0683 0.0907 0.0860 0.1004 0.0132 0.0658 0.0676 0.6566 1.0000 0.1013 0.1425 0.0092 0.0174 UTR_5_UCSC.bed -0.0749 0.0410 0.0416 0.0671 0.0509 0.0132 -0.0359 0.1221 0.1009 0.1111 0.1013 1.0000 0.4436 0.0061 0.0082 UTR_5_UCSC.extend.500.bed -0.1664 0.0743 0.0752 0.1323 0.1039 0.0297 -0.0728 0.2422 0.2197 0.0714 0.1425 0.4436 1.0000 0.0113 0.0181 WeakEnhancer_Hoffman.bed -0.1538 0.1087 0.1082 0.2041 0.1626 -0.0156 -0.0469 0.0699 0.1025 0.0069 0.0092 0.0061 0.0113 1.0000 0.4754 WeakEnhancer_Hoffman.extend.500.bed -0.2542 0.1856 0.1860 0.2419 0.3033 -0.0216 -0.0704 0.1032 0.1880 0.0125 0.0174 0.0082 0.0181 0.4754 1.0000 Annotation Matrix Column Sums base 316981.0 Coding_UCSC.bed 6942.0 Coding_UCSC.extend.500.bed 28588.0 Conserved_LindbladToh.bed 10936.0 Conserved_LindbladToh.extend.500.bed 117519.0 CTCF_Hoffman.bed 9970.0 CTCF_Hoffman.extend.500.bed 28966.0 DGF_ENCODE.bed 49436.0 DGF_ENCODE.extend.500.bed 184575.0 DHS_peaks_Trynka.bed 37473.0 DHS_Trynka.bed 56190.0 DHS_Trynka.extend.500.bed 167700.0 Enhancer_Andersson.bed 1609.0 Enhancer_Andersson.extend.500.bed 7363.0 Enhancer_Hoffman.bed 18397.0 Enhancer_Hoffman.extend.500.bed 39450.0 FetalDHS_Trynka.bed 30147.0 FetalDHS_Trynka.extend.500.bed 101173.0 H3K27ac_Hnisz.bed 142038.0 H3K27ac_Hnisz.extend.500.bed 152339.0 H3K27ac_PGC2.bed 100554.0 H3K27ac_PGC2.extend.500.bed 124183.0 H3K4me1_peaks_Trynka.bed 62395.0 H3K4me1_Trynka.bed 151969.0 H3K4me1_Trynka.extend.500.bed 210384.0 H3K4me3_peaks_Trynka.bed 16355.0 H3K4me3_Trynka.bed 53687.0 H3K4me3_Trynka.extend.500.bed 98126.0 H3K9ac_peaks_Trynka.bed 17246.0 H3K9ac_Trynka.bed 53967.0 H3K9ac_Trynka.extend.500.bed 96265.0 Intron_UCSC.bed 137668.0 Intron_UCSC.extend.500.bed 142709.0 PromoterFlanking_Hoffman.bed 3061.0 PromoterFlanking_Hoffman.extend.500.bed 12936.0 Promoter_UCSC.bed 20560.0 Promoter_UCSC.extend.500.bed 25085.0 Repressed_Hoffman.bed 115341.0 Repressed_Hoffman.extend.500.bed 194516.0 SuperEnhancer_Hnisz.bed 64379.0 SuperEnhancer_Hnisz.extend.500.bed 65641.0 TFBS_ENCODE.bed 51189.0 TFBS_ENCODE.extend.500.bed 126072.0 Transcribed_Hoffman.bed 144976.0 Transcribed_Hoffman.extend.500.bed 272397.0 TSS_Hoffman.bed 9829.0 TSS_Hoffman.extend.500.bed 18816.0 UTR_3_UCSC.bed 4897.0 UTR_3_UCSC.extend.500.bed 11131.0 UTR_5_UCSC.bed 2459.0 UTR_5_UCSC.extend.500.bed 12111.0 WeakEnhancer_Hoffman.bed 9783.0 WeakEnhancer_Hoffman.extend.500.bed 39149.0 Summary of Annotation Matrix Row Sums count 316981.0000 mean 12.5485 std 7.2159 min 1.0000 25% 7.0000 50% 11.0000 75% 17.0000 max 42.0000 Analysis finished at Tue Oct 17 17:19:50 2017 Total time elapsed: 38.0m:34.58s