********************************************************************* * 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.17.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.17 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.17 \ --annot 1000G_Phase3_baseline_v1.1/baseline.17.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 269222 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.17.bim Read 53 annotations for 269222 SNPs from 1000G_Phase3_baseline_v1.1/baseline.17.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.17.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.17.bed Estimating LD Score. Reading list of 38396 SNPs for which to print LD Scores from hapmap3_snps/hm.17.snp After merging with --print-snps, LD Scores for 32315 SNPs will be printed. Writing LD Scores for 32315 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.17.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.17.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 0.2414 115.9849 3.6307 15.2287 3.7298 44.8759 3.8929 11.6232 20.7091 73.6798 14.6121 21.5289 63.4101 0.6999 3.0904 7.9989 17.0979 11.2794 36.3749 64.9101 68.7741 44.4917 54.4329 27.7646 64.0742 84.6648 7.2639 22.4576 40.7709 8.7946 26.3128 45.9339 67.8053 70.0683 1.6369 6.3355 10.7753 std 0.1449 225.9956 7.2357 25.4366 7.2088 103.3009 9.6776 31.6944 47.4372 162.9543 28.8209 41.3877 135.2157 1.4899 5.6830 17.0251 34.2557 20.9358 72.0342 162.5104 169.1172 104.9058 128.2531 68.9057 140.2575 175.4437 14.4395 42.1935 79.5255 21.0287 63.4915 110.5714 190.2957 192.5789 3.3019 12.6233 20.9733 min 0.0051 -1.5134 -0.4638 -0.6562 -0.1856 -0.9512 -0.2230 -0.4486 -0.3689 -0.7360 -0.3138 -0.4219 -0.7001 -0.0626 -0.1920 -0.2149 -0.9099 -0.2733 -0.6088 -1.1547 -1.1393 -0.7842 -0.7625 -0.4837 -0.6949 -0.6555 -0.2023 -1.0514 -1.1941 -0.4792 -0.4798 -0.5951 -1.2363 -1.1428 -0.1044 -0.3532 -0.5555 25% 0.1135 37.5252 0.0984 0.6267 0.4881 11.0565 0.7554 2.6428 5.5731 23.1690 4.5991 7.0694 21.4770 0.0349 0.3176 0.9458 2.4316 3.5072 12.4319 14.9967 16.9036 9.9097 12.8015 6.8559 17.8335 25.8723 1.2920 4.1246 9.5314 1.0459 3.7881 8.2009 7.5599 8.1464 0.0588 0.4159 0.4505 50% 0.2352 68.6813 1.2459 6.1324 1.7572 24.2081 1.9933 6.0604 11.1491 42.2237 8.7059 12.9738 37.8284 0.2090 1.4163 3.9579 8.8006 6.7025 22.3172 34.3160 36.8518 23.5542 29.0072 14.3133 34.9140 47.7469 3.4973 11.2104 21.9962 3.5219 11.3408 21.4670 29.5683 31.3400 0.4452 2.5006 4.0732 75% 0.3671 128.2484 4.5166 19.7197 4.3102 49.9810 4.2190 12.1200 22.9106 79.7855 16.5730 24.2837 69.9910 0.7993 3.6550 9.7223 20.4573 13.0199 41.3041 71.2913 75.8748 49.7929 60.1089 30.1509 70.2949 93.8426 8.7008 27.0862 47.8013 10.0317 29.8104 50.7948 69.2418 72.0930 1.9202 7.5868 13.3405 max 0.5000 2997.7465 78.4515 250.9854 80.7387 1379.7443 129.2399 434.9554 642.5698 2220.3791 385.2614 552.4456 1844.7152 16.0690 63.3050 218.7427 434.2041 275.0244 974.8966 2218.3196 2307.7516 1415.6324 1733.7825 941.2906 1889.1533 2353.0348 181.9563 520.3985 1022.7726 272.0136 833.8087 1469.7053 2539.8090 2566.5317 34.2131 144.0116 232.8071 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 13.1635 33.7477 56.8748 31.2374 31.8350 21.5462 51.8978 61.2566 98.2002 4.6722 8.6760 2.6802 6.0285 1.2138 6.1985 3.7226 15.8223 std 26.0764 74.2641 118.8462 84.4724 85.6771 44.5726 117.1262 115.1070 180.0566 9.9697 18.8920 5.7879 11.8536 2.6461 12.3638 7.9831 34.6875 min -0.6938 -1.0275 -1.0088 -0.7146 -0.7267 -0.3025 -0.7533 -1.1354 -1.4290 -0.3059 -0.6159 -0.1918 -0.4613 -0.1475 -0.4188 -0.2215 -0.6199 25% 0.5557 6.2561 13.6268 1.3877 1.4417 5.4150 15.1282 13.2374 29.9479 0.1155 0.3935 0.0574 0.1814 0.0239 0.1924 0.5857 3.3456 50% 5.0884 16.8376 31.1487 11.4510 11.7666 11.5272 28.9667 29.3198 56.4855 1.3442 2.9508 0.7461 1.9368 0.2442 2.0011 1.9395 8.5144 75% 16.3431 36.3257 60.6111 35.8119 36.4808 24.3321 57.0873 69.4527 110.9978 5.5697 10.2673 3.1959 7.4573 1.3418 7.6096 4.4602 18.4704 max 294.3983 925.6159 1493.0559 1118.1928 1133.6167 586.4902 1589.2559 1406.3093 2320.1753 114.6651 227.5899 64.3987 124.1143 29.0772 140.3174 103.8750 458.3758 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 0.1015 0.0974 0.1318 0.0823 0.0766 0.0753 0.0700 0.0852 0.0895 0.0999 0.1042 0.0954 0.0796 0.1095 0.0877 0.0983 0.1025 0.1000 0.0765 0.0780 0.0812 0.0818 0.0759 0.0910 0.0970 0.0930 0.1054 0.1037 0.0790 0.0792 0.0800 0.0836 0.0849 0.1031 0.0888 baseL2 0.1015 1.0000 0.8371 0.8133 0.8365 0.9483 0.9512 0.9624 0.9689 0.9842 0.9665 0.9715 0.9830 0.7743 0.8365 0.9226 0.9274 0.9538 0.9688 0.9644 0.9677 0.9607 0.9647 0.9620 0.9688 0.9793 0.9333 0.9218 0.9517 0.9260 0.9361 0.9501 0.9670 0.9678 0.8220 0.8780 Coding_UCSC.bedL2 0.0974 0.8371 1.0000 0.9422 0.8049 0.8294 0.8363 0.8368 0.8570 0.8571 0.8525 0.8516 0.8428 0.6667 0.7256 0.8427 0.8500 0.8542 0.8465 0.8500 0.8530 0.8587 0.8594 0.8507 0.8659 0.8669 0.8624 0.8756 0.8725 0.8673 0.8736 0.8736 0.8169 0.8239 0.8170 0.8546 Coding_UCSC.extend.500.bedL2 0.1318 0.8133 0.9422 1.0000 0.7725 0.8021 0.8075 0.7978 0.8280 0.8275 0.8273 0.8284 0.8134 0.6505 0.7244 0.8319 0.8514 0.8342 0.8197 0.8226 0.8256 0.8329 0.8349 0.8189 0.8467 0.8505 0.8560 0.8738 0.8634 0.8550 0.8563 0.8561 0.8065 0.8142 0.8552 0.8703 Conserved_LindbladToh.bedL2 0.0823 0.8365 0.8049 0.7725 1.0000 0.9203 0.8335 0.8294 0.8292 0.8421 0.8428 0.8443 0.8439 0.6813 0.6915 0.8215 0.8208 0.8444 0.8419 0.8225 0.8249 0.8298 0.8293 0.8317 0.8414 0.8434 0.8259 0.8262 0.8326 0.8244 0.8333 0.8329 0.8123 0.8156 0.7405 0.7925 Conserved_LindbladToh.extend.500.bedL2 0.0766 0.9483 0.8294 0.8021 0.9203 1.0000 0.9415 0.9501 0.9477 0.9593 0.9510 0.9532 0.9635 0.7627 0.7904 0.9203 0.9171 0.9401 0.9542 0.9493 0.9507 0.9470 0.9486 0.9514 0.9548 0.9561 0.9097 0.9017 0.9261 0.9240 0.9350 0.9427 0.9437 0.9446 0.8059 0.8580 CTCF_Hoffman.bedL2 0.0753 0.9512 0.8363 0.8075 0.8335 0.9415 1.0000 0.9897 0.9710 0.9712 0.9619 0.9608 0.9653 0.7771 0.8246 0.9402 0.9399 0.9570 0.9640 0.9663 0.9670 0.9643 0.9654 0.9665 0.9656 0.9643 0.9409 0.9305 0.9532 0.9490 0.9556 0.9636 0.9430 0.9445 0.8201 0.8763 CTCF_Hoffman.extend.500.bedL2 0.0700 0.9624 0.8368 0.7978 0.8294 0.9501 0.9897 1.0000 0.9831 0.9838 0.9719 0.9706 0.9790 0.7861 0.8307 0.9493 0.9462 0.9648 0.9772 0.9809 0.9813 0.9775 0.9787 0.9813 0.9771 0.9747 0.9466 0.9352 0.9613 0.9591 0.9668 0.9746 0.9581 0.9589 0.8161 0.8765 DGF_ENCODE.bedL2 0.0852 0.9689 0.8570 0.8280 0.8292 0.9477 0.9710 0.9831 1.0000 0.9948 0.9929 0.9919 0.9908 0.8065 0.8629 0.9684 0.9682 0.9877 0.9924 0.9922 0.9928 0.9916 0.9924 0.9946 0.9937 0.9913 0.9713 0.9620 0.9801 0.9761 0.9829 0.9888 0.9723 0.9734 0.8388 0.8984 DGF_ENCODE.extend.500.bedL2 0.0895 0.9842 0.8571 0.8275 0.8421 0.9593 0.9712 0.9838 0.9948 1.0000 0.9904 0.9917 0.9971 0.7988 0.8547 0.9580 0.9594 0.9816 0.9924 0.9920 0.9935 0.9893 0.9915 0.9919 0.9940 0.9958 0.9601 0.9494 0.9734 0.9633 0.9725 0.9822 0.9805 0.9814 0.8350 0.8942 DHS_peaks_Trynka.bedL2 0.0999 0.9665 0.8525 0.8273 0.8428 0.9510 0.9619 0.9719 0.9929 0.9904 1.0000 0.9983 0.9918 0.8114 0.8599 0.9649 0.9650 0.9941 0.9943 0.9851 0.9861 0.9865 0.9869 0.9895 0.9909 0.9891 0.9647 0.9550 0.9732 0.9671 0.9744 0.9802 0.9694 0.9704 0.8301 0.8870 DHS_Trynka.bedL2 0.1042 0.9715 0.8516 0.8284 0.8443 0.9532 0.9608 0.9706 0.9919 0.9917 0.9983 1.0000 0.9941 0.8097 0.8611 0.9631 0.9644 0.9925 0.9945 0.9840 0.9852 0.9852 0.9859 0.9882 0.9907 0.9905 0.9632 0.9536 0.9728 0.9640 0.9718 0.9784 0.9729 0.9738 0.8316 0.8873 DHS_Trynka.extend.500.bedL2 0.0954 0.9830 0.8428 0.8134 0.8439 0.9635 0.9653 0.9790 0.9908 0.9971 0.9918 0.9941 1.0000 0.7991 0.8494 0.9531 0.9536 0.9814 0.9942 0.9871 0.9887 0.9849 0.9869 0.9893 0.9912 0.9933 0.9511 0.9404 0.9664 0.9561 0.9660 0.9756 0.9814 0.9819 0.8217 0.8790 Enhancer_Andersson.bedL2 0.0796 0.7743 0.6667 0.6505 0.6813 0.7627 0.7771 0.7861 0.8065 0.7988 0.8114 0.8097 0.7991 1.0000 0.9210 0.8184 0.8114 0.8164 0.8121 0.8028 0.8021 0.8087 0.8052 0.8036 0.8022 0.7945 0.8001 0.7873 0.7996 0.7894 0.7945 0.7956 0.7748 0.7752 0.6567 0.7085 Enhancer_Andersson.extend.500.bedL2 0.1095 0.8365 0.7256 0.7244 0.6915 0.7904 0.8246 0.8307 0.8629 0.8547 0.8599 0.8611 0.8494 0.9210 1.0000 0.8708 0.8698 0.8669 0.8599 0.8536 0.8534 0.8629 0.8599 0.8528 0.8568 0.8525 0.8738 0.8663 0.8735 0.8503 0.8527 0.8546 0.8295 0.8308 0.7292 0.7798 Enhancer_Hoffman.bedL2 0.0877 0.9226 0.8427 0.8319 0.8215 0.9203 0.9402 0.9493 0.9684 0.9580 0.9649 0.9631 0.9531 0.8184 0.8708 1.0000 0.9937 0.9690 0.9653 0.9665 0.9658 0.9735 0.9714 0.9707 0.9687 0.9605 0.9663 0.9614 0.9680 0.9718 0.9753 0.9747 0.9322 0.9340 0.8629 0.9129 Enhancer_Hoffman.extend.500.bedL2 0.0983 0.9274 0.8500 0.8514 0.8208 0.9171 0.9399 0.9462 0.9682 0.9594 0.9650 0.9644 0.9536 0.8114 0.8698 0.9937 1.0000 0.9705 0.9654 0.9670 0.9666 0.9743 0.9728 0.9696 0.9716 0.9655 0.9718 0.9676 0.9725 0.9743 0.9761 0.9771 0.9355 0.9376 0.8815 0.9303 FetalDHS_Trynka.bedL2 0.1025 0.9538 0.8542 0.8342 0.8444 0.9401 0.9570 0.9648 0.9877 0.9816 0.9941 0.9925 0.9814 0.8164 0.8669 0.9690 0.9705 1.0000 0.9917 0.9796 0.9801 0.9829 0.9825 0.9854 0.9867 0.9831 0.9714 0.9630 0.9756 0.9738 0.9784 0.9812 0.9582 0.9597 0.8410 0.8971 FetalDHS_Trynka.extend.500.bedL2 0.1000 0.9688 0.8465 0.8197 0.8419 0.9542 0.9640 0.9772 0.9924 0.9924 0.9943 0.9945 0.9942 0.8121 0.8599 0.9653 0.9654 0.9917 1.0000 0.9884 0.9892 0.9890 0.9897 0.9928 0.9930 0.9913 0.9609 0.9514 0.9725 0.9687 0.9764 0.9826 0.9728 0.9735 0.8293 0.8866 H3K27ac_Hnisz.bedL2 0.0765 0.9644 0.8500 0.8226 0.8225 0.9493 0.9663 0.9809 0.9922 0.9920 0.9851 0.9840 0.9871 0.8028 0.8536 0.9665 0.9670 0.9796 0.9884 1.0000 0.9998 0.9954 0.9967 0.9952 0.9944 0.9910 0.9609 0.9492 0.9709 0.9726 0.9803 0.9884 0.9716 0.9725 0.8391 0.8967 H3K27ac_Hnisz.extend.500.bedL2 0.0780 0.9677 0.8530 0.8256 0.8249 0.9507 0.9670 0.9813 0.9928 0.9935 0.9861 0.9852 0.9887 0.8021 0.8534 0.9658 0.9666 0.9801 0.9892 0.9998 1.0000 0.9952 0.9968 0.9953 0.9951 0.9926 0.9608 0.9492 0.9713 0.9716 0.9796 0.9882 0.9733 0.9742 0.8405 0.8982 H3K27ac_PGC2.bedL2 0.0812 0.9607 0.8587 0.8329 0.8298 0.9470 0.9643 0.9775 0.9916 0.9893 0.9865 0.9852 0.9849 0.8087 0.8629 0.9735 0.9743 0.9829 0.9890 0.9954 0.9952 1.0000 0.9994 0.9951 0.9943 0.9893 0.9700 0.9605 0.9788 0.9789 0.9857 0.9910 0.9665 0.9677 0.8485 0.9037 H3K27ac_PGC2.extend.500.bedL2 0.0818 0.9647 0.8594 0.8349 0.8293 0.9486 0.9654 0.9787 0.9924 0.9915 0.9869 0.9859 0.9869 0.8052 0.8599 0.9714 0.9728 0.9825 0.9897 0.9967 0.9968 0.9994 1.0000 0.9954 0.9957 0.9918 0.9682 0.9583 0.9780 0.9769 0.9841 0.9907 0.9698 0.9709 0.8499 0.9051 H3K4me1_peaks_Trynka.bedL2 0.0759 0.9620 0.8507 0.8189 0.8317 0.9514 0.9665 0.9813 0.9946 0.9919 0.9895 0.9882 0.9893 0.8036 0.8528 0.9707 0.9696 0.9854 0.9928 0.9952 0.9953 0.9951 0.9954 1.0000 0.9961 0.9914 0.9665 0.9552 0.9742 0.9780 0.9850 0.9905 0.9721 0.9729 0.8373 0.8944 H3K4me1_Trynka.bedL2 0.0910 0.9688 0.8659 0.8467 0.8414 0.9548 0.9656 0.9771 0.9937 0.9940 0.9909 0.9907 0.9912 0.8022 0.8568 0.9687 0.9716 0.9867 0.9930 0.9944 0.9951 0.9943 0.9957 0.9961 1.0000 0.9975 0.9685 0.9596 0.9780 0.9765 0.9840 0.9909 0.9745 0.9758 0.8528 0.9052 H3K4me1_Trynka.extend.500.bedL2 0.0970 0.9793 0.8669 0.8505 0.8434 0.9561 0.9643 0.9747 0.9913 0.9958 0.9891 0.9905 0.9933 0.7945 0.8525 0.9605 0.9655 0.9831 0.9913 0.9910 0.9926 0.9893 0.9918 0.9914 0.9975 1.0000 0.9620 0.9528 0.9732 0.9674 0.9757 0.9852 0.9794 0.9807 0.8546 0.9077 H3K4me3_peaks_Trynka.bedL2 0.0930 0.9333 0.8624 0.8560 0.8259 0.9097 0.9409 0.9466 0.9713 0.9601 0.9647 0.9632 0.9511 0.8001 0.8738 0.9663 0.9718 0.9714 0.9609 0.9609 0.9608 0.9700 0.9682 0.9665 0.9685 0.9620 1.0000 0.9901 0.9890 0.9811 0.9804 0.9782 0.9313 0.9340 0.8686 0.9216 H3K4me3_Trynka.bedL2 0.1054 0.9218 0.8756 0.8738 0.8262 0.9017 0.9305 0.9352 0.9620 0.9494 0.9550 0.9536 0.9404 0.7873 0.8663 0.9614 0.9676 0.9630 0.9514 0.9492 0.9492 0.9605 0.9583 0.9552 0.9596 0.9528 0.9901 1.0000 0.9924 0.9784 0.9792 0.9741 0.9179 0.9214 0.8723 0.9219 H3K4me3_Trynka.extend.500.bedL2 0.1037 0.9517 0.8725 0.8634 0.8326 0.9261 0.9532 0.9613 0.9801 0.9734 0.9732 0.9728 0.9664 0.7996 0.8735 0.9680 0.9725 0.9756 0.9725 0.9709 0.9713 0.9788 0.9780 0.9742 0.9780 0.9732 0.9890 0.9924 1.0000 0.9823 0.9854 0.9853 0.9423 0.9449 0.8661 0.9170 H3K9ac_peaks_Trynka.bedL2 0.0790 0.9260 0.8673 0.8550 0.8244 0.9240 0.9490 0.9591 0.9761 0.9633 0.9671 0.9640 0.9561 0.7894 0.8503 0.9718 0.9743 0.9738 0.9687 0.9726 0.9716 0.9789 0.9769 0.9780 0.9765 0.9674 0.9811 0.9784 0.9823 1.0000 0.9962 0.9925 0.9381 0.9404 0.8654 0.9161 H3K9ac_Trynka.bedL2 0.0792 0.9361 0.8736 0.8563 0.8333 0.9350 0.9556 0.9668 0.9829 0.9725 0.9744 0.9718 0.9660 0.7945 0.8527 0.9753 0.9761 0.9784 0.9764 0.9803 0.9796 0.9857 0.9841 0.9850 0.9840 0.9757 0.9804 0.9792 0.9854 0.9962 1.0000 0.9973 0.9475 0.9497 0.8613 0.9136 H3K9ac_Trynka.extend.500.bedL2 0.0800 0.9501 0.8736 0.8561 0.8329 0.9427 0.9636 0.9746 0.9888 0.9822 0.9802 0.9784 0.9756 0.7956 0.8546 0.9747 0.9771 0.9812 0.9826 0.9884 0.9882 0.9910 0.9907 0.9905 0.9909 0.9852 0.9782 0.9741 0.9853 0.9925 0.9973 1.0000 0.9595 0.9615 0.8651 0.9177 Intron_UCSC.bedL2 0.0836 0.9670 0.8169 0.8065 0.8123 0.9437 0.9430 0.9581 0.9723 0.9805 0.9694 0.9729 0.9814 0.7748 0.8295 0.9322 0.9355 0.9582 0.9728 0.9716 0.9733 0.9665 0.9698 0.9721 0.9745 0.9794 0.9313 0.9179 0.9423 0.9381 0.9475 0.9595 1.0000 0.9999 0.8160 0.8728 Intron_UCSC.extend.500.bedL2 0.0849 0.9678 0.8239 0.8142 0.8156 0.9446 0.9445 0.9589 0.9734 0.9814 0.9704 0.9738 0.9819 0.7752 0.8308 0.9340 0.9376 0.9597 0.9735 0.9725 0.9742 0.9677 0.9709 0.9729 0.9758 0.9807 0.9340 0.9214 0.9449 0.9404 0.9497 0.9615 0.9999 1.0000 0.8209 0.8771 PromoterFlanking_Hoffman.bedL2 0.1031 0.8220 0.8170 0.8552 0.7405 0.8059 0.8201 0.8161 0.8388 0.8350 0.8301 0.8316 0.8217 0.6567 0.7292 0.8629 0.8815 0.8410 0.8293 0.8391 0.8405 0.8485 0.8499 0.8373 0.8528 0.8546 0.8686 0.8723 0.8661 0.8654 0.8613 0.8651 0.8160 0.8209 1.0000 0.9639 PromoterFlanking_Hoffman.extend.500.bedL2 0.0888 0.8780 0.8546 0.8703 0.7925 0.8580 0.8763 0.8765 0.8984 0.8942 0.8870 0.8873 0.8790 0.7085 0.7798 0.9129 0.9303 0.8971 0.8866 0.8967 0.8982 0.9037 0.9051 0.8944 0.9052 0.9077 0.9216 0.9219 0.9170 0.9161 0.9136 0.9177 0.8728 0.8771 0.9639 1.0000 Promoter_UCSC.bedL2 0.0940 0.8567 0.9457 0.9204 0.7985 0.8350 0.8638 0.8582 0.8767 0.8762 0.8707 0.8676 0.8586 0.6936 0.7531 0.8643 0.8734 0.8731 0.8615 0.8719 0.8743 0.8760 0.8777 0.8699 0.8850 0.8858 0.8853 0.8925 0.8892 0.8799 0.8848 0.8866 0.8291 0.8356 0.8324 0.8731 Promoter_UCSC.extend.500.bedL2 0.0914 0.8662 0.9473 0.9204 0.8053 0.8459 0.8740 0.8691 0.8860 0.8858 0.8794 0.8764 0.8685 0.6978 0.7575 0.8710 0.8801 0.8810 0.8706 0.8816 0.8840 0.8853 0.8872 0.8794 0.8939 0.8946 0.8923 0.8988 0.8973 0.8881 0.8933 0.8955 0.8385 0.8448 0.8362 0.8781 Repressed_Hoffman.bedL2 0.0801 0.9122 0.6861 0.6039 0.7491 0.8560 0.8275 0.8474 0.8277 0.8613 0.8299 0.8384 0.8711 0.6481 0.6774 0.7394 0.7319 0.8001 0.8376 0.8216 0.8265 0.8084 0.8138 0.8184 0.8177 0.8375 0.7466 0.7306 0.7823 0.7410 0.7594 0.7801 0.8362 0.8349 0.6083 0.6729 Repressed_Hoffman.extend.500.bedL2 0.0881 0.9300 0.7009 0.6281 0.7668 0.8731 0.8475 0.8651 0.8492 0.8821 0.8526 0.8614 0.8916 0.6635 0.7007 0.7645 0.7595 0.8247 0.8591 0.8414 0.8463 0.8291 0.8345 0.8384 0.8395 0.8597 0.7728 0.7578 0.8069 0.7644 0.7820 0.8023 0.8626 0.8614 0.6372 0.7025 SuperEnhancer_Hnisz.bedL2 0.0749 0.9152 0.8114 0.7854 0.8052 0.9208 0.9422 0.9550 0.9653 0.9559 0.9588 0.9548 0.9527 0.8123 0.8562 0.9564 0.9538 0.9598 0.9628 0.9736 0.9708 0.9756 0.9728 0.9722 0.9660 0.9534 0.9487 0.9408 0.9545 0.9649 0.9693 0.9690 0.9339 0.9347 0.8037 0.8564 SuperEnhancer_Hnisz.extend.500.bedL2 0.0754 0.9155 0.8127 0.7869 0.8065 0.9213 0.9425 0.9552 0.9656 0.9562 0.9592 0.9552 0.9530 0.8128 0.8566 0.9572 0.9547 0.9603 0.9631 0.9738 0.9711 0.9759 0.9731 0.9725 0.9664 0.9539 0.9495 0.9417 0.9553 0.9656 0.9699 0.9695 0.9340 0.9349 0.8052 0.8578 TFBS_ENCODE.bedL2 0.0958 0.9643 0.8659 0.8459 0.8527 0.9494 0.9629 0.9695 0.9852 0.9833 0.9812 0.9827 0.9788 0.8093 0.8712 0.9729 0.9743 0.9779 0.9782 0.9783 0.9791 0.9823 0.9817 0.9803 0.9826 0.9809 0.9741 0.9687 0.9807 0.9698 0.9766 0.9807 0.9610 0.9630 0.8626 0.9175 TFBS_ENCODE.extend.500.bedL2 0.0894 0.9805 0.8546 0.8248 0.8506 0.9643 0.9705 0.9823 0.9923 0.9961 0.9886 0.9905 0.9947 0.8045 0.8592 0.9627 0.9630 0.9799 0.9891 0.9882 0.9894 0.9870 0.9881 0.9891 0.9903 0.9913 0.9615 0.9522 0.9737 0.9636 0.9728 0.9810 0.9787 0.9797 0.8396 0.8981 Transcribed_Hoffman.bedL2 0.1167 0.9643 0.8408 0.8673 0.8033 0.9068 0.9203 0.9241 0.9517 0.9583 0.9499 0.9546 0.9529 0.7680 0.8499 0.9280 0.9434 0.9477 0.9481 0.9469 0.9499 0.9499 0.9536 0.9454 0.9606 0.9686 0.9481 0.9400 0.9554 0.9363 0.9397 0.9501 0.9546 0.9565 0.8677 0.9069 Transcribed_Hoffman.extend.500.bedL2 0.1124 0.9963 0.8284 0.8205 0.8277 0.9361 0.9370 0.9458 0.9582 0.9744 0.9579 0.9644 0.9740 0.7674 0.8364 0.9138 0.9226 0.9467 0.9593 0.9520 0.9557 0.9498 0.9542 0.9495 0.9601 0.9728 0.9295 0.9192 0.9470 0.9180 0.9264 0.9405 0.9636 0.9645 0.8275 0.8784 TSS_Hoffman.bedL2 0.0837 0.8670 0.8565 0.8655 0.7974 0.8543 0.8825 0.8827 0.9092 0.8947 0.8964 0.8942 0.8796 0.7504 0.8267 0.9322 0.9439 0.9106 0.8916 0.9016 0.9013 0.9140 0.9112 0.9038 0.9087 0.9032 0.9514 0.9551 0.9387 0.9404 0.9358 0.9310 0.8667 0.8711 0.8979 0.9448 TSS_Hoffman.extend.500.bedL2 0.0894 0.8960 0.8605 0.8644 0.8070 0.8835 0.9125 0.9152 0.9371 0.9246 0.9253 0.9238 0.9123 0.7677 0.8455 0.9570 0.9671 0.9360 0.9227 0.9305 0.9301 0.9412 0.9387 0.9330 0.9361 0.9305 0.9675 0.9702 0.9618 0.9617 0.9585 0.9557 0.8970 0.9008 0.9041 0.9510 UTR_3_UCSC.bedL2 0.1040 0.8519 0.9197 0.8959 0.7644 0.8262 0.8713 0.8624 0.8755 0.8712 0.8596 0.8592 0.8549 0.6590 0.7463 0.8633 0.8766 0.8630 0.8577 0.8680 0.8698 0.8750 0.8761 0.8688 0.8825 0.8833 0.8884 0.8972 0.8940 0.8910 0.8929 0.8946 0.8414 0.8471 0.8515 0.8821 UTR_3_UCSC.extend.500.bedL2 0.1067 0.8328 0.9201 0.9126 0.7254 0.7775 0.8297 0.8228 0.8464 0.8442 0.8306 0.8305 0.8225 0.6426 0.7296 0.8350 0.8520 0.8350 0.8253 0.8422 0.8448 0.8466 0.8494 0.8357 0.8529 0.8584 0.8627 0.8707 0.8657 0.8573 0.8581 0.8626 0.8124 0.8191 0.8415 0.8790 UTR_5_UCSC.bedL2 0.0957 0.8134 0.8705 0.8665 0.7602 0.8162 0.8331 0.8345 0.8460 0.8386 0.8384 0.8364 0.8270 0.6886 0.7353 0.8568 0.8599 0.8468 0.8369 0.8425 0.8434 0.8471 0.8471 0.8420 0.8501 0.8461 0.8595 0.8732 0.8670 0.8636 0.8661 0.8628 0.8108 0.8164 0.8021 0.8458 UTR_5_UCSC.extend.500.bedL2 0.0981 0.8606 0.9150 0.9273 0.7985 0.8561 0.8765 0.8755 0.8910 0.8846 0.8835 0.8819 0.8722 0.7213 0.7734 0.8931 0.9022 0.8908 0.8815 0.8852 0.8867 0.8917 0.8927 0.8855 0.8979 0.8956 0.9028 0.9124 0.9091 0.9046 0.9077 0.9060 0.8542 0.8599 0.8507 0.8882 WeakEnhancer_Hoffman.bedL2 0.0896 0.9145 0.8095 0.7891 0.7799 0.8968 0.9329 0.9461 0.9660 0.9540 0.9597 0.9571 0.9491 0.7844 0.8445 0.9536 0.9546 0.9613 0.9613 0.9607 0.9598 0.9608 0.9600 0.9669 0.9605 0.9526 0.9498 0.9424 0.9538 0.9602 0.9629 0.9640 0.9279 0.9288 0.8001 0.8627 WeakEnhancer_Hoffman.extend.500.bedL2 0.0940 0.9393 0.8363 0.8140 0.8134 0.9251 0.9549 0.9674 0.9823 0.9740 0.9778 0.9758 0.9704 0.8023 0.8545 0.9752 0.9766 0.9786 0.9810 0.9791 0.9788 0.9808 0.9802 0.9841 0.9802 0.9740 0.9626 0.9553 0.9691 0.9742 0.9785 0.9811 0.9502 0.9512 0.8355 0.8936 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 0.0940 0.0914 0.0801 0.0881 0.0749 0.0754 0.0958 0.0894 0.1167 0.1124 0.0837 0.0894 0.1040 0.1067 0.0957 0.0981 0.0896 0.0940 baseL2 0.8567 0.8662 0.9122 0.9300 0.9152 0.9155 0.9643 0.9805 0.9643 0.9963 0.8670 0.8960 0.8519 0.8328 0.8134 0.8606 0.9145 0.9393 Coding_UCSC.bedL2 0.9457 0.9473 0.6861 0.7009 0.8114 0.8127 0.8659 0.8546 0.8408 0.8284 0.8565 0.8605 0.9197 0.9201 0.8705 0.9150 0.8095 0.8363 Coding_UCSC.extend.500.bedL2 0.9204 0.9204 0.6039 0.6281 0.7854 0.7869 0.8459 0.8248 0.8673 0.8205 0.8655 0.8644 0.8959 0.9126 0.8665 0.9273 0.7891 0.8140 Conserved_LindbladToh.bedL2 0.7985 0.8053 0.7491 0.7668 0.8052 0.8065 0.8527 0.8506 0.8033 0.8277 0.7974 0.8070 0.7644 0.7254 0.7602 0.7985 0.7799 0.8134 Conserved_LindbladToh.extend.500.bedL2 0.8350 0.8459 0.8560 0.8731 0.9208 0.9213 0.9494 0.9643 0.9068 0.9361 0.8543 0.8835 0.8262 0.7775 0.8162 0.8561 0.8968 0.9251 CTCF_Hoffman.bedL2 0.8638 0.8740 0.8275 0.8475 0.9422 0.9425 0.9629 0.9705 0.9203 0.9370 0.8825 0.9125 0.8713 0.8297 0.8331 0.8765 0.9329 0.9549 CTCF_Hoffman.extend.500.bedL2 0.8582 0.8691 0.8474 0.8651 0.9550 0.9552 0.9695 0.9823 0.9241 0.9458 0.8827 0.9152 0.8624 0.8228 0.8345 0.8755 0.9461 0.9674 DGF_ENCODE.bedL2 0.8767 0.8860 0.8277 0.8492 0.9653 0.9656 0.9852 0.9923 0.9517 0.9582 0.9092 0.9371 0.8755 0.8464 0.8460 0.8910 0.9660 0.9823 DGF_ENCODE.extend.500.bedL2 0.8762 0.8858 0.8613 0.8821 0.9559 0.9562 0.9833 0.9961 0.9583 0.9744 0.8947 0.9246 0.8712 0.8442 0.8386 0.8846 0.9540 0.9740 DHS_peaks_Trynka.bedL2 0.8707 0.8794 0.8299 0.8526 0.9588 0.9592 0.9812 0.9886 0.9499 0.9579 0.8964 0.9253 0.8596 0.8306 0.8384 0.8835 0.9597 0.9778 DHS_Trynka.bedL2 0.8676 0.8764 0.8384 0.8614 0.9548 0.9552 0.9827 0.9905 0.9546 0.9644 0.8942 0.9238 0.8592 0.8305 0.8364 0.8819 0.9571 0.9758 DHS_Trynka.extend.500.bedL2 0.8586 0.8685 0.8711 0.8916 0.9527 0.9530 0.9788 0.9947 0.9529 0.9740 0.8796 0.9123 0.8549 0.8225 0.8270 0.8722 0.9491 0.9704 Enhancer_Andersson.bedL2 0.6936 0.6978 0.6481 0.6635 0.8123 0.8128 0.8093 0.8045 0.7680 0.7674 0.7504 0.7677 0.6590 0.6426 0.6886 0.7213 0.7844 0.8023 Enhancer_Andersson.extend.500.bedL2 0.7531 0.7575 0.6774 0.7007 0.8562 0.8566 0.8712 0.8592 0.8499 0.8364 0.8267 0.8455 0.7463 0.7296 0.7353 0.7734 0.8445 0.8545 Enhancer_Hoffman.bedL2 0.8643 0.8710 0.7394 0.7645 0.9564 0.9572 0.9729 0.9627 0.9280 0.9138 0.9322 0.9570 0.8633 0.8350 0.8568 0.8931 0.9536 0.9752 Enhancer_Hoffman.extend.500.bedL2 0.8734 0.8801 0.7319 0.7595 0.9538 0.9547 0.9743 0.9630 0.9434 0.9226 0.9439 0.9671 0.8766 0.8520 0.8599 0.9022 0.9546 0.9766 FetalDHS_Trynka.bedL2 0.8731 0.8810 0.8001 0.8247 0.9598 0.9603 0.9779 0.9799 0.9477 0.9467 0.9106 0.9360 0.8630 0.8350 0.8468 0.8908 0.9613 0.9786 FetalDHS_Trynka.extend.500.bedL2 0.8615 0.8706 0.8376 0.8591 0.9628 0.9631 0.9782 0.9891 0.9481 0.9593 0.8916 0.9227 0.8577 0.8253 0.8369 0.8815 0.9613 0.9810 H3K27ac_Hnisz.bedL2 0.8719 0.8816 0.8216 0.8414 0.9736 0.9738 0.9783 0.9882 0.9469 0.9520 0.9016 0.9305 0.8680 0.8422 0.8425 0.8852 0.9607 0.9791 H3K27ac_Hnisz.extend.500.bedL2 0.8743 0.8840 0.8265 0.8463 0.9708 0.9711 0.9791 0.9894 0.9499 0.9557 0.9013 0.9301 0.8698 0.8448 0.8434 0.8867 0.9598 0.9788 H3K27ac_PGC2.bedL2 0.8760 0.8853 0.8084 0.8291 0.9756 0.9759 0.9823 0.9870 0.9499 0.9498 0.9140 0.9412 0.8750 0.8466 0.8471 0.8917 0.9608 0.9808 H3K27ac_PGC2.extend.500.bedL2 0.8777 0.8872 0.8138 0.8345 0.9728 0.9731 0.9817 0.9881 0.9536 0.9542 0.9112 0.9387 0.8761 0.8494 0.8471 0.8927 0.9600 0.9802 H3K4me1_peaks_Trynka.bedL2 0.8699 0.8794 0.8184 0.8384 0.9722 0.9725 0.9803 0.9891 0.9454 0.9495 0.9038 0.9330 0.8688 0.8357 0.8420 0.8855 0.9669 0.9841 H3K4me1_Trynka.bedL2 0.8850 0.8939 0.8177 0.8395 0.9660 0.9664 0.9826 0.9903 0.9606 0.9601 0.9087 0.9361 0.8825 0.8529 0.8501 0.8979 0.9605 0.9802 H3K4me1_Trynka.extend.500.bedL2 0.8858 0.8946 0.8375 0.8597 0.9534 0.9539 0.9809 0.9913 0.9686 0.9728 0.9032 0.9305 0.8833 0.8584 0.8461 0.8956 0.9526 0.9740 H3K4me3_peaks_Trynka.bedL2 0.8853 0.8923 0.7466 0.7728 0.9487 0.9495 0.9741 0.9615 0.9481 0.9295 0.9514 0.9675 0.8884 0.8627 0.8595 0.9028 0.9498 0.9626 H3K4me3_Trynka.bedL2 0.8925 0.8988 0.7306 0.7578 0.9408 0.9417 0.9687 0.9522 0.9400 0.9192 0.9551 0.9702 0.8972 0.8707 0.8732 0.9124 0.9424 0.9553 H3K4me3_Trynka.extend.500.bedL2 0.8892 0.8973 0.7823 0.8069 0.9545 0.9553 0.9807 0.9737 0.9554 0.9470 0.9387 0.9618 0.8940 0.8657 0.8670 0.9091 0.9538 0.9691 H3K9ac_peaks_Trynka.bedL2 0.8799 0.8881 0.7410 0.7644 0.9649 0.9656 0.9698 0.9636 0.9363 0.9180 0.9404 0.9617 0.8910 0.8573 0.8636 0.9046 0.9602 0.9742 H3K9ac_Trynka.bedL2 0.8848 0.8933 0.7594 0.7820 0.9693 0.9699 0.9766 0.9728 0.9397 0.9264 0.9358 0.9585 0.8929 0.8581 0.8661 0.9077 0.9629 0.9785 H3K9ac_Trynka.extend.500.bedL2 0.8866 0.8955 0.7801 0.8023 0.9690 0.9695 0.9807 0.9810 0.9501 0.9405 0.9310 0.9557 0.8946 0.8626 0.8628 0.9060 0.9640 0.9811 Intron_UCSC.bedL2 0.8291 0.8385 0.8362 0.8626 0.9339 0.9340 0.9610 0.9787 0.9546 0.9636 0.8667 0.8970 0.8414 0.8124 0.8108 0.8542 0.9279 0.9502 Intron_UCSC.extend.500.bedL2 0.8356 0.8448 0.8349 0.8614 0.9347 0.9349 0.9630 0.9797 0.9565 0.9645 0.8711 0.9008 0.8471 0.8191 0.8164 0.8599 0.9288 0.9512 PromoterFlanking_Hoffman.bedL2 0.8324 0.8362 0.6083 0.6372 0.8037 0.8052 0.8626 0.8396 0.8677 0.8275 0.8979 0.9041 0.8515 0.8415 0.8021 0.8507 0.8001 0.8355 PromoterFlanking_Hoffman.extend.500.bedL2 0.8731 0.8781 0.6729 0.7025 0.8564 0.8578 0.9175 0.8981 0.9069 0.8784 0.9448 0.9510 0.8821 0.8790 0.8458 0.8882 0.8627 0.8936 Promoter_UCSC.bedL2 1.0000 0.9988 0.7036 0.7198 0.8377 0.8387 0.8805 0.8707 0.8575 0.8466 0.8772 0.8819 0.9019 0.9252 0.8803 0.9405 0.8351 0.8560 Promoter_UCSC.extend.500.bedL2 0.9988 1.0000 0.7144 0.7307 0.8466 0.8476 0.8885 0.8800 0.8650 0.8557 0.8808 0.8873 0.9059 0.9258 0.8810 0.9417 0.8443 0.8649 Repressed_Hoffman.bedL2 0.7036 0.7144 1.0000 0.9953 0.7617 0.7612 0.8144 0.8571 0.7824 0.8961 0.6545 0.6932 0.6673 0.6494 0.6455 0.6784 0.7498 0.7756 Repressed_Hoffman.extend.500.bedL2 0.7198 0.7307 0.9953 1.0000 0.7813 0.7809 0.8389 0.8791 0.8116 0.9176 0.6813 0.7201 0.6891 0.6702 0.6650 0.6992 0.7731 0.7998 SuperEnhancer_Hnisz.bedL2 0.8377 0.8466 0.7617 0.7813 1.0000 1.0000 0.9538 0.9566 0.9044 0.9017 0.8903 0.9185 0.8377 0.7968 0.8247 0.8621 0.9469 0.9633 SuperEnhancer_Hnisz.extend.500.bedL2 0.8387 0.8476 0.7612 0.7809 1.0000 1.0000 0.9544 0.9569 0.9052 0.9021 0.8915 0.9197 0.8387 0.7980 0.8259 0.8634 0.9470 0.9636 TFBS_ENCODE.bedL2 0.8805 0.8885 0.8144 0.8389 0.9538 0.9544 1.0000 0.9919 0.9517 0.9561 0.9370 0.9575 0.8871 0.8563 0.8584 0.8974 0.9510 0.9739 TFBS_ENCODE.extend.500.bedL2 0.8707 0.8800 0.8571 0.8791 0.9566 0.9569 0.9919 1.0000 0.9528 0.9704 0.9053 0.9332 0.8706 0.8385 0.8422 0.8838 0.9519 0.9740 Transcribed_Hoffman.bedL2 0.8575 0.8650 0.7824 0.8116 0.9044 0.9052 0.9517 0.9528 1.0000 0.9760 0.8979 0.9179 0.8753 0.8609 0.8238 0.8795 0.9090 0.9312 Transcribed_Hoffman.extend.500.bedL2 0.8466 0.8557 0.8961 0.9176 0.9017 0.9021 0.9561 0.9704 0.9760 1.0000 0.8649 0.8923 0.8485 0.8321 0.8066 0.8558 0.9025 0.9277 TSS_Hoffman.bedL2 0.8772 0.8808 0.6545 0.6813 0.8903 0.8915 0.9370 0.9053 0.8979 0.8649 1.0000 0.9904 0.8828 0.8690 0.8663 0.9004 0.8899 0.9076 TSS_Hoffman.extend.500.bedL2 0.8819 0.8873 0.6932 0.7201 0.9185 0.9197 0.9575 0.9332 0.9179 0.8923 0.9904 1.0000 0.8890 0.8680 0.8718 0.9062 0.9187 0.9362 UTR_3_UCSC.bedL2 0.9019 0.9059 0.6673 0.6891 0.8377 0.8387 0.8871 0.8706 0.8753 0.8485 0.8828 0.8890 1.0000 0.9611 0.8532 0.8955 0.8371 0.8605 UTR_3_UCSC.extend.500.bedL2 0.9252 0.9258 0.6494 0.6702 0.7968 0.7980 0.8563 0.8385 0.8609 0.8321 0.8690 0.8680 0.9611 1.0000 0.8483 0.8976 0.8076 0.8283 UTR_5_UCSC.bedL2 0.8803 0.8810 0.6455 0.6650 0.8247 0.8259 0.8584 0.8422 0.8238 0.8066 0.8663 0.8718 0.8532 0.8483 1.0000 0.9522 0.8142 0.8389 UTR_5_UCSC.extend.500.bedL2 0.9405 0.9417 0.6784 0.6992 0.8621 0.8634 0.8974 0.8838 0.8795 0.8558 0.9004 0.9062 0.8955 0.8976 0.9522 1.0000 0.8549 0.8805 WeakEnhancer_Hoffman.bedL2 0.8351 0.8443 0.7498 0.7731 0.9469 0.9470 0.9510 0.9519 0.9090 0.9025 0.8899 0.9187 0.8371 0.8076 0.8142 0.8549 1.0000 0.9849 WeakEnhancer_Hoffman.extend.500.bedL2 0.8560 0.8649 0.7756 0.7998 0.9633 0.9636 0.9739 0.9740 0.9312 0.9277 0.9076 0.9362 0.8605 0.8283 0.8389 0.8805 0.9849 1.0000 LD Score Matrix Condition Number 1761.8406 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 0.4766 0.3390 0.1746 0.0268 0.0374 0.0795 0.0732 0.0471 0.0554 0.0461 -0.0161 -0.0310 0.0306 0.0310 0.0517 0.0446 0.0660 0.0634 0.0669 0.0648 0.0644 0.0941 0.0761 0.0766 0.1208 0.1039 0.0799 0.1253 0.1169 -0.1459 0.0361 -0.0038 0.0036 0.1407 0.1377 -0.0842 Coding_UCSC.extend.500.bed NaN 0.4766 1.0000 0.1863 0.3891 0.0388 0.0595 0.0963 0.1177 0.0705 0.0787 0.0728 -0.0281 -0.0472 0.0410 0.0504 0.0790 0.0654 0.1074 0.1055 0.1078 0.1049 0.0797 0.1649 0.1512 0.1144 0.1900 0.1783 0.1226 0.2097 0.2192 0.1460 0.2497 0.0072 0.0312 0.2704 0.2638 -0.1726 Conserved_LindbladToh.bed NaN 0.3390 0.1863 1.0000 0.2394 0.0163 0.0152 0.1110 0.0727 0.1315 0.1334 0.0795 0.0237 0.0103 0.0526 0.0467 0.1351 0.0891 0.0453 0.0428 0.0662 0.0556 0.0794 0.0942 0.0694 0.0768 0.1159 0.0866 0.0693 0.1105 0.0894 -0.0486 0.0476 0.0085 0.0211 0.0830 0.0796 -0.0472 Conserved_LindbladToh.extend.500.bed NaN 0.1746 0.3891 0.2394 1.0000 0.0491 0.0561 0.1247 0.1830 0.1583 0.1906 0.2219 0.0289 0.0398 0.1138 0.1244 0.1757 0.2295 0.1375 0.1328 0.1754 0.1577 0.1778 0.2408 0.2102 0.1348 0.2066 0.1929 0.1456 0.2333 0.2271 0.1160 0.1597 0.0315 0.0581 0.1369 0.1325 -0.1205 CTCF_Hoffman.bed NaN 0.0268 0.0388 0.0163 0.0491 1.0000 0.5634 0.1161 0.1127 0.1275 0.1365 0.1109 0.0133 0.0196 0.0466 0.0734 0.1314 0.1250 0.0468 0.0463 0.0471 0.0426 0.0853 0.0817 0.0649 0.0565 0.0806 0.0810 0.0677 0.0960 0.0926 -0.0066 0.0008 -0.0127 0.0144 0.0144 0.0154 -0.1254 CTCF_Hoffman.extend.500.bed NaN 0.0374 0.0595 0.0152 0.0561 0.5634 1.0000 0.0917 0.1556 0.0915 0.1009 0.1480 0.0141 0.0300 0.0677 0.1104 0.0988 0.1544 0.0811 0.0833 0.0772 0.0780 0.0901 0.1038 0.1045 0.0600 0.1010 0.1223 0.0789 0.1251 0.1427 -0.0048 0.0040 -0.0011 0.0285 0.0276 0.0311 -0.1185 DGF_ENCODE.bed NaN 0.0795 0.0963 0.1110 0.1247 0.1161 0.0917 1.0000 0.3510 0.5212 0.5054 0.2619 0.1043 0.0881 0.2187 0.2095 0.3837 0.2453 0.2031 0.1938 0.2384 0.2177 0.2980 0.2830 0.2010 0.2271 0.3022 0.2466 0.1984 0.2875 0.2452 0.0355 0.0607 0.0420 0.0859 0.1213 0.1195 -0.1832 DGF_ENCODE.extend.500.bed NaN 0.0732 0.1177 0.0727 0.1830 0.1127 0.1556 0.3510 1.0000 0.2496 0.3072 0.5408 0.0546 0.1059 0.2011 0.2692 0.2204 0.3842 0.3433 0.3422 0.3557 0.3471 0.3085 0.4514 0.4246 0.1701 0.2996 0.3545 0.1758 0.3107 0.3607 0.0849 0.1036 0.0639 0.1293 0.1263 0.1283 -0.2605 DHS_peaks_Trynka.bed NaN 0.0471 0.0705 0.1315 0.1583 0.1275 0.0915 0.5212 0.2496 1.0000 0.7796 0.3463 0.1269 0.1098 0.2419 0.2251 0.6702 0.3730 0.1789 0.1695 0.2348 0.2041 0.3061 0.2713 0.1901 0.2594 0.2968 0.2303 0.2256 0.2874 0.2292 0.0289 0.0488 0.0199 0.0735 0.0990 0.0884 -0.1468 DHS_Trynka.bed NaN 0.0554 0.0787 0.1334 0.1906 0.1365 0.1009 0.5054 0.3072 0.7796 1.0000 0.4361 0.1248 0.1292 0.2789 0.2579 0.7005 0.4388 0.2134 0.2023 0.2789 0.2423 0.3591 0.3305 0.2326 0.2863 0.3357 0.2661 0.2541 0.3268 0.2645 0.0349 0.0568 0.0219 0.0783 0.1064 0.0942 -0.1698 DHS_Trynka.extend.500.bed NaN 0.0461 0.0728 0.0795 0.2219 0.1109 0.1480 0.2619 0.5408 0.3463 0.4361 1.0000 0.0633 0.1251 0.2258 0.2934 0.3055 0.6368 0.3057 0.3059 0.3544 0.3330 0.3236 0.4578 0.4263 0.1746 0.2792 0.3288 0.1801 0.3018 0.3370 0.0728 0.0858 0.0382 0.1031 0.0911 0.0824 -0.2046 Enhancer_Andersson.bed NaN -0.0161 -0.0281 0.0237 0.0289 0.0133 0.0141 0.1043 0.0546 0.1269 0.1248 0.0633 1.0000 0.4802 0.1175 0.0985 0.1470 0.0868 0.0598 0.0569 0.0829 0.0708 0.0754 0.0643 0.0439 0.0915 0.1034 0.0798 0.0664 0.0860 0.0683 0.0082 0.0043 0.0084 0.0271 0.0089 0.0127 -0.0443 Enhancer_Andersson.extend.500.bed NaN -0.0310 -0.0472 0.0103 0.0398 0.0196 0.0300 0.0881 0.1059 0.1098 0.1292 0.1251 0.4802 1.0000 0.1861 0.1851 0.1346 0.1686 0.1203 0.1145 0.1596 0.1405 0.1298 0.1225 0.0860 0.1364 0.1723 0.1474 0.1155 0.1493 0.1269 0.0219 0.0148 0.0231 0.0509 0.0168 0.0231 -0.0807 Enhancer_Hoffman.bed NaN 0.0306 0.0410 0.0526 0.1138 0.0466 0.0677 0.2187 0.2011 0.2419 0.2789 0.2258 0.1175 0.1861 1.0000 0.6556 0.2519 0.2749 0.2238 0.2118 0.3173 0.2754 0.2905 0.2345 0.1619 0.2703 0.3328 0.2755 0.2466 0.3277 0.2652 0.0215 0.0320 0.0521 0.1481 0.1295 0.1253 -0.1912 Enhancer_Hoffman.extend.500.bed NaN 0.0310 0.0504 0.0467 0.1244 0.0734 0.1104 0.2095 0.2692 0.2251 0.2579 0.2934 0.0985 0.1851 0.6556 1.0000 0.2416 0.3354 0.3136 0.3073 0.4327 0.3980 0.2965 0.3136 0.2419 0.2528 0.3755 0.3782 0.2330 0.3693 0.3676 0.0277 0.0415 0.1008 0.2488 0.1847 0.1783 -0.2676 FetalDHS_Trynka.bed NaN 0.0517 0.0790 0.1351 0.1757 0.1314 0.0988 0.3837 0.2204 0.6702 0.7005 0.3055 0.1470 0.1346 0.2519 0.2416 1.0000 0.4797 0.1836 0.1737 0.2478 0.2131 0.3032 0.2607 0.1837 0.3051 0.3293 0.2497 0.2602 0.3155 0.2466 0.0213 0.0465 0.0159 0.0834 0.1268 0.1132 -0.1375 FetalDHS_Trynka.extend.500.bed NaN 0.0446 0.0654 0.0891 0.2295 0.1250 0.1544 0.2453 0.3842 0.3730 0.4388 0.6368 0.0868 0.1686 0.2749 0.3354 0.4797 1.0000 0.3002 0.2951 0.3707 0.3373 0.3526 0.4216 0.3498 0.2345 0.3402 0.3623 0.2344 0.3587 0.3631 0.0559 0.0716 0.0433 0.1222 0.1216 0.1090 -0.1891 H3K27ac_Hnisz.bed NaN 0.0660 0.1074 0.0453 0.1375 0.0468 0.0811 0.2031 0.3433 0.1789 0.2134 0.3057 0.0598 0.1203 0.2238 0.3136 0.1836 0.3002 1.0000 0.9351 0.5255 0.5613 0.3022 0.4627 0.4388 0.1726 0.3119 0.3793 0.1966 0.3500 0.4328 0.1619 0.1765 0.0626 0.1278 0.1155 0.1230 -0.3039 H3K27ac_Hnisz.extend.500.bed NaN 0.0634 0.1055 0.0428 0.1328 0.0463 0.0833 0.1938 0.3422 0.1695 0.2023 0.3059 0.0569 0.1145 0.2118 0.3073 0.1737 0.2951 0.9351 1.0000 0.5270 0.5764 0.2907 0.4622 0.4607 0.1630 0.2991 0.3755 0.1864 0.3367 0.4292 0.1588 0.1726 0.0631 0.1275 0.1134 0.1217 -0.3026 H3K27ac_PGC2.bed NaN 0.0669 0.1078 0.0662 0.1754 0.0471 0.0772 0.2384 0.3557 0.2348 0.2789 0.3544 0.0829 0.1596 0.3173 0.4327 0.2478 0.3707 0.5255 0.5270 1.0000 0.8416 0.3705 0.4995 0.4121 0.2457 0.4228 0.4761 0.2638 0.4550 0.5001 0.1541 0.1710 0.0999 0.1909 0.1899 0.1934 -0.3134 H3K27ac_PGC2.extend.500.bed NaN 0.0648 0.1049 0.0556 0.1577 0.0426 0.0780 0.2177 0.3471 0.2041 0.2423 0.3330 0.0708 0.1405 0.2754 0.3980 0.2131 0.3373 0.5613 0.5764 0.8416 1.0000 0.3409 0.4989 0.4463 0.2136 0.3818 0.4539 0.2332 0.4134 0.4875 0.1642 0.1790 0.0967 0.1871 0.1824 0.1902 -0.3249 H3K4me1_peaks_Trynka.bed NaN 0.0644 0.0797 0.0794 0.1778 0.0853 0.0901 0.2980 0.3085 0.3061 0.3591 0.3236 0.0754 0.1298 0.2905 0.2965 0.3032 0.3526 0.3022 0.2907 0.3705 0.3409 1.0000 0.4965 0.3332 0.3069 0.4217 0.3562 0.3273 0.4351 0.3690 0.1104 0.1256 0.1153 0.1638 0.1275 0.1282 -0.2428 H3K4me1_Trynka.bed NaN 0.0941 0.1649 0.0942 0.2408 0.0817 0.1038 0.2830 0.4514 0.2713 0.3305 0.4578 0.0643 0.1225 0.2345 0.3136 0.2607 0.4216 0.4627 0.4622 0.4995 0.4989 0.4965 1.0000 0.6663 0.2098 0.3863 0.4538 0.2317 0.4226 0.4964 0.1886 0.2103 0.0901 0.1600 0.1470 0.1518 -0.3460 H3K4me1_Trynka.extend.500.bed NaN 0.0761 0.1512 0.0694 0.2102 0.0649 0.1045 0.2010 0.4246 0.1901 0.2326 0.4263 0.0439 0.0860 0.1619 0.2419 0.1837 0.3498 0.4388 0.4607 0.4121 0.4463 0.3332 0.6663 1.0000 0.1403 0.2666 0.3596 0.1610 0.3007 0.4205 0.2029 0.2203 0.0626 0.1264 0.1223 0.1260 -0.3221 H3K4me3_peaks_Trynka.bed NaN 0.0766 0.1144 0.0768 0.1348 0.0565 0.0600 0.2271 0.1701 0.2594 0.2863 0.1746 0.0915 0.1364 0.2703 0.2528 0.3051 0.2345 0.1726 0.1630 0.2457 0.2136 0.3069 0.2098 0.1403 1.0000 0.5164 0.3492 0.4003 0.3667 0.2649 0.0466 0.0711 0.0773 0.1428 0.1871 0.1813 -0.1473 H3K4me3_Trynka.bed NaN 0.1208 0.1900 0.1159 0.2066 0.0806 0.1010 0.3022 0.2996 0.2968 0.3357 0.2792 0.1034 0.1723 0.3328 0.3755 0.3293 0.3402 0.3119 0.2991 0.4228 0.3818 0.4217 0.3863 0.2666 0.5164 1.0000 0.6697 0.3736 0.5835 0.4793 0.0857 0.1244 0.1592 0.2559 0.2867 0.2906 -0.2617 H3K4me3_Trynka.extend.500.bed NaN 0.1039 0.1783 0.0866 0.1929 0.0810 0.1223 0.2466 0.3545 0.2303 0.2661 0.3288 0.0798 0.1474 0.2755 0.3782 0.2497 0.3623 0.3793 0.3755 0.4761 0.4539 0.3562 0.4538 0.3596 0.3492 0.6697 1.0000 0.2835 0.5072 0.5648 0.1014 0.1306 0.1225 0.2365 0.2352 0.2448 -0.2944 H3K9ac_peaks_Trynka.bed NaN 0.0799 0.1226 0.0693 0.1456 0.0677 0.0789 0.1984 0.1758 0.2256 0.2541 0.1801 0.0664 0.1155 0.2466 0.2330 0.2602 0.2344 0.1966 0.1864 0.2638 0.2332 0.3273 0.2317 0.1610 0.4003 0.3736 0.2835 1.0000 0.5249 0.3548 0.0795 0.1003 0.0669 0.1218 0.1584 0.1571 -0.1653 H3K9ac_Trynka.bed NaN 0.1253 0.2097 0.1105 0.2333 0.0960 0.1251 0.2875 0.3107 0.2874 0.3268 0.3018 0.0860 0.1493 0.3277 0.3693 0.3155 0.3587 0.3500 0.3367 0.4550 0.4134 0.4351 0.4226 0.3007 0.3667 0.5835 0.5072 0.5249 1.0000 0.6704 0.1349 0.1711 0.1301 0.2169 0.2615 0.2633 -0.2888 H3K9ac_Trynka.extend.500.bed NaN 0.1169 0.2192 0.0894 0.2271 0.0926 0.1427 0.2452 0.3607 0.2292 0.2645 0.3370 0.0683 0.1269 0.2652 0.3676 0.2466 0.3631 0.4328 0.4292 0.5001 0.4875 0.3690 0.4964 0.4205 0.2649 0.4793 0.5648 0.3548 0.6704 1.0000 0.1807 0.2108 0.1098 0.2111 0.2269 0.2350 -0.3460 Intron_UCSC.bed NaN -0.1459 0.1460 -0.0486 0.1160 -0.0066 -0.0048 0.0355 0.0849 0.0289 0.0349 0.0728 0.0082 0.0219 0.0215 0.0277 0.0213 0.0559 0.1619 0.1588 0.1541 0.1642 0.1104 0.1886 0.2029 0.0466 0.0857 0.1014 0.0795 0.1349 0.1807 1.0000 0.9569 0.0256 0.0071 0.0407 0.0467 -0.2697 Intron_UCSC.extend.500.bed NaN 0.0361 0.2497 0.0476 0.1597 0.0008 0.0040 0.0607 0.1036 0.0488 0.0568 0.0858 0.0043 0.0148 0.0320 0.0415 0.0465 0.0716 0.1765 0.1726 0.1710 0.1790 0.1256 0.2103 0.2203 0.0711 0.1244 0.1306 0.1003 0.1711 0.2108 0.9569 1.0000 0.0264 0.0168 0.0933 0.0966 -0.2896 PromoterFlanking_Hoffman.bed NaN -0.0038 0.0072 0.0085 0.0315 -0.0127 -0.0011 0.0420 0.0639 0.0199 0.0219 0.0382 0.0084 0.0231 0.0521 0.1008 0.0159 0.0433 0.0626 0.0631 0.0999 0.0967 0.1153 0.0901 0.0626 0.0773 0.1592 0.1225 0.0669 0.1301 0.1098 0.0256 0.0264 1.0000 0.4799 0.1305 0.1374 -0.0763 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0036 0.0312 0.0211 0.0581 0.0144 0.0285 0.0859 0.1293 0.0735 0.0783 0.1031 0.0271 0.0509 0.1481 0.2488 0.0834 0.1222 0.1278 0.1275 0.1909 0.1871 0.1638 0.1600 0.1264 0.1428 0.2559 0.2365 0.1218 0.2169 0.2111 0.0071 0.0168 0.4799 1.0000 0.2351 0.2423 -0.1362 Promoter_UCSC.bed NaN 0.1407 0.2704 0.0830 0.1369 0.0144 0.0276 0.1213 0.1263 0.0990 0.1064 0.0911 0.0089 0.0168 0.1295 0.1847 0.1268 0.1216 0.1155 0.1134 0.1899 0.1824 0.1275 0.1470 0.1223 0.1871 0.2867 0.2352 0.1584 0.2615 0.2269 0.0407 0.0933 0.1305 0.2351 1.0000 0.8967 -0.1227 Promoter_UCSC.extend.500.bed NaN 0.1377 0.2638 0.0796 0.1325 0.0154 0.0311 0.1195 0.1283 0.0884 0.0942 0.0824 0.0127 0.0231 0.1253 0.1783 0.1132 0.1090 0.1230 0.1217 0.1934 0.1902 0.1282 0.1518 0.1260 0.1813 0.2906 0.2448 0.1571 0.2633 0.2350 0.0467 0.0966 0.1374 0.2423 0.8967 1.0000 -0.1306 Repressed_Hoffman.bed NaN -0.0842 -0.1726 -0.0472 -0.1205 -0.1254 -0.1185 -0.1832 -0.2605 -0.1468 -0.1698 -0.2046 -0.0443 -0.0807 -0.1912 -0.2676 -0.1375 -0.1891 -0.3039 -0.3026 -0.3134 -0.3249 -0.2428 -0.3460 -0.3221 -0.1473 -0.2617 -0.2944 -0.1653 -0.2888 -0.3460 -0.2697 -0.2896 -0.0763 -0.1362 -0.1227 -0.1306 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1238 -0.2548 -0.0645 -0.1677 -0.0668 -0.0921 -0.2006 -0.2779 -0.1603 -0.1843 -0.2212 -0.0573 -0.1058 -0.2685 -0.3508 -0.1625 -0.2196 -0.3804 -0.3760 -0.4058 -0.4119 -0.2837 -0.4096 -0.3785 -0.1970 -0.3430 -0.3775 -0.2214 -0.3835 -0.4485 -0.3578 -0.3865 -0.0920 -0.1630 -0.1782 -0.1863 0.6389 SuperEnhancer_Hnisz.bed NaN 0.0462 0.0841 0.0361 0.1109 0.0354 0.0642 0.1639 0.2436 0.1272 0.1481 0.2037 0.0685 0.1325 0.2053 0.2757 0.1361 0.2199 0.5552 0.5192 0.4281 0.4322 0.2546 0.3398 0.2918 0.1670 0.2956 0.3280 0.2018 0.3407 0.3726 0.1822 0.1913 0.0366 0.0777 0.0972 0.1019 -0.2557 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0470 0.0850 0.0354 0.1103 0.0361 0.0665 0.1623 0.2442 0.1243 0.1450 0.2038 0.0676 0.1306 0.2037 0.2774 0.1333 0.2185 0.5552 0.5260 0.4301 0.4370 0.2532 0.3415 0.2956 0.1653 0.2952 0.3308 0.2002 0.3403 0.3765 0.1810 0.1901 0.0372 0.0811 0.1001 0.1052 -0.2571 TFBS_ENCODE.bed NaN 0.0844 0.1203 0.0994 0.1579 0.2377 0.1791 0.3886 0.2962 0.3918 0.4479 0.2970 0.1185 0.1457 0.3511 0.3457 0.3784 0.3177 0.2293 0.2189 0.3034 0.2675 0.3146 0.2902 0.2064 0.3006 0.3846 0.3174 0.2603 0.3511 0.2945 0.0208 0.0496 0.0540 0.1335 0.1787 0.1728 -0.2260 TFBS_ENCODE.extend.500.bed NaN 0.0701 0.1053 0.0683 0.1698 0.1776 0.2665 0.2516 0.4295 0.2463 0.2964 0.4296 0.0705 0.1368 0.2885 0.3843 0.2384 0.3816 0.3047 0.3023 0.3724 0.3503 0.2978 0.3777 0.3260 0.2104 0.3462 0.3805 0.2036 0.3360 0.3573 0.0495 0.0692 0.0771 0.1674 0.1450 0.1444 -0.2640 Transcribed_Hoffman.bed NaN 0.0572 0.1321 0.0028 0.0283 -0.0640 -0.0400 -0.0069 0.0252 -0.0436 -0.0490 -0.0192 -0.0141 -0.0252 -0.0474 -0.0424 -0.0617 -0.0459 0.1180 0.1186 0.0826 0.1066 0.0413 0.1220 0.1371 -0.0246 0.0203 0.0582 0.0175 0.0519 0.1059 0.3276 0.3305 -0.0235 -0.0567 -0.0470 -0.0341 -0.6363 Transcribed_Hoffman.extend.500.bed NaN -0.0131 -0.0058 -0.0349 -0.0578 -0.0446 -0.0493 -0.0802 -0.0638 -0.0998 -0.1104 -0.0835 -0.0285 -0.0494 -0.1083 -0.1151 -0.1233 -0.1121 -0.0140 -0.0104 -0.0458 -0.0253 -0.0628 -0.0374 -0.0149 -0.1151 -0.1109 -0.0749 -0.0792 -0.0953 -0.0604 0.1629 0.1480 -0.0313 -0.0793 -0.1328 -0.1211 -0.1595 TSS_Hoffman.bed NaN 0.0827 0.1566 0.0873 0.1344 0.0305 0.0357 0.2225 0.1513 0.2478 0.2609 0.1644 0.1054 0.1367 0.2035 0.2787 0.2997 0.2343 0.1615 0.1516 0.2558 0.2169 0.2083 0.1682 0.1200 0.3476 0.3613 0.2543 0.2836 0.3329 0.2374 0.0201 0.0615 0.0748 0.2209 0.3353 0.3154 -0.1400 TSS_Hoffman.extend.500.bed NaN 0.0692 0.1374 0.0722 0.1370 0.0479 0.0684 0.2018 0.1986 0.2108 0.2284 0.2059 0.0902 0.1545 0.3209 0.4205 0.2536 0.2741 0.2154 0.2054 0.3298 0.2912 0.2499 0.2290 0.1648 0.3194 0.4277 0.3397 0.2748 0.3898 0.3178 0.0221 0.0561 0.1863 0.3565 0.3598 0.3464 -0.1920 UTR_3_UCSC.bed NaN 0.5810 0.3007 0.0833 0.1038 0.0289 0.0357 0.0498 0.0550 0.0288 0.0318 0.0350 -0.0118 -0.0254 0.0226 0.0241 0.0238 0.0300 0.0554 0.0542 0.0522 0.0542 0.0470 0.0710 0.0576 0.0370 0.0738 0.0743 0.0481 0.0820 0.0883 -0.0801 -0.0207 -0.0008 -0.0006 0.0786 0.0850 -0.0725 UTR_3_UCSC.extend.500.bed NaN 0.4516 0.4453 0.0968 0.1597 0.0361 0.0504 0.0655 0.0729 0.0386 0.0414 0.0432 -0.0181 -0.0311 0.0289 0.0333 0.0340 0.0355 0.0670 0.0667 0.0677 0.0673 0.0563 0.0910 0.0774 0.0548 0.1053 0.1014 0.0647 0.1156 0.1247 -0.0275 0.0347 0.0061 0.0131 0.1614 0.1642 -0.0991 UTR_5_UCSC.bed NaN 0.3344 0.1861 0.1123 0.0799 0.0158 0.0246 0.0646 0.0487 0.0593 0.0674 0.0393 -0.0092 -0.0178 0.0413 0.0505 0.0771 0.0530 0.0506 0.0482 0.0607 0.0544 0.0405 0.0563 0.0466 0.0819 0.1023 0.0807 0.0676 0.0971 0.0778 -0.0392 0.0515 0.0030 0.0329 0.2052 0.1896 -0.0522 UTR_5_UCSC.extend.500.bed NaN 0.1998 0.4669 0.1065 0.1957 0.0196 0.0317 0.1039 0.0935 0.1013 0.1094 0.0749 -0.0170 -0.0274 0.0769 0.1020 0.1287 0.0971 0.0891 0.0866 0.1226 0.1095 0.0804 0.1116 0.0957 0.1614 0.2008 0.1608 0.1354 0.1939 0.1680 0.0652 0.1437 0.0317 0.0901 0.4421 0.4097 -0.1084 WeakEnhancer_Hoffman.bed NaN 0.0129 0.0046 0.0307 0.0628 0.0365 0.0643 0.1893 0.1400 0.1984 0.2183 0.1530 0.0721 0.0932 0.1378 0.1886 0.1791 0.1666 0.1195 0.1135 0.1548 0.1419 0.2268 0.1630 0.1128 0.1344 0.1855 0.1614 0.1439 0.1873 0.1630 0.0091 0.0110 0.0202 0.0569 0.0256 0.0290 -0.1343 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0101 0.0012 0.0286 0.0947 0.0920 0.1311 0.1762 0.2663 0.1873 0.2221 0.2843 0.0672 0.1357 0.2407 0.3527 0.1831 0.2850 0.2314 0.2258 0.2844 0.2712 0.2696 0.2857 0.2313 0.1421 0.2495 0.2908 0.1598 0.2623 0.2927 0.0198 0.0204 0.0487 0.1272 0.0545 0.0582 -0.2290 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 -0.1238 0.0462 0.0470 0.0844 0.0701 0.0572 -0.0131 0.0827 0.0692 0.5810 0.4516 0.3344 0.1998 0.0129 0.0101 Coding_UCSC.extend.500.bed -0.2548 0.0841 0.0850 0.1203 0.1053 0.1321 -0.0058 0.1566 0.1374 0.3007 0.4453 0.1861 0.4669 0.0046 0.0012 Conserved_LindbladToh.bed -0.0645 0.0361 0.0354 0.0994 0.0683 0.0028 -0.0349 0.0873 0.0722 0.0833 0.0968 0.1123 0.1065 0.0307 0.0286 Conserved_LindbladToh.extend.500.bed -0.1677 0.1109 0.1103 0.1579 0.1698 0.0283 -0.0578 0.1344 0.1370 0.1038 0.1597 0.0799 0.1957 0.0628 0.0947 CTCF_Hoffman.bed -0.0668 0.0354 0.0361 0.2377 0.1776 -0.0640 -0.0446 0.0305 0.0479 0.0289 0.0361 0.0158 0.0196 0.0365 0.0920 CTCF_Hoffman.extend.500.bed -0.0921 0.0642 0.0665 0.1791 0.2665 -0.0400 -0.0493 0.0357 0.0684 0.0357 0.0504 0.0246 0.0317 0.0643 0.1311 DGF_ENCODE.bed -0.2006 0.1639 0.1623 0.3886 0.2516 -0.0069 -0.0802 0.2225 0.2018 0.0498 0.0655 0.0646 0.1039 0.1893 0.1762 DGF_ENCODE.extend.500.bed -0.2779 0.2436 0.2442 0.2962 0.4295 0.0252 -0.0638 0.1513 0.1986 0.0550 0.0729 0.0487 0.0935 0.1400 0.2663 DHS_peaks_Trynka.bed -0.1603 0.1272 0.1243 0.3918 0.2463 -0.0436 -0.0998 0.2478 0.2108 0.0288 0.0386 0.0593 0.1013 0.1984 0.1873 DHS_Trynka.bed -0.1843 0.1481 0.1450 0.4479 0.2964 -0.0490 -0.1104 0.2609 0.2284 0.0318 0.0414 0.0674 0.1094 0.2183 0.2221 DHS_Trynka.extend.500.bed -0.2212 0.2037 0.2038 0.2970 0.4296 -0.0192 -0.0835 0.1644 0.2059 0.0350 0.0432 0.0393 0.0749 0.1530 0.2843 Enhancer_Andersson.bed -0.0573 0.0685 0.0676 0.1185 0.0705 -0.0141 -0.0285 0.1054 0.0902 -0.0118 -0.0181 -0.0092 -0.0170 0.0721 0.0672 Enhancer_Andersson.extend.500.bed -0.1058 0.1325 0.1306 0.1457 0.1368 -0.0252 -0.0494 0.1367 0.1545 -0.0254 -0.0311 -0.0178 -0.0274 0.0932 0.1357 Enhancer_Hoffman.bed -0.2685 0.2053 0.2037 0.3511 0.2885 -0.0474 -0.1083 0.2035 0.3209 0.0226 0.0289 0.0413 0.0769 0.1378 0.2407 Enhancer_Hoffman.extend.500.bed -0.3508 0.2757 0.2774 0.3457 0.3843 -0.0424 -0.1151 0.2787 0.4205 0.0241 0.0333 0.0505 0.1020 0.1886 0.3527 FetalDHS_Trynka.bed -0.1625 0.1361 0.1333 0.3784 0.2384 -0.0617 -0.1233 0.2997 0.2536 0.0238 0.0340 0.0771 0.1287 0.1791 0.1831 FetalDHS_Trynka.extend.500.bed -0.2196 0.2199 0.2185 0.3177 0.3816 -0.0459 -0.1121 0.2343 0.2741 0.0300 0.0355 0.0530 0.0971 0.1666 0.2850 H3K27ac_Hnisz.bed -0.3804 0.5552 0.5552 0.2293 0.3047 0.1180 -0.0140 0.1615 0.2154 0.0554 0.0670 0.0506 0.0891 0.1195 0.2314 H3K27ac_Hnisz.extend.500.bed -0.3760 0.5192 0.5260 0.2189 0.3023 0.1186 -0.0104 0.1516 0.2054 0.0542 0.0667 0.0482 0.0866 0.1135 0.2258 H3K27ac_PGC2.bed -0.4058 0.4281 0.4301 0.3034 0.3724 0.0826 -0.0458 0.2558 0.3298 0.0522 0.0677 0.0607 0.1226 0.1548 0.2844 H3K27ac_PGC2.extend.500.bed -0.4119 0.4322 0.4370 0.2675 0.3503 0.1066 -0.0253 0.2169 0.2912 0.0542 0.0673 0.0544 0.1095 0.1419 0.2712 H3K4me1_peaks_Trynka.bed -0.2837 0.2546 0.2532 0.3146 0.2978 0.0413 -0.0628 0.2083 0.2499 0.0470 0.0563 0.0405 0.0804 0.2268 0.2696 H3K4me1_Trynka.bed -0.4096 0.3398 0.3415 0.2902 0.3777 0.1220 -0.0374 0.1682 0.2290 0.0710 0.0910 0.0563 0.1116 0.1630 0.2857 H3K4me1_Trynka.extend.500.bed -0.3785 0.2918 0.2956 0.2064 0.3260 0.1371 -0.0149 0.1200 0.1648 0.0576 0.0774 0.0466 0.0957 0.1128 0.2313 H3K4me3_peaks_Trynka.bed -0.1970 0.1670 0.1653 0.3006 0.2104 -0.0246 -0.1151 0.3476 0.3194 0.0370 0.0548 0.0819 0.1614 0.1344 0.1421 H3K4me3_Trynka.bed -0.3430 0.2956 0.2952 0.3846 0.3462 0.0203 -0.1109 0.3613 0.4277 0.0738 0.1053 0.1023 0.2008 0.1855 0.2495 H3K4me3_Trynka.extend.500.bed -0.3775 0.3280 0.3308 0.3174 0.3805 0.0582 -0.0749 0.2543 0.3397 0.0743 0.1014 0.0807 0.1608 0.1614 0.2908 H3K9ac_peaks_Trynka.bed -0.2214 0.2018 0.2002 0.2603 0.2036 0.0175 -0.0792 0.2836 0.2748 0.0481 0.0647 0.0676 0.1354 0.1439 0.1598 H3K9ac_Trynka.bed -0.3835 0.3407 0.3403 0.3511 0.3360 0.0519 -0.0953 0.3329 0.3898 0.0820 0.1156 0.0971 0.1939 0.1873 0.2623 H3K9ac_Trynka.extend.500.bed -0.4485 0.3726 0.3765 0.2945 0.3573 0.1059 -0.0604 0.2374 0.3178 0.0883 0.1247 0.0778 0.1680 0.1630 0.2927 Intron_UCSC.bed -0.3578 0.1822 0.1810 0.0208 0.0495 0.3276 0.1629 0.0201 0.0221 -0.0801 -0.0275 -0.0392 0.0652 0.0091 0.0198 Intron_UCSC.extend.500.bed -0.3865 0.1913 0.1901 0.0496 0.0692 0.3305 0.1480 0.0615 0.0561 -0.0207 0.0347 0.0515 0.1437 0.0110 0.0204 PromoterFlanking_Hoffman.bed -0.0920 0.0366 0.0372 0.0540 0.0771 -0.0235 -0.0313 0.0748 0.1863 -0.0008 0.0061 0.0030 0.0317 0.0202 0.0487 PromoterFlanking_Hoffman.extend.500.bed -0.1630 0.0777 0.0811 0.1335 0.1674 -0.0567 -0.0793 0.2209 0.3565 -0.0006 0.0131 0.0329 0.0901 0.0569 0.1272 Promoter_UCSC.bed -0.1782 0.0972 0.1001 0.1787 0.1450 -0.0470 -0.1328 0.3353 0.3598 0.0786 0.1614 0.2052 0.4421 0.0256 0.0545 Promoter_UCSC.extend.500.bed -0.1863 0.1019 0.1052 0.1728 0.1444 -0.0341 -0.1211 0.3154 0.3464 0.0850 0.1642 0.1896 0.4097 0.0290 0.0582 Repressed_Hoffman.bed 0.6389 -0.2557 -0.2571 -0.2260 -0.2640 -0.6363 -0.1595 -0.1400 -0.1920 -0.0725 -0.0991 -0.0522 -0.1084 -0.1343 -0.2290 Repressed_Hoffman.extend.500.bed 1.0000 -0.3416 -0.3429 -0.2640 -0.2973 -0.4237 -0.0816 -0.2158 -0.2800 -0.1058 -0.1454 -0.0769 -0.1627 -0.1479 -0.2432 SuperEnhancer_Hnisz.bed -0.3416 1.0000 0.9870 0.2027 0.2422 0.1345 0.0169 0.1694 0.2119 0.0365 0.0432 0.0415 0.0758 0.1056 0.1966 SuperEnhancer_Hnisz.extend.500.bed -0.3429 0.9870 1.0000 0.2010 0.2436 0.1351 0.0172 0.1681 0.2135 0.0379 0.0442 0.0413 0.0757 0.1054 0.1977 TFBS_ENCODE.bed -0.2640 0.2027 0.2010 1.0000 0.5417 -0.0456 -0.1305 0.3586 0.3562 0.0544 0.0780 0.0861 0.1472 0.2125 0.2432 TFBS_ENCODE.extend.500.bed -0.2973 0.2422 0.2436 0.5417 1.0000 -0.0127 -0.0956 0.2264 0.2983 0.0538 0.0701 0.0580 0.1044 0.1712 0.3140 Transcribed_Hoffman.bed -0.4237 0.1345 0.1351 -0.0456 -0.0127 1.0000 0.4391 -0.0982 -0.0868 0.0699 0.0836 -0.0006 0.0102 -0.0283 -0.0423 Transcribed_Hoffman.extend.500.bed -0.0816 0.0169 0.0172 -0.1305 -0.0956 0.4391 1.0000 -0.1948 -0.1718 0.0178 0.0110 -0.0486 -0.0863 -0.0569 -0.0766 TSS_Hoffman.bed -0.2158 0.1694 0.1681 0.3586 0.2264 -0.0982 -0.1948 1.0000 0.7199 0.0237 0.0556 0.1428 0.2659 0.0696 0.0956 TSS_Hoffman.extend.500.bed -0.2800 0.2119 0.2135 0.3562 0.2983 -0.0868 -0.1718 0.7199 1.0000 0.0248 0.0561 0.1217 0.2345 0.1019 0.1749 UTR_3_UCSC.bed -0.1058 0.0365 0.0379 0.0544 0.0538 0.0699 0.0178 0.0237 0.0248 1.0000 0.6573 0.1116 0.0618 0.0150 0.0201 UTR_3_UCSC.extend.500.bed -0.1454 0.0432 0.0442 0.0780 0.0701 0.0836 0.0110 0.0556 0.0561 0.6573 1.0000 0.0981 0.1403 0.0137 0.0173 UTR_5_UCSC.bed -0.0769 0.0415 0.0413 0.0861 0.0580 -0.0006 -0.0486 0.1428 0.1217 0.1116 0.0981 1.0000 0.4477 0.0110 0.0094 UTR_5_UCSC.extend.500.bed -0.1627 0.0758 0.0757 0.1472 0.1044 0.0102 -0.0863 0.2659 0.2345 0.0618 0.1403 0.4477 1.0000 0.0111 0.0178 WeakEnhancer_Hoffman.bed -0.1479 0.1056 0.1054 0.2125 0.1712 -0.0283 -0.0569 0.0696 0.1019 0.0150 0.0137 0.0110 0.0111 1.0000 0.4705 WeakEnhancer_Hoffman.extend.500.bed -0.2432 0.1966 0.1977 0.2432 0.3140 -0.0423 -0.0766 0.0956 0.1749 0.0201 0.0173 0.0094 0.0178 0.4705 1.0000 Annotation Matrix Column Sums base 269222.0 Coding_UCSC.bed 8872.0 Coding_UCSC.extend.500.bed 35115.0 Conserved_LindbladToh.bed 9361.0 Conserved_LindbladToh.extend.500.bed 103924.0 CTCF_Hoffman.bed 9387.0 CTCF_Hoffman.extend.500.bed 27513.0 DGF_ENCODE.bed 50597.0 DGF_ENCODE.extend.500.bed 175687.0 DHS_peaks_Trynka.bed 37058.0 DHS_Trynka.bed 54392.0 DHS_Trynka.extend.500.bed 153742.0 Enhancer_Andersson.bed 2037.0 Enhancer_Andersson.extend.500.bed 8616.0 Enhancer_Hoffman.bed 20796.0 Enhancer_Hoffman.extend.500.bed 43885.0 FetalDHS_Trynka.bed 29754.0 FetalDHS_Trynka.extend.500.bed 94393.0 H3K27ac_Hnisz.bed 153848.0 H3K27ac_Hnisz.extend.500.bed 162600.0 H3K27ac_PGC2.bed 106174.0 H3K27ac_PGC2.extend.500.bed 128956.0 H3K4me1_peaks_Trynka.bed 66235.0 H3K4me1_Trynka.bed 152396.0 H3K4me1_Trynka.extend.500.bed 200866.0 H3K4me3_peaks_Trynka.bed 18828.0 H3K4me3_Trynka.bed 58316.0 H3K4me3_Trynka.extend.500.bed 102679.0 H3K9ac_peaks_Trynka.bed 21340.0 H3K9ac_Trynka.bed 63282.0 H3K9ac_Trynka.extend.500.bed 109330.0 Intron_UCSC.bed 133424.0 Intron_UCSC.extend.500.bed 139348.0 PromoterFlanking_Hoffman.bed 3539.0 PromoterFlanking_Hoffman.extend.500.bed 14721.0 Promoter_UCSC.bed 25509.0 Promoter_UCSC.extend.500.bed 31008.0 Repressed_Hoffman.bed 81851.0 Repressed_Hoffman.extend.500.bed 139172.0 SuperEnhancer_Hnisz.bed 78430.0 SuperEnhancer_Hnisz.extend.500.bed 79893.0 TFBS_ENCODE.bed 53420.0 TFBS_ENCODE.extend.500.bed 123193.0 Transcribed_Hoffman.bed 130427.0 Transcribed_Hoffman.extend.500.bed 223386.0 TSS_Hoffman.bed 11567.0 TSS_Hoffman.extend.500.bed 21460.0 UTR_3_UCSC.bed 6309.0 UTR_3_UCSC.extend.500.bed 14168.0 UTR_5_UCSC.bed 2987.0 UTR_5_UCSC.extend.500.bed 14269.0 WeakEnhancer_Hoffman.bed 10674.0 WeakEnhancer_Hoffman.extend.500.bed 42318.0 Summary of Annotation Matrix Row Sums count 269222.0000 mean 14.3386 std 7.7572 min 1.0000 25% 8.0000 50% 13.0000 75% 20.0000 max 43.0000 Analysis finished at Tue Oct 17 17:07:03 2017 Total time elapsed: 25.0m:47.68s