********************************************************************* * 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.15.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.15 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.15 \ --annot 1000G_Phase3_baseline_v1.1/baseline.15.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 287001 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.15.bim Read 53 annotations for 287001 SNPs from 1000G_Phase3_baseline_v1.1/baseline.15.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.15.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.15.bed Estimating LD Score. Reading list of 42410 SNPs for which to print LD Scores from hapmap3_snps/hm.15.snp After merging with --print-snps, LD Scores for 36291 SNPs will be printed. Writing LD Scores for 36291 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.15.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.15.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 0.2363 104.4360 2.0374 9.8949 2.8237 36.1245 2.8433 8.3521 15.6434 60.3342 12.6785 18.9641 54.7667 0.4728 2.1542 5.9570 12.3965 9.7159 31.5007 49.6754 53.0673 33.7854 41.8285 21.4810 52.6603 72.2253 4.8047 15.0356 28.6091 5.0600 16.6803 30.0445 56.2550 57.4836 1.2848 4.7495 6.6057 std 0.1452 90.9270 3.4875 15.7448 3.6020 40.3265 3.1088 8.5030 15.2005 53.8382 11.3754 16.8439 46.7002 0.8423 3.0975 8.1595 16.1008 8.9271 27.2815 53.6769 55.7763 37.7216 45.1261 22.6273 51.6051 67.3122 5.4588 16.2031 28.6742 6.4275 19.8778 34.3204 70.0210 71.3045 2.1502 6.6659 10.7213 min 0.0051 -3.2411 -0.1726 -0.6207 -0.2689 -2.1905 -0.1458 -0.3133 -0.7009 -2.5887 -0.6387 -0.8943 -2.3261 -0.0740 -0.2208 -0.2732 -0.5626 -0.3808 -1.2134 -2.5570 -2.6849 -2.0316 -2.2846 -1.0146 -1.5972 -2.0724 -0.1687 -0.8289 -1.4564 -0.2140 -1.1962 -1.8085 -3.0011 -3.0707 -0.1113 -0.2385 -0.6097 25% 0.1084 43.0156 0.0438 0.3409 0.3003 9.3152 0.6515 2.3740 5.2762 23.7669 4.8893 7.5592 23.0386 0.0199 0.2103 0.6048 1.5600 3.5648 13.0061 12.3862 14.4838 8.4064 11.3101 6.5307 18.2296 27.6736 1.1192 3.9861 9.0266 0.6796 2.8029 6.2183 5.0966 5.3085 0.0590 0.4707 0.3247 50% 0.2260 75.2297 0.5131 3.1310 1.5668 23.7614 1.7334 5.5411 10.4868 42.7027 9.1122 13.6916 40.2547 0.1271 0.9454 2.7088 6.2155 6.9185 23.3936 31.9559 34.6374 20.7105 26.3685 13.6352 35.1769 49.6448 2.8298 8.9669 18.4236 2.4792 8.7238 16.6786 31.3302 31.9979 0.3625 1.9272 2.1884 75% 0.3630 133.6819 2.5635 13.0353 3.9385 48.4554 4.0725 11.7344 20.5748 77.3514 16.6925 24.6732 70.3813 0.5528 2.8406 8.1901 17.4002 12.9267 41.0054 67.9199 71.7328 45.5210 55.9480 28.0286 68.2092 91.3009 6.5162 20.3104 37.8590 7.0823 23.4176 41.5924 79.1102 80.9042 1.5063 6.1023 8.2276 max 0.5000 918.0066 31.4165 138.2253 30.2218 304.2534 42.8967 90.4072 98.8446 365.1752 72.8091 117.9656 315.6231 9.7776 31.8411 75.0475 116.0884 62.7620 201.9478 398.3524 410.4014 290.3466 333.7066 166.1221 362.4810 446.6243 66.4919 139.0810 196.2732 56.9725 139.4205 244.1431 430.2894 434.2954 16.7576 46.4580 117.4906 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 8.0079 36.6108 61.5676 23.3275 23.7622 14.9665 38.1828 50.3982 87.8654 2.4068 4.4835 1.7256 3.9203 0.8206 4.0435 2.9690 12.3642 std 12.7219 38.1472 57.6827 35.5572 35.9736 15.1789 35.5427 60.9608 81.5857 4.2006 7.1979 2.9250 6.8784 1.6094 6.6828 3.7494 14.3270 min -0.6500 -3.4008 -3.3373 -1.6320 -1.6547 -0.5921 -1.6188 -1.9132 -2.8474 -0.1856 -0.2964 -0.1507 -0.5906 -0.1092 -0.3631 -0.1628 -0.6689 25% 0.4063 13.8370 25.4847 0.5506 0.5729 4.5712 13.8922 12.3386 33.5602 0.0549 0.1710 0.0388 0.1398 0.0105 0.1334 0.4222 2.5562 50% 2.6956 26.4056 46.2642 8.4159 8.7196 9.5441 26.2245 26.6719 59.6209 0.5678 1.3458 0.4089 1.1046 0.1331 1.0809 1.6473 7.3213 75% 9.9905 48.4551 80.3667 31.6855 32.4377 19.8440 50.0698 62.5525 112.9785 2.9182 5.7118 2.1183 4.8350 0.9121 5.1339 3.9572 16.7255 max 118.2272 686.3954 915.6101 268.1403 268.6911 97.0400 223.6252 420.0228 781.0866 38.4058 60.7621 32.9462 99.2856 15.9369 60.5245 26.8362 89.8461 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 0.1495 0.0294 0.0351 0.0692 0.1056 0.1169 0.1210 0.1243 0.1329 0.1425 0.1475 0.1458 0.0727 0.0926 0.0717 0.0789 0.1398 0.1418 0.0932 0.0971 0.0895 0.0922 0.0992 0.1039 0.1160 0.0824 0.0885 0.1054 0.0615 0.0719 0.0704 0.0805 0.0800 0.0603 0.0775 baseL2 0.1495 1.0000 0.6009 0.6725 0.5876 0.7455 0.6789 0.7221 0.8220 0.8994 0.8168 0.8321 0.8895 0.3679 0.4570 0.6123 0.6647 0.7747 0.8214 0.7689 0.7893 0.7573 0.7820 0.7856 0.8379 0.8882 0.7268 0.7509 0.8078 0.6666 0.7019 0.7433 0.8288 0.8319 0.6734 0.7401 Coding_UCSC.bedL2 0.0294 0.6009 1.0000 0.8980 0.5571 0.6342 0.5592 0.6106 0.6662 0.6801 0.6171 0.6175 0.6450 0.3274 0.4112 0.5694 0.6031 0.6036 0.6024 0.6538 0.6658 0.6454 0.6564 0.6406 0.6864 0.6968 0.6821 0.6756 0.6798 0.6926 0.7236 0.7377 0.6460 0.6593 0.6456 0.6775 Coding_UCSC.extend.500.bedL2 0.0351 0.6725 0.8980 1.0000 0.5543 0.6843 0.5981 0.6452 0.7198 0.7485 0.6719 0.6807 0.7180 0.3555 0.4477 0.6032 0.6481 0.6468 0.6615 0.7156 0.7307 0.7014 0.7181 0.6967 0.7621 0.7821 0.7045 0.7039 0.7217 0.7200 0.7553 0.7835 0.7459 0.7571 0.7060 0.7431 Conserved_LindbladToh.bedL2 0.0692 0.5876 0.5571 0.5543 1.0000 0.8673 0.4267 0.4573 0.5158 0.5706 0.5230 0.5518 0.5885 0.1523 0.2194 0.3410 0.3643 0.4998 0.5236 0.4920 0.5121 0.4734 0.4874 0.4844 0.5520 0.5850 0.4511 0.4634 0.5066 0.4211 0.4798 0.5031 0.5588 0.5637 0.4115 0.4706 Conserved_LindbladToh.extend.500.bedL2 0.1056 0.7455 0.6342 0.6843 0.8673 1.0000 0.5831 0.6237 0.7116 0.7599 0.7015 0.7307 0.7686 0.2987 0.3775 0.5109 0.5353 0.6643 0.6936 0.6895 0.7090 0.6721 0.6864 0.6793 0.7448 0.7743 0.6108 0.6447 0.6889 0.5742 0.6382 0.6717 0.7271 0.7316 0.5749 0.6487 CTCF_Hoffman.bedL2 0.1169 0.6789 0.5592 0.5981 0.4267 0.5831 1.0000 0.9499 0.7871 0.7865 0.7560 0.7546 0.7631 0.4486 0.5162 0.6739 0.7174 0.7462 0.7508 0.7381 0.7468 0.7167 0.7311 0.7528 0.7596 0.7671 0.6939 0.7264 0.7554 0.7263 0.7562 0.7757 0.6215 0.6285 0.6147 0.6943 CTCF_Hoffman.extend.500.bedL2 0.1210 0.7221 0.6106 0.6452 0.4573 0.6237 0.9499 1.0000 0.8254 0.8325 0.7947 0.7933 0.8084 0.4702 0.5470 0.7141 0.7569 0.7840 0.7929 0.7794 0.7892 0.7582 0.7732 0.7911 0.8031 0.8107 0.7292 0.7613 0.7952 0.7647 0.7839 0.8075 0.6521 0.6599 0.6585 0.7403 DGF_ENCODE.bedL2 0.1243 0.8220 0.6662 0.7198 0.5158 0.7116 0.7871 0.8254 1.0000 0.9719 0.9671 0.9653 0.9564 0.5354 0.6411 0.8611 0.8965 0.9390 0.9454 0.9433 0.9481 0.9438 0.9511 0.9609 0.9615 0.9495 0.8572 0.8977 0.9324 0.8775 0.9093 0.9274 0.7966 0.8013 0.7326 0.8218 DGF_ENCODE.extend.500.bedL2 0.1329 0.8994 0.6801 0.7485 0.5706 0.7599 0.7865 0.8325 0.9719 1.0000 0.9562 0.9639 0.9854 0.4946 0.5970 0.8067 0.8545 0.9219 0.9514 0.9314 0.9427 0.9224 0.9387 0.9465 0.9720 0.9819 0.8418 0.8814 0.9283 0.8432 0.8787 0.9102 0.8529 0.8571 0.7553 0.8387 DHS_peaks_Trynka.bedL2 0.1425 0.8168 0.6171 0.6719 0.5230 0.7015 0.7560 0.7947 0.9671 0.9562 1.0000 0.9907 0.9678 0.5139 0.6140 0.8216 0.8552 0.9728 0.9711 0.9284 0.9339 0.9193 0.9266 0.9509 0.9529 0.9430 0.8329 0.8709 0.9112 0.8394 0.8718 0.8901 0.8023 0.8052 0.6902 0.7747 DHS_Trynka.bedL2 0.1475 0.8321 0.6175 0.6807 0.5518 0.7307 0.7546 0.7933 0.9653 0.9639 0.9907 1.0000 0.9787 0.5098 0.6150 0.8142 0.8503 0.9685 0.9749 0.9337 0.9405 0.9232 0.9316 0.9507 0.9600 0.9530 0.8264 0.8672 0.9118 0.8319 0.8672 0.8882 0.8164 0.8190 0.6986 0.7785 DHS_Trynka.extend.500.bedL2 0.1458 0.8895 0.6450 0.7180 0.5885 0.7686 0.7631 0.8084 0.9564 0.9854 0.9678 0.9787 1.0000 0.4779 0.5853 0.7872 0.8319 0.9368 0.9708 0.9236 0.9353 0.9083 0.9229 0.9401 0.9675 0.9767 0.8198 0.8625 0.9144 0.8183 0.8550 0.8874 0.8537 0.8565 0.7259 0.8072 Enhancer_Andersson.bedL2 0.0727 0.3679 0.3274 0.3555 0.1523 0.2987 0.4486 0.4702 0.5354 0.4946 0.5139 0.5098 0.4779 1.0000 0.8670 0.5911 0.5806 0.5292 0.5011 0.5244 0.5196 0.5335 0.5302 0.5084 0.4940 0.4746 0.5000 0.5157 0.5181 0.5276 0.5147 0.5090 0.3337 0.3373 0.3833 0.4161 Enhancer_Andersson.extend.500.bedL2 0.0926 0.4570 0.4112 0.4477 0.2194 0.3775 0.5162 0.5470 0.6411 0.5970 0.6140 0.6150 0.5853 0.8670 1.0000 0.6642 0.6593 0.6217 0.6000 0.6175 0.6151 0.6227 0.6243 0.6035 0.5967 0.5784 0.5821 0.6049 0.6140 0.5906 0.5967 0.5990 0.4218 0.4257 0.4669 0.5039 Enhancer_Hoffman.bedL2 0.0717 0.6123 0.5694 0.6032 0.3410 0.5109 0.6739 0.7141 0.8611 0.8067 0.8216 0.8142 0.7872 0.5911 0.6642 1.0000 0.9769 0.8254 0.8147 0.8610 0.8535 0.8885 0.8797 0.8649 0.8330 0.7875 0.7950 0.8230 0.8337 0.8434 0.8493 0.8531 0.6076 0.6129 0.6376 0.7199 Enhancer_Hoffman.extend.500.bedL2 0.0789 0.6647 0.6031 0.6481 0.3643 0.5353 0.7174 0.7569 0.8965 0.8545 0.8552 0.8503 0.8319 0.5806 0.6593 0.9769 1.0000 0.8530 0.8535 0.8960 0.8914 0.9195 0.9155 0.9012 0.8747 0.8367 0.8227 0.8518 0.8681 0.8781 0.8805 0.8909 0.6549 0.6606 0.7114 0.7874 FetalDHS_Trynka.bedL2 0.1398 0.7747 0.6036 0.6468 0.4998 0.6643 0.7462 0.7840 0.9390 0.9219 0.9728 0.9685 0.9368 0.5292 0.6217 0.8254 0.8530 1.0000 0.9734 0.9066 0.9104 0.8991 0.9047 0.9358 0.9262 0.9093 0.8254 0.8533 0.8894 0.8422 0.8622 0.8737 0.7634 0.7666 0.6717 0.7499 FetalDHS_Trynka.extend.500.bedL2 0.1418 0.8214 0.6024 0.6615 0.5236 0.6936 0.7508 0.7929 0.9454 0.9514 0.9711 0.9749 0.9708 0.5011 0.6000 0.8147 0.8535 0.9734 1.0000 0.9265 0.9324 0.9126 0.9220 0.9479 0.9511 0.9424 0.8167 0.8528 0.9007 0.8403 0.8645 0.8883 0.7943 0.7971 0.6899 0.7681 H3K27ac_Hnisz.bedL2 0.0932 0.7689 0.6538 0.7156 0.4920 0.6895 0.7381 0.7794 0.9433 0.9314 0.9284 0.9337 0.9236 0.5244 0.6175 0.8610 0.8960 0.9066 0.9265 1.0000 0.9985 0.9704 0.9748 0.9579 0.9616 0.9363 0.8372 0.8752 0.9115 0.8819 0.9123 0.9339 0.7733 0.7779 0.7209 0.7947 H3K27ac_Hnisz.extend.500.bedL2 0.0971 0.7893 0.6658 0.7307 0.5121 0.7090 0.7468 0.7892 0.9481 0.9427 0.9339 0.9405 0.9353 0.5196 0.6151 0.8535 0.8914 0.9104 0.9324 0.9985 1.0000 0.9686 0.9751 0.9597 0.9689 0.9489 0.8400 0.8781 0.9167 0.8801 0.9107 0.9354 0.7903 0.7951 0.7331 0.8067 H3K27ac_PGC2.bedL2 0.0895 0.7573 0.6454 0.7014 0.4734 0.6721 0.7167 0.7582 0.9438 0.9224 0.9193 0.9232 0.9083 0.5335 0.6227 0.8885 0.9195 0.8991 0.9126 0.9704 0.9686 1.0000 0.9964 0.9578 0.9534 0.9200 0.8466 0.8886 0.9183 0.8870 0.9202 0.9349 0.7592 0.7635 0.7211 0.7932 H3K27ac_PGC2.extend.500.bedL2 0.0922 0.7820 0.6564 0.7181 0.4874 0.6864 0.7311 0.7732 0.9511 0.9387 0.9266 0.9316 0.9229 0.5302 0.6243 0.8797 0.9155 0.9047 0.9220 0.9748 0.9751 0.9964 1.0000 0.9635 0.9647 0.9377 0.8484 0.8905 0.9244 0.8845 0.9189 0.9391 0.7797 0.7841 0.7366 0.8098 H3K4me1_peaks_Trynka.bedL2 0.0992 0.7856 0.6406 0.6967 0.4844 0.6793 0.7528 0.7911 0.9609 0.9465 0.9509 0.9507 0.9401 0.5084 0.6035 0.8649 0.9012 0.9358 0.9479 0.9579 0.9597 0.9578 0.9635 1.0000 0.9761 0.9502 0.8618 0.8975 0.9300 0.9010 0.9188 0.9378 0.7992 0.8029 0.7484 0.8245 H3K4me1_Trynka.bedL2 0.1039 0.8379 0.6864 0.7621 0.5520 0.7448 0.7596 0.8031 0.9615 0.9720 0.9529 0.9600 0.9675 0.4940 0.5967 0.8330 0.8747 0.9262 0.9511 0.9616 0.9689 0.9534 0.9647 0.9761 1.0000 0.9878 0.8632 0.9016 0.9410 0.8755 0.9070 0.9375 0.8500 0.8541 0.7562 0.8345 H3K4me1_Trynka.extend.500.bedL2 0.1160 0.8882 0.6968 0.7821 0.5850 0.7743 0.7671 0.8107 0.9495 0.9819 0.9430 0.9530 0.9767 0.4746 0.5784 0.7875 0.8367 0.9093 0.9424 0.9363 0.9489 0.9200 0.9377 0.9502 0.9878 1.0000 0.8455 0.8799 0.9259 0.8406 0.8743 0.9129 0.8796 0.8836 0.7661 0.8436 H3K4me3_peaks_Trynka.bedL2 0.0824 0.7268 0.6821 0.7045 0.4511 0.6108 0.6939 0.7292 0.8572 0.8418 0.8329 0.8264 0.8198 0.5000 0.5821 0.7950 0.8227 0.8254 0.8167 0.8372 0.8400 0.8466 0.8484 0.8618 0.8632 0.8455 1.0000 0.9563 0.9388 0.8631 0.8734 0.8681 0.7029 0.7096 0.7200 0.7815 H3K4me3_Trynka.bedL2 0.0885 0.7509 0.6756 0.7039 0.4634 0.6447 0.7264 0.7613 0.8977 0.8814 0.8709 0.8672 0.8625 0.5157 0.6049 0.8230 0.8518 0.8533 0.8528 0.8752 0.8781 0.8886 0.8905 0.8975 0.9016 0.8799 0.9563 1.0000 0.9825 0.8776 0.9074 0.9035 0.7284 0.7346 0.7442 0.8150 H3K4me3_Trynka.extend.500.bedL2 0.1054 0.8078 0.6798 0.7217 0.5066 0.6889 0.7554 0.7952 0.9324 0.9283 0.9112 0.9118 0.9144 0.5181 0.6140 0.8337 0.8681 0.8894 0.9007 0.9115 0.9167 0.9183 0.9244 0.9300 0.9410 0.9259 0.9388 0.9825 1.0000 0.8829 0.9170 0.9265 0.7716 0.7771 0.7530 0.8329 H3K9ac_peaks_Trynka.bedL2 0.0615 0.6666 0.6926 0.7200 0.4211 0.5742 0.7263 0.7647 0.8775 0.8432 0.8394 0.8319 0.8183 0.5276 0.5906 0.8434 0.8781 0.8422 0.8403 0.8819 0.8801 0.8870 0.8845 0.9010 0.8755 0.8406 0.8631 0.8776 0.8829 1.0000 0.9607 0.9520 0.6698 0.6774 0.7236 0.7915 H3K9ac_Trynka.bedL2 0.0719 0.7019 0.7236 0.7553 0.4798 0.6382 0.7562 0.7839 0.9093 0.8787 0.8718 0.8672 0.8550 0.5147 0.5967 0.8493 0.8805 0.8622 0.8645 0.9123 0.9107 0.9202 0.9189 0.9188 0.9070 0.8743 0.8734 0.9074 0.9170 0.9607 1.0000 0.9867 0.7155 0.7230 0.7223 0.7986 H3K9ac_Trynka.extend.500.bedL2 0.0704 0.7433 0.7377 0.7835 0.5031 0.6717 0.7757 0.8075 0.9274 0.9102 0.8901 0.8882 0.8874 0.5090 0.5990 0.8531 0.8909 0.8737 0.8883 0.9339 0.9354 0.9349 0.9391 0.9378 0.9375 0.9129 0.8681 0.9035 0.9265 0.9520 0.9867 1.0000 0.7554 0.7627 0.7492 0.8278 Intron_UCSC.bedL2 0.0805 0.8288 0.6460 0.7459 0.5588 0.7271 0.6215 0.6521 0.7966 0.8529 0.8023 0.8164 0.8537 0.3337 0.4218 0.6076 0.6549 0.7634 0.7943 0.7733 0.7903 0.7592 0.7797 0.7992 0.8500 0.8796 0.7029 0.7284 0.7716 0.6698 0.7155 0.7554 1.0000 0.9997 0.6484 0.7069 Intron_UCSC.extend.500.bedL2 0.0800 0.8319 0.6593 0.7571 0.5637 0.7316 0.6285 0.6599 0.8013 0.8571 0.8052 0.8190 0.8565 0.3373 0.4257 0.6129 0.6606 0.7666 0.7971 0.7779 0.7951 0.7635 0.7841 0.8029 0.8541 0.8836 0.7096 0.7346 0.7771 0.6774 0.7230 0.7627 0.9997 1.0000 0.6558 0.7145 PromoterFlanking_Hoffman.bedL2 0.0603 0.6734 0.6456 0.7060 0.4115 0.5749 0.6147 0.6585 0.7326 0.7553 0.6902 0.6986 0.7259 0.3833 0.4669 0.6376 0.7114 0.6717 0.6899 0.7209 0.7331 0.7211 0.7366 0.7484 0.7562 0.7661 0.7200 0.7442 0.7530 0.7236 0.7223 0.7492 0.6484 0.6558 1.0000 0.9315 PromoterFlanking_Hoffman.extend.500.bedL2 0.0775 0.7401 0.6775 0.7431 0.4706 0.6487 0.6943 0.7403 0.8218 0.8387 0.7747 0.7785 0.8072 0.4161 0.5039 0.7199 0.7874 0.7499 0.7681 0.7947 0.8067 0.7932 0.8098 0.8245 0.8345 0.8436 0.7815 0.8150 0.8329 0.7915 0.7986 0.8278 0.7069 0.7145 0.9315 1.0000 Promoter_UCSC.bedL2 0.0187 0.6343 0.7173 0.7679 0.4473 0.5782 0.5938 0.6393 0.6336 0.6652 0.5756 0.5742 0.6114 0.3669 0.4300 0.5360 0.5842 0.5545 0.5680 0.6205 0.6335 0.6093 0.6256 0.6196 0.6670 0.6894 0.7207 0.7052 0.7017 0.6614 0.6699 0.6926 0.5937 0.6056 0.6413 0.7001 Promoter_UCSC.extend.500.bedL2 0.0268 0.6525 0.7341 0.7873 0.4658 0.6005 0.6145 0.6586 0.6573 0.6877 0.5977 0.5965 0.6340 0.3719 0.4363 0.5571 0.6066 0.5767 0.5902 0.6429 0.6562 0.6312 0.6477 0.6425 0.6895 0.7121 0.7356 0.7214 0.7186 0.6823 0.6916 0.7156 0.6147 0.6267 0.6648 0.7249 Repressed_Hoffman.bedL2 0.1842 0.6212 0.0359 0.0371 0.3004 0.3186 0.1971 0.2127 0.1845 0.2905 0.2231 0.2389 0.3043 0.0044 0.0324 -0.0323 -0.0140 0.1960 0.2399 0.1027 0.1247 0.0899 0.1135 0.1139 0.1702 0.2494 0.1189 0.1333 0.1875 -0.0043 0.0286 0.0499 0.2753 0.2734 0.0918 0.1145 Repressed_Hoffman.extend.500.bedL2 0.1886 0.7413 0.1482 0.1666 0.3941 0.4428 0.3301 0.3505 0.3386 0.4459 0.3800 0.3964 0.4626 0.0848 0.1282 0.0928 0.1218 0.3460 0.3919 0.2544 0.2787 0.2335 0.2596 0.2693 0.3295 0.4112 0.2514 0.2694 0.3314 0.1335 0.1718 0.1999 0.4357 0.4340 0.2099 0.2560 SuperEnhancer_Hnisz.bedL2 0.0562 0.5341 0.4941 0.5235 0.3183 0.4912 0.5995 0.6291 0.8000 0.7327 0.7728 0.7726 0.7211 0.5052 0.5811 0.8067 0.8106 0.7764 0.7675 0.8597 0.8443 0.8701 0.8530 0.8194 0.7795 0.7202 0.7128 0.7503 0.7643 0.7958 0.8275 0.8142 0.5483 0.5521 0.5228 0.5918 SuperEnhancer_Hnisz.extend.500.bedL2 0.0572 0.5374 0.4973 0.5271 0.3218 0.4946 0.6022 0.6318 0.8028 0.7361 0.7755 0.7755 0.7245 0.5067 0.5834 0.8090 0.8132 0.7787 0.7700 0.8625 0.8474 0.8727 0.8558 0.8217 0.7828 0.7237 0.7155 0.7534 0.7675 0.7980 0.8296 0.8167 0.5513 0.5551 0.5268 0.5963 TFBS_ENCODE.bedL2 0.1268 0.7865 0.6728 0.7250 0.4767 0.6546 0.8064 0.8384 0.9552 0.9379 0.9268 0.9259 0.9195 0.5678 0.6590 0.8795 0.9202 0.9076 0.9132 0.9097 0.9148 0.9062 0.9143 0.9252 0.9264 0.9173 0.8693 0.8989 0.9229 0.8809 0.8994 0.9171 0.7497 0.7560 0.7608 0.8416 TFBS_ENCODE.extend.500.bedL2 0.1319 0.8494 0.6733 0.7372 0.5266 0.7148 0.8120 0.8578 0.9675 0.9749 0.9501 0.9544 0.9642 0.5355 0.6345 0.8518 0.8982 0.9228 0.9449 0.9331 0.9414 0.9224 0.9350 0.9448 0.9597 0.9604 0.8585 0.8946 0.9324 0.8667 0.8920 0.9194 0.8014 0.8067 0.7666 0.8496 Transcribed_Hoffman.bedL2 0.0715 0.8991 0.7131 0.8084 0.5567 0.7385 0.6519 0.6987 0.8672 0.9178 0.8412 0.8544 0.8994 0.3967 0.4921 0.7082 0.7643 0.7991 0.8386 0.8495 0.8641 0.8464 0.8646 0.8658 0.9063 0.9324 0.7963 0.8122 0.8531 0.7741 0.7982 0.8400 0.8847 0.8886 0.7548 0.8085 Transcribed_Hoffman.extend.500.bedL2 0.1321 0.9913 0.6132 0.6895 0.5785 0.7401 0.6501 0.6945 0.8184 0.8940 0.8112 0.8265 0.8847 0.3618 0.4521 0.6171 0.6694 0.7682 0.8151 0.7722 0.7917 0.7634 0.7867 0.7870 0.8389 0.8877 0.7310 0.7515 0.8061 0.6703 0.7039 0.7453 0.8502 0.8530 0.6767 0.7380 TSS_Hoffman.bedL2 0.0456 0.5782 0.6643 0.6860 0.3650 0.4825 0.6265 0.6689 0.7312 0.7126 0.6667 0.6634 0.6715 0.5322 0.5852 0.7338 0.7894 0.6775 0.6712 0.7084 0.7125 0.7197 0.7232 0.7219 0.7161 0.7062 0.7697 0.7725 0.7541 0.8235 0.7803 0.7837 0.5514 0.5612 0.7484 0.7882 TSS_Hoffman.extend.500.bedL2 0.0577 0.6142 0.6683 0.6918 0.3844 0.5122 0.6849 0.7239 0.7709 0.7529 0.7032 0.6991 0.7113 0.5241 0.5782 0.7785 0.8307 0.7107 0.7078 0.7464 0.7503 0.7579 0.7611 0.7658 0.7549 0.7437 0.7965 0.8090 0.7963 0.8514 0.8189 0.8248 0.5811 0.5908 0.7807 0.8322 UTR_3_UCSC.bedL2 0.0154 0.5963 0.8481 0.7689 0.4613 0.5698 0.5560 0.5970 0.6281 0.6473 0.5803 0.5838 0.6070 0.3252 0.3977 0.5185 0.5569 0.5677 0.5655 0.6056 0.6165 0.5994 0.6132 0.6100 0.6556 0.6683 0.7042 0.6926 0.6847 0.6406 0.6603 0.6757 0.5909 0.6016 0.5971 0.6252 UTR_3_UCSC.extend.500.bedL2 0.0188 0.5987 0.7110 0.7013 0.4080 0.5285 0.5341 0.5770 0.5708 0.5942 0.5052 0.5104 0.5371 0.3067 0.3654 0.4555 0.4999 0.4976 0.4953 0.5362 0.5489 0.5327 0.5499 0.5470 0.5918 0.6125 0.6855 0.6597 0.6491 0.5830 0.5933 0.6091 0.5341 0.5452 0.5733 0.5991 UTR_5_UCSC.bedL2 0.0306 0.5655 0.6756 0.6568 0.4525 0.5123 0.4592 0.5139 0.5286 0.5662 0.4861 0.4904 0.5244 0.1957 0.2506 0.4300 0.4827 0.4603 0.4815 0.5459 0.5582 0.5378 0.5482 0.5298 0.5674 0.5860 0.5531 0.5373 0.5495 0.5279 0.5561 0.5741 0.5362 0.5469 0.5695 0.5987 UTR_5_UCSC.extend.500.bedL2 0.0151 0.6470 0.7607 0.8427 0.5064 0.6119 0.5798 0.6279 0.6641 0.7027 0.6177 0.6237 0.6611 0.2989 0.3703 0.5501 0.6070 0.5932 0.6156 0.6773 0.6910 0.6637 0.6772 0.6593 0.7102 0.7288 0.6649 0.6577 0.6749 0.6814 0.7077 0.7331 0.6750 0.6854 0.6631 0.7128 WeakEnhancer_Hoffman.bedL2 0.1050 0.5852 0.4577 0.4870 0.3296 0.4622 0.6854 0.7129 0.8152 0.7710 0.8072 0.7958 0.7605 0.4983 0.5715 0.8100 0.8406 0.7995 0.7943 0.7963 0.7916 0.7993 0.8006 0.8269 0.7891 0.7489 0.7043 0.7438 0.7727 0.7856 0.7932 0.8017 0.5603 0.5634 0.5689 0.6761 WeakEnhancer_Hoffman.extend.500.bedL2 0.1028 0.6748 0.5293 0.5791 0.4039 0.5570 0.7603 0.7911 0.8865 0.8560 0.8695 0.8643 0.8444 0.5179 0.5964 0.8685 0.9064 0.8539 0.8631 0.8751 0.8738 0.8778 0.8811 0.8950 0.8718 0.8400 0.7698 0.8147 0.8494 0.8481 0.8594 0.8764 0.6523 0.6563 0.6603 0.7706 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 0.0187 0.0268 0.1842 0.1886 0.0562 0.0572 0.1268 0.1319 0.0715 0.1321 0.0456 0.0577 0.0154 0.0188 0.0306 0.0151 0.1050 0.1028 baseL2 0.6343 0.6525 0.6212 0.7413 0.5341 0.5374 0.7865 0.8494 0.8991 0.9913 0.5782 0.6142 0.5963 0.5987 0.5655 0.6470 0.5852 0.6748 Coding_UCSC.bedL2 0.7173 0.7341 0.0359 0.1482 0.4941 0.4973 0.6728 0.6733 0.7131 0.6132 0.6643 0.6683 0.8481 0.7110 0.6756 0.7607 0.4577 0.5293 Coding_UCSC.extend.500.bedL2 0.7679 0.7873 0.0371 0.1666 0.5235 0.5271 0.7250 0.7372 0.8084 0.6895 0.6860 0.6918 0.7689 0.7013 0.6568 0.8427 0.4870 0.5791 Conserved_LindbladToh.bedL2 0.4473 0.4658 0.3004 0.3941 0.3183 0.3218 0.4767 0.5266 0.5567 0.5785 0.3650 0.3844 0.4613 0.4080 0.4525 0.5064 0.3296 0.4039 Conserved_LindbladToh.extend.500.bedL2 0.5782 0.6005 0.3186 0.4428 0.4912 0.4946 0.6546 0.7148 0.7385 0.7401 0.4825 0.5122 0.5698 0.5285 0.5123 0.6119 0.4622 0.5570 CTCF_Hoffman.bedL2 0.5938 0.6145 0.1971 0.3301 0.5995 0.6022 0.8064 0.8120 0.6519 0.6501 0.6265 0.6849 0.5560 0.5341 0.4592 0.5798 0.6854 0.7603 CTCF_Hoffman.extend.500.bedL2 0.6393 0.6586 0.2127 0.3505 0.6291 0.6318 0.8384 0.8578 0.6987 0.6945 0.6689 0.7239 0.5970 0.5770 0.5139 0.6279 0.7129 0.7911 DGF_ENCODE.bedL2 0.6336 0.6573 0.1845 0.3386 0.8000 0.8028 0.9552 0.9675 0.8672 0.8184 0.7312 0.7709 0.6281 0.5708 0.5286 0.6641 0.8152 0.8865 DGF_ENCODE.extend.500.bedL2 0.6652 0.6877 0.2905 0.4459 0.7327 0.7361 0.9379 0.9749 0.9178 0.8940 0.7126 0.7529 0.6473 0.5942 0.5662 0.7027 0.7710 0.8560 DHS_peaks_Trynka.bedL2 0.5756 0.5977 0.2231 0.3800 0.7728 0.7755 0.9268 0.9501 0.8412 0.8112 0.6667 0.7032 0.5803 0.5052 0.4861 0.6177 0.8072 0.8695 DHS_Trynka.bedL2 0.5742 0.5965 0.2389 0.3964 0.7726 0.7755 0.9259 0.9544 0.8544 0.8265 0.6634 0.6991 0.5838 0.5104 0.4904 0.6237 0.7958 0.8643 DHS_Trynka.extend.500.bedL2 0.6114 0.6340 0.3043 0.4626 0.7211 0.7245 0.9195 0.9642 0.8994 0.8847 0.6715 0.7113 0.6070 0.5371 0.5244 0.6611 0.7605 0.8444 Enhancer_Andersson.bedL2 0.3669 0.3719 0.0044 0.0848 0.5052 0.5067 0.5678 0.5355 0.3967 0.3618 0.5322 0.5241 0.3252 0.3067 0.1957 0.2989 0.4983 0.5179 Enhancer_Andersson.extend.500.bedL2 0.4300 0.4363 0.0324 0.1282 0.5811 0.5834 0.6590 0.6345 0.4921 0.4521 0.5852 0.5782 0.3977 0.3654 0.2506 0.3703 0.5715 0.5964 Enhancer_Hoffman.bedL2 0.5360 0.5571 -0.0323 0.0928 0.8067 0.8090 0.8795 0.8518 0.7082 0.6171 0.7338 0.7785 0.5185 0.4555 0.4300 0.5501 0.8100 0.8685 Enhancer_Hoffman.extend.500.bedL2 0.5842 0.6066 -0.0140 0.1218 0.8106 0.8132 0.9202 0.8982 0.7643 0.6694 0.7894 0.8307 0.5569 0.4999 0.4827 0.6070 0.8406 0.9064 FetalDHS_Trynka.bedL2 0.5545 0.5767 0.1960 0.3460 0.7764 0.7787 0.9076 0.9228 0.7991 0.7682 0.6775 0.7107 0.5677 0.4976 0.4603 0.5932 0.7995 0.8539 FetalDHS_Trynka.extend.500.bedL2 0.5680 0.5902 0.2399 0.3919 0.7675 0.7700 0.9132 0.9449 0.8386 0.8151 0.6712 0.7078 0.5655 0.4953 0.4815 0.6156 0.7943 0.8631 H3K27ac_Hnisz.bedL2 0.6205 0.6429 0.1027 0.2544 0.8597 0.8625 0.9097 0.9331 0.8495 0.7722 0.7084 0.7464 0.6056 0.5362 0.5459 0.6773 0.7963 0.8751 H3K27ac_Hnisz.extend.500.bedL2 0.6335 0.6562 0.1247 0.2787 0.8443 0.8474 0.9148 0.9414 0.8641 0.7917 0.7125 0.7503 0.6165 0.5489 0.5582 0.6910 0.7916 0.8738 H3K27ac_PGC2.bedL2 0.6093 0.6312 0.0899 0.2335 0.8701 0.8727 0.9062 0.9224 0.8464 0.7634 0.7197 0.7579 0.5994 0.5327 0.5378 0.6637 0.7993 0.8778 H3K27ac_PGC2.extend.500.bedL2 0.6256 0.6477 0.1135 0.2596 0.8530 0.8558 0.9143 0.9350 0.8646 0.7867 0.7232 0.7611 0.6132 0.5499 0.5482 0.6772 0.8006 0.8811 H3K4me1_peaks_Trynka.bedL2 0.6196 0.6425 0.1139 0.2693 0.8194 0.8217 0.9252 0.9448 0.8658 0.7870 0.7219 0.7658 0.6100 0.5470 0.5298 0.6593 0.8269 0.8950 H3K4me1_Trynka.bedL2 0.6670 0.6895 0.1702 0.3295 0.7795 0.7828 0.9264 0.9597 0.9063 0.8389 0.7161 0.7549 0.6556 0.5918 0.5674 0.7102 0.7891 0.8718 H3K4me1_Trynka.extend.500.bedL2 0.6894 0.7121 0.2494 0.4112 0.7202 0.7237 0.9173 0.9604 0.9324 0.8877 0.7062 0.7437 0.6683 0.6125 0.5860 0.7288 0.7489 0.8400 H3K4me3_peaks_Trynka.bedL2 0.7207 0.7356 0.1189 0.2514 0.7128 0.7155 0.8693 0.8585 0.7963 0.7310 0.7697 0.7965 0.7042 0.6855 0.5531 0.6649 0.7043 0.7698 H3K4me3_Trynka.bedL2 0.7052 0.7214 0.1333 0.2694 0.7503 0.7534 0.8989 0.8946 0.8122 0.7515 0.7725 0.8090 0.6926 0.6597 0.5373 0.6577 0.7438 0.8147 H3K4me3_Trynka.extend.500.bedL2 0.7017 0.7186 0.1875 0.3314 0.7643 0.7675 0.9229 0.9324 0.8531 0.8061 0.7541 0.7963 0.6847 0.6491 0.5495 0.6749 0.7727 0.8494 H3K9ac_peaks_Trynka.bedL2 0.6614 0.6823 -0.0043 0.1335 0.7958 0.7980 0.8809 0.8667 0.7741 0.6703 0.8235 0.8514 0.6406 0.5830 0.5279 0.6814 0.7856 0.8481 H3K9ac_Trynka.bedL2 0.6699 0.6916 0.0286 0.1718 0.8275 0.8296 0.8994 0.8920 0.7982 0.7039 0.7803 0.8189 0.6603 0.5933 0.5561 0.7077 0.7932 0.8594 H3K9ac_Trynka.extend.500.bedL2 0.6926 0.7156 0.0499 0.1999 0.8142 0.8167 0.9171 0.9194 0.8400 0.7453 0.7837 0.8248 0.6757 0.6091 0.5741 0.7331 0.8017 0.8764 Intron_UCSC.bedL2 0.5937 0.6147 0.2753 0.4357 0.5483 0.5513 0.7497 0.8014 0.8847 0.8502 0.5514 0.5811 0.5909 0.5341 0.5362 0.6750 0.5603 0.6523 Intron_UCSC.extend.500.bedL2 0.6056 0.6267 0.2734 0.4340 0.5521 0.5551 0.7560 0.8067 0.8886 0.8530 0.5612 0.5908 0.6016 0.5452 0.5469 0.6854 0.5634 0.6563 PromoterFlanking_Hoffman.bedL2 0.6413 0.6648 0.0918 0.2099 0.5228 0.5268 0.7608 0.7666 0.7548 0.6767 0.7484 0.7807 0.5971 0.5733 0.5695 0.6631 0.5689 0.6603 PromoterFlanking_Hoffman.extend.500.bedL2 0.7001 0.7249 0.1145 0.2560 0.5918 0.5963 0.8416 0.8496 0.8085 0.7380 0.7882 0.8322 0.6252 0.5991 0.5987 0.7128 0.6761 0.7706 Promoter_UCSC.bedL2 1.0000 0.9960 0.1177 0.2245 0.4424 0.4455 0.6621 0.6645 0.7032 0.6322 0.6729 0.6937 0.7682 0.8384 0.7128 0.8376 0.4459 0.5300 Promoter_UCSC.extend.500.bedL2 0.9960 1.0000 0.1186 0.2303 0.4600 0.4632 0.6875 0.6892 0.7230 0.6505 0.6923 0.7152 0.7752 0.8371 0.7239 0.8514 0.4685 0.5542 Repressed_Hoffman.bedL2 0.1177 0.1186 1.0000 0.9705 -0.0304 -0.0289 0.1389 0.2159 0.2465 0.5746 -0.0316 -0.0151 0.0715 0.1587 0.1655 0.0817 0.0261 0.0520 Repressed_Hoffman.extend.500.bedL2 0.2245 0.2303 0.9705 1.0000 0.0873 0.0893 0.2894 0.3719 0.4004 0.7030 0.0792 0.1050 0.1774 0.2435 0.2586 0.2102 0.1665 0.2066 SuperEnhancer_Hnisz.bedL2 0.4424 0.4600 -0.0304 0.0873 1.0000 0.9998 0.7556 0.7513 0.6265 0.5408 0.5768 0.6163 0.4512 0.3827 0.3694 0.4971 0.7279 0.7788 SuperEnhancer_Hnisz.extend.500.bedL2 0.4455 0.4632 -0.0289 0.0893 0.9998 1.0000 0.7589 0.7545 0.6294 0.5439 0.5806 0.6199 0.4541 0.3855 0.3723 0.5001 0.7301 0.7816 TFBS_ENCODE.bedL2 0.6621 0.6875 0.1389 0.2894 0.7556 0.7589 1.0000 0.9790 0.8330 0.7780 0.8068 0.8431 0.6460 0.5923 0.5287 0.6748 0.8334 0.8989 TFBS_ENCODE.extend.500.bedL2 0.6645 0.6892 0.2159 0.3719 0.7513 0.7545 0.9790 1.0000 0.8781 0.8397 0.7596 0.8016 0.6486 0.5913 0.5483 0.6900 0.8171 0.8946 Transcribed_Hoffman.bedL2 0.7032 0.7230 0.2465 0.4004 0.6265 0.6294 0.8330 0.8781 1.0000 0.9275 0.6866 0.7143 0.6892 0.6455 0.6013 0.7449 0.6169 0.7192 Transcribed_Hoffman.extend.500.bedL2 0.6322 0.6505 0.5746 0.7030 0.5408 0.5439 0.7780 0.8397 0.9275 1.0000 0.5859 0.6174 0.6048 0.5979 0.5677 0.6584 0.5682 0.6627 TSS_Hoffman.bedL2 0.6729 0.6923 -0.0316 0.0792 0.5768 0.5806 0.8068 0.7596 0.6866 0.5859 1.0000 0.9733 0.6277 0.5894 0.5182 0.6576 0.6241 0.6949 TSS_Hoffman.extend.500.bedL2 0.6937 0.7152 -0.0151 0.1050 0.6163 0.6199 0.8431 0.8016 0.7143 0.6174 0.9733 1.0000 0.6340 0.5995 0.5343 0.6735 0.6754 0.7486 UTR_3_UCSC.bedL2 0.7682 0.7752 0.0715 0.1774 0.4512 0.4541 0.6460 0.6486 0.6892 0.6048 0.6277 0.6340 1.0000 0.8938 0.5971 0.6911 0.4376 0.5063 UTR_3_UCSC.extend.500.bedL2 0.8384 0.8371 0.1587 0.2435 0.3827 0.3855 0.5923 0.5913 0.6455 0.5979 0.5894 0.5995 0.8938 1.0000 0.5758 0.6584 0.3872 0.4536 UTR_5_UCSC.bedL2 0.7128 0.7239 0.1655 0.2586 0.3694 0.3723 0.5287 0.5483 0.6013 0.5677 0.5182 0.5343 0.5971 0.5758 1.0000 0.8386 0.3515 0.4285 UTR_5_UCSC.extend.500.bedL2 0.8376 0.8514 0.0817 0.2102 0.4971 0.5001 0.6748 0.6900 0.7449 0.6584 0.6576 0.6735 0.6911 0.6584 0.8386 1.0000 0.4715 0.5583 WeakEnhancer_Hoffman.bedL2 0.4459 0.4685 0.0261 0.1665 0.7279 0.7301 0.8334 0.8171 0.6169 0.5682 0.6241 0.6754 0.4376 0.3872 0.3515 0.4715 1.0000 0.9460 WeakEnhancer_Hoffman.extend.500.bedL2 0.5300 0.5542 0.0520 0.2066 0.7788 0.7816 0.8989 0.8946 0.7192 0.6627 0.6949 0.7486 0.5063 0.4536 0.4285 0.5583 0.9460 1.0000 LD Score Matrix Condition Number 890.5537 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 0.4565 0.2512 0.1294 0.0131 0.0185 0.0545 0.0527 0.0432 0.0455 0.0390 -0.0094 -0.0179 0.0257 0.0343 0.0434 0.0323 0.0558 0.0528 0.0568 0.0574 0.0445 0.0715 0.0641 0.0548 0.0687 0.0580 0.0578 0.0866 0.0829 -0.0896 0.0343 0.0059 0.0103 0.1045 0.1040 -0.0780 Coding_UCSC.extend.500.bed NaN 0.4565 1.0000 0.1300 0.2991 0.0195 0.0325 0.0659 0.0935 0.0618 0.0679 0.0787 -0.0177 -0.0276 0.0375 0.0493 0.0646 0.0593 0.0944 0.0928 0.0974 0.0979 0.0633 0.1305 0.1298 0.0850 0.1034 0.0917 0.0987 0.1449 0.1528 0.1643 0.2308 0.0144 0.0379 0.1977 0.1927 -0.1632 Conserved_LindbladToh.bed NaN 0.2512 0.1300 1.0000 0.2443 0.0078 0.0042 0.0766 0.0599 0.1189 0.1219 0.0786 0.0127 0.0057 0.0327 0.0334 0.1297 0.0908 0.0333 0.0326 0.0461 0.0419 0.0587 0.0798 0.0669 0.0475 0.0732 0.0615 0.0421 0.0706 0.0591 -0.0297 0.0211 0.0145 0.0193 0.0386 0.0382 -0.0212 Conserved_LindbladToh.extend.500.bed NaN 0.1294 0.2991 0.2443 1.0000 0.0396 0.0366 0.0916 0.1610 0.1373 0.1653 0.2182 0.0141 0.0247 0.0774 0.0856 0.1533 0.2160 0.1160 0.1175 0.1390 0.1352 0.1338 0.2074 0.2075 0.0892 0.1340 0.1329 0.0977 0.1591 0.1593 0.0982 0.1198 0.0321 0.0581 0.0859 0.0863 -0.0812 CTCF_Hoffman.bed NaN 0.0131 0.0195 0.0078 0.0396 1.0000 0.5678 0.1163 0.1173 0.1208 0.1281 0.1105 0.0111 0.0122 0.0509 0.0781 0.1240 0.1237 0.0526 0.0549 0.0541 0.0520 0.0782 0.0773 0.0675 0.0497 0.0692 0.0736 0.0591 0.0938 0.1014 -0.0070 -0.0037 -0.0062 0.0290 0.0246 0.0258 -0.1412 CTCF_Hoffman.extend.500.bed NaN 0.0185 0.0325 0.0042 0.0366 0.5678 1.0000 0.0842 0.1589 0.0873 0.0958 0.1481 0.0117 0.0221 0.0639 0.1014 0.0906 0.1498 0.0767 0.0804 0.0835 0.0860 0.0823 0.1000 0.1061 0.0497 0.0766 0.0997 0.0728 0.1195 0.1429 -0.0066 -0.0021 0.0029 0.0455 0.0491 0.0503 -0.1164 DGF_ENCODE.bed NaN 0.0545 0.0659 0.0766 0.0916 0.1163 0.0842 1.0000 0.3605 0.5240 0.5037 0.2638 0.0940 0.0839 0.2055 0.2025 0.3618 0.2302 0.2020 0.1936 0.2402 0.2199 0.2872 0.2803 0.2080 0.1868 0.2554 0.2220 0.1700 0.2552 0.2340 0.0290 0.0427 0.0581 0.1071 0.0828 0.0836 -0.1715 DGF_ENCODE.extend.500.bed NaN 0.0527 0.0935 0.0599 0.1610 0.1173 0.1589 0.3605 1.0000 0.2660 0.3295 0.5633 0.0479 0.0931 0.1994 0.2626 0.2271 0.3859 0.3438 0.3449 0.3642 0.3579 0.3126 0.4648 0.4512 0.1550 0.2652 0.3222 0.1634 0.2928 0.3482 0.0708 0.0802 0.0716 0.1373 0.0860 0.0908 -0.2447 DHS_peaks_Trynka.bed NaN 0.0432 0.0618 0.1189 0.1373 0.1208 0.0873 0.5240 0.2660 1.0000 0.7758 0.3569 0.1006 0.0930 0.2275 0.2145 0.6596 0.3766 0.1931 0.1849 0.2407 0.2122 0.3072 0.2888 0.2117 0.2283 0.2855 0.2380 0.2088 0.2800 0.2432 0.0310 0.0435 0.0399 0.0980 0.0781 0.0699 -0.1426 DHS_Trynka.bed NaN 0.0455 0.0679 0.1219 0.1653 0.1281 0.0958 0.5037 0.3295 0.7758 1.0000 0.4508 0.1006 0.1112 0.2645 0.2510 0.6887 0.4434 0.2342 0.2249 0.2880 0.2544 0.3601 0.3545 0.2615 0.2511 0.3215 0.2761 0.2346 0.3201 0.2816 0.0405 0.0527 0.0451 0.1043 0.0757 0.0671 -0.1670 DHS_Trynka.extend.500.bed NaN 0.0390 0.0787 0.0786 0.2182 0.1105 0.1481 0.2638 0.5633 0.3569 0.4508 1.0000 0.0506 0.1019 0.2117 0.2752 0.3105 0.6388 0.3255 0.3306 0.3596 0.3451 0.3296 0.4888 0.4716 0.1528 0.2555 0.3170 0.1674 0.2946 0.3457 0.0812 0.0876 0.0529 0.1170 0.0542 0.0499 -0.1965 Enhancer_Andersson.bed NaN -0.0094 -0.0177 0.0127 0.0141 0.0111 0.0117 0.0940 0.0479 0.1006 0.1006 0.0506 1.0000 0.4725 0.1050 0.0896 0.1187 0.0718 0.0585 0.0548 0.0766 0.0658 0.0662 0.0535 0.0392 0.0698 0.0942 0.0749 0.0574 0.0845 0.0721 0.0048 0.0031 0.0188 0.0351 0.0121 0.0122 -0.0406 Enhancer_Andersson.extend.500.bed NaN -0.0179 -0.0276 0.0057 0.0247 0.0122 0.0221 0.0839 0.0931 0.0930 0.1112 0.1019 0.4725 1.0000 0.1700 0.1656 0.1110 0.1378 0.1105 0.1057 0.1437 0.1256 0.1134 0.1066 0.0799 0.1049 0.1604 0.1402 0.0998 0.1423 0.1286 0.0026 -0.0003 0.0275 0.0528 0.0137 0.0154 -0.0668 Enhancer_Hoffman.bed NaN 0.0257 0.0375 0.0327 0.0774 0.0509 0.0639 0.2055 0.1994 0.2275 0.2645 0.2117 0.1050 0.1700 1.0000 0.6782 0.2355 0.2479 0.2358 0.2235 0.3273 0.2841 0.2763 0.2296 0.1636 0.2528 0.3228 0.2808 0.2499 0.3365 0.2877 0.0172 0.0229 0.0551 0.1481 0.0831 0.0807 -0.2010 Enhancer_Hoffman.extend.500.bed NaN 0.0343 0.0493 0.0334 0.0856 0.0781 0.1014 0.2025 0.2626 0.2145 0.2510 0.2752 0.0896 0.1656 0.6782 1.0000 0.2240 0.2986 0.3174 0.3111 0.4328 0.3983 0.2876 0.2991 0.2360 0.2364 0.3557 0.3679 0.2384 0.3813 0.3831 0.0275 0.0368 0.1035 0.2432 0.1300 0.1276 -0.2759 FetalDHS_Trynka.bed NaN 0.0434 0.0646 0.1297 0.1533 0.1240 0.0906 0.3618 0.2271 0.6596 0.6887 0.3105 0.1187 0.1110 0.2355 0.2240 1.0000 0.4860 0.1934 0.1842 0.2398 0.2097 0.2982 0.2741 0.1991 0.2693 0.3136 0.2548 0.2405 0.3000 0.2539 0.0251 0.0395 0.0357 0.1083 0.0975 0.0873 -0.1267 FetalDHS_Trynka.extend.500.bed NaN 0.0323 0.0593 0.0908 0.2160 0.1237 0.1498 0.2302 0.3859 0.3766 0.4434 0.6388 0.0718 0.1378 0.2479 0.2986 0.4860 1.0000 0.3034 0.3023 0.3468 0.3235 0.3417 0.4320 0.3706 0.2029 0.3110 0.3475 0.2124 0.3431 0.3625 0.0550 0.0624 0.0570 0.1347 0.0770 0.0702 -0.1674 H3K27ac_Hnisz.bed NaN 0.0558 0.0944 0.0333 0.1160 0.0526 0.0767 0.2020 0.3438 0.1931 0.2342 0.3255 0.0585 0.1105 0.2358 0.3174 0.1934 0.3034 1.0000 0.9370 0.5352 0.5694 0.3111 0.4654 0.4370 0.1571 0.2827 0.3485 0.1865 0.3533 0.4330 0.1369 0.1443 0.0698 0.1320 0.0691 0.0801 -0.2696 H3K27ac_Hnisz.extend.500.bed NaN 0.0528 0.0928 0.0326 0.1175 0.0549 0.0804 0.1936 0.3449 0.1849 0.2249 0.3306 0.0548 0.1057 0.2235 0.3111 0.1842 0.3023 0.9370 1.0000 0.5397 0.5840 0.3006 0.4665 0.4592 0.1478 0.2683 0.3459 0.1778 0.3391 0.4303 0.1386 0.1453 0.0683 0.1326 0.0674 0.0791 -0.2683 H3K27ac_PGC2.bed NaN 0.0568 0.0974 0.0461 0.1390 0.0541 0.0835 0.2402 0.3642 0.2407 0.2880 0.3596 0.0766 0.1437 0.3273 0.4328 0.2398 0.3468 0.5352 0.5397 1.0000 0.8475 0.3619 0.4905 0.4114 0.2250 0.3939 0.4625 0.2513 0.4635 0.5250 0.1125 0.1222 0.1052 0.2004 0.1267 0.1335 -0.2826 H3K27ac_PGC2.extend.500.bed NaN 0.0574 0.0979 0.0419 0.1352 0.0520 0.0860 0.2199 0.3579 0.2122 0.2544 0.3451 0.0658 0.1256 0.2841 0.3983 0.2097 0.3235 0.5694 0.5840 0.8475 1.0000 0.3403 0.4948 0.4445 0.1946 0.3496 0.4344 0.2215 0.4168 0.5031 0.1192 0.1281 0.1019 0.1935 0.1184 0.1286 -0.2865 H3K4me1_peaks_Trynka.bed NaN 0.0445 0.0633 0.0587 0.1338 0.0782 0.0823 0.2872 0.3126 0.3072 0.3601 0.3296 0.0662 0.1134 0.2763 0.2876 0.2982 0.3417 0.3111 0.3006 0.3619 0.3403 1.0000 0.5096 0.3504 0.2696 0.3791 0.3450 0.2987 0.4071 0.3718 0.1032 0.1107 0.1243 0.1747 0.0886 0.0925 -0.2259 H3K4me1_Trynka.bed NaN 0.0715 0.1305 0.0798 0.2074 0.0773 0.1000 0.2803 0.4648 0.2888 0.3545 0.4888 0.0535 0.1066 0.2296 0.2991 0.2741 0.4320 0.4654 0.4665 0.4905 0.4948 0.5096 1.0000 0.6824 0.1909 0.3369 0.4186 0.2107 0.3941 0.4748 0.1709 0.1825 0.0947 0.1640 0.1001 0.1062 -0.2913 H3K4me1_Trynka.extend.500.bed NaN 0.0641 0.1298 0.0669 0.2075 0.0675 0.1061 0.2080 0.4512 0.2117 0.2615 0.4716 0.0392 0.0799 0.1636 0.2360 0.1991 0.3706 0.4370 0.4592 0.4114 0.4445 0.3504 0.6824 1.0000 0.1326 0.2381 0.3299 0.1485 0.2822 0.3930 0.1830 0.1922 0.0673 0.1326 0.0899 0.0965 -0.2673 H3K4me3_peaks_Trynka.bed NaN 0.0548 0.0850 0.0475 0.0892 0.0497 0.0497 0.1868 0.1550 0.2283 0.2511 0.1528 0.0698 0.1049 0.2528 0.2364 0.2693 0.2029 0.1571 0.1478 0.2250 0.1946 0.2696 0.1909 0.1326 1.0000 0.5345 0.3612 0.3764 0.3493 0.2612 0.0307 0.0469 0.1030 0.1741 0.1645 0.1593 -0.1311 H3K4me3_Trynka.bed NaN 0.0687 0.1034 0.0732 0.1340 0.0692 0.0766 0.2554 0.2652 0.2855 0.3215 0.2555 0.0942 0.1604 0.3228 0.3557 0.3136 0.3110 0.2827 0.2683 0.3939 0.3496 0.3791 0.3369 0.2381 0.5345 1.0000 0.6689 0.3485 0.5375 0.4489 0.0649 0.0828 0.1833 0.2847 0.2293 0.2318 -0.2088 H3K4me3_Trynka.extend.500.bed NaN 0.0580 0.0917 0.0615 0.1329 0.0736 0.0997 0.2220 0.3222 0.2380 0.2761 0.3170 0.0749 0.1402 0.2808 0.3679 0.2548 0.3475 0.3485 0.3459 0.4625 0.4344 0.3450 0.4186 0.3299 0.3612 0.6689 1.0000 0.2668 0.4849 0.5297 0.0741 0.0874 0.1435 0.2645 0.1891 0.1960 -0.2290 H3K9ac_peaks_Trynka.bed NaN 0.0578 0.0987 0.0421 0.0977 0.0591 0.0728 0.1700 0.1634 0.2088 0.2346 0.1674 0.0574 0.0998 0.2499 0.2384 0.2405 0.2124 0.1865 0.1778 0.2513 0.2215 0.2987 0.2107 0.1485 0.3764 0.3485 0.2668 1.0000 0.5178 0.3605 0.0578 0.0710 0.0865 0.1527 0.1324 0.1308 -0.1472 H3K9ac_Trynka.bed NaN 0.0866 0.1449 0.0706 0.1591 0.0938 0.1195 0.2552 0.2928 0.2800 0.3201 0.2946 0.0845 0.1423 0.3365 0.3813 0.3000 0.3431 0.3533 0.3391 0.4635 0.4168 0.4071 0.3941 0.2822 0.3493 0.5375 0.4849 0.5178 1.0000 0.6903 0.1028 0.1222 0.1544 0.2491 0.1977 0.2015 -0.2481 H3K9ac_Trynka.extend.500.bed NaN 0.0829 0.1528 0.0591 0.1593 0.1014 0.1429 0.2340 0.3482 0.2432 0.2816 0.3457 0.0721 0.1286 0.2877 0.3831 0.2539 0.3625 0.4330 0.4303 0.5250 0.5031 0.3718 0.4748 0.3930 0.2612 0.4489 0.5297 0.3605 0.6903 1.0000 0.1329 0.1495 0.1308 0.2424 0.1762 0.1855 -0.2918 Intron_UCSC.bed NaN -0.0896 0.1643 -0.0297 0.0982 -0.0070 -0.0066 0.0290 0.0708 0.0310 0.0405 0.0812 0.0048 0.0026 0.0172 0.0275 0.0251 0.0550 0.1369 0.1386 0.1125 0.1192 0.1032 0.1709 0.1830 0.0307 0.0649 0.0741 0.0578 0.1028 0.1329 1.0000 0.9770 0.0274 0.0142 0.0265 0.0344 -0.2136 Intron_UCSC.extend.500.bed NaN 0.0343 0.2308 0.0211 0.1198 -0.0037 -0.0021 0.0427 0.0802 0.0435 0.0527 0.0876 0.0031 -0.0003 0.0229 0.0368 0.0395 0.0624 0.1443 0.1453 0.1222 0.1281 0.1107 0.1825 0.1922 0.0469 0.0828 0.0874 0.0710 0.1222 0.1495 0.9770 1.0000 0.0286 0.0208 0.0625 0.0682 -0.2259 PromoterFlanking_Hoffman.bed NaN 0.0059 0.0144 0.0145 0.0321 -0.0062 0.0029 0.0581 0.0716 0.0399 0.0451 0.0529 0.0188 0.0275 0.0551 0.1035 0.0357 0.0570 0.0698 0.0683 0.1052 0.1019 0.1243 0.0947 0.0673 0.1030 0.1833 0.1435 0.0865 0.1544 0.1308 0.0274 0.0286 1.0000 0.4971 0.1216 0.1346 -0.0849 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0103 0.0379 0.0193 0.0581 0.0290 0.0455 0.1071 0.1373 0.0980 0.1043 0.1170 0.0351 0.0528 0.1481 0.2432 0.1083 0.1347 0.1320 0.1326 0.2004 0.1935 0.1747 0.1640 0.1326 0.1741 0.2847 0.2645 0.1527 0.2491 0.2424 0.0142 0.0208 0.4971 1.0000 0.2092 0.2194 -0.1461 Promoter_UCSC.bed NaN 0.1045 0.1977 0.0386 0.0859 0.0246 0.0491 0.0828 0.0860 0.0781 0.0757 0.0542 0.0121 0.0137 0.0831 0.1300 0.0975 0.0770 0.0691 0.0674 0.1267 0.1184 0.0886 0.1001 0.0899 0.1645 0.2293 0.1891 0.1324 0.1977 0.1762 0.0265 0.0625 0.1216 0.2092 1.0000 0.9069 -0.0958 Promoter_UCSC.extend.500.bed NaN 0.1040 0.1927 0.0382 0.0863 0.0258 0.0503 0.0836 0.0908 0.0699 0.0671 0.0499 0.0122 0.0154 0.0807 0.1276 0.0873 0.0702 0.0801 0.0791 0.1335 0.1286 0.0925 0.1062 0.0965 0.1593 0.2318 0.1960 0.1308 0.2015 0.1855 0.0344 0.0682 0.1346 0.2194 0.9069 1.0000 -0.1035 Repressed_Hoffman.bed NaN -0.0780 -0.1632 -0.0212 -0.0812 -0.1412 -0.1164 -0.1715 -0.2447 -0.1426 -0.1670 -0.1965 -0.0406 -0.0668 -0.2010 -0.2759 -0.1267 -0.1674 -0.2696 -0.2683 -0.2826 -0.2865 -0.2259 -0.2913 -0.2673 -0.1311 -0.2088 -0.2290 -0.1472 -0.2481 -0.2918 -0.2136 -0.2259 -0.0849 -0.1461 -0.0958 -0.1035 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1225 -0.2553 -0.0346 -0.1178 -0.0643 -0.0775 -0.1830 -0.2603 -0.1528 -0.1776 -0.2074 -0.0562 -0.0964 -0.3096 -0.3902 -0.1470 -0.1908 -0.3465 -0.3411 -0.3760 -0.3767 -0.2629 -0.3454 -0.3170 -0.1731 -0.2711 -0.2900 -0.2002 -0.3296 -0.3813 -0.2935 -0.3123 -0.1088 -0.1850 -0.1433 -0.1546 0.5941 SuperEnhancer_Hnisz.bed NaN 0.0456 0.0716 0.0156 0.0627 0.0391 0.0611 0.1611 0.2395 0.1324 0.1556 0.2070 0.0671 0.1205 0.2215 0.2731 0.1348 0.1994 0.5645 0.5290 0.4268 0.4277 0.2442 0.3233 0.2820 0.1427 0.2502 0.2861 0.1842 0.3350 0.3677 0.1147 0.1200 0.0391 0.0818 0.0561 0.0657 -0.2110 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0453 0.0713 0.0152 0.0626 0.0409 0.0638 0.1609 0.2403 0.1310 0.1544 0.2074 0.0664 0.1191 0.2195 0.2748 0.1339 0.1995 0.5638 0.5352 0.4290 0.4320 0.2436 0.3250 0.2855 0.1419 0.2491 0.2885 0.1833 0.3351 0.3709 0.1147 0.1200 0.0410 0.0836 0.0578 0.0680 -0.2118 TFBS_ENCODE.bed NaN 0.0640 0.0927 0.0670 0.1072 0.2519 0.1801 0.3802 0.2907 0.3868 0.4411 0.2869 0.1061 0.1278 0.3513 0.3464 0.3533 0.2929 0.2282 0.2189 0.2884 0.2578 0.2921 0.2759 0.2056 0.2635 0.3393 0.2900 0.2387 0.3221 0.2827 0.0168 0.0337 0.0684 0.1586 0.1366 0.1330 -0.2219 TFBS_ENCODE.extend.500.bed NaN 0.0563 0.0813 0.0502 0.1284 0.1897 0.2837 0.2490 0.4312 0.2552 0.3093 0.4378 0.0661 0.1262 0.2946 0.3804 0.2369 0.3757 0.3160 0.3156 0.3696 0.3524 0.2951 0.3739 0.3318 0.1941 0.3148 0.3549 0.1975 0.3316 0.3551 0.0343 0.0449 0.0839 0.1754 0.1119 0.1130 -0.2550 Transcribed_Hoffman.bed NaN 0.0642 0.1465 -0.0022 0.0280 -0.0593 -0.0444 0.0008 0.0340 -0.0310 -0.0327 0.0009 -0.0093 -0.0213 -0.0268 -0.0213 -0.0470 -0.0374 0.0902 0.0909 0.0576 0.0718 0.0371 0.0852 0.1008 -0.0174 -0.0065 0.0134 0.0048 0.0199 0.0613 0.2756 0.2796 -0.0097 -0.0306 -0.0208 -0.0117 -0.6914 Transcribed_Hoffman.extend.500.bed NaN 0.0002 0.0097 -0.0251 -0.0350 -0.0480 -0.0545 -0.0627 -0.0517 -0.0868 -0.0935 -0.0625 -0.0242 -0.0414 -0.0991 -0.1047 -0.1012 -0.0956 -0.0267 -0.0246 -0.0579 -0.0448 -0.0605 -0.0507 -0.0223 -0.0873 -0.1005 -0.0780 -0.0736 -0.0974 -0.0763 0.1318 0.1240 -0.0313 -0.0762 -0.1019 -0.0939 -0.1829 TSS_Hoffman.bed NaN 0.0842 0.1454 0.0500 0.0812 0.0294 0.0388 0.1869 0.1237 0.2046 0.2079 0.1253 0.0788 0.1053 0.1734 0.2439 0.2473 0.1781 0.1357 0.1269 0.2075 0.1768 0.1641 0.1324 0.0970 0.3210 0.3218 0.2264 0.2775 0.2993 0.2194 0.0171 0.0496 0.0947 0.2490 0.2942 0.2793 -0.1203 TSS_Hoffman.extend.500.bed NaN 0.0671 0.1242 0.0428 0.0830 0.0568 0.0690 0.1709 0.1649 0.1829 0.1911 0.1601 0.0704 0.1193 0.2754 0.3697 0.2210 0.2157 0.1797 0.1729 0.2715 0.2378 0.2064 0.1779 0.1340 0.3007 0.3873 0.3052 0.2754 0.3597 0.2945 0.0187 0.0438 0.2071 0.3702 0.3129 0.3028 -0.1648 UTR_3_UCSC.bed NaN 0.5659 0.2744 0.0719 0.0767 0.0108 0.0119 0.0269 0.0318 0.0141 0.0188 0.0185 -0.0080 -0.0156 0.0120 0.0182 0.0131 0.0137 0.0381 0.0370 0.0454 0.0463 0.0283 0.0496 0.0468 0.0227 0.0438 0.0425 0.0280 0.0542 0.0563 -0.0556 -0.0129 0.0076 0.0085 0.1055 0.1084 -0.0629 UTR_3_UCSC.extend.500.bed NaN 0.4036 0.3785 0.0621 0.1175 0.0234 0.0331 0.0331 0.0376 0.0169 0.0203 0.0155 -0.0091 -0.0190 0.0146 0.0254 0.0176 0.0145 0.0394 0.0373 0.0497 0.0500 0.0321 0.0594 0.0555 0.0446 0.0720 0.0697 0.0413 0.0728 0.0769 -0.0133 0.0269 0.0076 0.0181 0.2250 0.2205 -0.0859 UTR_5_UCSC.bed NaN 0.2913 0.1553 0.0824 0.0519 0.0088 0.0110 0.0463 0.0321 0.0459 0.0465 0.0229 -0.0055 -0.0104 0.0200 0.0280 0.0583 0.0259 0.0225 0.0191 0.0343 0.0285 0.0169 0.0301 0.0250 0.0678 0.0643 0.0442 0.0552 0.0627 0.0469 -0.0223 0.0383 0.0072 0.0246 0.1960 0.1873 -0.0337 UTR_5_UCSC.extend.500.bed NaN 0.1659 0.4207 0.0671 0.1384 0.0160 0.0314 0.0696 0.0670 0.0779 0.0789 0.0525 -0.0101 -0.0154 0.0505 0.0677 0.0940 0.0565 0.0573 0.0534 0.0870 0.0775 0.0521 0.0743 0.0670 0.1242 0.1329 0.1011 0.1094 0.1392 0.1202 0.0720 0.1233 0.0288 0.0812 0.4087 0.3848 -0.0861 WeakEnhancer_Hoffman.bed NaN 0.0027 -0.0033 0.0168 0.0369 0.0350 0.0533 0.1833 0.1390 0.1957 0.2194 0.1449 0.0628 0.0744 0.1247 0.1877 0.1716 0.1495 0.1201 0.1177 0.1603 0.1464 0.2178 0.1629 0.1148 0.1206 0.1691 0.1566 0.1282 0.1739 0.1655 0.0084 0.0090 0.0200 0.0780 0.0119 0.0162 -0.1420 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0046 -0.0006 0.0174 0.0591 0.0870 0.1165 0.1777 0.2668 0.1890 0.2304 0.2803 0.0641 0.1153 0.2547 0.3677 0.1782 0.2665 0.2361 0.2365 0.2944 0.2830 0.2700 0.2923 0.2370 0.1360 0.2374 0.2860 0.1570 0.2685 0.3044 0.0170 0.0176 0.0654 0.1542 0.0272 0.0325 -0.2394 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 -0.1225 0.0456 0.0453 0.0640 0.0563 0.0642 0.0002 0.0842 0.0671 0.5659 0.4036 0.2913 0.1659 0.0027 0.0046 Coding_UCSC.extend.500.bed -0.2553 0.0716 0.0713 0.0927 0.0813 0.1465 0.0097 0.1454 0.1242 0.2744 0.3785 0.1553 0.4207 -0.0033 -0.0006 Conserved_LindbladToh.bed -0.0346 0.0156 0.0152 0.0670 0.0502 -0.0022 -0.0251 0.0500 0.0428 0.0719 0.0621 0.0824 0.0671 0.0168 0.0174 Conserved_LindbladToh.extend.500.bed -0.1178 0.0627 0.0626 0.1072 0.1284 0.0280 -0.0350 0.0812 0.0830 0.0767 0.1175 0.0519 0.1384 0.0369 0.0591 CTCF_Hoffman.bed -0.0643 0.0391 0.0409 0.2519 0.1897 -0.0593 -0.0480 0.0294 0.0568 0.0108 0.0234 0.0088 0.0160 0.0350 0.0870 CTCF_Hoffman.extend.500.bed -0.0775 0.0611 0.0638 0.1801 0.2837 -0.0444 -0.0545 0.0388 0.0690 0.0119 0.0331 0.0110 0.0314 0.0533 0.1165 DGF_ENCODE.bed -0.1830 0.1611 0.1609 0.3802 0.2490 0.0008 -0.0627 0.1869 0.1709 0.0269 0.0331 0.0463 0.0696 0.1833 0.1777 DGF_ENCODE.extend.500.bed -0.2603 0.2395 0.2403 0.2907 0.4312 0.0340 -0.0517 0.1237 0.1649 0.0318 0.0376 0.0321 0.0670 0.1390 0.2668 DHS_peaks_Trynka.bed -0.1528 0.1324 0.1310 0.3868 0.2552 -0.0310 -0.0868 0.2046 0.1829 0.0141 0.0169 0.0459 0.0779 0.1957 0.1890 DHS_Trynka.bed -0.1776 0.1556 0.1544 0.4411 0.3093 -0.0327 -0.0935 0.2079 0.1911 0.0188 0.0203 0.0465 0.0789 0.2194 0.2304 DHS_Trynka.extend.500.bed -0.2074 0.2070 0.2074 0.2869 0.4378 0.0009 -0.0625 0.1253 0.1601 0.0185 0.0155 0.0229 0.0525 0.1449 0.2803 Enhancer_Andersson.bed -0.0562 0.0671 0.0664 0.1061 0.0661 -0.0093 -0.0242 0.0788 0.0704 -0.0080 -0.0091 -0.0055 -0.0101 0.0628 0.0641 Enhancer_Andersson.extend.500.bed -0.0964 0.1205 0.1191 0.1278 0.1262 -0.0213 -0.0414 0.1053 0.1193 -0.0156 -0.0190 -0.0104 -0.0154 0.0744 0.1153 Enhancer_Hoffman.bed -0.3096 0.2215 0.2195 0.3513 0.2946 -0.0268 -0.0991 0.1734 0.2754 0.0120 0.0146 0.0200 0.0505 0.1247 0.2547 Enhancer_Hoffman.extend.500.bed -0.3902 0.2731 0.2748 0.3464 0.3804 -0.0213 -0.1047 0.2439 0.3697 0.0182 0.0254 0.0280 0.0677 0.1877 0.3677 FetalDHS_Trynka.bed -0.1470 0.1348 0.1339 0.3533 0.2369 -0.0470 -0.1012 0.2473 0.2210 0.0131 0.0176 0.0583 0.0940 0.1716 0.1782 FetalDHS_Trynka.extend.500.bed -0.1908 0.1994 0.1995 0.2929 0.3757 -0.0374 -0.0956 0.1781 0.2157 0.0137 0.0145 0.0259 0.0565 0.1495 0.2665 H3K27ac_Hnisz.bed -0.3465 0.5645 0.5638 0.2282 0.3160 0.0902 -0.0267 0.1357 0.1797 0.0381 0.0394 0.0225 0.0573 0.1201 0.2361 H3K27ac_Hnisz.extend.500.bed -0.3411 0.5290 0.5352 0.2189 0.3156 0.0909 -0.0246 0.1269 0.1729 0.0370 0.0373 0.0191 0.0534 0.1177 0.2365 H3K27ac_PGC2.bed -0.3760 0.4268 0.4290 0.2884 0.3696 0.0576 -0.0579 0.2075 0.2715 0.0454 0.0497 0.0343 0.0870 0.1603 0.2944 H3K27ac_PGC2.extend.500.bed -0.3767 0.4277 0.4320 0.2578 0.3524 0.0718 -0.0448 0.1768 0.2378 0.0463 0.0500 0.0285 0.0775 0.1464 0.2830 H3K4me1_peaks_Trynka.bed -0.2629 0.2442 0.2436 0.2921 0.2951 0.0371 -0.0605 0.1641 0.2064 0.0283 0.0321 0.0169 0.0521 0.2178 0.2700 H3K4me1_Trynka.bed -0.3454 0.3233 0.3250 0.2759 0.3739 0.0852 -0.0507 0.1324 0.1779 0.0496 0.0594 0.0301 0.0743 0.1629 0.2923 H3K4me1_Trynka.extend.500.bed -0.3170 0.2820 0.2855 0.2056 0.3318 0.1008 -0.0223 0.0970 0.1340 0.0468 0.0555 0.0250 0.0670 0.1148 0.2370 H3K4me3_peaks_Trynka.bed -0.1731 0.1427 0.1419 0.2635 0.1941 -0.0174 -0.0873 0.3210 0.3007 0.0227 0.0446 0.0678 0.1242 0.1206 0.1360 H3K4me3_Trynka.bed -0.2711 0.2502 0.2491 0.3393 0.3148 -0.0065 -0.1005 0.3218 0.3873 0.0438 0.0720 0.0643 0.1329 0.1691 0.2374 H3K4me3_Trynka.extend.500.bed -0.2900 0.2861 0.2885 0.2900 0.3549 0.0134 -0.0780 0.2264 0.3052 0.0425 0.0697 0.0442 0.1011 0.1566 0.2860 H3K9ac_peaks_Trynka.bed -0.2002 0.1842 0.1833 0.2387 0.1975 0.0048 -0.0736 0.2775 0.2754 0.0280 0.0413 0.0552 0.1094 0.1282 0.1570 H3K9ac_Trynka.bed -0.3296 0.3350 0.3351 0.3221 0.3316 0.0199 -0.0974 0.2993 0.3597 0.0542 0.0728 0.0627 0.1392 0.1739 0.2685 H3K9ac_Trynka.extend.500.bed -0.3813 0.3677 0.3709 0.2827 0.3551 0.0613 -0.0763 0.2194 0.2945 0.0563 0.0769 0.0469 0.1202 0.1655 0.3044 Intron_UCSC.bed -0.2935 0.1147 0.1147 0.0168 0.0343 0.2756 0.1318 0.0171 0.0187 -0.0556 -0.0133 -0.0223 0.0720 0.0084 0.0170 Intron_UCSC.extend.500.bed -0.3123 0.1200 0.1200 0.0337 0.0449 0.2796 0.1240 0.0496 0.0438 -0.0129 0.0269 0.0383 0.1233 0.0090 0.0176 PromoterFlanking_Hoffman.bed -0.1088 0.0391 0.0410 0.0684 0.0839 -0.0097 -0.0313 0.0947 0.2071 0.0076 0.0076 0.0072 0.0288 0.0200 0.0654 PromoterFlanking_Hoffman.extend.500.bed -0.1850 0.0818 0.0836 0.1586 0.1754 -0.0306 -0.0762 0.2490 0.3702 0.0085 0.0181 0.0246 0.0812 0.0780 0.1542 Promoter_UCSC.bed -0.1433 0.0561 0.0578 0.1366 0.1119 -0.0208 -0.1019 0.2942 0.3129 0.1055 0.2250 0.1960 0.4087 0.0119 0.0272 Promoter_UCSC.extend.500.bed -0.1546 0.0657 0.0680 0.1330 0.1130 -0.0117 -0.0939 0.2793 0.3028 0.1084 0.2205 0.1873 0.3848 0.0162 0.0325 Repressed_Hoffman.bed 0.5941 -0.2110 -0.2118 -0.2219 -0.2550 -0.6914 -0.1829 -0.1203 -0.1648 -0.0629 -0.0859 -0.0337 -0.0861 -0.1420 -0.2394 Repressed_Hoffman.extend.500.bed 1.0000 -0.2895 -0.2908 -0.2547 -0.2860 -0.4016 -0.0773 -0.1990 -0.2571 -0.0966 -0.1311 -0.0541 -0.1300 -0.1526 -0.2537 SuperEnhancer_Hnisz.bed -0.2895 1.0000 0.9883 0.1822 0.2328 0.0813 -0.0087 0.1298 0.1651 0.0341 0.0356 0.0190 0.0492 0.1047 0.1957 SuperEnhancer_Hnisz.extend.500.bed -0.2908 0.9883 1.0000 0.1818 0.2345 0.0811 -0.0084 0.1285 0.1647 0.0343 0.0362 0.0187 0.0486 0.1042 0.1966 TFBS_ENCODE.bed -0.2547 0.1822 0.1818 1.0000 0.5384 -0.0326 -0.1065 0.3069 0.3135 0.0366 0.0504 0.0597 0.1108 0.2228 0.2569 TFBS_ENCODE.extend.500.bed -0.2860 0.2328 0.2345 0.5384 1.0000 -0.0093 -0.0895 0.1905 0.2528 0.0385 0.0440 0.0365 0.0774 0.1745 0.3316 Transcribed_Hoffman.bed -0.4016 0.0813 0.0811 -0.0326 -0.0093 1.0000 0.4015 -0.0548 -0.0491 0.0633 0.0789 0.0018 0.0236 -0.0278 -0.0404 Transcribed_Hoffman.extend.500.bed -0.0773 -0.0087 -0.0084 -0.1065 -0.0895 0.4015 1.0000 -0.1412 -0.1313 0.0167 0.0088 -0.0320 -0.0537 -0.0535 -0.0816 TSS_Hoffman.bed -0.1990 0.1298 0.1285 0.3069 0.1905 -0.0548 -0.1412 1.0000 0.7175 0.0325 0.0549 0.1280 0.2311 0.0480 0.0700 TSS_Hoffman.extend.500.bed -0.2571 0.1651 0.1647 0.3135 0.2528 -0.0491 -0.1313 0.7175 1.0000 0.0284 0.0501 0.0983 0.1975 0.0747 0.1358 UTR_3_UCSC.bed -0.0966 0.0341 0.0343 0.0366 0.0385 0.0633 0.0167 0.0325 0.0284 1.0000 0.6434 0.1060 0.0632 0.0039 0.0078 UTR_3_UCSC.extend.500.bed -0.1311 0.0356 0.0362 0.0504 0.0440 0.0789 0.0088 0.0549 0.0501 0.6434 1.0000 0.0850 0.1197 0.0029 0.0050 UTR_5_UCSC.bed -0.0541 0.0190 0.0187 0.0597 0.0365 0.0018 -0.0320 0.1280 0.0983 0.1060 0.0850 1.0000 0.4510 0.0011 -0.0018 UTR_5_UCSC.extend.500.bed -0.1300 0.0492 0.0486 0.1108 0.0774 0.0236 -0.0537 0.2311 0.1975 0.0632 0.1197 0.4510 1.0000 0.0032 0.0065 WeakEnhancer_Hoffman.bed -0.1526 0.1047 0.1042 0.2228 0.1745 -0.0278 -0.0535 0.0480 0.0747 0.0039 0.0029 0.0011 0.0032 1.0000 0.4695 WeakEnhancer_Hoffman.extend.500.bed -0.2537 0.1957 0.1966 0.2569 0.3316 -0.0404 -0.0816 0.0700 0.1358 0.0078 0.0050 -0.0018 0.0065 0.4695 1.0000 Annotation Matrix Column Sums base 287001.0 Coding_UCSC.bed 4940.0 Coding_UCSC.extend.500.bed 22251.0 Conserved_LindbladToh.bed 8162.0 Conserved_LindbladToh.extend.500.bed 94420.0 CTCF_Hoffman.bed 8204.0 CTCF_Hoffman.extend.500.bed 24007.0 DGF_ENCODE.bed 43101.0 DGF_ENCODE.extend.500.bed 165392.0 DHS_peaks_Trynka.bed 35216.0 DHS_Trynka.bed 52362.0 DHS_Trynka.extend.500.bed 150218.0 Enhancer_Andersson.bed 1448.0 Enhancer_Andersson.extend.500.bed 6373.0 Enhancer_Hoffman.bed 16075.0 Enhancer_Hoffman.extend.500.bed 32792.0 FetalDHS_Trynka.bed 27473.0 FetalDHS_Trynka.extend.500.bed 88824.0 H3K27ac_Hnisz.bed 132257.0 H3K27ac_Hnisz.extend.500.bed 141571.0 H3K27ac_PGC2.bed 90917.0 H3K27ac_PGC2.extend.500.bed 112595.0 H3K4me1_peaks_Trynka.bed 57820.0 H3K4me1_Trynka.bed 140321.0 H3K4me1_Trynka.extend.500.bed 193041.0 H3K4me3_peaks_Trynka.bed 13393.0 H3K4me3_Trynka.bed 41254.0 H3K4me3_Trynka.extend.500.bed 78302.0 H3K9ac_peaks_Trynka.bed 13623.0 H3K9ac_Trynka.bed 44340.0 H3K9ac_Trynka.extend.500.bed 79554.0 Intron_UCSC.bed 130375.0 Intron_UCSC.extend.500.bed 133697.0 PromoterFlanking_Hoffman.bed 3007.0 PromoterFlanking_Hoffman.extend.500.bed 11793.0 Promoter_UCSC.bed 17141.0 Promoter_UCSC.extend.500.bed 20576.0 Repressed_Hoffman.bed 116228.0 Repressed_Hoffman.extend.500.bed 188988.0 SuperEnhancer_Hnisz.bed 61441.0 SuperEnhancer_Hnisz.extend.500.bed 62585.0 TFBS_ENCODE.bed 40525.0 TFBS_ENCODE.extend.500.bed 103883.0 Transcribed_Hoffman.bed 119498.0 Transcribed_Hoffman.extend.500.bed 234104.0 TSS_Hoffman.bed 5980.0 TSS_Hoffman.extend.500.bed 11391.0 UTR_3_UCSC.bed 4286.0 UTR_3_UCSC.extend.500.bed 10139.0 UTR_5_UCSC.bed 2101.0 UTR_5_UCSC.extend.500.bed 10043.0 WeakEnhancer_Hoffman.bed 8255.0 WeakEnhancer_Hoffman.extend.500.bed 33998.0 Summary of Annotation Matrix Row Sums count 287001.0000 mean 12.3250 std 7.0248 min 1.0000 25% 7.0000 50% 11.0000 75% 17.0000 max 45.0000 Analysis finished at Tue Oct 17 17:12:54 2017 Total time elapsed: 31.0m:38.3s