********************************************************************* * 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.19.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.19 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.19 \ --annot 1000G_Phase3_baseline_v1.1/baseline.19.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 232363 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.19.bim Read 53 annotations for 232363 SNPs from 1000G_Phase3_baseline_v1.1/baseline.19.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.19.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.19.bed Estimating LD Score. Reading list of 26259 SNPs for which to print LD Scores from hapmap3_snps/hm.19.snp After merging with --print-snps, LD Scores for 21991 SNPs will be printed. Writing LD Scores for 21991 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.19.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.19.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 0.2369 103.7243 4.6429 16.5270 2.6557 27.7001 2.9176 8.6785 13.6549 50.6191 9.0514 13.3194 40.5865 0.6039 2.2355 4.9556 11.5395 7.3263 22.9021 39.3702 42.2042 28.9774 35.9534 16.8307 48.0646 65.4815 12.4108 38.3394 60.0822 6.1217 18.1526 31.0650 43.5756 46.4681 1.4676 6.5231 12.3776 std 0.1428 121.4056 5.6465 15.8334 3.3694 28.5827 2.8703 7.3739 11.0613 38.4855 7.6385 11.3934 33.4193 1.4444 3.4487 5.1041 10.6828 6.2337 17.8144 34.4673 36.3072 28.4214 34.6087 14.1992 44.4710 60.5005 19.6665 56.7686 81.9372 6.2671 17.3436 27.4079 50.2424 51.8371 1.7662 6.7747 12.4817 min 0.0051 -0.3737 -0.1684 -0.6044 -0.1835 -0.6298 -0.1589 -0.2555 -0.4538 -0.1737 -0.2985 -0.4707 -0.0370 -0.1546 -0.3066 -0.2430 -0.6138 -0.2965 -0.6671 -1.1824 -1.0515 -0.7473 -0.6464 -0.2121 -0.3469 -0.3665 -0.8429 -1.1084 -0.9662 -0.2552 -0.5593 -1.0332 -1.8736 -1.8791 -0.1159 -0.2677 -0.4401 25% 0.1125 39.0603 0.9985 4.6136 0.4546 8.8539 0.9639 3.4854 5.7957 23.5553 3.7365 5.6096 18.4996 0.0443 0.3075 1.1366 3.2973 2.9292 10.2873 13.5661 15.6183 10.4296 13.5178 6.5656 18.7429 26.8536 2.6855 8.6798 17.0137 1.7681 5.5113 11.0871 12.4654 14.0257 0.2091 1.5657 3.3122 50% 0.2331 67.6082 2.8584 11.9807 1.4862 19.5228 2.0990 6.7927 10.6488 40.8395 7.1601 10.3460 31.8830 0.1936 1.1601 3.4729 8.7217 5.8099 18.3659 30.3248 32.4946 21.3584 26.8733 12.9366 35.7781 48.6289 6.3013 21.1314 35.6142 4.0511 12.7592 23.2564 30.2544 32.6601 0.7710 4.2837 8.9423 75% 0.3569 115.6685 5.9644 24.2819 3.5501 36.7544 3.9084 11.4766 18.3586 66.1705 11.8349 17.2724 52.6637 0.6732 3.0583 6.9266 16.6584 9.8204 30.5739 56.3693 59.4904 38.9352 48.6655 23.2559 62.5050 83.3734 12.7710 42.0585 65.9945 8.6508 25.7726 43.3143 55.7116 59.7026 2.0623 9.1116 17.0906 max 0.5000 1363.3351 38.4447 94.0994 27.6905 212.6721 44.3984 91.0160 75.2086 295.9810 52.4512 98.0562 322.0765 25.1592 47.5198 36.6444 68.9267 45.0440 111.4537 272.2180 300.1387 327.0375 405.2091 98.7396 319.2259 455.1449 186.8132 607.0687 931.4151 54.3013 116.2643 202.5879 402.4152 403.3870 12.7383 44.0133 98.6421 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 15.3583 31.5947 52.6957 18.1877 18.6517 15.6997 35.8744 51.9849 86.9008 4.6888 8.2795 3.1536 7.0308 1.3907 7.4262 2.2612 9.8208 std 15.7713 52.5754 79.5671 22.2126 22.5266 12.1881 25.8583 54.0356 92.1744 5.1774 8.3010 4.7398 9.1632 1.9764 8.8588 2.5464 8.9350 min -0.5184 -1.0033 -1.2465 -1.0388 -1.0914 -0.5437 -0.3316 -0.9549 -0.1554 -0.2352 -0.3635 -0.2334 -0.2174 -0.1103 -0.3456 -0.1135 -0.4017 25% 4.1136 4.3580 10.0644 2.0421 2.1243 6.7516 16.8005 16.3773 32.3044 0.9479 2.0188 0.4531 1.3964 0.1275 1.4415 0.5442 3.4571 50% 11.0015 12.6054 24.2939 9.4652 9.9114 12.7948 29.6630 34.5267 57.7235 2.9743 5.8514 1.5560 4.2141 0.6247 4.5788 1.4662 7.2728 75% 21.1593 36.0663 59.4589 27.0502 27.9062 21.3275 49.1721 66.7826 100.3027 6.6257 11.7216 3.7690 8.8709 1.8404 9.8625 3.0553 13.6378 max 126.3034 603.1443 828.4064 196.0219 197.0119 85.9876 154.1823 430.7644 743.6695 56.4505 70.0187 45.0563 71.6349 21.0255 67.2233 25.5101 69.6232 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 0.0695 0.0923 0.1224 0.0629 0.1225 0.0961 0.1178 0.1186 0.1291 0.1118 0.1076 0.1070 0.0138 0.0455 0.0985 0.1117 0.1222 0.1270 0.1111 0.1119 0.0838 0.0871 0.1081 0.1055 0.1063 0.0554 0.0587 0.0598 0.0942 0.1092 0.1151 0.1008 0.1033 0.0936 0.1147 baseL2 0.0695 1.0000 0.5051 0.4212 0.2881 0.3830 0.4926 0.5358 0.5629 0.7202 0.6520 0.7013 0.7808 0.5431 0.5123 0.1827 0.2218 0.5599 0.6061 0.5716 0.6093 0.7093 0.7354 0.5473 0.7166 0.7854 0.8385 0.8652 0.9265 0.2745 0.2907 0.3333 0.6212 0.6215 0.4518 0.5073 Coding_UCSC.bedL2 0.0923 0.5051 1.0000 0.8470 0.3761 0.4645 0.3610 0.4116 0.5314 0.5570 0.4819 0.4279 0.4166 0.0812 0.1802 0.3872 0.4529 0.4857 0.4164 0.3361 0.3497 0.4003 0.4083 0.4710 0.6397 0.6361 0.6484 0.6287 0.6136 0.4176 0.4222 0.4237 0.6721 0.6911 0.6066 0.6765 Coding_UCSC.extend.500.bedL2 0.1224 0.4212 0.8470 1.0000 0.4963 0.6096 0.4372 0.5176 0.6963 0.6606 0.5862 0.5212 0.5006 0.1117 0.2349 0.5596 0.6202 0.5874 0.5258 0.4762 0.4825 0.4886 0.4974 0.6042 0.6959 0.6633 0.5590 0.5615 0.5442 0.6122 0.6380 0.6571 0.7306 0.7541 0.6369 0.7213 Conserved_LindbladToh.bedL2 0.0629 0.2881 0.3761 0.4963 1.0000 0.8815 0.3178 0.4076 0.6249 0.6010 0.6325 0.5873 0.5489 0.1033 0.1799 0.4915 0.4855 0.6427 0.6156 0.4846 0.4832 0.4255 0.4155 0.5507 0.5593 0.5347 0.3203 0.3183 0.2899 0.5409 0.5242 0.5414 0.5198 0.5284 0.3142 0.3844 Conserved_LindbladToh.extend.500.bedL2 0.1225 0.3830 0.4645 0.6096 0.8815 1.0000 0.3830 0.4761 0.7378 0.7378 0.7423 0.7010 0.6736 0.1310 0.2359 0.5622 0.5667 0.7421 0.7255 0.5732 0.5736 0.5280 0.5200 0.6438 0.7149 0.6820 0.4390 0.4288 0.3923 0.5907 0.5938 0.6272 0.7001 0.7043 0.4046 0.4743 CTCF_Hoffman.bedL2 0.0961 0.4926 0.3610 0.4372 0.3178 0.3830 1.0000 0.9156 0.6720 0.6933 0.6256 0.6305 0.6370 0.2992 0.3895 0.4733 0.5143 0.6196 0.6385 0.6265 0.6418 0.6147 0.6234 0.6442 0.6058 0.6010 0.3771 0.4124 0.4434 0.4979 0.5396 0.5816 0.4390 0.4498 0.3488 0.4239 CTCF_Hoffman.extend.500.bedL2 0.1178 0.5358 0.4116 0.5176 0.4076 0.4761 0.9156 1.0000 0.7580 0.7754 0.7099 0.7107 0.7121 0.3103 0.4132 0.5369 0.5921 0.6998 0.7277 0.7153 0.7295 0.6775 0.6873 0.7326 0.6767 0.6671 0.4233 0.4590 0.4914 0.5882 0.6328 0.6701 0.4994 0.5126 0.4127 0.5021 DGF_ENCODE.bedL2 0.1186 0.5629 0.5314 0.6963 0.6249 0.7378 0.6720 0.7580 1.0000 0.9349 0.9294 0.9017 0.8579 0.3616 0.4948 0.7464 0.7731 0.9071 0.8922 0.8424 0.8461 0.8309 0.8303 0.9240 0.8770 0.8340 0.5774 0.6057 0.6026 0.8165 0.8438 0.8689 0.7113 0.7228 0.5853 0.6746 DGF_ENCODE.extend.500.bedL2 0.1291 0.7202 0.5570 0.6606 0.6010 0.7378 0.6933 0.7754 0.9349 1.0000 0.9250 0.9172 0.9321 0.3778 0.4770 0.6258 0.6689 0.8774 0.9046 0.8377 0.8552 0.8374 0.8503 0.8888 0.9316 0.9288 0.6656 0.6865 0.6988 0.6728 0.7081 0.7620 0.7571 0.7648 0.5919 0.6835 DHS_peaks_Trynka.bedL2 0.1118 0.6520 0.4819 0.5862 0.6325 0.7423 0.6256 0.7099 0.9294 0.9250 1.0000 0.9762 0.9331 0.4517 0.5441 0.6689 0.6927 0.9481 0.9394 0.8419 0.8520 0.8622 0.8638 0.9012 0.8821 0.8575 0.6299 0.6541 0.6564 0.7381 0.7555 0.7871 0.6788 0.6860 0.5511 0.6380 DHS_Trynka.bedL2 0.1076 0.7013 0.4279 0.5212 0.5873 0.7010 0.6305 0.7107 0.9017 0.9172 0.9762 1.0000 0.9685 0.5311 0.5972 0.6197 0.6420 0.9222 0.9390 0.8678 0.8803 0.8991 0.9020 0.8832 0.8584 0.8429 0.6361 0.6691 0.6820 0.6964 0.7163 0.7527 0.6279 0.6344 0.5076 0.5931 DHS_Trynka.extend.500.bedL2 0.1070 0.7808 0.4166 0.5006 0.5489 0.6736 0.6370 0.7121 0.8579 0.9321 0.9331 0.9685 1.0000 0.5547 0.5988 0.5379 0.5671 0.8567 0.9227 0.8578 0.8781 0.8919 0.9042 0.8431 0.8604 0.8684 0.6641 0.7009 0.7269 0.6068 0.6389 0.6942 0.6402 0.6447 0.4990 0.5800 Enhancer_Andersson.bedL2 0.0138 0.5431 0.0812 0.1117 0.1033 0.1310 0.2992 0.3103 0.3616 0.3778 0.4517 0.5311 0.5547 1.0000 0.8978 0.1850 0.1767 0.3777 0.4017 0.4957 0.5094 0.6490 0.6490 0.3406 0.3501 0.3669 0.4890 0.5477 0.5623 0.2619 0.2728 0.2783 0.1615 0.1632 0.1839 0.2297 Enhancer_Andersson.extend.500.bedL2 0.0455 0.5123 0.1802 0.2349 0.1799 0.2359 0.3895 0.4132 0.4948 0.4770 0.5441 0.5972 0.5988 0.8978 1.0000 0.3713 0.3629 0.4961 0.5100 0.5885 0.5961 0.7047 0.6946 0.4807 0.4484 0.4386 0.4856 0.5436 0.5505 0.4308 0.4427 0.4398 0.2607 0.2661 0.2604 0.3170 Enhancer_Hoffman.bedL2 0.0985 0.1827 0.3872 0.5596 0.4915 0.5622 0.4733 0.5369 0.7464 0.6258 0.6689 0.6197 0.5379 0.1850 0.3713 1.0000 0.9572 0.6972 0.6693 0.6657 0.6492 0.5994 0.5790 0.7282 0.5719 0.5024 0.2472 0.2656 0.2506 0.7717 0.7759 0.7806 0.4666 0.4815 0.4352 0.5550 Enhancer_Hoffman.extend.500.bedL2 0.1117 0.2218 0.4529 0.6202 0.4855 0.5667 0.5143 0.5921 0.7731 0.6689 0.6927 0.6420 0.5671 0.1767 0.3629 0.9572 1.0000 0.7274 0.7005 0.6976 0.6845 0.6332 0.6171 0.7671 0.6237 0.5578 0.2945 0.3138 0.2993 0.7961 0.8103 0.8183 0.5020 0.5197 0.5217 0.6548 FetalDHS_Trynka.bedL2 0.1222 0.5599 0.4857 0.5874 0.6427 0.7421 0.6196 0.6998 0.9071 0.8774 0.9481 0.9222 0.8567 0.3777 0.4961 0.6972 0.7274 1.0000 0.9444 0.8100 0.8141 0.8045 0.7991 0.9015 0.8483 0.8070 0.5590 0.5790 0.5755 0.7681 0.7820 0.8029 0.6846 0.6931 0.5402 0.6399 FetalDHS_Trynka.extend.500.bedL2 0.1270 0.6061 0.4164 0.5258 0.6156 0.7255 0.6385 0.7277 0.8922 0.9046 0.9394 0.9390 0.9227 0.4017 0.5100 0.6693 0.7005 0.9444 1.0000 0.8575 0.8655 0.8295 0.8298 0.9034 0.8329 0.8049 0.5164 0.5483 0.5656 0.7232 0.7503 0.7923 0.6424 0.6497 0.5065 0.5957 H3K27ac_Hnisz.bedL2 0.1111 0.5716 0.3361 0.4762 0.4846 0.5732 0.6265 0.7153 0.8424 0.8377 0.8419 0.8678 0.8578 0.4957 0.5885 0.6657 0.6976 0.8100 0.8575 1.0000 0.9974 0.9054 0.9052 0.8663 0.7606 0.7341 0.4794 0.5324 0.5587 0.7333 0.7738 0.8072 0.5289 0.5381 0.4501 0.5606 H3K27ac_Hnisz.extend.500.bedL2 0.1119 0.6093 0.3497 0.4825 0.4832 0.5736 0.6418 0.7295 0.8461 0.8552 0.8520 0.8803 0.8781 0.5094 0.5961 0.6492 0.6845 0.8141 0.8655 0.9974 1.0000 0.9138 0.9169 0.8698 0.7780 0.7583 0.5062 0.5593 0.5890 0.7206 0.7624 0.7998 0.5429 0.5520 0.4614 0.5718 H3K27ac_PGC2.bedL2 0.0838 0.7093 0.4003 0.4886 0.4255 0.5280 0.6147 0.6775 0.8309 0.8374 0.8622 0.8991 0.8919 0.6490 0.7047 0.5994 0.6332 0.8045 0.8295 0.9054 0.9138 1.0000 0.9947 0.8422 0.8086 0.7911 0.6743 0.7262 0.7401 0.6945 0.7200 0.7373 0.5593 0.5671 0.5114 0.6090 H3K27ac_PGC2.extend.500.bedL2 0.0871 0.7354 0.4083 0.4974 0.4155 0.5200 0.6234 0.6873 0.8303 0.8503 0.8638 0.9020 0.9042 0.6490 0.6946 0.5790 0.6171 0.7991 0.8298 0.9052 0.9169 0.9947 1.0000 0.8406 0.8199 0.8103 0.6888 0.7416 0.7596 0.6725 0.7045 0.7308 0.5669 0.5746 0.5206 0.6182 H3K4me1_peaks_Trynka.bedL2 0.1081 0.5473 0.4710 0.6042 0.5507 0.6438 0.6442 0.7326 0.9240 0.8888 0.9012 0.8832 0.8431 0.3406 0.4807 0.7282 0.7671 0.9015 0.9034 0.8663 0.8698 0.8422 0.8406 1.0000 0.8633 0.8171 0.5291 0.5660 0.5730 0.8525 0.8723 0.8861 0.6653 0.6746 0.5907 0.6710 H3K4me1_Trynka.bedL2 0.1055 0.7166 0.6397 0.6959 0.5593 0.7149 0.6058 0.6767 0.8770 0.9316 0.8821 0.8584 0.8604 0.3501 0.4484 0.5719 0.6237 0.8483 0.8329 0.7606 0.7780 0.8086 0.8199 0.8633 1.0000 0.9853 0.7926 0.8003 0.7789 0.6544 0.6777 0.7124 0.8123 0.8179 0.6585 0.7500 H3K4me1_Trynka.extend.500.bedL2 0.1063 0.7854 0.6361 0.6633 0.5347 0.6820 0.6010 0.6671 0.8340 0.9288 0.8575 0.8429 0.8684 0.3669 0.4386 0.5024 0.5578 0.8070 0.8049 0.7341 0.7583 0.7911 0.8103 0.8171 0.9853 1.0000 0.8248 0.8301 0.8195 0.5702 0.5939 0.6387 0.8021 0.8065 0.6442 0.7379 H3K4me3_peaks_Trynka.bedL2 0.0554 0.8385 0.6484 0.5590 0.3203 0.4390 0.3771 0.4233 0.5774 0.6656 0.6299 0.6361 0.6641 0.4890 0.4856 0.2472 0.2945 0.5590 0.5164 0.4794 0.5062 0.6743 0.6888 0.5291 0.7926 0.8248 1.0000 0.9867 0.9623 0.3582 0.3496 0.3479 0.6907 0.6923 0.5775 0.6635 H3K4me3_Trynka.bedL2 0.0587 0.8652 0.6287 0.5615 0.3183 0.4288 0.4124 0.4590 0.6057 0.6865 0.6541 0.6691 0.7009 0.5477 0.5436 0.2656 0.3138 0.5790 0.5483 0.5324 0.5593 0.7262 0.7416 0.5660 0.8003 0.8301 0.9867 1.0000 0.9829 0.3967 0.4005 0.3994 0.6772 0.6800 0.5783 0.6627 H3K4me3_Trynka.extend.500.bedL2 0.0598 0.9265 0.6136 0.5442 0.2899 0.3923 0.4434 0.4914 0.6026 0.6988 0.6564 0.6820 0.7269 0.5623 0.5505 0.2506 0.2993 0.5755 0.5656 0.5587 0.5890 0.7401 0.7596 0.5730 0.7789 0.8195 0.9623 0.9829 1.0000 0.3824 0.3922 0.4045 0.6670 0.6701 0.5577 0.6362 H3K9ac_peaks_Trynka.bedL2 0.0942 0.2745 0.4176 0.6122 0.5409 0.5907 0.4979 0.5882 0.8165 0.6728 0.7381 0.6964 0.6068 0.2619 0.4308 0.7717 0.7961 0.7681 0.7232 0.7333 0.7206 0.6945 0.6725 0.8525 0.6544 0.5702 0.3582 0.3967 0.3824 1.0000 0.9632 0.9293 0.5406 0.5547 0.5433 0.6050 H3K9ac_Trynka.bedL2 0.1092 0.2907 0.4222 0.6380 0.5242 0.5938 0.5396 0.6328 0.8438 0.7081 0.7555 0.7163 0.6389 0.2728 0.4427 0.7759 0.8103 0.7820 0.7503 0.7738 0.7624 0.7200 0.7045 0.8723 0.6777 0.5939 0.3496 0.4005 0.3922 0.9632 1.0000 0.9760 0.5503 0.5657 0.5522 0.6191 H3K9ac_Trynka.extend.500.bedL2 0.1151 0.3333 0.4237 0.6571 0.5414 0.6272 0.5816 0.6701 0.8689 0.7620 0.7871 0.7527 0.6942 0.2783 0.4398 0.7806 0.8183 0.8029 0.7923 0.8072 0.7998 0.7373 0.7308 0.8861 0.7124 0.6387 0.3479 0.3994 0.4045 0.9293 0.9760 1.0000 0.5854 0.6007 0.5529 0.6268 Intron_UCSC.bedL2 0.1008 0.6212 0.6721 0.7306 0.5198 0.7001 0.4390 0.4994 0.7113 0.7571 0.6788 0.6279 0.6402 0.1615 0.2607 0.4666 0.5020 0.6846 0.6424 0.5289 0.5429 0.5593 0.5669 0.6653 0.8123 0.8021 0.6907 0.6772 0.6670 0.5406 0.5503 0.5854 1.0000 0.9989 0.5831 0.6540 Intron_UCSC.extend.500.bedL2 0.1033 0.6215 0.6911 0.7541 0.5284 0.7043 0.4498 0.5126 0.7228 0.7648 0.6860 0.6344 0.6447 0.1632 0.2661 0.4815 0.5197 0.6931 0.6497 0.5381 0.5520 0.5671 0.5746 0.6746 0.8179 0.8065 0.6923 0.6800 0.6701 0.5547 0.5657 0.6007 0.9989 1.0000 0.5952 0.6702 PromoterFlanking_Hoffman.bedL2 0.0936 0.4518 0.6066 0.6369 0.3142 0.4046 0.3488 0.4127 0.5853 0.5919 0.5511 0.5076 0.4990 0.1839 0.2604 0.4352 0.5217 0.5402 0.5065 0.4501 0.4614 0.5114 0.5206 0.5907 0.6585 0.6442 0.5775 0.5783 0.5577 0.5433 0.5522 0.5529 0.5831 0.5952 1.0000 0.8698 PromoterFlanking_Hoffman.extend.500.bedL2 0.1147 0.5073 0.6765 0.7213 0.3844 0.4743 0.4239 0.5021 0.6746 0.6835 0.6380 0.5931 0.5800 0.2297 0.3170 0.5550 0.6548 0.6399 0.5957 0.5606 0.5718 0.6090 0.6182 0.6710 0.7500 0.7379 0.6635 0.6627 0.6362 0.6050 0.6191 0.6268 0.6540 0.6702 0.8698 1.0000 Promoter_UCSC.bedL2 0.1274 0.5548 0.7638 0.8087 0.4571 0.5482 0.4782 0.5472 0.6935 0.7037 0.6296 0.5801 0.5673 0.1957 0.3014 0.5080 0.5866 0.6240 0.5586 0.5246 0.5378 0.5809 0.5889 0.6250 0.7708 0.7614 0.7118 0.7084 0.6804 0.5627 0.5862 0.5945 0.7134 0.7335 0.6952 0.8152 Promoter_UCSC.extend.500.bedL2 0.1220 0.5620 0.7754 0.8145 0.4560 0.5528 0.4841 0.5526 0.6967 0.7115 0.6346 0.5838 0.5713 0.1888 0.2964 0.5113 0.5899 0.6300 0.5639 0.5248 0.5385 0.5814 0.5899 0.6312 0.7837 0.7740 0.7223 0.7171 0.6889 0.5621 0.5846 0.5950 0.7277 0.7474 0.7009 0.8216 Repressed_Hoffman.bedL2 0.0599 0.8150 0.3741 0.2002 0.1680 0.2037 0.3067 0.3328 0.2483 0.4322 0.3232 0.3528 0.4369 0.1793 0.1606 -0.0715 -0.0563 0.2758 0.3200 0.2148 0.2513 0.2899 0.3128 0.2258 0.3962 0.4841 0.5539 0.5547 0.6445 -0.0325 -0.0283 0.0084 0.4478 0.4441 0.2068 0.2144 Repressed_Hoffman.extend.500.bedL2 0.0652 0.8492 0.4180 0.2505 0.2065 0.2551 0.3482 0.3781 0.3077 0.4978 0.3822 0.4084 0.4930 0.2024 0.1883 -0.0261 -0.0032 0.3328 0.3723 0.2630 0.3009 0.3427 0.3671 0.2813 0.4689 0.5574 0.6108 0.6095 0.6924 0.0073 0.0125 0.0520 0.4985 0.4953 0.2612 0.2820 SuperEnhancer_Hnisz.bedL2 0.0931 0.2231 0.1600 0.2774 0.4035 0.4638 0.4255 0.4876 0.6423 0.5484 0.6314 0.6316 0.5601 0.2778 0.4136 0.6470 0.6358 0.6652 0.6633 0.7495 0.7234 0.6471 0.6172 0.6856 0.4909 0.4206 0.2044 0.2397 0.2398 0.6816 0.6896 0.6637 0.3339 0.3385 0.2603 0.3274 SuperEnhancer_Hnisz.extend.500.bedL2 0.0954 0.2245 0.1620 0.2813 0.4032 0.4634 0.4298 0.4922 0.6462 0.5516 0.6335 0.6343 0.5631 0.2816 0.4175 0.6498 0.6397 0.6677 0.6661 0.7534 0.7275 0.6505 0.6207 0.6889 0.4925 0.4222 0.2051 0.2411 0.2415 0.6854 0.6946 0.6689 0.3347 0.3395 0.2642 0.3323 TFBS_ENCODE.bedL2 0.1224 0.5476 0.6035 0.7350 0.5537 0.6421 0.6843 0.7555 0.9135 0.8687 0.8507 0.8171 0.7738 0.3203 0.4738 0.7630 0.8077 0.8538 0.8232 0.7906 0.7947 0.7794 0.7761 0.8769 0.8382 0.7981 0.5851 0.6092 0.6061 0.7985 0.8135 0.8262 0.6799 0.6964 0.6292 0.7408 TFBS_ENCODE.extend.500.bedL2 0.1397 0.6736 0.6094 0.7177 0.5542 0.6586 0.7245 0.8050 0.9201 0.9435 0.8864 0.8671 0.8635 0.3363 0.4660 0.6958 0.7504 0.8656 0.8764 0.8272 0.8409 0.8155 0.8238 0.8967 0.8969 0.8802 0.6403 0.6655 0.6816 0.7314 0.7616 0.7985 0.7225 0.7364 0.6432 0.7483 Transcribed_Hoffman.bedL2 0.0892 0.8079 0.7078 0.6959 0.4233 0.5758 0.5054 0.5692 0.7284 0.8321 0.7350 0.7101 0.7477 0.2606 0.3381 0.4082 0.4714 0.6911 0.6789 0.6000 0.6273 0.6729 0.6947 0.7254 0.9001 0.9217 0.8162 0.8191 0.8358 0.5082 0.5282 0.5664 0.8393 0.8421 0.6571 0.7159 Transcribed_Hoffman.extend.500.bedL2 0.0881 0.9160 0.6375 0.5513 0.3660 0.4810 0.4992 0.5538 0.6104 0.7646 0.6500 0.6487 0.7121 0.2642 0.3079 0.2580 0.3086 0.6019 0.6164 0.5148 0.5498 0.5955 0.6200 0.5962 0.7851 0.8407 0.7938 0.7969 0.8505 0.3276 0.3432 0.3863 0.7578 0.7586 0.5324 0.5834 TSS_Hoffman.bedL2 0.1055 0.2829 0.5564 0.6679 0.4460 0.5122 0.4104 0.4970 0.7019 0.5946 0.6198 0.5773 0.4952 0.2357 0.3803 0.6785 0.7417 0.6768 0.5839 0.5818 0.5727 0.6015 0.5791 0.6756 0.6255 0.5654 0.4541 0.4676 0.4245 0.7418 0.7428 0.7028 0.5103 0.5309 0.6355 0.7500 TSS_Hoffman.extend.500.bedL2 0.1086 0.2941 0.5808 0.7056 0.4571 0.5279 0.4432 0.5314 0.7359 0.6327 0.6521 0.6054 0.5285 0.2269 0.3856 0.7388 0.8114 0.7043 0.6273 0.6269 0.6180 0.6305 0.6125 0.7227 0.6580 0.5964 0.4582 0.4776 0.4393 0.7859 0.7955 0.7646 0.5366 0.5582 0.6821 0.7983 UTR_3_UCSC.bedL2 0.0943 0.5235 0.8324 0.6896 0.3210 0.4271 0.3466 0.3843 0.5026 0.5603 0.4968 0.4455 0.4398 0.0911 0.1705 0.3463 0.4145 0.4945 0.4322 0.3393 0.3555 0.4200 0.4313 0.4900 0.6810 0.6849 0.6694 0.6429 0.6228 0.3818 0.3826 0.3928 0.6563 0.6680 0.6068 0.6739 UTR_3_UCSC.extend.500.bedL2 0.1004 0.5323 0.7978 0.7526 0.4300 0.5294 0.3994 0.4513 0.5926 0.6336 0.5703 0.5182 0.5084 0.1413 0.2240 0.4233 0.4863 0.5651 0.4986 0.4301 0.4431 0.4948 0.5010 0.5494 0.7382 0.7342 0.6923 0.6736 0.6438 0.4623 0.4635 0.4751 0.7036 0.7190 0.6143 0.7171 UTR_5_UCSC.bedL2 0.0816 0.4389 0.6185 0.6228 0.3081 0.4030 0.3257 0.3860 0.4991 0.5236 0.4661 0.4391 0.4293 0.1643 0.2281 0.3404 0.3973 0.4561 0.3938 0.3613 0.3739 0.4311 0.4365 0.4448 0.5866 0.5812 0.5746 0.5695 0.5352 0.3736 0.3865 0.3935 0.5599 0.5773 0.5339 0.6211 UTR_5_UCSC.extend.500.bedL2 0.1144 0.5172 0.7453 0.8028 0.4283 0.5560 0.3916 0.4619 0.6378 0.6543 0.5758 0.5257 0.5124 0.1531 0.2456 0.4259 0.4933 0.5655 0.4908 0.4287 0.4421 0.5063 0.5163 0.5508 0.7380 0.7281 0.7059 0.6900 0.6492 0.4774 0.4912 0.5033 0.7326 0.7486 0.6539 0.7492 WeakEnhancer_Hoffman.bedL2 0.0889 0.1416 0.2032 0.3695 0.3977 0.4374 0.4516 0.5281 0.6508 0.5375 0.5927 0.5731 0.4988 0.1427 0.2840 0.6588 0.6727 0.6281 0.6293 0.6059 0.5929 0.4982 0.4861 0.6748 0.4469 0.3816 0.1101 0.1488 0.1589 0.6676 0.6904 0.7001 0.3405 0.3501 0.2622 0.3435 WeakEnhancer_Hoffman.extend.500.bedL2 0.1185 0.2189 0.2573 0.4397 0.4400 0.4964 0.5393 0.6197 0.7361 0.6477 0.6692 0.6514 0.5964 0.1563 0.3089 0.7530 0.7774 0.6988 0.7227 0.7005 0.6907 0.5768 0.5703 0.7518 0.5304 0.4743 0.1485 0.1925 0.2114 0.7145 0.7508 0.7792 0.4042 0.4163 0.3324 0.4490 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 0.1274 0.1220 0.0599 0.0652 0.0931 0.0954 0.1224 0.1397 0.0892 0.0881 0.1055 0.1086 0.0943 0.1004 0.0816 0.1144 0.0889 0.1185 baseL2 0.5548 0.5620 0.8150 0.8492 0.2231 0.2245 0.5476 0.6736 0.8079 0.9160 0.2829 0.2941 0.5235 0.5323 0.4389 0.5172 0.1416 0.2189 Coding_UCSC.bedL2 0.7638 0.7754 0.3741 0.4180 0.1600 0.1620 0.6035 0.6094 0.7078 0.6375 0.5564 0.5808 0.8324 0.7978 0.6185 0.7453 0.2032 0.2573 Coding_UCSC.extend.500.bedL2 0.8087 0.8145 0.2002 0.2505 0.2774 0.2813 0.7350 0.7177 0.6959 0.5513 0.6679 0.7056 0.6896 0.7526 0.6228 0.8028 0.3695 0.4397 Conserved_LindbladToh.bedL2 0.4571 0.4560 0.1680 0.2065 0.4035 0.4032 0.5537 0.5542 0.4233 0.3660 0.4460 0.4571 0.3210 0.4300 0.3081 0.4283 0.3977 0.4400 Conserved_LindbladToh.extend.500.bedL2 0.5482 0.5528 0.2037 0.2551 0.4638 0.4634 0.6421 0.6586 0.5758 0.4810 0.5122 0.5279 0.4271 0.5294 0.4030 0.5560 0.4374 0.4964 CTCF_Hoffman.bedL2 0.4782 0.4841 0.3067 0.3482 0.4255 0.4298 0.6843 0.7245 0.5054 0.4992 0.4104 0.4432 0.3466 0.3994 0.3257 0.3916 0.4516 0.5393 CTCF_Hoffman.extend.500.bedL2 0.5472 0.5526 0.3328 0.3781 0.4876 0.4922 0.7555 0.8050 0.5692 0.5538 0.4970 0.5314 0.3843 0.4513 0.3860 0.4619 0.5281 0.6197 DGF_ENCODE.bedL2 0.6935 0.6967 0.2483 0.3077 0.6423 0.6462 0.9135 0.9201 0.7284 0.6104 0.7019 0.7359 0.5026 0.5926 0.4991 0.6378 0.6508 0.7361 DGF_ENCODE.extend.500.bedL2 0.7037 0.7115 0.4322 0.4978 0.5484 0.5516 0.8687 0.9435 0.8321 0.7646 0.5946 0.6327 0.5603 0.6336 0.5236 0.6543 0.5375 0.6477 DHS_peaks_Trynka.bedL2 0.6296 0.6346 0.3232 0.3822 0.6314 0.6335 0.8507 0.8864 0.7350 0.6500 0.6198 0.6521 0.4968 0.5703 0.4661 0.5758 0.5927 0.6692 DHS_Trynka.bedL2 0.5801 0.5838 0.3528 0.4084 0.6316 0.6343 0.8171 0.8671 0.7101 0.6487 0.5773 0.6054 0.4455 0.5182 0.4391 0.5257 0.5731 0.6514 DHS_Trynka.extend.500.bedL2 0.5673 0.5713 0.4369 0.4930 0.5601 0.5631 0.7738 0.8635 0.7477 0.7121 0.4952 0.5285 0.4398 0.5084 0.4293 0.5124 0.4988 0.5964 Enhancer_Andersson.bedL2 0.1957 0.1888 0.1793 0.2024 0.2778 0.2816 0.3203 0.3363 0.2606 0.2642 0.2357 0.2269 0.0911 0.1413 0.1643 0.1531 0.1427 0.1563 Enhancer_Andersson.extend.500.bedL2 0.3014 0.2964 0.1606 0.1883 0.4136 0.4175 0.4738 0.4660 0.3381 0.3079 0.3803 0.3856 0.1705 0.2240 0.2281 0.2456 0.2840 0.3089 Enhancer_Hoffman.bedL2 0.5080 0.5113 -0.0715 -0.0261 0.6470 0.6498 0.7630 0.6958 0.4082 0.2580 0.6785 0.7388 0.3463 0.4233 0.3404 0.4259 0.6588 0.7530 Enhancer_Hoffman.extend.500.bedL2 0.5866 0.5899 -0.0563 -0.0032 0.6358 0.6397 0.8077 0.7504 0.4714 0.3086 0.7417 0.8114 0.4145 0.4863 0.3973 0.4933 0.6727 0.7774 FetalDHS_Trynka.bedL2 0.6240 0.6300 0.2758 0.3328 0.6652 0.6677 0.8538 0.8656 0.6911 0.6019 0.6768 0.7043 0.4945 0.5651 0.4561 0.5655 0.6281 0.6988 FetalDHS_Trynka.extend.500.bedL2 0.5586 0.5639 0.3200 0.3723 0.6633 0.6661 0.8232 0.8764 0.6789 0.6164 0.5839 0.6273 0.4322 0.4986 0.3938 0.4908 0.6293 0.7227 H3K27ac_Hnisz.bedL2 0.5246 0.5248 0.2148 0.2630 0.7495 0.7534 0.7906 0.8272 0.6000 0.5148 0.5818 0.6269 0.3393 0.4301 0.3613 0.4287 0.6059 0.7005 H3K27ac_Hnisz.extend.500.bedL2 0.5378 0.5385 0.2513 0.3009 0.7234 0.7275 0.7947 0.8409 0.6273 0.5498 0.5727 0.6180 0.3555 0.4431 0.3739 0.4421 0.5929 0.6907 H3K27ac_PGC2.bedL2 0.5809 0.5814 0.2899 0.3427 0.6471 0.6505 0.7794 0.8155 0.6729 0.5955 0.6015 0.6305 0.4200 0.4948 0.4311 0.5063 0.4982 0.5768 H3K27ac_PGC2.extend.500.bedL2 0.5889 0.5899 0.3128 0.3671 0.6172 0.6207 0.7761 0.8238 0.6947 0.6200 0.5791 0.6125 0.4313 0.5010 0.4365 0.5163 0.4861 0.5703 H3K4me1_peaks_Trynka.bedL2 0.6250 0.6312 0.2258 0.2813 0.6856 0.6889 0.8769 0.8967 0.7254 0.5962 0.6756 0.7227 0.4900 0.5494 0.4448 0.5508 0.6748 0.7518 H3K4me1_Trynka.bedL2 0.7708 0.7837 0.3962 0.4689 0.4909 0.4925 0.8382 0.8969 0.9001 0.7851 0.6255 0.6580 0.6810 0.7382 0.5866 0.7380 0.4469 0.5304 H3K4me1_Trynka.extend.500.bedL2 0.7614 0.7740 0.4841 0.5574 0.4206 0.4222 0.7981 0.8802 0.9217 0.8407 0.5654 0.5964 0.6849 0.7342 0.5812 0.7281 0.3816 0.4743 H3K4me3_peaks_Trynka.bedL2 0.7118 0.7223 0.5539 0.6108 0.2044 0.2051 0.5851 0.6403 0.8162 0.7938 0.4541 0.4582 0.6694 0.6923 0.5746 0.7059 0.1101 0.1485 H3K4me3_Trynka.bedL2 0.7084 0.7171 0.5547 0.6095 0.2397 0.2411 0.6092 0.6655 0.8191 0.7969 0.4676 0.4776 0.6429 0.6736 0.5695 0.6900 0.1488 0.1925 H3K4me3_Trynka.extend.500.bedL2 0.6804 0.6889 0.6445 0.6924 0.2398 0.2415 0.6061 0.6816 0.8358 0.8505 0.4245 0.4393 0.6228 0.6438 0.5352 0.6492 0.1589 0.2114 H3K9ac_peaks_Trynka.bedL2 0.5627 0.5621 -0.0325 0.0073 0.6816 0.6854 0.7985 0.7314 0.5082 0.3276 0.7418 0.7859 0.3818 0.4623 0.3736 0.4774 0.6676 0.7145 H3K9ac_Trynka.bedL2 0.5862 0.5846 -0.0283 0.0125 0.6896 0.6946 0.8135 0.7616 0.5282 0.3432 0.7428 0.7955 0.3826 0.4635 0.3865 0.4912 0.6904 0.7508 H3K9ac_Trynka.extend.500.bedL2 0.5945 0.5950 0.0084 0.0520 0.6637 0.6689 0.8262 0.7985 0.5664 0.3863 0.7028 0.7646 0.3928 0.4751 0.3935 0.5033 0.7001 0.7792 Intron_UCSC.bedL2 0.7134 0.7277 0.4478 0.4985 0.3339 0.3347 0.6799 0.7225 0.8393 0.7578 0.5103 0.5366 0.6563 0.7036 0.5599 0.7326 0.3405 0.4042 Intron_UCSC.extend.500.bedL2 0.7335 0.7474 0.4441 0.4953 0.3385 0.3395 0.6964 0.7364 0.8421 0.7586 0.5309 0.5582 0.6680 0.7190 0.5773 0.7486 0.3501 0.4163 PromoterFlanking_Hoffman.bedL2 0.6952 0.7009 0.2068 0.2612 0.2603 0.2642 0.6292 0.6432 0.6571 0.5324 0.6355 0.6821 0.6068 0.6143 0.5339 0.6539 0.2622 0.3324 PromoterFlanking_Hoffman.extend.500.bedL2 0.8152 0.8216 0.2144 0.2820 0.3274 0.3323 0.7408 0.7483 0.7159 0.5834 0.7500 0.7983 0.6739 0.7171 0.6211 0.7492 0.3435 0.4490 Promoter_UCSC.bedL2 1.0000 0.9953 0.3258 0.3862 0.2722 0.2764 0.7491 0.7534 0.7407 0.6468 0.7116 0.7360 0.7314 0.8161 0.7276 0.8814 0.2971 0.3824 Promoter_UCSC.extend.500.bedL2 0.9953 1.0000 0.3349 0.3971 0.2746 0.2786 0.7537 0.7612 0.7558 0.6609 0.7028 0.7315 0.7500 0.8276 0.7303 0.8858 0.2982 0.3838 Repressed_Hoffman.bedL2 0.3258 0.3349 1.0000 0.9926 0.0039 0.0038 0.2651 0.4023 0.5704 0.8411 0.0044 -0.0053 0.3799 0.3391 0.2504 0.3026 -0.0518 0.0062 Repressed_Hoffman.extend.500.bedL2 0.3862 0.3971 0.9926 1.0000 0.0269 0.0269 0.3229 0.4632 0.6333 0.8823 0.0552 0.0484 0.4314 0.3993 0.2950 0.3612 -0.0218 0.0454 SuperEnhancer_Hnisz.bedL2 0.2722 0.2746 0.0039 0.0269 1.0000 0.9995 0.6123 0.5780 0.3077 0.2217 0.5155 0.5486 0.1475 0.2065 0.1905 0.2140 0.5684 0.6141 SuperEnhancer_Hnisz.extend.500.bedL2 0.2764 0.2786 0.0038 0.0269 0.9995 1.0000 0.6169 0.5822 0.3088 0.2224 0.5206 0.5535 0.1485 0.2086 0.1935 0.2167 0.5704 0.6172 TFBS_ENCODE.bedL2 0.7491 0.7537 0.2651 0.3229 0.6123 0.6169 1.0000 0.9546 0.7277 0.6187 0.7917 0.8256 0.5639 0.6426 0.5324 0.6570 0.6008 0.6999 TFBS_ENCODE.extend.500.bedL2 0.7534 0.7612 0.4023 0.4632 0.5780 0.5822 0.9546 1.0000 0.8133 0.7399 0.6894 0.7351 0.5907 0.6576 0.5351 0.6628 0.5665 0.6855 Transcribed_Hoffman.bedL2 0.7407 0.7558 0.5704 0.6333 0.3077 0.3088 0.7277 0.8133 1.0000 0.9195 0.5149 0.5484 0.7164 0.7306 0.5669 0.7226 0.2801 0.3669 Transcribed_Hoffman.extend.500.bedL2 0.6468 0.6609 0.8411 0.8823 0.2217 0.2224 0.6187 0.7399 0.9195 1.0000 0.3542 0.3738 0.6491 0.6432 0.4900 0.6174 0.1820 0.2722 TSS_Hoffman.bedL2 0.7116 0.7028 0.0044 0.0552 0.5155 0.5206 0.7917 0.6894 0.5149 0.3542 1.0000 0.9632 0.5047 0.5889 0.5459 0.6390 0.4525 0.5248 TSS_Hoffman.extend.500.bedL2 0.7360 0.7315 -0.0053 0.0484 0.5486 0.5535 0.8256 0.7351 0.5484 0.3738 0.9632 1.0000 0.5285 0.6084 0.5369 0.6397 0.5164 0.5963 UTR_3_UCSC.bedL2 0.7314 0.7500 0.3799 0.4314 0.1475 0.1485 0.5639 0.5907 0.7164 0.6491 0.5047 0.5285 1.0000 0.9267 0.5494 0.6932 0.1724 0.2210 UTR_3_UCSC.extend.500.bedL2 0.8161 0.8276 0.3391 0.3993 0.2065 0.2086 0.6426 0.6576 0.7306 0.6432 0.5889 0.6084 0.9267 1.0000 0.6016 0.7584 0.2450 0.2981 UTR_5_UCSC.bedL2 0.7276 0.7303 0.2504 0.2950 0.1905 0.1935 0.5324 0.5351 0.5669 0.4900 0.5459 0.5369 0.5494 0.6016 1.0000 0.8359 0.1811 0.2464 UTR_5_UCSC.extend.500.bedL2 0.8814 0.8858 0.3026 0.3612 0.2140 0.2167 0.6570 0.6628 0.7226 0.6174 0.6390 0.6397 0.6932 0.7584 0.8359 1.0000 0.2295 0.3058 WeakEnhancer_Hoffman.bedL2 0.2971 0.2982 -0.0518 -0.0218 0.5684 0.5704 0.6008 0.5665 0.2801 0.1820 0.4525 0.5164 0.1724 0.2450 0.1811 0.2295 1.0000 0.8992 WeakEnhancer_Hoffman.extend.500.bedL2 0.3824 0.3838 0.0062 0.0454 0.6141 0.6172 0.6999 0.6855 0.3669 0.2722 0.5248 0.5963 0.2210 0.2981 0.2464 0.3058 0.8992 1.0000 LD Score Matrix Condition Number 802.7899 Annotation Correlation Matrix base Coding_UCSC.bed Coding_UCSC.extend.500.bed Conserved_LindbladToh.bed Conserved_LindbladToh.extend.500.bed CTCF_Hoffman.bed CTCF_Hoffman.extend.500.bed DGF_ENCODE.bed DGF_ENCODE.extend.500.bed DHS_peaks_Trynka.bed DHS_Trynka.bed DHS_Trynka.extend.500.bed Enhancer_Andersson.bed Enhancer_Andersson.extend.500.bed Enhancer_Hoffman.bed Enhancer_Hoffman.extend.500.bed FetalDHS_Trynka.bed FetalDHS_Trynka.extend.500.bed H3K27ac_Hnisz.bed H3K27ac_Hnisz.extend.500.bed H3K27ac_PGC2.bed H3K27ac_PGC2.extend.500.bed H3K4me1_peaks_Trynka.bed H3K4me1_Trynka.bed H3K4me1_Trynka.extend.500.bed H3K4me3_peaks_Trynka.bed H3K4me3_Trynka.bed H3K4me3_Trynka.extend.500.bed H3K9ac_peaks_Trynka.bed H3K9ac_Trynka.bed H3K9ac_Trynka.extend.500.bed Intron_UCSC.bed Intron_UCSC.extend.500.bed PromoterFlanking_Hoffman.bed PromoterFlanking_Hoffman.extend.500.bed Promoter_UCSC.bed Promoter_UCSC.extend.500.bed Repressed_Hoffman.bed \ base NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN NaN Coding_UCSC.bed NaN 1.0000e+00 0.4777 0.3574 0.2115 0.0125 0.0158 0.0926 0.0726 0.0525 0.0642 0.0412 -2.0002e-02 -0.0372 0.0146 0.0158 0.0529 0.0310 0.0241 0.0201 0.0262 0.0215 0.0447 0.1030 0.0808 0.1078 0.1476 0.1190 0.0500 0.0759 0.0643 -0.1678 5.6284e-02 -0.0124 -9.1940e-05 0.1101 0.1043 -0.0820 Coding_UCSC.extend.500.bed NaN 4.7766e-01 1.0000 0.2037 0.5198 0.0241 0.0436 0.1347 0.1662 0.1090 0.1228 0.1196 -3.7398e-02 -0.0561 0.0530 0.0717 0.1172 0.0954 0.0843 0.0822 0.0938 0.0909 0.0911 0.2006 0.1809 0.1338 0.2308 0.2182 0.1162 0.2016 0.2092 0.1962 3.3373e-01 0.0031 4.7574e-02 0.2564 0.2442 -0.1851 Conserved_LindbladToh.bed NaN 3.5739e-01 0.2037 1.0000 0.2706 0.0191 0.0223 0.1179 0.0862 0.1144 0.1234 0.0895 1.9515e-02 0.0078 0.0440 0.0433 0.1157 0.0892 0.0649 0.0622 0.0585 0.0546 0.0774 0.0972 0.0764 0.0672 0.0944 0.0654 0.0641 0.1059 0.0945 -0.0601 7.2357e-02 -0.0019 1.2336e-02 0.0740 0.0688 -0.0496 Conserved_LindbladToh.extend.500.bed NaN 2.1149e-01 0.5198 0.2706 1.0000 0.0499 0.0704 0.1738 0.2514 0.1807 0.2157 0.2570 2.9781e-02 0.0522 0.1314 0.1552 0.1952 0.2434 0.1908 0.1883 0.1791 0.1691 0.1941 0.2637 0.2358 0.1185 0.1916 0.1659 0.1704 0.2733 0.2821 0.1617 2.4046e-01 0.0202 7.2481e-02 0.1704 0.1625 -0.1575 CTCF_Hoffman.bed NaN 1.2506e-02 0.0241 0.0191 0.0499 1.0000 0.5610 0.1286 0.1378 0.1424 0.1528 0.1434 1.3118e-02 0.0080 0.0461 0.0859 0.1448 0.1619 0.0455 0.0507 0.0547 0.0527 0.0825 0.0799 0.0724 0.0329 0.0500 0.0507 0.0558 0.0855 0.0913 -0.0135 -2.6725e-03 -0.0138 2.1532e-02 0.0071 0.0102 -0.1197 CTCF_Hoffman.extend.500.bed NaN 1.5835e-02 0.0436 0.0223 0.0704 0.5610 1.0000 0.0953 0.1914 0.1057 0.1192 0.1981 6.7653e-03 0.0149 0.0756 0.1328 0.1113 0.2015 0.0881 0.0970 0.0933 0.0962 0.0928 0.0976 0.1097 0.0266 0.0488 0.0719 0.0704 0.1128 0.1479 -0.0131 -1.1393e-03 0.0024 4.4051e-02 0.0198 0.0229 -0.1037 DGF_ENCODE.bed NaN 9.2580e-02 0.1347 0.1179 0.1738 0.1286 0.0953 1.0000 0.3710 0.5143 0.5082 0.2804 1.0420e-01 0.0945 0.2142 0.2166 0.4015 0.2600 0.2064 0.2003 0.2521 0.2322 0.2918 0.2779 0.2062 0.1916 0.2449 0.1769 0.2080 0.2952 0.2591 0.0421 9.0955e-02 0.0484 1.1908e-01 0.1444 0.1406 -0.1810 DGF_ENCODE.extend.500.bed NaN 7.2642e-02 0.1662 0.0862 0.2514 0.1378 0.1914 0.3710 1.0000 0.2506 0.3061 0.5461 5.6374e-02 0.1117 0.2166 0.3026 0.2309 0.3981 0.3533 0.3574 0.3655 0.3628 0.3091 0.4217 0.4100 0.1144 0.2144 0.2303 0.1981 0.3423 0.4000 0.0979 1.3399e-01 0.0802 1.7124e-01 0.1632 0.1655 -0.2702 DHS_peaks_Trynka.bed NaN 5.2477e-02 0.1090 0.1144 0.1807 0.1424 0.1057 0.5143 0.2506 1.0000 0.7902 0.3679 1.3513e-01 0.1201 0.2529 0.2473 0.6828 0.3901 0.1814 0.1720 0.2469 0.2147 0.2889 0.2510 0.1844 0.2318 0.2343 0.1615 0.2452 0.3033 0.2457 0.0186 6.4421e-02 0.0303 1.2171e-01 0.1299 0.1155 -0.1482 DHS_Trynka.bed NaN 6.4195e-02 0.1228 0.1234 0.2157 0.1528 0.1192 0.5082 0.3061 0.7902 1.0000 0.4564 1.3876e-01 0.1400 0.2913 0.2833 0.7268 0.4613 0.2212 0.2103 0.2956 0.2575 0.3452 0.3061 0.2238 0.2613 0.2680 0.1864 0.2862 0.3475 0.2848 0.0217 7.1979e-02 0.0296 1.2846e-01 0.1448 0.1286 -0.1719 DHS_Trynka.extend.500.bed NaN 4.1206e-02 0.1196 0.0895 0.2570 0.1434 0.1981 0.2804 0.5461 0.3679 0.4564 1.0000 7.7156e-02 0.1464 0.2580 0.3560 0.3317 0.6620 0.3381 0.3386 0.3843 0.3604 0.3314 0.4262 0.4002 0.1370 0.2114 0.2252 0.2183 0.3563 0.3958 0.0626 9.4017e-02 0.0705 1.6746e-01 0.1337 0.1216 -0.2325 Enhancer_Andersson.bed NaN -2.0002e-02 -0.0374 0.0195 0.0298 0.0131 0.0068 0.1042 0.0564 0.1351 0.1388 0.0772 1.0000e+00 0.4998 0.1028 0.0860 0.1583 0.1046 0.0688 0.0651 0.0935 0.0811 0.0831 0.0695 0.0506 0.0722 0.0783 0.0554 0.0664 0.0914 0.0735 0.0063 -3.4003e-06 0.0161 4.0085e-02 0.0051 0.0085 -0.0391 Enhancer_Andersson.extend.500.bed NaN -3.7222e-02 -0.0561 0.0078 0.0522 0.0080 0.0149 0.0945 0.1117 0.1201 0.1400 0.1464 4.9977e-01 1.0000 0.1678 0.1744 0.1457 0.1890 0.1343 0.1283 0.1758 0.1553 0.1337 0.1279 0.0955 0.0964 0.1245 0.0979 0.1109 0.1491 0.1330 0.0070 -3.2174e-03 0.0385 7.4674e-02 0.0196 0.0241 -0.0694 Enhancer_Hoffman.bed NaN 1.4569e-02 0.0530 0.0440 0.1314 0.0461 0.0756 0.2142 0.2166 0.2529 0.2913 0.2580 1.0283e-01 0.1678 1.0000 0.6254 0.2717 0.3072 0.2274 0.2168 0.3224 0.2835 0.3066 0.2375 0.1691 0.2043 0.2350 0.1810 0.2505 0.3222 0.2631 0.0139 3.1573e-02 0.0700 2.0167e-01 0.1283 0.1234 -0.1658 Enhancer_Hoffman.extend.500.bed NaN 1.5841e-02 0.0717 0.0433 0.1552 0.0859 0.1328 0.2166 0.3026 0.2473 0.2833 0.3560 8.5990e-02 0.1744 0.6254 1.0000 0.2790 0.4009 0.3232 0.3210 0.4546 0.4242 0.3193 0.3206 0.2642 0.1834 0.2735 0.2628 0.2457 0.3881 0.3887 0.0189 4.6162e-02 0.1371 3.3732e-01 0.2086 0.2016 -0.2447 FetalDHS_Trynka.bed NaN 5.2875e-02 0.1172 0.1157 0.1952 0.1448 0.1113 0.4015 0.2309 0.6828 0.7268 0.3317 1.5835e-01 0.1457 0.2717 0.2790 1.0000 0.5010 0.1950 0.1841 0.2756 0.2385 0.2968 0.2488 0.1823 0.2776 0.2635 0.1813 0.2861 0.3344 0.2611 0.0076 6.1715e-02 0.0262 1.4477e-01 0.1655 0.1472 -0.1415 FetalDHS_Trynka.extend.500.bed NaN 3.1014e-02 0.0954 0.0892 0.2434 0.1619 0.2015 0.2600 0.3981 0.3901 0.4613 0.6620 1.0456e-01 0.1890 0.3072 0.4009 0.5010 1.0000 0.3255 0.3203 0.4076 0.3715 0.3574 0.3950 0.3351 0.1969 0.2644 0.2545 0.2628 0.3953 0.3948 0.0306 6.4602e-02 0.0842 2.0991e-01 0.1768 0.1601 -0.2005 H3K27ac_Hnisz.bed NaN 2.4088e-02 0.0843 0.0649 0.1908 0.0455 0.0881 0.2064 0.3533 0.1814 0.2212 0.3381 6.8792e-02 0.1343 0.2274 0.3232 0.1950 0.3255 1.0000 0.9410 0.5065 0.5372 0.3058 0.4190 0.4088 0.0778 0.1821 0.2100 0.2114 0.3709 0.4485 0.1152 1.3384e-01 0.0632 1.5372e-01 0.1104 0.1176 -0.2533 H3K27ac_Hnisz.extend.500.bed NaN 2.0138e-02 0.0822 0.0622 0.1883 0.0507 0.0970 0.2003 0.3574 0.1720 0.2103 0.3386 6.5144e-02 0.1283 0.2168 0.3210 0.1841 0.3203 0.9410 1.0000 0.5119 0.5550 0.2958 0.4197 0.4313 0.0664 0.1701 0.2101 0.2013 0.3594 0.4526 0.1186 1.3572e-01 0.0615 1.5492e-01 0.1079 0.1169 -0.2550 H3K27ac_PGC2.bed NaN 2.6234e-02 0.0938 0.0585 0.1791 0.0547 0.0933 0.2521 0.3655 0.2469 0.2956 0.3843 9.3493e-02 0.1758 0.3224 0.4546 0.2756 0.4076 0.5065 0.5119 1.0000 0.8447 0.3798 0.4616 0.3927 0.1779 0.3267 0.3325 0.2833 0.4777 0.5073 0.0901 1.1846e-01 0.1309 2.6697e-01 0.2377 0.2363 -0.2734 H3K27ac_PGC2.extend.500.bed NaN 2.1474e-02 0.0909 0.0546 0.1691 0.0527 0.0962 0.2322 0.3628 0.2147 0.2575 0.3604 8.1102e-02 0.1553 0.2835 0.4242 0.2385 0.3715 0.5372 0.5550 0.8447 1.0000 0.3516 0.4601 0.4220 0.1427 0.2926 0.3189 0.2544 0.4422 0.5086 0.0987 1.2493e-01 0.1265 2.6202e-01 0.2327 0.2383 -0.2862 H3K4me1_peaks_Trynka.bed NaN 4.4738e-02 0.0911 0.0774 0.1941 0.0825 0.0928 0.2918 0.3091 0.2889 0.3452 0.3314 8.3086e-02 0.1337 0.3066 0.3193 0.2968 0.3574 0.3058 0.2958 0.3798 0.3516 1.0000 0.4761 0.3268 0.2655 0.3503 0.2603 0.3583 0.4637 0.3819 0.0966 1.2245e-01 0.1525 2.2233e-01 0.1617 0.1591 -0.2186 H3K4me1_Trynka.bed NaN 1.0298e-01 0.2006 0.0972 0.2637 0.0799 0.0976 0.2779 0.4217 0.2510 0.3061 0.4262 6.9533e-02 0.1279 0.2375 0.3206 0.2488 0.3950 0.4190 0.4197 0.4616 0.4601 0.4761 1.0000 0.6803 0.2131 0.3982 0.3888 0.2444 0.4314 0.4755 0.1997 2.3513e-01 0.1098 2.0452e-01 0.1782 0.1812 -0.3570 H3K4me1_Trynka.extend.500.bed NaN 8.0833e-02 0.1809 0.0764 0.2358 0.0724 0.1097 0.2062 0.4100 0.1844 0.2238 0.4002 5.0551e-02 0.0955 0.1691 0.2642 0.1823 0.3351 0.4088 0.4313 0.3927 0.4220 0.3268 0.6803 1.0000 0.1357 0.2827 0.3417 0.1734 0.3233 0.4347 0.2217 2.4911e-01 0.0779 1.7076e-01 0.1634 0.1704 -0.3522 H3K4me3_peaks_Trynka.bed NaN 1.0783e-01 0.1338 0.0672 0.1185 0.0329 0.0266 0.1916 0.1144 0.2318 0.2613 0.1370 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0.1734 0.3360 0.2857 0.2052 1.0000 0.5262 0.3595 0.0862 1.1306e-01 0.0744 1.5776e-01 0.1563 0.1501 -0.1546 H3K9ac_Trynka.bed NaN 7.5927e-02 0.2016 0.1059 0.2733 0.0855 0.1128 0.2952 0.3423 0.3033 0.3475 0.3563 9.1359e-02 0.1491 0.3222 0.3881 0.3344 0.3953 0.3709 0.3594 0.4777 0.4422 0.4637 0.4314 0.3233 0.2736 0.4611 0.3719 0.5262 1.0000 0.6769 0.1507 1.9980e-01 0.1682 2.9096e-01 0.2677 0.2631 -0.2750 H3K9ac_Trynka.extend.500.bed NaN 6.4320e-02 0.2092 0.0945 0.2821 0.0913 0.1479 0.2591 0.4000 0.2457 0.2848 0.3958 7.3502e-02 0.1330 0.2631 0.3887 0.2611 0.3948 0.4485 0.4526 0.5073 0.5086 0.3819 0.4755 0.4347 0.1676 0.3607 0.4138 0.3595 0.6769 1.0000 0.1887 2.3100e-01 0.1346 2.8740e-01 0.2535 0.2570 -0.3252 Intron_UCSC.bed NaN -1.6783e-01 0.1962 -0.0601 0.1617 -0.0135 -0.0131 0.0421 0.0979 0.0186 0.0217 0.0626 6.3485e-03 0.0070 0.0139 0.0189 0.0076 0.0306 0.1152 0.1186 0.0901 0.0987 0.0966 0.1997 0.2217 0.0470 0.1213 0.1439 0.0862 0.1507 0.1887 1.0000 9.2905e-01 0.0315 2.0818e-02 0.0528 0.0659 -0.2376 Intron_UCSC.extend.500.bed NaN 5.6284e-02 0.3337 0.0724 0.2405 -0.0027 -0.0011 0.0910 0.1340 0.0644 0.0720 0.0940 -3.4003e-06 -0.0032 0.0316 0.0462 0.0617 0.0646 0.1338 0.1357 0.1185 0.1249 0.1225 0.2351 0.2491 0.0821 0.1727 0.1815 0.1131 0.1998 0.2310 0.9290 1.0000e+00 0.0330 4.1173e-02 0.1244 0.1321 -0.2646 PromoterFlanking_Hoffman.bed NaN -1.2357e-02 0.0031 -0.0019 0.0202 -0.0138 0.0024 0.0484 0.0802 0.0303 0.0296 0.0705 1.6127e-02 0.0385 0.0700 0.1371 0.0262 0.0842 0.0632 0.0615 0.1309 0.1265 0.1525 0.1098 0.0779 0.0615 0.1412 0.1002 0.0744 0.1682 0.1346 0.0315 3.2960e-02 1.0000 4.4895e-01 0.1436 0.1446 -0.0789 PromoterFlanking_Hoffman.extend.500.bed NaN -9.1940e-05 0.0476 0.0123 0.0725 0.0215 0.0441 0.1191 0.1712 0.1217 0.1285 0.1675 4.0085e-02 0.0747 0.2017 0.3373 0.1448 0.2099 0.1537 0.1549 0.2670 0.2620 0.2223 0.2045 0.1708 0.1277 0.2437 0.2120 0.1578 0.2910 0.2874 0.0208 4.1173e-02 0.4489 1.0000e+00 0.2777 0.2795 -0.1507 Promoter_UCSC.bed NaN 1.1006e-01 0.2564 0.0740 0.1704 0.0071 0.0198 0.1444 0.1632 0.1299 0.1448 0.1337 5.0720e-03 0.0196 0.1283 0.2086 0.1655 0.1768 0.1104 0.1079 0.2377 0.2327 0.1617 0.1782 0.1634 0.1426 0.2478 0.2054 0.1563 0.2677 0.2535 0.0528 1.2435e-01 0.1436 2.7774e-01 1.0000 0.8883 -0.1158 Promoter_UCSC.extend.500.bed NaN 1.0427e-01 0.2442 0.0688 0.1625 0.0102 0.0229 0.1406 0.1655 0.1155 0.1286 0.1216 8.5196e-03 0.0241 0.1234 0.2016 0.1472 0.1601 0.1176 0.1169 0.2363 0.2383 0.1591 0.1812 0.1704 0.1358 0.2487 0.2127 0.1501 0.2631 0.2570 0.0659 1.3214e-01 0.1446 2.7945e-01 0.8883 1.0000 -0.1224 Repressed_Hoffman.bed NaN -8.1968e-02 -0.1851 -0.0496 -0.1575 -0.1197 -0.1037 -0.1810 -0.2702 -0.1482 -0.1719 -0.2325 -3.9076e-02 -0.0694 -0.1658 -0.2447 -0.1415 -0.2005 -0.2533 -0.2550 -0.2734 -0.2862 -0.2186 -0.3570 -0.3522 -0.1451 -0.2791 -0.3127 -0.1546 -0.2750 -0.3252 -0.2376 -2.6461e-01 -0.0789 -1.5068e-01 -0.1158 -0.1224 1.0000 Repressed_Hoffman.extend.500.bed NaN -1.1645e-01 -0.2635 -0.0742 -0.2175 -0.0496 -0.0642 -0.2037 -0.2880 -0.1699 -0.1981 -0.2552 -5.1674e-02 -0.0906 -0.2306 -0.3102 -0.1723 -0.2353 -0.3173 -0.3167 -0.3527 -0.3612 -0.2661 -0.4289 -0.4169 -0.1876 -0.3656 -0.4036 -0.2069 -0.3604 -0.4077 -0.3415 -3.7726e-01 -0.0925 -1.7786e-01 -0.1549 -0.1599 0.6465 SuperEnhancer_Hnisz.bed NaN 5.8775e-03 0.0289 0.0448 0.1418 0.0272 0.0496 0.1536 0.2374 0.1286 0.1555 0.2266 6.9956e-02 0.1376 0.1933 0.2568 0.1446 0.2364 0.5820 0.5477 0.3904 0.3962 0.2406 0.2937 0.2709 0.0747 0.1570 0.1668 0.1847 0.3023 0.3381 0.0902 9.4444e-02 0.0347 9.0212e-02 0.0474 0.0498 -0.1847 SuperEnhancer_Hnisz.extend.500.bed NaN 5.1938e-03 0.0295 0.0435 0.1410 0.0285 0.0528 0.1528 0.2400 0.1267 0.1538 0.2292 6.9739e-02 0.1367 0.1930 0.2596 0.1421 0.2369 0.5828 0.5564 0.3953 0.4039 0.2395 0.2964 0.2753 0.0724 0.1562 0.1695 0.1832 0.3033 0.3433 0.0902 9.4048e-02 0.0376 9.5036e-02 0.0492 0.0521 -0.1868 TFBS_ENCODE.bed NaN 1.0827e-01 0.1850 0.1053 0.2210 0.2428 0.1903 0.4140 0.3444 0.4192 0.4877 0.3618 1.0666e-01 0.1415 0.3512 0.3676 0.4284 0.3833 0.2508 0.2413 0.3295 0.2926 0.3354 0.3161 0.2359 0.2669 0.3260 0.2479 0.2873 0.3780 0.3199 0.0358 9.0048e-02 0.0651 1.7975e-01 0.2076 0.1979 -0.2338 TFBS_ENCODE.extend.500.bed NaN 8.3153e-02 0.1627 0.0755 0.2244 0.1983 0.2952 0.2786 0.4801 0.2616 0.3130 0.4928 6.7540e-02 0.1346 0.2897 0.4147 0.2658 0.4406 0.3326 0.3356 0.3882 0.3707 0.3107 0.3827 0.3474 0.1659 0.2729 0.2850 0.2225 0.3648 0.3925 0.0563 9.2990e-02 0.1029 2.2338e-01 0.1907 0.1882 -0.2811 Transcribed_Hoffman.bed NaN 7.2182e-02 0.1324 0.0117 0.0621 -0.0667 -0.0441 0.0004 0.0498 -0.0586 -0.0665 -0.0144 -2.3346e-02 -0.0320 -0.0624 -0.0719 -0.0906 -0.0702 0.0809 0.0829 0.0152 0.0408 0.0238 0.1695 0.2013 0.0030 0.0940 0.1422 0.0012 0.0405 0.0999 0.3060 3.0287e-01 -0.0376 -7.7180e-02 -0.0693 -0.0519 -0.6132 Transcribed_Hoffman.extend.500.bed NaN -1.1581e-03 -0.0150 -0.0273 -0.0410 -0.0318 -0.0280 -0.0662 -0.0121 -0.1180 -0.1311 -0.0677 -3.9081e-02 -0.0569 -0.1063 -0.1214 -0.1560 -0.1269 -0.0123 -0.0069 -0.0892 -0.0661 -0.0514 0.0173 0.0623 -0.1066 -0.0815 -0.0314 -0.0934 -0.1003 -0.0407 0.1423 1.1572e-01 -0.0191 -8.5271e-02 -0.1346 -0.1144 -0.1049 TSS_Hoffman.bed NaN 7.1011e-02 0.1834 0.0891 0.1877 0.0267 0.0420 0.2732 0.2023 0.3290 0.3607 0.2389 1.0885e-01 0.1587 0.2477 0.3312 0.4075 0.3269 0.1994 0.1869 0.3308 0.2828 0.2752 0.2175 0.1592 0.3104 0.3115 0.2102 0.3379 0.3991 0.2846 0.0431 1.0728e-01 0.0988 2.9231e-01 0.3353 0.3096 -0.1521 TSS_Hoffman.extend.500.bed NaN 5.1434e-02 0.1646 0.0735 0.1945 0.0523 0.0798 0.2428 0.2596 0.2724 0.3048 0.2952 9.8619e-02 0.1743 0.3497 0.4901 0.3368 0.3853 0.2638 0.2546 0.4237 0.3800 0.3225 0.2856 0.2181 0.2636 0.3662 0.2799 0.3086 0.4637 0.3830 0.0546 1.0620e-01 0.2345 4.5131e-01 0.3744 0.3531 -0.2070 UTR_3_UCSC.bed NaN 5.3800e-01 0.2835 0.0683 0.1025 0.0046 0.0089 0.0369 0.0440 0.0162 0.0194 0.0173 -1.5194e-02 -0.0298 0.0068 0.0042 0.0133 0.0156 0.0211 0.0176 0.0097 0.0077 0.0283 0.0739 0.0685 0.0453 0.0907 0.0824 0.0172 0.0382 0.0333 -0.0793 -1.1293e-02 -0.0090 -8.8689e-03 0.0407 0.0449 -0.0597 UTR_3_UCSC.extend.500.bed NaN 4.0899e-01 0.4352 0.0959 0.1942 0.0116 0.0230 0.0643 0.0763 0.0389 0.0414 0.0379 -2.1261e-02 -0.0312 0.0156 0.0207 0.0362 0.0340 0.0384 0.0354 0.0238 0.0210 0.0411 0.0995 0.0950 0.0601 0.1211 0.1125 0.0368 0.0724 0.0744 -0.0233 4.9566e-02 -0.0074 3.0741e-03 0.1151 0.1160 -0.0873 UTR_5_UCSC.bed NaN 3.0463e-01 0.1742 0.1101 0.0933 0.0056 0.0113 0.0690 0.0516 0.0754 0.0899 0.0520 -1.0523e-02 -0.0193 0.0365 0.0473 0.1033 0.0655 0.0280 0.0262 0.0618 0.0539 0.0441 0.0642 0.0527 0.0844 0.0974 0.0678 0.0683 0.0908 0.0692 -0.0326 8.6349e-02 0.0032 4.1578e-02 0.1862 0.1685 -0.0467 UTR_5_UCSC.extend.500.bed NaN 1.6091e-01 0.4653 0.1039 0.2371 0.0001 0.0096 0.1212 0.1199 0.1458 0.1634 0.1145 -2.2483e-02 -0.0263 0.0877 0.1199 0.1885 0.1458 0.0578 0.0540 0.1380 0.1221 0.1021 0.1433 0.1253 0.1613 0.2010 0.1549 0.1436 0.2006 0.1640 0.1042 2.1339e-01 0.0329 1.1654e-01 0.4219 0.3876 -0.1072 WeakEnhancer_Hoffman.bed NaN 1.0632e-02 0.0215 0.0286 0.0835 0.0276 0.0619 0.1842 0.1438 0.1939 0.2171 0.1657 6.6697e-02 0.0847 0.1240 0.1795 0.1741 0.1705 0.1238 0.1205 0.1467 0.1366 0.2142 0.1507 0.1085 0.0857 0.1280 0.1004 0.1301 0.1728 0.1547 0.0169 2.3664e-02 0.0292 6.9714e-02 0.0293 0.0336 -0.1119 WeakEnhancer_Hoffman.extend.500.bed NaN 4.1997e-03 0.0311 0.0320 0.1232 0.0895 0.1376 0.1726 0.2817 0.1826 0.2164 0.3195 6.5042e-02 0.1256 0.2452 0.3626 0.1797 0.3089 0.2452 0.2447 0.2761 0.2723 0.2516 0.2550 0.2272 0.0807 0.1602 0.1853 0.1464 0.2521 0.2947 0.0196 2.8400e-02 0.0669 1.7022e-01 0.0690 0.0755 -0.1992 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 -0.1165 0.0059 0.0052 0.1083 0.0832 0.0722 -0.0012 0.0710 0.0514 0.5380 0.4090 0.3046 0.1609 0.0106 0.0042 Coding_UCSC.extend.500.bed -0.2635 0.0289 0.0295 0.1850 0.1627 0.1324 -0.0150 0.1834 0.1646 0.2835 0.4352 0.1742 0.4653 0.0215 0.0311 Conserved_LindbladToh.bed -0.0742 0.0448 0.0435 0.1053 0.0755 0.0117 -0.0273 0.0891 0.0735 0.0683 0.0959 0.1101 0.1039 0.0286 0.0320 Conserved_LindbladToh.extend.500.bed -0.2175 0.1418 0.1410 0.2210 0.2244 0.0621 -0.0410 0.1877 0.1945 0.1025 0.1942 0.0933 0.2371 0.0835 0.1232 CTCF_Hoffman.bed -0.0496 0.0272 0.0285 0.2428 0.1983 -0.0667 -0.0318 0.0267 0.0523 0.0046 0.0116 0.0056 0.0001 0.0276 0.0895 CTCF_Hoffman.extend.500.bed -0.0642 0.0496 0.0528 0.1903 0.2952 -0.0441 -0.0280 0.0420 0.0798 0.0089 0.0230 0.0113 0.0096 0.0619 0.1376 DGF_ENCODE.bed -0.2037 0.1536 0.1528 0.4140 0.2786 0.0004 -0.0662 0.2732 0.2428 0.0369 0.0643 0.0690 0.1212 0.1842 0.1726 DGF_ENCODE.extend.500.bed -0.2880 0.2374 0.2400 0.3444 0.4801 0.0498 -0.0121 0.2023 0.2596 0.0440 0.0763 0.0516 0.1199 0.1438 0.2817 DHS_peaks_Trynka.bed -0.1699 0.1286 0.1267 0.4192 0.2616 -0.0586 -0.1180 0.3290 0.2724 0.0162 0.0389 0.0754 0.1458 0.1939 0.1826 DHS_Trynka.bed -0.1981 0.1555 0.1538 0.4877 0.3130 -0.0665 -0.1311 0.3607 0.3048 0.0194 0.0414 0.0899 0.1634 0.2171 0.2164 DHS_Trynka.extend.500.bed -0.2552 0.2266 0.2292 0.3618 0.4928 -0.0144 -0.0677 0.2389 0.2952 0.0173 0.0379 0.0520 0.1145 0.1657 0.3195 Enhancer_Andersson.bed -0.0517 0.0700 0.0697 0.1067 0.0675 -0.0233 -0.0391 0.1089 0.0986 -0.0152 -0.0213 -0.0105 -0.0225 0.0667 0.0650 Enhancer_Andersson.extend.500.bed -0.0906 0.1376 0.1367 0.1415 0.1346 -0.0320 -0.0569 0.1587 0.1743 -0.0298 -0.0312 -0.0193 -0.0263 0.0847 0.1256 Enhancer_Hoffman.bed -0.2306 0.1933 0.1930 0.3512 0.2897 -0.0624 -0.1063 0.2477 0.3497 0.0068 0.0156 0.0365 0.0877 0.1240 0.2452 Enhancer_Hoffman.extend.500.bed -0.3102 0.2568 0.2596 0.3676 0.4147 -0.0719 -0.1214 0.3312 0.4901 0.0042 0.0207 0.0473 0.1199 0.1795 0.3626 FetalDHS_Trynka.bed -0.1723 0.1446 0.1421 0.4284 0.2658 -0.0906 -0.1560 0.4075 0.3368 0.0133 0.0362 0.1033 0.1885 0.1741 0.1797 FetalDHS_Trynka.extend.500.bed -0.2353 0.2364 0.2369 0.3833 0.4406 -0.0702 -0.1269 0.3269 0.3853 0.0156 0.0340 0.0655 0.1458 0.1705 0.3089 H3K27ac_Hnisz.bed -0.3173 0.5820 0.5828 0.2508 0.3326 0.0809 -0.0123 0.1994 0.2638 0.0211 0.0384 0.0280 0.0578 0.1238 0.2452 H3K27ac_Hnisz.extend.500.bed -0.3167 0.5477 0.5564 0.2413 0.3356 0.0829 -0.0069 0.1869 0.2546 0.0176 0.0354 0.0262 0.0540 0.1205 0.2447 H3K27ac_PGC2.bed -0.3527 0.3904 0.3953 0.3295 0.3882 0.0152 -0.0892 0.3308 0.4237 0.0097 0.0238 0.0618 0.1380 0.1467 0.2761 H3K27ac_PGC2.extend.500.bed -0.3612 0.3962 0.4039 0.2926 0.3707 0.0408 -0.0661 0.2828 0.3800 0.0077 0.0210 0.0539 0.1221 0.1366 0.2723 H3K4me1_peaks_Trynka.bed -0.2661 0.2406 0.2395 0.3354 0.3107 0.0238 -0.0514 0.2752 0.3225 0.0283 0.0411 0.0441 0.1021 0.2142 0.2516 H3K4me1_Trynka.bed -0.4289 0.2937 0.2964 0.3161 0.3827 0.1695 0.0173 0.2175 0.2856 0.0739 0.0995 0.0642 0.1433 0.1507 0.2550 H3K4me1_Trynka.extend.500.bed -0.4169 0.2709 0.2753 0.2359 0.3474 0.2013 0.0623 0.1592 0.2181 0.0685 0.0950 0.0527 0.1253 0.1085 0.2272 H3K4me3_peaks_Trynka.bed -0.1876 0.0747 0.0724 0.2669 0.1659 0.0030 -0.1066 0.3104 0.2636 0.0453 0.0601 0.0844 0.1613 0.0857 0.0807 H3K4me3_Trynka.bed -0.3656 0.1570 0.1562 0.3260 0.2729 0.0940 -0.0815 0.3115 0.3662 0.0907 0.1211 0.0974 0.2010 0.1280 0.1602 H3K4me3_Trynka.extend.500.bed -0.4036 0.1668 0.1695 0.2479 0.2850 0.1422 -0.0314 0.2102 0.2799 0.0824 0.1125 0.0678 0.1549 0.1004 0.1853 H3K9ac_peaks_Trynka.bed -0.2069 0.1847 0.1832 0.2873 0.2225 0.0012 -0.0934 0.3379 0.3086 0.0172 0.0368 0.0683 0.1436 0.1301 0.1464 H3K9ac_Trynka.bed -0.3604 0.3023 0.3033 0.3780 0.3648 0.0405 -0.1003 0.3991 0.4637 0.0382 0.0724 0.0908 0.2006 0.1728 0.2521 H3K9ac_Trynka.extend.500.bed -0.4077 0.3381 0.3433 0.3199 0.3925 0.0999 -0.0407 0.2846 0.3830 0.0333 0.0744 0.0692 0.1640 0.1547 0.2947 Intron_UCSC.bed -0.3415 0.0902 0.0902 0.0358 0.0563 0.3060 0.1423 0.0431 0.0546 -0.0793 -0.0233 -0.0326 0.1042 0.0169 0.0196 Intron_UCSC.extend.500.bed -0.3773 0.0944 0.0940 0.0900 0.0930 0.3029 0.1157 0.1073 0.1062 -0.0113 0.0496 0.0863 0.2134 0.0237 0.0284 PromoterFlanking_Hoffman.bed -0.0925 0.0347 0.0376 0.0651 0.1029 -0.0376 -0.0191 0.0988 0.2345 -0.0090 -0.0074 0.0032 0.0329 0.0292 0.0669 PromoterFlanking_Hoffman.extend.500.bed -0.1779 0.0902 0.0950 0.1797 0.2234 -0.0772 -0.0853 0.2923 0.4513 -0.0089 0.0031 0.0416 0.1165 0.0697 0.1702 Promoter_UCSC.bed -0.1549 0.0474 0.0492 0.2076 0.1907 -0.0693 -0.1346 0.3353 0.3744 0.0407 0.1151 0.1862 0.4219 0.0293 0.0690 Promoter_UCSC.extend.500.bed -0.1599 0.0498 0.0521 0.1979 0.1882 -0.0519 -0.1144 0.3096 0.3531 0.0449 0.1160 0.1685 0.3876 0.0336 0.0755 Repressed_Hoffman.bed 0.6465 -0.1847 -0.1868 -0.2338 -0.2811 -0.6132 -0.1049 -0.1521 -0.2070 -0.0597 -0.0873 -0.0467 -0.1072 -0.1119 -0.1992 Repressed_Hoffman.extend.500.bed 1.0000 -0.2520 -0.2545 -0.2748 -0.3081 -0.4026 -0.0156 -0.2313 -0.2905 -0.0818 -0.1205 -0.0632 -0.1526 -0.1214 -0.2121 SuperEnhancer_Hnisz.bed -0.2520 1.0000 0.9843 0.2019 0.2429 0.0792 -0.0024 0.1761 0.2200 0.0062 0.0071 0.0098 0.0208 0.0914 0.1723 SuperEnhancer_Hnisz.extend.500.bed -0.2545 0.9843 1.0000 0.2012 0.2460 0.0797 -0.0014 0.1739 0.2216 0.0059 0.0082 0.0085 0.0203 0.0904 0.1741 TFBS_ENCODE.bed -0.2748 0.2019 0.2012 1.0000 0.5644 -0.0418 -0.1303 0.4263 0.4088 0.0587 0.0953 0.0933 0.1833 0.2010 0.2371 TFBS_ENCODE.extend.500.bed -0.3081 0.2429 0.2460 0.5644 1.0000 0.0089 -0.0607 0.2791 0.3646 0.0580 0.0897 0.0591 0.1304 0.1646 0.3239 Transcribed_Hoffman.bed -0.4026 0.0792 0.0797 -0.0418 0.0089 1.0000 0.4332 -0.1315 -0.1067 0.0753 0.0917 -0.0071 -0.0097 -0.0191 -0.0408 Transcribed_Hoffman.extend.500.bed -0.0156 -0.0024 -0.0014 -0.1303 -0.0607 0.4332 1.0000 -0.2366 -0.1957 0.0257 0.0268 -0.0588 -0.1147 -0.0289 -0.0452 TSS_Hoffman.bed -0.2313 0.1761 0.1739 0.4263 0.2791 -0.1315 -0.2366 1.0000 0.7226 0.0157 0.0599 0.1342 0.2889 0.0709 0.1140 TSS_Hoffman.extend.500.bed -0.2905 0.2200 0.2216 0.4088 0.3646 -0.1067 -0.1957 0.7226 1.0000 0.0142 0.0518 0.1054 0.2489 0.1141 0.2066 UTR_3_UCSC.bed -0.0818 0.0062 0.0059 0.0587 0.0580 0.0753 0.0257 0.0157 0.0142 1.0000 0.6317 0.0558 0.0182 0.0066 0.0024 UTR_3_UCSC.extend.500.bed -0.1205 0.0071 0.0082 0.0953 0.0897 0.0917 0.0268 0.0599 0.0518 0.6317 1.0000 0.0506 0.0832 0.0155 0.0118 UTR_5_UCSC.bed -0.0632 0.0098 0.0085 0.0933 0.0591 -0.0071 -0.0588 0.1342 0.1054 0.0558 0.0506 1.0000 0.4221 0.0083 0.0070 UTR_5_UCSC.extend.500.bed -0.1526 0.0208 0.0203 0.1833 0.1304 -0.0097 -0.1147 0.2889 0.2489 0.0182 0.0832 0.4221 1.0000 0.0127 0.0259 WeakEnhancer_Hoffman.bed -0.1214 0.0914 0.0904 0.2010 0.1646 -0.0191 -0.0289 0.0709 0.1141 0.0066 0.0155 0.0083 0.0127 1.0000 0.4539 WeakEnhancer_Hoffman.extend.500.bed -0.2121 0.1723 0.1741 0.2371 0.3239 -0.0408 -0.0452 0.1140 0.2066 0.0024 0.0118 0.0070 0.0259 0.4539 1.0000 Annotation Matrix Column Sums base 232363.0 Coding_UCSC.bed 11844.0 Coding_UCSC.extend.500.bed 44277.0 Conserved_LindbladToh.bed 7322.0 Conserved_LindbladToh.extend.500.bed 71470.0 CTCF_Hoffman.bed 8513.0 CTCF_Hoffman.extend.500.bed 25053.0 DGF_ENCODE.bed 37930.0 DGF_ENCODE.extend.500.bed 136245.0 DHS_peaks_Trynka.bed 24174.0 DHS_Trynka.bed 35224.0 DHS_Trynka.extend.500.bed 107297.0 Enhancer_Andersson.bed 1718.0 Enhancer_Andersson.extend.500.bed 6729.0 Enhancer_Hoffman.bed 15662.0 Enhancer_Hoffman.extend.500.bed 36241.0 FetalDHS_Trynka.bed 20039.0 FetalDHS_Trynka.extend.500.bed 63499.0 H3K27ac_Hnisz.bed 112352.0 H3K27ac_Hnisz.extend.500.bed 119411.0 H3K27ac_PGC2.bed 79229.0 H3K27ac_PGC2.extend.500.bed 97667.0 H3K4me1_peaks_Trynka.bed 46381.0 H3K4me1_Trynka.bed 120707.0 H3K4me1_Trynka.extend.500.bed 162703.0 H3K4me3_peaks_Trynka.bed 24990.0 H3K4me3_Trynka.bed 80576.0 H3K4me3_Trynka.extend.500.bed 129225.0 H3K9ac_peaks_Trynka.bed 17844.0 H3K9ac_Trynka.bed 52924.0 H3K9ac_Trynka.extend.500.bed 91001.0 Intron_UCSC.bed 102823.0 Intron_UCSC.extend.500.bed 111317.0 PromoterFlanking_Hoffman.bed 3736.0 PromoterFlanking_Hoffman.extend.500.bed 17426.0 Promoter_UCSC.bed 33098.0 Promoter_UCSC.extend.500.bed 40403.0 Repressed_Hoffman.bed 64052.0 Repressed_Hoffman.extend.500.bed 110737.0 SuperEnhancer_Hnisz.bed 55944.0 SuperEnhancer_Hnisz.extend.500.bed 57298.0 TFBS_ENCODE.bed 44608.0 TFBS_ENCODE.extend.500.bed 99267.0 Transcribed_Hoffman.bed 116231.0 Transcribed_Hoffman.extend.500.bed 195668.0 TSS_Hoffman.bed 13313.0 TSS_Hoffman.extend.500.bed 24224.0 UTR_3_UCSC.bed 7245.0 UTR_3_UCSC.extend.500.bed 17342.0 UTR_5_UCSC.bed 3404.0 UTR_5_UCSC.extend.500.bed 17898.0 WeakEnhancer_Hoffman.bed 7407.0 WeakEnhancer_Hoffman.extend.500.bed 32018.0 Summary of Annotation Matrix Row Sums count 232363.0000 mean 13.7546 std 7.8460 min 1.0000 25% 7.0000 50% 12.0000 75% 19.0000 max 42.0000 Analysis finished at Tue Oct 17 17:05:02 2017 Total time elapsed: 23.0m:47.02s