********************************************************************* * 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.22.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.22 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.22 \ --annot 1000G_Phase3_baseline_v1.1/baseline.22.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 141123 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.22.bim Read 53 annotations for 141123 SNPs from 1000G_Phase3_baseline_v1.1/baseline.22.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.22.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.22.bed Estimating LD Score. Reading list of 20106 SNPs for which to print LD Scores from hapmap3_snps/hm.22.snp After merging with --print-snps, LD Scores for 17261 SNPs will be printed. Writing LD Scores for 17261 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.22.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.22.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 0.2359 90.5164 2.9806 12.9096 2.6546 35.8921 2.9971 9.3690 16.8983 59.6743 12.3985 18.1313 51.8408 0.5955 2.4846 5.7214 12.9948 10.1583 32.8134 55.1803 58.0184 38.0154 46.4220 23.6961 54.9818 70.8041 5.7322 18.7519 34.5339 8.0656 24.0804 42.0587 49.5660 51.5332 1.2100 4.9260 8.7762 std 0.1442 82.8540 4.8256 19.7659 3.6999 42.0111 3.1712 9.0789 17.7595 57.5030 12.5317 17.8858 48.6256 1.1765 4.1445 7.9593 17.8027 10.4456 31.8032 62.3082 64.3714 44.5221 53.3240 25.7437 58.1228 70.8279 7.1214 23.6850 41.3789 10.6128 30.3320 51.0117 61.5969 63.7443 2.0396 7.7013 12.3746 min 0.0051 0.8396 -0.2586 -0.5092 -0.1115 -0.4079 -0.0990 -0.2832 -0.1602 0.1668 -0.1731 -0.3642 0.1619 -0.0876 -0.1747 -0.1711 -0.4313 -0.2792 -0.2162 -0.2067 -0.1716 -0.3079 -0.3074 -0.3128 0.1072 -0.0448 -0.2149 -0.5297 -0.8600 -0.3549 -0.2325 -0.4291 -2.6191 -2.6450 -0.0800 -0.2062 -0.3259 25% 0.1084 36.3136 0.0676 0.4474 0.3527 9.7680 0.7272 2.6997 5.2490 21.9471 4.2821 6.4986 20.1637 0.0211 0.1823 0.6421 1.8075 3.3774 12.3096 14.1865 16.0602 9.1825 12.1135 6.8355 18.2517 26.1640 1.1841 4.0748 9.1479 1.3179 4.3311 9.6879 4.7004 5.1386 0.0598 0.3574 0.5859 50% 0.2280 62.6699 0.9520 5.0638 1.2723 21.2086 2.0092 6.5993 10.8703 41.3321 8.4509 12.4709 36.9070 0.1587 1.0579 2.8662 6.8338 6.7490 22.9832 34.7131 36.7248 22.2230 28.0959 14.7308 35.3904 47.8091 3.1409 10.6460 21.1820 4.1814 13.5954 24.9377 29.3490 30.8386 0.3681 1.9709 4.0455 75% 0.3579 116.5670 3.9766 17.2527 3.1449 45.2666 4.2299 13.1623 21.9027 77.1582 15.6776 23.0718 65.7667 0.7011 3.1348 7.7460 17.1621 12.9706 41.5929 72.2949 75.2599 50.0231 59.4823 30.7946 69.9174 88.1627 7.6047 24.7778 44.2218 10.6026 32.4767 54.5355 68.6488 71.4544 1.4288 6.4661 12.0063 max 0.5000 601.7855 44.8035 139.2127 23.0486 313.6899 20.9858 53.5197 116.9677 413.5254 83.8626 124.0994 362.2966 11.3946 36.7164 64.7881 126.3151 72.5406 229.9176 459.5564 478.7841 325.5946 401.2531 171.2364 427.3745 525.6852 54.6428 200.4403 347.6411 82.3869 243.9456 417.3047 392.4274 413.3612 18.7123 67.5968 87.3807 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 10.7948 22.5392 39.7839 29.0665 29.6391 18.4828 41.9320 47.4203 70.6036 3.7144 7.0227 2.4180 5.7633 1.0953 5.0884 3.2469 13.1394 std 15.2480 27.3772 41.3087 41.9782 42.6759 20.6321 42.3661 59.0542 73.0719 6.2156 11.0377 3.9008 9.6032 1.9728 7.2847 4.0570 15.3390 min -0.4105 -0.9906 -1.1210 -1.0916 -1.0905 -0.2043 -0.1121 -0.8296 -0.9252 -0.2079 -0.3883 -0.1338 -0.2579 -0.0789 -0.2353 -0.1143 -0.4998 25% 0.7359 6.2937 13.5231 1.2106 1.2667 4.9084 13.9919 8.2670 21.5989 0.1460 0.3934 0.0976 0.2507 0.0211 0.2366 0.6339 3.4069 50% 5.0267 14.2319 27.7247 13.5041 13.9420 10.8433 27.3699 25.8591 46.4937 1.2809 2.9329 0.8659 2.2325 0.2725 1.9320 1.8495 8.3913 75% 14.7224 28.2004 49.4885 42.2896 43.0031 24.0721 54.5677 61.6555 93.1678 4.8354 8.9508 3.1417 7.1204 1.2945 7.4117 4.2877 17.0835 max 114.2082 266.7742 372.8838 310.9053 319.5419 126.3701 294.6927 384.5554 499.4526 50.5564 99.4653 31.8685 82.1639 18.3827 49.8846 31.6627 111.5028 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 0.1453 0.0998 0.0995 0.0601 0.1011 0.1499 0.1793 0.1410 0.1510 0.1493 0.1521 0.1548 0.1160 0.1385 0.1280 0.1185 0.1460 0.1542 0.1396 0.1399 0.1354 0.1315 0.1371 0.1390 0.1403 0.1278 0.1285 0.1275 0.1299 0.1359 0.1372 0.1037 0.1047 0.0857 0.0865 baseL2 0.1453 1.0000 0.6829 0.7887 0.7957 0.9286 0.7634 0.8211 0.8921 0.9489 0.9066 0.9204 0.9613 0.6047 0.6269 0.7153 0.7933 0.8899 0.9198 0.8846 0.8953 0.8711 0.8868 0.8754 0.9209 0.9503 0.8224 0.8418 0.8801 0.8146 0.8312 0.8715 0.8606 0.8663 0.7598 0.8089 Coding_UCSC.bedL2 0.0998 0.6829 1.0000 0.9205 0.6412 0.6848 0.6342 0.6677 0.7390 0.7367 0.6901 0.6914 0.7058 0.4571 0.5068 0.5640 0.6558 0.6929 0.6952 0.7150 0.7235 0.7243 0.7285 0.6927 0.7330 0.7363 0.7606 0.7619 0.7655 0.7615 0.7757 0.7786 0.6552 0.6750 0.6809 0.7030 Coding_UCSC.extend.500.bedL2 0.0995 0.7887 0.9205 1.0000 0.7248 0.8015 0.6749 0.7246 0.8345 0.8382 0.7883 0.7903 0.8096 0.5458 0.5795 0.6571 0.7503 0.7849 0.7875 0.8135 0.8230 0.8207 0.8284 0.7874 0.8402 0.8459 0.8367 0.8495 0.8526 0.8363 0.8567 0.8731 0.7937 0.8105 0.7517 0.7815 Conserved_LindbladToh.bedL2 0.0601 0.7957 0.6412 0.7248 1.0000 0.9189 0.5634 0.5883 0.7442 0.7811 0.7597 0.7743 0.7879 0.4840 0.4772 0.5606 0.6404 0.7487 0.7577 0.7712 0.7785 0.7480 0.7619 0.7491 0.7844 0.8054 0.6976 0.7238 0.7421 0.6910 0.7050 0.7423 0.7783 0.7856 0.6368 0.6775 Conserved_LindbladToh.extend.500.bedL2 0.1011 0.9286 0.6848 0.8015 0.9189 1.0000 0.6795 0.7209 0.8661 0.9118 0.8906 0.9051 0.9263 0.6101 0.6152 0.6968 0.7862 0.8815 0.8947 0.8898 0.8974 0.8760 0.8896 0.8718 0.9100 0.9283 0.8137 0.8409 0.8666 0.8121 0.8313 0.8686 0.8803 0.8856 0.7537 0.7988 CTCF_Hoffman.bedL2 0.1499 0.7634 0.6342 0.6749 0.5634 0.6795 1.0000 0.9323 0.7552 0.7771 0.7253 0.7427 0.7649 0.5170 0.5548 0.6207 0.6866 0.7178 0.7462 0.7314 0.7375 0.7324 0.7398 0.7051 0.7433 0.7538 0.6802 0.7130 0.7276 0.7176 0.7407 0.7545 0.6471 0.6569 0.6100 0.6479 CTCF_Hoffman.extend.500.bedL2 0.1793 0.8211 0.6677 0.7246 0.5883 0.7209 0.9323 1.0000 0.8496 0.8591 0.8182 0.8257 0.8425 0.6004 0.6578 0.7320 0.7730 0.8037 0.8272 0.8084 0.8130 0.8150 0.8188 0.8102 0.8261 0.8288 0.7674 0.7822 0.8007 0.8011 0.8185 0.8294 0.7262 0.7349 0.6567 0.7041 DGF_ENCODE.bedL2 0.1410 0.8921 0.7390 0.8345 0.7442 0.8661 0.7552 0.8496 1.0000 0.9766 0.9619 0.9607 0.9558 0.7364 0.7797 0.8714 0.9178 0.9448 0.9556 0.9504 0.9538 0.9628 0.9636 0.9682 0.9738 0.9633 0.9280 0.9289 0.9462 0.9344 0.9472 0.9591 0.8835 0.8902 0.8082 0.8583 DGF_ENCODE.extend.500.bedL2 0.1510 0.9489 0.7367 0.8382 0.7811 0.9118 0.7771 0.8591 0.9766 1.0000 0.9659 0.9720 0.9874 0.7107 0.7473 0.8331 0.8983 0.9512 0.9726 0.9649 0.9708 0.9606 0.9684 0.9631 0.9867 0.9900 0.9063 0.9198 0.9471 0.9137 0.9313 0.9568 0.9038 0.9100 0.8166 0.8656 DHS_peaks_Trynka.bedL2 0.1493 0.9066 0.6901 0.7883 0.7597 0.8906 0.7253 0.8182 0.9619 0.9659 1.0000 0.9932 0.9753 0.7487 0.7718 0.8517 0.9009 0.9849 0.9792 0.9447 0.9486 0.9424 0.9448 0.9693 0.9659 0.9604 0.9012 0.8998 0.9253 0.9154 0.9203 0.9377 0.8973 0.9006 0.7896 0.8363 DHS_Trynka.bedL2 0.1521 0.9204 0.6914 0.7903 0.7743 0.9051 0.7427 0.8257 0.9607 0.9720 0.9932 1.0000 0.9837 0.7455 0.7681 0.8463 0.8984 0.9838 0.9845 0.9496 0.9538 0.9448 0.9481 0.9678 0.9703 0.9675 0.8984 0.9021 0.9289 0.9115 0.9200 0.9387 0.9027 0.9061 0.7897 0.8353 DHS_Trynka.extend.500.bedL2 0.1548 0.9613 0.7058 0.8096 0.7879 0.9263 0.7649 0.8425 0.9558 0.9874 0.9753 0.9837 1.0000 0.7129 0.7408 0.8190 0.8839 0.9628 0.9847 0.9540 0.9600 0.9437 0.9522 0.9562 0.9773 0.9851 0.8915 0.9031 0.9347 0.8972 0.9124 0.9404 0.9039 0.9083 0.8002 0.8493 Enhancer_Andersson.bedL2 0.1160 0.6047 0.4571 0.5458 0.4840 0.6101 0.5170 0.6004 0.7364 0.7107 0.7487 0.7455 0.7129 1.0000 0.9251 0.7954 0.8034 0.7359 0.7419 0.7320 0.7273 0.7355 0.7217 0.7417 0.7278 0.6926 0.7404 0.7514 0.7513 0.7584 0.7573 0.7446 0.6004 0.6041 0.6261 0.6598 Enhancer_Andersson.extend.500.bedL2 0.1385 0.6269 0.5068 0.5795 0.4772 0.6152 0.5548 0.6578 0.7797 0.7473 0.7718 0.7681 0.7408 0.9251 1.0000 0.8330 0.8293 0.7660 0.7757 0.7560 0.7515 0.7677 0.7533 0.7761 0.7579 0.7191 0.7849 0.7852 0.7808 0.7823 0.7872 0.7694 0.6109 0.6155 0.6434 0.6888 Enhancer_Hoffman.bedL2 0.1280 0.7153 0.5640 0.6571 0.5606 0.6968 0.6207 0.7320 0.8714 0.8331 0.8517 0.8463 0.8190 0.7954 0.8330 1.0000 0.9628 0.8401 0.8437 0.8434 0.8387 0.8622 0.8474 0.8814 0.8445 0.8112 0.8527 0.8408 0.8410 0.8526 0.8553 0.8439 0.7280 0.7319 0.7134 0.7757 Enhancer_Hoffman.extend.500.bedL2 0.1185 0.7933 0.6558 0.7503 0.6404 0.7862 0.6866 0.7730 0.9178 0.8983 0.9009 0.8984 0.8839 0.8034 0.8293 0.9628 1.0000 0.8900 0.8989 0.9088 0.9068 0.9214 0.9140 0.9224 0.9130 0.8866 0.9092 0.9163 0.9202 0.9070 0.9192 0.9167 0.7936 0.8005 0.7987 0.8657 FetalDHS_Trynka.bedL2 0.1460 0.8899 0.6929 0.7849 0.7487 0.8815 0.7178 0.8037 0.9448 0.9512 0.9849 0.9838 0.9628 0.7359 0.7660 0.8401 0.8900 1.0000 0.9784 0.9367 0.9404 0.9372 0.9381 0.9600 0.9531 0.9462 0.8987 0.8935 0.9173 0.9115 0.9161 0.9304 0.8857 0.8886 0.7922 0.8379 FetalDHS_Trynka.extend.500.bedL2 0.1542 0.9198 0.6952 0.7875 0.7577 0.8947 0.7462 0.8272 0.9556 0.9726 0.9792 0.9845 0.9847 0.7419 0.7757 0.8437 0.8989 0.9784 1.0000 0.9553 0.9588 0.9470 0.9514 0.9676 0.9718 0.9687 0.8997 0.9043 0.9317 0.9078 0.9209 0.9400 0.8892 0.8926 0.7944 0.8430 H3K27ac_Hnisz.bedL2 0.1396 0.8846 0.7150 0.8135 0.7712 0.8898 0.7314 0.8084 0.9504 0.9649 0.9447 0.9496 0.9540 0.7320 0.7560 0.8434 0.9088 0.9367 0.9553 1.0000 0.9992 0.9734 0.9802 0.9615 0.9785 0.9681 0.8989 0.9166 0.9339 0.9197 0.9417 0.9626 0.8813 0.8870 0.8197 0.8705 H3K27ac_Hnisz.extend.500.bedL2 0.1399 0.8953 0.7235 0.8230 0.7785 0.8974 0.7375 0.8130 0.9538 0.9708 0.9486 0.9538 0.9600 0.7273 0.7515 0.8387 0.9068 0.9404 0.9588 0.9992 1.0000 0.9735 0.9814 0.9622 0.9821 0.9744 0.9006 0.9178 0.9367 0.9198 0.9416 0.9644 0.8890 0.8947 0.8232 0.8732 H3K27ac_PGC2.bedL2 0.1354 0.8711 0.7243 0.8207 0.7480 0.8760 0.7324 0.8150 0.9628 0.9606 0.9424 0.9448 0.9437 0.7355 0.7677 0.8622 0.9214 0.9372 0.9470 0.9734 0.9735 1.0000 0.9969 0.9684 0.9742 0.9567 0.9159 0.9290 0.9435 0.9435 0.9594 0.9698 0.8766 0.8825 0.8395 0.8763 H3K27ac_PGC2.extend.500.bedL2 0.1315 0.8868 0.7285 0.8284 0.7619 0.8896 0.7398 0.8188 0.9636 0.9684 0.9448 0.9481 0.9522 0.7217 0.7533 0.8474 0.9140 0.9381 0.9514 0.9802 0.9814 0.9969 1.0000 0.9673 0.9810 0.9681 0.9122 0.9265 0.9431 0.9359 0.9547 0.9709 0.8884 0.8943 0.8398 0.8807 H3K4me1_peaks_Trynka.bedL2 0.1371 0.8754 0.6927 0.7874 0.7491 0.8718 0.7051 0.8102 0.9682 0.9631 0.9693 0.9678 0.9562 0.7417 0.7761 0.8814 0.9224 0.9600 0.9676 0.9615 0.9622 0.9684 0.9673 1.0000 0.9777 0.9603 0.9199 0.9170 0.9374 0.9354 0.9439 0.9538 0.8969 0.9001 0.8126 0.8536 H3K4me1_Trynka.bedL2 0.1390 0.9209 0.7330 0.8402 0.7844 0.9100 0.7433 0.8261 0.9738 0.9867 0.9659 0.9703 0.9773 0.7278 0.7579 0.8445 0.9130 0.9531 0.9718 0.9785 0.9821 0.9742 0.9810 0.9777 1.0000 0.9931 0.9200 0.9335 0.9564 0.9314 0.9502 0.9730 0.9156 0.9214 0.8315 0.8816 H3K4me1_Trynka.extend.500.bedL2 0.1403 0.9503 0.7363 0.8459 0.8054 0.9283 0.7538 0.8288 0.9633 0.9900 0.9604 0.9675 0.9851 0.6926 0.7191 0.8112 0.8866 0.9462 0.9687 0.9681 0.9744 0.9567 0.9681 0.9603 0.9931 1.0000 0.9023 0.9159 0.9445 0.9063 0.9258 0.9577 0.9231 0.9289 0.8226 0.8746 H3K4me3_peaks_Trynka.bedL2 0.1278 0.8224 0.7606 0.8367 0.6976 0.8137 0.6802 0.7674 0.9280 0.9063 0.9012 0.8984 0.8915 0.7404 0.7849 0.8527 0.9092 0.8987 0.8997 0.8989 0.9006 0.9159 0.9122 0.9199 0.9200 0.9023 1.0000 0.9682 0.9628 0.9385 0.9398 0.9340 0.7999 0.8099 0.8321 0.8957 H3K4me3_Trynka.bedL2 0.1285 0.8418 0.7619 0.8495 0.7238 0.8409 0.7130 0.7822 0.9289 0.9198 0.8998 0.9021 0.9031 0.7514 0.7852 0.8408 0.9163 0.8935 0.9043 0.9166 0.9178 0.9290 0.9265 0.9170 0.9335 0.9159 0.9682 1.0000 0.9892 0.9421 0.9567 0.9524 0.8022 0.8138 0.8543 0.9134 H3K4me3_Trynka.extend.500.bedL2 0.1275 0.8801 0.7655 0.8526 0.7421 0.8666 0.7276 0.8007 0.9462 0.9471 0.9253 0.9289 0.9347 0.7513 0.7808 0.8410 0.9202 0.9173 0.9317 0.9339 0.9367 0.9435 0.9431 0.9374 0.9564 0.9445 0.9628 0.9892 1.0000 0.9464 0.9599 0.9642 0.8353 0.8458 0.8574 0.9175 H3K9ac_peaks_Trynka.bedL2 0.1299 0.8146 0.7615 0.8363 0.6910 0.8121 0.7176 0.8011 0.9344 0.9137 0.9154 0.9115 0.8972 0.7584 0.7823 0.8526 0.9070 0.9115 0.9078 0.9197 0.9198 0.9435 0.9359 0.9354 0.9314 0.9063 0.9385 0.9421 0.9464 1.0000 0.9854 0.9724 0.8277 0.8361 0.8215 0.8647 H3K9ac_Trynka.bedL2 0.1359 0.8312 0.7757 0.8567 0.7050 0.8313 0.7407 0.8185 0.9472 0.9313 0.9203 0.9200 0.9124 0.7573 0.7872 0.8553 0.9192 0.9161 0.9209 0.9417 0.9416 0.9594 0.9547 0.9439 0.9502 0.9258 0.9398 0.9567 0.9599 0.9854 1.0000 0.9898 0.8408 0.8501 0.8351 0.8784 H3K9ac_Trynka.extend.500.bedL2 0.1372 0.8715 0.7786 0.8731 0.7423 0.8686 0.7545 0.8294 0.9591 0.9568 0.9377 0.9387 0.9404 0.7446 0.7694 0.8439 0.9167 0.9304 0.9400 0.9626 0.9644 0.9698 0.9709 0.9538 0.9730 0.9577 0.9340 0.9524 0.9642 0.9724 0.9898 1.0000 0.8776 0.8862 0.8465 0.8916 Intron_UCSC.bedL2 0.1037 0.8606 0.6552 0.7937 0.7783 0.8803 0.6471 0.7262 0.8835 0.9038 0.8973 0.9027 0.9039 0.6004 0.6109 0.7280 0.7936 0.8857 0.8892 0.8813 0.8890 0.8766 0.8884 0.8969 0.9156 0.9231 0.7999 0.8022 0.8353 0.8277 0.8408 0.8776 1.0000 0.9993 0.7152 0.7514 Intron_UCSC.extend.500.bedL2 0.1047 0.8663 0.6750 0.8105 0.7856 0.8856 0.6569 0.7349 0.8902 0.9100 0.9006 0.9061 0.9083 0.6041 0.6155 0.7319 0.8005 0.8886 0.8926 0.8870 0.8947 0.8825 0.8943 0.9001 0.9214 0.9289 0.8099 0.8138 0.8458 0.8361 0.8501 0.8862 0.9993 1.0000 0.7250 0.7625 PromoterFlanking_Hoffman.bedL2 0.0857 0.7598 0.6809 0.7517 0.6368 0.7537 0.6100 0.6567 0.8082 0.8166 0.7896 0.7897 0.8002 0.6261 0.6434 0.7134 0.7987 0.7922 0.7944 0.8197 0.8232 0.8395 0.8398 0.8126 0.8315 0.8226 0.8321 0.8543 0.8574 0.8215 0.8351 0.8465 0.7152 0.7250 1.0000 0.9303 PromoterFlanking_Hoffman.extend.500.bedL2 0.0865 0.8089 0.7030 0.7815 0.6775 0.7988 0.6479 0.7041 0.8583 0.8656 0.8363 0.8353 0.8493 0.6598 0.6888 0.7757 0.8657 0.8379 0.8430 0.8705 0.8732 0.8763 0.8807 0.8536 0.8816 0.8746 0.8957 0.9134 0.9175 0.8647 0.8784 0.8916 0.7514 0.7625 0.9303 1.0000 Promoter_UCSC.bedL2 0.1070 0.7605 0.7855 0.8714 0.6544 0.7423 0.6885 0.7428 0.8212 0.8131 0.7622 0.7647 0.7810 0.5513 0.5922 0.6727 0.7637 0.7491 0.7555 0.7923 0.7994 0.8056 0.8136 0.7713 0.8204 0.8207 0.8168 0.8432 0.8400 0.8100 0.8366 0.8453 0.7515 0.7692 0.7704 0.8106 Promoter_UCSC.extend.500.bedL2 0.1078 0.7705 0.7949 0.8832 0.6659 0.7558 0.6920 0.7423 0.8268 0.8209 0.7706 0.7741 0.7915 0.5656 0.6032 0.6755 0.7701 0.7584 0.7658 0.8026 0.8101 0.8144 0.8228 0.7787 0.8302 0.8308 0.8308 0.8564 0.8527 0.8221 0.8480 0.8573 0.7616 0.7789 0.7803 0.8220 Repressed_Hoffman.bedL2 0.1158 0.5284 0.1320 0.1572 0.3086 0.3906 0.3349 0.3036 0.1787 0.2881 0.2479 0.2752 0.3550 0.0406 0.0496 0.0223 0.0628 0.2452 0.2916 0.1675 0.1818 0.1365 0.1576 0.1527 0.2109 0.2832 0.1323 0.1491 0.1913 0.0775 0.0869 0.1278 0.1658 0.1679 0.1254 0.1590 Repressed_Hoffman.extend.500.bedL2 0.1241 0.6548 0.2322 0.2650 0.4575 0.5378 0.4276 0.4112 0.3228 0.4334 0.3937 0.4209 0.4949 0.1246 0.1398 0.1394 0.1942 0.3907 0.4306 0.3115 0.3271 0.2806 0.3034 0.3014 0.3568 0.4302 0.2597 0.2737 0.3247 0.2052 0.2146 0.2633 0.3307 0.3322 0.2446 0.2935 SuperEnhancer_Hnisz.bedL2 0.1187 0.7275 0.6284 0.6950 0.5922 0.7349 0.6313 0.7177 0.8637 0.8426 0.8546 0.8530 0.8348 0.7801 0.7860 0.8677 0.9079 0.8533 0.8684 0.8961 0.8882 0.9025 0.8909 0.8930 0.8717 0.8349 0.8625 0.8676 0.8731 0.8989 0.9043 0.8923 0.7493 0.7538 0.7411 0.7956 SuperEnhancer_Hnisz.extend.500.bedL2 0.1191 0.7307 0.6339 0.7005 0.5947 0.7375 0.6349 0.7206 0.8657 0.8453 0.8558 0.8542 0.8368 0.7802 0.7860 0.8669 0.9091 0.8542 0.8696 0.8983 0.8905 0.9042 0.8931 0.8934 0.8741 0.8377 0.8651 0.8711 0.8765 0.9005 0.9067 0.8952 0.7510 0.7558 0.7445 0.7999 TFBS_ENCODE.bedL2 0.1409 0.7962 0.7167 0.7847 0.6069 0.7374 0.7550 0.8439 0.9198 0.8923 0.8552 0.8530 0.8530 0.6336 0.6893 0.7976 0.8351 0.8444 0.8490 0.8617 0.8645 0.9087 0.9026 0.8763 0.8793 0.8639 0.8538 0.8536 0.8623 0.8875 0.8986 0.8981 0.7787 0.7863 0.7555 0.7841 TFBS_ENCODE.extend.500.bedL2 0.1567 0.8923 0.7474 0.8271 0.6926 0.8353 0.7884 0.8767 0.9639 0.9653 0.9288 0.9317 0.9416 0.6877 0.7338 0.8329 0.8879 0.9178 0.9324 0.9325 0.9370 0.9555 0.9564 0.9384 0.9528 0.9473 0.8998 0.9044 0.9258 0.9206 0.9350 0.9486 0.8548 0.8619 0.8140 0.8526 Transcribed_Hoffman.bedL2 0.0966 0.9073 0.6850 0.8080 0.7750 0.8861 0.6799 0.7685 0.9182 0.9394 0.9089 0.9126 0.9274 0.6425 0.6531 0.7846 0.8487 0.8880 0.9023 0.9202 0.9264 0.9211 0.9303 0.9193 0.9435 0.9477 0.8476 0.8631 0.8916 0.8719 0.8825 0.9144 0.9157 0.9192 0.7954 0.8217 Transcribed_Hoffman.extend.500.bedL2 0.1232 0.9770 0.6743 0.7846 0.7993 0.9255 0.7210 0.7954 0.9008 0.9462 0.9127 0.9235 0.9533 0.6194 0.6351 0.7464 0.8180 0.8941 0.9162 0.8964 0.9053 0.8910 0.9034 0.8954 0.9298 0.9510 0.8295 0.8478 0.8853 0.8354 0.8473 0.8839 0.8922 0.8962 0.7745 0.8132 TSS_Hoffman.bedL2 0.0908 0.7529 0.7326 0.8149 0.5907 0.7329 0.6518 0.7264 0.8762 0.8449 0.8376 0.8312 0.8243 0.7528 0.8003 0.8395 0.9009 0.8319 0.8329 0.8394 0.8403 0.8646 0.8573 0.8470 0.8613 0.8372 0.9209 0.9312 0.9186 0.8996 0.9052 0.8951 0.7380 0.7500 0.8238 0.8808 TSS_Hoffman.extend.500.bedL2 0.1058 0.7629 0.7319 0.8103 0.6008 0.7372 0.6715 0.7514 0.8985 0.8626 0.8538 0.8475 0.8394 0.7584 0.8159 0.8706 0.9222 0.8467 0.8541 0.8566 0.8567 0.8824 0.8731 0.8708 0.8770 0.8513 0.9287 0.9340 0.9234 0.9050 0.9123 0.9022 0.7438 0.7553 0.8261 0.8818 UTR_3_UCSC.bedL2 0.0908 0.6809 0.9091 0.8374 0.6220 0.6855 0.6069 0.6378 0.7360 0.7293 0.6825 0.6820 0.6971 0.4584 0.4969 0.5408 0.6431 0.6807 0.6821 0.7083 0.7171 0.7204 0.7271 0.6838 0.7285 0.7315 0.7380 0.7487 0.7576 0.7461 0.7569 0.7661 0.6509 0.6668 0.6795 0.7194 UTR_3_UCSC.extend.500.bedL2 0.0560 0.7410 0.8561 0.8852 0.6585 0.7408 0.6524 0.6630 0.7658 0.7708 0.7082 0.7116 0.7406 0.4858 0.5005 0.5814 0.6981 0.6942 0.7108 0.7623 0.7713 0.7621 0.7763 0.7032 0.7794 0.7886 0.7550 0.7913 0.7959 0.7578 0.7848 0.8092 0.7027 0.7202 0.7321 0.7728 UTR_5_UCSC.bedL2 0.0652 0.5738 0.6397 0.6992 0.5590 0.5997 0.4979 0.5248 0.6100 0.6121 0.5505 0.5590 0.5803 0.3872 0.4267 0.4643 0.5526 0.5345 0.5486 0.6047 0.6104 0.6056 0.6141 0.5691 0.6263 0.6248 0.6285 0.6539 0.6520 0.6108 0.6367 0.6462 0.5480 0.5653 0.5890 0.6175 UTR_5_UCSC.extend.500.bedL2 0.0766 0.6960 0.7442 0.8318 0.6583 0.7039 0.5817 0.6368 0.7554 0.7437 0.6866 0.6917 0.7072 0.4760 0.5198 0.5968 0.6743 0.6651 0.6749 0.7149 0.7226 0.7209 0.7289 0.7022 0.7512 0.7519 0.7581 0.7768 0.7747 0.7211 0.7496 0.7601 0.6989 0.7158 0.6654 0.7141 WeakEnhancer_Hoffman.bedL2 0.1497 0.6956 0.5754 0.6172 0.5781 0.6900 0.6157 0.7136 0.8221 0.7983 0.8282 0.8255 0.7950 0.7473 0.7805 0.7992 0.8380 0.8174 0.8246 0.7963 0.7936 0.7873 0.7815 0.8367 0.8101 0.7828 0.7933 0.7934 0.8070 0.8045 0.8129 0.8052 0.6923 0.6975 0.6541 0.7265 WeakEnhancer_Hoffman.extend.500.bedL2 0.1543 0.7759 0.6221 0.6839 0.6358 0.7627 0.6909 0.7717 0.8808 0.8720 0.8863 0.8878 0.8690 0.7714 0.8122 0.8593 0.9092 0.8793 0.8931 0.8724 0.8707 0.8583 0.8560 0.8936 0.8827 0.8596 0.8605 0.8696 0.8828 0.8632 0.8765 0.8762 0.7556 0.7615 0.7288 0.8168 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 0.1070 0.1078 0.1158 0.1241 0.1187 0.1191 0.1409 0.1567 0.0966 0.1232 0.0908 0.1058 0.0908 0.0560 0.0652 0.0766 0.1497 0.1543 baseL2 0.7605 0.7705 0.5284 0.6548 0.7275 0.7307 0.7962 0.8923 0.9073 0.9770 0.7529 0.7629 0.6809 0.7410 0.5738 0.6960 0.6956 0.7759 Coding_UCSC.bedL2 0.7855 0.7949 0.1320 0.2322 0.6284 0.6339 0.7167 0.7474 0.6850 0.6743 0.7326 0.7319 0.9091 0.8561 0.6397 0.7442 0.5754 0.6221 Coding_UCSC.extend.500.bedL2 0.8714 0.8832 0.1572 0.2650 0.6950 0.7005 0.7847 0.8271 0.8080 0.7846 0.8149 0.8103 0.8374 0.8852 0.6992 0.8318 0.6172 0.6839 Conserved_LindbladToh.bedL2 0.6544 0.6659 0.3086 0.4575 0.5922 0.5947 0.6069 0.6926 0.7750 0.7993 0.5907 0.6008 0.6220 0.6585 0.5590 0.6583 0.5781 0.6358 Conserved_LindbladToh.extend.500.bedL2 0.7423 0.7558 0.3906 0.5378 0.7349 0.7375 0.7374 0.8353 0.8861 0.9255 0.7329 0.7372 0.6855 0.7408 0.5997 0.7039 0.6900 0.7627 CTCF_Hoffman.bedL2 0.6885 0.6920 0.3349 0.4276 0.6313 0.6349 0.7550 0.7884 0.6799 0.7210 0.6518 0.6715 0.6069 0.6524 0.4979 0.5817 0.6157 0.6909 CTCF_Hoffman.extend.500.bedL2 0.7428 0.7423 0.3036 0.4112 0.7177 0.7206 0.8439 0.8767 0.7685 0.7954 0.7264 0.7514 0.6378 0.6630 0.5248 0.6368 0.7136 0.7717 DGF_ENCODE.bedL2 0.8212 0.8268 0.1787 0.3228 0.8637 0.8657 0.9198 0.9639 0.9182 0.9008 0.8762 0.8985 0.7360 0.7658 0.6100 0.7554 0.8221 0.8808 DGF_ENCODE.extend.500.bedL2 0.8131 0.8209 0.2881 0.4334 0.8426 0.8453 0.8923 0.9653 0.9394 0.9462 0.8449 0.8626 0.7293 0.7708 0.6121 0.7437 0.7983 0.8720 DHS_peaks_Trynka.bedL2 0.7622 0.7706 0.2479 0.3937 0.8546 0.8558 0.8552 0.9288 0.9089 0.9127 0.8376 0.8538 0.6825 0.7082 0.5505 0.6866 0.8282 0.8863 DHS_Trynka.bedL2 0.7647 0.7741 0.2752 0.4209 0.8530 0.8542 0.8530 0.9317 0.9126 0.9235 0.8312 0.8475 0.6820 0.7116 0.5590 0.6917 0.8255 0.8878 DHS_Trynka.extend.500.bedL2 0.7810 0.7915 0.3550 0.4949 0.8348 0.8368 0.8530 0.9416 0.9274 0.9533 0.8243 0.8394 0.6971 0.7406 0.5803 0.7072 0.7950 0.8690 Enhancer_Andersson.bedL2 0.5513 0.5656 0.0406 0.1246 0.7801 0.7802 0.6336 0.6877 0.6425 0.6194 0.7528 0.7584 0.4584 0.4858 0.3872 0.4760 0.7473 0.7714 Enhancer_Andersson.extend.500.bedL2 0.5922 0.6032 0.0496 0.1398 0.7860 0.7860 0.6893 0.7338 0.6531 0.6351 0.8003 0.8159 0.4969 0.5005 0.4267 0.5198 0.7805 0.8122 Enhancer_Hoffman.bedL2 0.6727 0.6755 0.0223 0.1394 0.8677 0.8669 0.7976 0.8329 0.7846 0.7464 0.8395 0.8706 0.5408 0.5814 0.4643 0.5968 0.7992 0.8593 Enhancer_Hoffman.extend.500.bedL2 0.7637 0.7701 0.0628 0.1942 0.9079 0.9091 0.8351 0.8879 0.8487 0.8180 0.9009 0.9222 0.6431 0.6981 0.5526 0.6743 0.8380 0.9092 FetalDHS_Trynka.bedL2 0.7491 0.7584 0.2452 0.3907 0.8533 0.8542 0.8444 0.9178 0.8880 0.8941 0.8319 0.8467 0.6807 0.6942 0.5345 0.6651 0.8174 0.8793 FetalDHS_Trynka.extend.500.bedL2 0.7555 0.7658 0.2916 0.4306 0.8684 0.8696 0.8490 0.9324 0.9023 0.9162 0.8329 0.8541 0.6821 0.7108 0.5486 0.6749 0.8246 0.8931 H3K27ac_Hnisz.bedL2 0.7923 0.8026 0.1675 0.3115 0.8961 0.8983 0.8617 0.9325 0.9202 0.8964 0.8394 0.8566 0.7083 0.7623 0.6047 0.7149 0.7963 0.8724 H3K27ac_Hnisz.extend.500.bedL2 0.7994 0.8101 0.1818 0.3271 0.8882 0.8905 0.8645 0.9370 0.9264 0.9053 0.8403 0.8567 0.7171 0.7713 0.6104 0.7226 0.7936 0.8707 H3K27ac_PGC2.bedL2 0.8056 0.8144 0.1365 0.2806 0.9025 0.9042 0.9087 0.9555 0.9211 0.8910 0.8646 0.8824 0.7204 0.7621 0.6056 0.7209 0.7873 0.8583 H3K27ac_PGC2.extend.500.bedL2 0.8136 0.8228 0.1576 0.3034 0.8909 0.8931 0.9026 0.9564 0.9303 0.9034 0.8573 0.8731 0.7271 0.7763 0.6141 0.7289 0.7815 0.8560 H3K4me1_peaks_Trynka.bedL2 0.7713 0.7787 0.1527 0.3014 0.8930 0.8934 0.8763 0.9384 0.9193 0.8954 0.8470 0.8708 0.6838 0.7032 0.5691 0.7022 0.8367 0.8936 H3K4me1_Trynka.bedL2 0.8204 0.8302 0.2109 0.3568 0.8717 0.8741 0.8793 0.9528 0.9435 0.9298 0.8613 0.8770 0.7285 0.7794 0.6263 0.7512 0.8101 0.8827 H3K4me1_Trynka.extend.500.bedL2 0.8207 0.8308 0.2832 0.4302 0.8349 0.8377 0.8639 0.9473 0.9477 0.9510 0.8372 0.8513 0.7315 0.7886 0.6248 0.7519 0.7828 0.8596 H3K4me3_peaks_Trynka.bedL2 0.8168 0.8308 0.1323 0.2597 0.8625 0.8651 0.8538 0.8998 0.8476 0.8295 0.9209 0.9287 0.7380 0.7550 0.6285 0.7581 0.7933 0.8605 H3K4me3_Trynka.bedL2 0.8432 0.8564 0.1491 0.2737 0.8676 0.8711 0.8536 0.9044 0.8631 0.8478 0.9312 0.9340 0.7487 0.7913 0.6539 0.7768 0.7934 0.8696 H3K4me3_Trynka.extend.500.bedL2 0.8400 0.8527 0.1913 0.3247 0.8731 0.8765 0.8623 0.9258 0.8916 0.8853 0.9186 0.9234 0.7576 0.7959 0.6520 0.7747 0.8070 0.8828 H3K9ac_peaks_Trynka.bedL2 0.8100 0.8221 0.0775 0.2052 0.8989 0.9005 0.8875 0.9206 0.8719 0.8354 0.8996 0.9050 0.7461 0.7578 0.6108 0.7211 0.8045 0.8632 H3K9ac_Trynka.bedL2 0.8366 0.8480 0.0869 0.2146 0.9043 0.9067 0.8986 0.9350 0.8825 0.8473 0.9052 0.9123 0.7569 0.7848 0.6367 0.7496 0.8129 0.8765 H3K9ac_Trynka.extend.500.bedL2 0.8453 0.8573 0.1278 0.2633 0.8923 0.8952 0.8981 0.9486 0.9144 0.8839 0.8951 0.9022 0.7661 0.8092 0.6462 0.7601 0.8052 0.8762 Intron_UCSC.bedL2 0.7515 0.7616 0.1658 0.3307 0.7493 0.7510 0.7787 0.8548 0.9157 0.8922 0.7380 0.7438 0.6509 0.7027 0.5480 0.6989 0.6923 0.7556 Intron_UCSC.extend.500.bedL2 0.7692 0.7789 0.1679 0.3322 0.7538 0.7558 0.7863 0.8619 0.9192 0.8962 0.7500 0.7553 0.6668 0.7202 0.5653 0.7158 0.6975 0.7615 PromoterFlanking_Hoffman.bedL2 0.7704 0.7803 0.1254 0.2446 0.7411 0.7445 0.7555 0.8140 0.7954 0.7745 0.8238 0.8261 0.6795 0.7321 0.5890 0.6654 0.6541 0.7288 PromoterFlanking_Hoffman.extend.500.bedL2 0.8106 0.8220 0.1590 0.2935 0.7956 0.7999 0.7841 0.8526 0.8217 0.8132 0.8808 0.8818 0.7194 0.7728 0.6175 0.7141 0.7265 0.8168 Promoter_UCSC.bedL2 1.0000 0.9964 0.1321 0.2359 0.6689 0.6742 0.7775 0.8140 0.7797 0.7576 0.8291 0.8224 0.7541 0.8431 0.7551 0.8612 0.6257 0.6951 Promoter_UCSC.extend.500.bedL2 0.9964 1.0000 0.1423 0.2452 0.6807 0.6862 0.7807 0.8200 0.7862 0.7655 0.8388 0.8300 0.7663 0.8556 0.7566 0.8634 0.6292 0.7024 Repressed_Hoffman.bedL2 0.1321 0.1423 1.0000 0.9644 0.0314 0.0334 0.1241 0.2171 0.1592 0.3974 0.0572 0.0585 0.1226 0.1570 0.1030 0.1207 0.1021 0.1429 Repressed_Hoffman.extend.500.bedL2 0.2359 0.2452 0.9644 1.0000 0.1448 0.1470 0.2548 0.3582 0.3141 0.5452 0.1653 0.1707 0.2385 0.2570 0.1841 0.2267 0.2296 0.2763 SuperEnhancer_Hnisz.bedL2 0.6689 0.6807 0.0314 0.1448 1.0000 0.9998 0.7957 0.8417 0.7957 0.7537 0.8273 0.8477 0.6169 0.6459 0.5057 0.5973 0.7910 0.8509 SuperEnhancer_Hnisz.extend.500.bedL2 0.6742 0.6862 0.0334 0.1470 0.9998 1.0000 0.7983 0.8444 0.7978 0.7562 0.8308 0.8505 0.6228 0.6527 0.5115 0.6031 0.7919 0.8523 TFBS_ENCODE.bedL2 0.7775 0.7807 0.1241 0.2548 0.7957 0.7983 1.0000 0.9695 0.8262 0.8027 0.8136 0.8305 0.7210 0.7226 0.5602 0.6943 0.7118 0.7675 TFBS_ENCODE.extend.500.bedL2 0.8140 0.8200 0.2171 0.3582 0.8417 0.8444 0.9695 1.0000 0.8973 0.8925 0.8476 0.8649 0.7445 0.7659 0.5994 0.7286 0.7716 0.8396 Transcribed_Hoffman.bedL2 0.7797 0.7862 0.1592 0.3141 0.7957 0.7978 0.8262 0.8973 1.0000 0.9613 0.7989 0.8091 0.6905 0.7519 0.5828 0.7125 0.6945 0.7690 Transcribed_Hoffman.extend.500.bedL2 0.7576 0.7655 0.3974 0.5452 0.7537 0.7562 0.8027 0.8925 0.9613 1.0000 0.7678 0.7782 0.6805 0.7327 0.5641 0.6916 0.6974 0.7741 TSS_Hoffman.bedL2 0.8291 0.8388 0.0572 0.1653 0.8273 0.8308 0.8136 0.8476 0.7989 0.7678 1.0000 0.9822 0.7151 0.7598 0.6358 0.7524 0.7563 0.8290 TSS_Hoffman.extend.500.bedL2 0.8224 0.8300 0.0585 0.1707 0.8477 0.8505 0.8305 0.8649 0.8091 0.7782 0.9822 1.0000 0.7065 0.7467 0.6103 0.7444 0.7842 0.8532 UTR_3_UCSC.bedL2 0.7541 0.7663 0.1226 0.2385 0.6169 0.6228 0.7210 0.7445 0.6905 0.6805 0.7151 0.7065 1.0000 0.9011 0.6170 0.7031 0.5711 0.6174 UTR_3_UCSC.extend.500.bedL2 0.8431 0.8556 0.1570 0.2570 0.6459 0.6527 0.7226 0.7659 0.7519 0.7327 0.7598 0.7467 0.9011 1.0000 0.6753 0.7548 0.5455 0.6184 UTR_5_UCSC.bedL2 0.7551 0.7566 0.1030 0.1841 0.5057 0.5115 0.5602 0.5994 0.5828 0.5641 0.6358 0.6103 0.6170 0.6753 1.0000 0.8723 0.4618 0.5264 UTR_5_UCSC.extend.500.bedL2 0.8612 0.8634 0.1207 0.2267 0.5973 0.6031 0.6943 0.7286 0.7125 0.6916 0.7524 0.7444 0.7031 0.7548 0.8723 1.0000 0.5856 0.6479 WeakEnhancer_Hoffman.bedL2 0.6257 0.6292 0.1021 0.2296 0.7910 0.7919 0.7118 0.7716 0.6945 0.6974 0.7563 0.7842 0.5711 0.5455 0.4618 0.5856 1.0000 0.9515 WeakEnhancer_Hoffman.extend.500.bedL2 0.6951 0.7024 0.1429 0.2763 0.8509 0.8523 0.7675 0.8396 0.7690 0.7741 0.8290 0.8532 0.6174 0.6184 0.5264 0.6479 0.9515 1.0000 LD Score Matrix Condition Number 963.0916 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 0.4794 0.3353 0.1814 0.0181 0.0319 0.0635 0.0688 0.0454 0.0526 0.0405 -0.0143 -0.0279 0.0154 0.0313 0.0470 0.0335 0.0554 0.0541 0.0624 0.0617 0.0460 0.0860 0.0682 0.0596 0.0919 0.0875 0.0630 0.1000 0.0984 -0.1193 0.0453 -0.0062 -0.0046 0.1072 0.1057 -0.0792 Coding_UCSC.extend.500.bed NaN 0.4794 1.0000 0.1838 0.4229 0.0200 0.0304 0.0873 0.1111 0.0619 0.0705 0.0657 -0.0269 -0.0420 0.0413 0.0586 0.0691 0.0548 0.1027 0.0996 0.1092 0.1074 0.0681 0.1551 0.1387 0.0998 0.1605 0.1533 0.1095 0.1822 0.1969 0.1718 0.2684 -0.0021 0.0180 0.2243 0.2188 -0.1634 Conserved_LindbladToh.bed NaN 0.3353 0.1838 1.0000 0.2279 0.0100 0.0091 0.0864 0.0588 0.1072 0.1083 0.0637 0.0195 0.0077 0.0413 0.0433 0.1175 0.0716 0.0449 0.0433 0.0585 0.0515 0.0628 0.0823 0.0611 0.0587 0.0935 0.0734 0.0544 0.0928 0.0790 -0.0319 0.0619 0.0016 0.0141 0.0686 0.0645 -0.0491 Conserved_LindbladToh.extend.500.bed NaN 0.1814 0.4229 0.2279 1.0000 0.0336 0.0315 0.1306 0.1737 0.1620 0.1914 0.2185 0.0291 0.0436 0.1165 0.1268 0.1842 0.2301 0.1602 0.1551 0.1912 0.1764 0.1886 0.2528 0.2161 0.1312 0.2055 0.1926 0.1450 0.2321 0.2265 0.1644 0.2085 0.0283 0.0495 0.1207 0.1166 -0.1529 CTCF_Hoffman.bed NaN 0.0181 0.0200 0.0100 0.0336 1.0000 0.5506 0.1163 0.1084 0.1274 0.1358 0.1039 0.0116 0.0152 0.0334 0.0613 0.1257 0.1185 0.0395 0.0396 0.0532 0.0518 0.0720 0.0665 0.0524 0.0357 0.0598 0.0607 0.0501 0.0811 0.0765 -0.0229 -0.0169 -0.0123 0.0078 0.0176 0.0215 -0.1259 CTCF_Hoffman.extend.500.bed NaN 0.0319 0.0304 0.0091 0.0315 0.5506 1.0000 0.0827 0.1503 0.0869 0.0957 0.1407 0.0134 0.0288 0.0581 0.0972 0.0878 0.1430 0.0704 0.0755 0.0895 0.0927 0.0703 0.0851 0.0864 0.0406 0.0743 0.0901 0.0607 0.1052 0.1222 -0.0321 -0.0243 0.0050 0.0227 0.0387 0.0469 -0.1071 DGF_ENCODE.bed NaN 0.0635 0.0873 0.0864 0.1306 0.1163 0.0827 1.0000 0.3444 0.4996 0.4835 0.2477 0.1018 0.0910 0.1979 0.1970 0.3707 0.2269 0.1877 0.1813 0.2339 0.2084 0.2808 0.2644 0.1884 0.1937 0.2714 0.2241 0.1885 0.2691 0.2302 0.0356 0.0552 0.0436 0.0901 0.1040 0.1013 -0.1801 DGF_ENCODE.extend.500.bed NaN 0.0688 0.1111 0.0588 0.1737 0.1084 0.1503 0.3444 1.0000 0.2342 0.2865 0.4999 0.0548 0.1018 0.1722 0.2371 0.2064 0.3562 0.3240 0.3259 0.3407 0.3320 0.2990 0.4297 0.4068 0.1475 0.2638 0.3119 0.1679 0.3024 0.3572 0.0852 0.0996 0.0607 0.1176 0.1062 0.1102 -0.2653 DHS_peaks_Trynka.bed NaN 0.0454 0.0619 0.1072 0.1620 0.1274 0.0869 0.4996 0.2342 1.0000 0.7812 0.3455 0.1248 0.1086 0.2181 0.2024 0.6785 0.3683 0.1692 0.1610 0.2203 0.1875 0.2915 0.2532 0.1770 0.2261 0.2752 0.2151 0.2117 0.2647 0.2078 0.0323 0.0510 0.0222 0.0758 0.0892 0.0802 -0.1462 DHS_Trynka.bed NaN 0.0526 0.0705 0.1083 0.1914 0.1358 0.0957 0.4835 0.2865 0.7812 1.0000 0.4327 0.1228 0.1253 0.2520 0.2316 0.7141 0.4341 0.2021 0.1926 0.2644 0.2242 0.3486 0.3095 0.2170 0.2575 0.3160 0.2522 0.2402 0.3065 0.2442 0.0396 0.0584 0.0327 0.0838 0.0939 0.0820 -0.1733 DHS_Trynka.extend.500.bed NaN 0.0405 0.0657 0.0637 0.2185 0.1039 0.1407 0.2477 0.4999 0.3455 0.4327 1.0000 0.0632 0.1187 0.1971 0.2634 0.3090 0.6605 0.2986 0.2991 0.3374 0.3130 0.3247 0.4422 0.4054 0.1593 0.2580 0.3016 0.1821 0.3024 0.3330 0.0811 0.0902 0.0522 0.1082 0.0855 0.0751 -0.2115 Enhancer_Andersson.bed NaN -0.0143 -0.0269 0.0195 0.0291 0.0116 0.0134 0.1018 0.0548 0.1248 0.1228 0.0632 1.0000 0.4826 0.1105 0.0993 0.1440 0.0867 0.0602 0.0560 0.0828 0.0698 0.0736 0.0591 0.0393 0.0837 0.1002 0.0738 0.0646 0.0822 0.0647 0.0017 -0.0018 0.0057 0.0297 0.0088 0.0085 -0.0408 Enhancer_Andersson.extend.500.bed NaN -0.0279 -0.0420 0.0077 0.0436 0.0152 0.0288 0.0910 0.1018 0.1086 0.1253 0.1187 0.4826 1.0000 0.1825 0.1812 0.1315 0.1552 0.1118 0.1052 0.1548 0.1326 0.1216 0.1110 0.0803 0.1346 0.1678 0.1427 0.1139 0.1479 0.1204 0.0021 -0.0039 0.0259 0.0653 0.0264 0.0257 -0.0735 Enhancer_Hoffman.bed NaN 0.0154 0.0413 0.0413 0.1165 0.0334 0.0581 0.1979 0.1722 0.2181 0.2520 0.1971 0.1105 0.1825 1.0000 0.6440 0.2300 0.2397 0.1823 0.1732 0.2774 0.2360 0.2622 0.1982 0.1350 0.2508 0.3084 0.2528 0.2373 0.2900 0.2264 0.0165 0.0247 0.0425 0.1554 0.1227 0.1157 -0.1609 Enhancer_Hoffman.extend.500.bed NaN 0.0313 0.0586 0.0433 0.1268 0.0613 0.0972 0.1970 0.2371 0.2024 0.2316 0.2634 0.0993 0.1812 0.6440 1.0000 0.2197 0.2999 0.2559 0.2534 0.3895 0.3510 0.2763 0.2742 0.2072 0.2394 0.3560 0.3517 0.2247 0.3399 0.3241 0.0214 0.0364 0.1120 0.2588 0.1871 0.1792 -0.2328 FetalDHS_Trynka.bed NaN 0.0470 0.0691 0.1175 0.1842 0.1257 0.0878 0.3707 0.2064 0.6785 0.7141 0.3090 0.1440 0.1315 0.2300 0.2197 1.0000 0.4678 0.1716 0.1612 0.2275 0.1933 0.2913 0.2429 0.1690 0.2719 0.3070 0.2353 0.2323 0.2840 0.2156 0.0254 0.0474 0.0188 0.0832 0.1084 0.0959 -0.1354 FetalDHS_Trynka.extend.500.bed NaN 0.0335 0.0548 0.0716 0.2301 0.1185 0.1430 0.2269 0.3562 0.3683 0.4341 0.6605 0.0867 0.1552 0.2397 0.2999 0.4678 1.0000 0.2853 0.2791 0.3351 0.3037 0.3384 0.3966 0.3260 0.2077 0.3078 0.3277 0.2133 0.3303 0.3303 0.0601 0.0706 0.0507 0.1195 0.1082 0.0942 -0.1856 H3K27ac_Hnisz.bed NaN 0.0554 0.1027 0.0449 0.1602 0.0395 0.0704 0.1877 0.3240 0.1692 0.2021 0.2986 0.0602 0.1118 0.1823 0.2559 0.1716 0.2853 1.0000 0.9339 0.4846 0.5213 0.2842 0.4420 0.4263 0.1459 0.2760 0.3318 0.1850 0.3420 0.4174 0.1751 0.1848 0.0623 0.1238 0.0938 0.1033 -0.2940 H3K27ac_Hnisz.extend.500.bed NaN 0.0541 0.0996 0.0433 0.1551 0.0396 0.0755 0.1813 0.3259 0.1610 0.1926 0.2991 0.0560 0.1052 0.1732 0.2534 0.1612 0.2791 0.9339 1.0000 0.4856 0.5309 0.2737 0.4397 0.4424 0.1360 0.2619 0.3252 0.1744 0.3274 0.4140 0.1715 0.1805 0.0616 0.1226 0.0929 0.1028 -0.2908 H3K27ac_PGC2.bed NaN 0.0624 0.1092 0.0585 0.1912 0.0532 0.0895 0.2339 0.3407 0.2203 0.2644 0.3374 0.0828 0.1548 0.2774 0.3895 0.2275 0.3351 0.4846 0.4856 1.0000 0.8299 0.3492 0.4600 0.3749 0.2232 0.4010 0.4450 0.2538 0.4383 0.4770 0.1391 0.1539 0.1004 0.1952 0.1747 0.1791 -0.2982 H3K27ac_PGC2.extend.500.bed NaN 0.0617 0.1074 0.0515 0.1764 0.0518 0.0927 0.2084 0.3320 0.1875 0.2242 0.3130 0.0698 0.1326 0.2360 0.3510 0.1933 0.3037 0.5213 0.5309 0.8299 1.0000 0.3244 0.4661 0.4093 0.1905 0.3544 0.4160 0.2229 0.3994 0.4713 0.1499 0.1627 0.0925 0.1837 0.1693 0.1801 -0.3089 H3K4me1_peaks_Trynka.bed NaN 0.0460 0.0681 0.0628 0.1886 0.0720 0.0703 0.2808 0.2990 0.2915 0.3486 0.3247 0.0736 0.1216 0.2622 0.2763 0.2913 0.3384 0.2842 0.2737 0.3492 0.3244 1.0000 0.4862 0.3253 0.2768 0.3893 0.3323 0.3186 0.4246 0.3547 0.1177 0.1271 0.1072 0.1632 0.1151 0.1175 -0.2449 H3K4me1_Trynka.bed NaN 0.0860 0.1551 0.0823 0.2528 0.0665 0.0851 0.2644 0.4297 0.2532 0.3095 0.4422 0.0591 0.1110 0.1982 0.2742 0.2429 0.3966 0.4420 0.4397 0.4600 0.4661 0.4862 1.0000 0.6638 0.1811 0.3368 0.3962 0.2247 0.4139 0.4871 0.2030 0.2200 0.0807 0.1497 0.1244 0.1312 -0.3535 H3K4me1_Trynka.extend.500.bed NaN 0.0682 0.1387 0.0611 0.2161 0.0524 0.0864 0.1884 0.4068 0.1770 0.2170 0.4054 0.0393 0.0803 0.1350 0.2072 0.1690 0.3260 0.4263 0.4424 0.3749 0.4093 0.3253 0.6638 1.0000 0.1203 0.2312 0.3104 0.1561 0.2970 0.4190 0.2219 0.2346 0.0569 0.1182 0.1055 0.1112 -0.3241 H3K4me3_peaks_Trynka.bed NaN 0.0596 0.0998 0.0587 0.1312 0.0357 0.0406 0.1937 0.1475 0.2261 0.2575 0.1593 0.0837 0.1346 0.2508 0.2394 0.2719 0.2077 0.1459 0.1360 0.2232 0.1905 0.2768 0.1811 0.1203 1.0000 0.5099 0.3411 0.3551 0.3230 0.2251 0.0387 0.0593 0.0673 0.1402 0.1708 0.1639 -0.1312 H3K4me3_Trynka.bed NaN 0.0919 0.1605 0.0935 0.2055 0.0598 0.0743 0.2714 0.2638 0.2752 0.3160 0.2580 0.1002 0.1678 0.3084 0.3560 0.3070 0.3078 0.2760 0.2619 0.4010 0.3544 0.3893 0.3368 0.2312 0.5099 1.0000 0.6591 0.3492 0.5281 0.4183 0.0840 0.1156 0.1488 0.2529 0.2649 0.2689 -0.2419 H3K4me3_Trynka.extend.500.bed NaN 0.0875 0.1533 0.0734 0.1926 0.0607 0.0901 0.2241 0.3119 0.2151 0.2522 0.3016 0.0738 0.1427 0.2528 0.3517 0.2353 0.3277 0.3318 0.3252 0.4450 0.4160 0.3323 0.3962 0.3104 0.3411 0.6591 1.0000 0.2695 0.4722 0.5009 0.0918 0.1154 0.1186 0.2312 0.2162 0.2267 -0.2712 H3K9ac_peaks_Trynka.bed NaN 0.0630 0.1095 0.0544 0.1450 0.0501 0.0607 0.1885 0.1679 0.2117 0.2402 0.1821 0.0646 0.1139 0.2373 0.2247 0.2323 0.2133 0.1850 0.1744 0.2538 0.2229 0.3186 0.2247 0.1561 0.3551 0.3492 0.2695 1.0000 0.5123 0.3382 0.0758 0.0924 0.0630 0.1197 0.1373 0.1369 -0.1590 H3K9ac_Trynka.bed NaN 0.1000 0.1822 0.0928 0.2321 0.0811 0.1052 0.2691 0.3024 0.2647 0.3065 0.3024 0.0822 0.1479 0.2900 0.3399 0.2840 0.3303 0.3420 0.3274 0.4383 0.3994 0.4246 0.4139 0.2970 0.3230 0.5281 0.4722 0.5123 1.0000 0.6533 0.1421 0.1699 0.1171 0.2045 0.2167 0.2193 -0.2854 H3K9ac_Trynka.extend.500.bed NaN 0.0984 0.1969 0.0790 0.2265 0.0765 0.1222 0.2302 0.3572 0.2078 0.2442 0.3330 0.0647 0.1204 0.2264 0.3241 0.2156 0.3303 0.4174 0.4140 0.4770 0.4713 0.3547 0.4871 0.4190 0.2251 0.4183 0.5009 0.3382 0.6533 1.0000 0.1928 0.2168 0.0977 0.1950 0.1924 0.2021 -0.3497 Intron_UCSC.bed NaN -0.1193 0.1718 -0.0319 0.1644 -0.0229 -0.0321 0.0356 0.0852 0.0323 0.0396 0.0811 0.0017 0.0021 0.0165 0.0214 0.0254 0.0601 0.1751 0.1715 0.1391 0.1499 0.1177 0.2030 0.2219 0.0387 0.0840 0.0918 0.0758 0.1421 0.1928 1.0000 0.9577 0.0248 0.0053 0.0732 0.0853 -0.2916 Intron_UCSC.extend.500.bed NaN 0.0453 0.2684 0.0619 0.2085 -0.0169 -0.0243 0.0552 0.0996 0.0510 0.0584 0.0902 -0.0018 -0.0039 0.0247 0.0364 0.0474 0.0706 0.1848 0.1805 0.1539 0.1627 0.1271 0.2200 0.2346 0.0593 0.1156 0.1154 0.0924 0.1699 0.2168 0.9577 1.0000 0.0245 0.0166 0.1236 0.1329 -0.3065 PromoterFlanking_Hoffman.bed NaN -0.0062 -0.0021 0.0016 0.0283 -0.0123 0.0050 0.0436 0.0607 0.0222 0.0327 0.0522 0.0057 0.0259 0.0425 0.1120 0.0188 0.0507 0.0623 0.0616 0.1004 0.0925 0.1072 0.0807 0.0569 0.0673 0.1488 0.1186 0.0630 0.1171 0.0977 0.0248 0.0245 1.0000 0.4751 0.1130 0.1201 -0.0693 PromoterFlanking_Hoffman.extend.500.bed NaN -0.0046 0.0180 0.0141 0.0495 0.0078 0.0227 0.0901 0.1176 0.0758 0.0838 0.1082 0.0297 0.0653 0.1554 0.2588 0.0832 0.1195 0.1238 0.1226 0.1952 0.1837 0.1632 0.1497 0.1182 0.1402 0.2529 0.2312 0.1197 0.2045 0.1950 0.0053 0.0166 0.4751 1.0000 0.2237 0.2267 -0.1230 Promoter_UCSC.bed NaN 0.1072 0.2243 0.0686 0.1207 0.0176 0.0387 0.1040 0.1062 0.0892 0.0939 0.0855 0.0088 0.0264 0.1227 0.1871 0.1084 0.1082 0.0938 0.0929 0.1747 0.1693 0.1151 0.1244 0.1055 0.1708 0.2649 0.2162 0.1373 0.2167 0.1924 0.0732 0.1236 0.1130 0.2237 1.0000 0.8948 -0.1089 Promoter_UCSC.extend.500.bed NaN 0.1057 0.2188 0.0645 0.1166 0.0215 0.0469 0.1013 0.1102 0.0802 0.0820 0.0751 0.0085 0.0257 0.1157 0.1792 0.0959 0.0942 0.1033 0.1028 0.1791 0.1801 0.1175 0.1312 0.1112 0.1639 0.2689 0.2267 0.1369 0.2193 0.2021 0.0853 0.1329 0.1201 0.2267 0.8948 1.0000 -0.1164 Repressed_Hoffman.bed NaN -0.0792 -0.1634 -0.0491 -0.1529 -0.1259 -0.1071 -0.1801 -0.2653 -0.1462 -0.1733 -0.2115 -0.0408 -0.0735 -0.1609 -0.2328 -0.1354 -0.1856 -0.2940 -0.2908 -0.2982 -0.3089 -0.2449 -0.3535 -0.3241 -0.1312 -0.2419 -0.2712 -0.1590 -0.2854 -0.3497 -0.2916 -0.3065 -0.0693 -0.1230 -0.1089 -0.1164 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1213 -0.2495 -0.0694 -0.2016 -0.0588 -0.0742 -0.1893 -0.2736 -0.1561 -0.1832 -0.2264 -0.0539 -0.0995 -0.2307 -0.3066 -0.1548 -0.2109 -0.3677 -0.3618 -0.3817 -0.3851 -0.2805 -0.4050 -0.3669 -0.1749 -0.3161 -0.3440 -0.2120 -0.3732 -0.4378 -0.3691 -0.3931 -0.0824 -0.1455 -0.1542 -0.1642 0.6365 SuperEnhancer_Hnisz.bed NaN 0.0504 0.0899 0.0355 0.1376 0.0228 0.0450 0.1611 0.2346 0.1300 0.1508 0.2038 0.0757 0.1394 0.1835 0.2506 0.1413 0.2197 0.5539 0.5173 0.4102 0.4118 0.2551 0.3413 0.2956 0.1505 0.2803 0.3101 0.1976 0.3432 0.3823 0.1767 0.1842 0.0548 0.1099 0.0965 0.1066 -0.2583 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0500 0.0904 0.0349 0.1365 0.0236 0.0487 0.1599 0.2360 0.1280 0.1482 0.2040 0.0742 0.1387 0.1820 0.2534 0.1385 0.2200 0.5536 0.5245 0.4133 0.4179 0.2535 0.3430 0.2998 0.1484 0.2793 0.3124 0.1958 0.3431 0.3862 0.1759 0.1832 0.0557 0.1133 0.0987 0.1093 -0.2599 TFBS_ENCODE.bed NaN 0.0665 0.1121 0.0698 0.1461 0.2391 0.1853 0.3623 0.2901 0.3447 0.3959 0.2658 0.1120 0.1317 0.2958 0.2996 0.3341 0.2757 0.2123 0.2039 0.3007 0.2661 0.2833 0.2679 0.1909 0.2639 0.3496 0.2945 0.2361 0.3235 0.2758 0.0177 0.0410 0.0492 0.1195 0.1539 0.1514 -0.2119 TFBS_ENCODE.extend.500.bed NaN 0.0527 0.0894 0.0496 0.1389 0.1773 0.2777 0.2422 0.4161 0.2203 0.2673 0.3905 0.0708 0.1312 0.2446 0.3362 0.2132 0.3469 0.2904 0.2898 0.3664 0.3477 0.2768 0.3469 0.2949 0.1885 0.3163 0.3556 0.1942 0.3188 0.3452 0.0361 0.0507 0.0776 0.1573 0.1339 0.1368 -0.2460 Transcribed_Hoffman.bed NaN 0.0856 0.1747 0.0248 0.0887 -0.0592 -0.0391 0.0144 0.0577 -0.0258 -0.0250 0.0097 -0.0183 -0.0337 -0.0252 -0.0158 -0.0423 -0.0244 0.1544 0.1548 0.1041 0.1276 0.0626 0.1522 0.1659 -0.0241 0.0333 0.0735 0.0369 0.0836 0.1467 0.3789 0.3841 -0.0250 -0.0520 -0.0222 -0.0089 -0.5565 Transcribed_Hoffman.extend.500.bed NaN 0.0334 0.0698 -0.0026 0.0216 -0.0331 -0.0316 -0.0328 -0.0224 -0.0574 -0.0636 -0.0476 -0.0294 -0.0495 -0.0525 -0.0486 -0.0720 -0.0673 0.0575 0.0577 0.0215 0.0379 -0.0046 0.0253 0.0469 -0.0732 -0.0377 0.0029 -0.0181 -0.0030 0.0416 0.2588 0.2541 -0.0166 -0.0454 -0.0576 -0.0435 -0.2592 TSS_Hoffman.bed NaN 0.0738 0.1592 0.0620 0.1249 0.0251 0.0338 0.2008 0.1349 0.2247 0.2387 0.1525 0.1032 0.1374 0.1809 0.2723 0.2695 0.2146 0.1445 0.1348 0.2317 0.1934 0.1885 0.1479 0.1065 0.3344 0.3485 0.2419 0.2617 0.2902 0.2060 0.0313 0.0727 0.0651 0.2289 0.3187 0.2999 -0.1230 TSS_Hoffman.extend.500.bed NaN 0.0596 0.1363 0.0535 0.1284 0.0407 0.0694 0.1803 0.1790 0.1873 0.2082 0.1922 0.0962 0.1682 0.2905 0.4159 0.2314 0.2558 0.1981 0.1892 0.3124 0.2703 0.2248 0.2073 0.1519 0.2982 0.4092 0.3326 0.2455 0.3476 0.2834 0.0289 0.0623 0.1899 0.3723 0.3539 0.3403 -0.1724 UTR_3_UCSC.bed NaN 0.5753 0.2931 0.0888 0.1098 0.0213 0.0362 0.0403 0.0536 0.0275 0.0331 0.0347 -0.0131 -0.0269 0.0094 0.0151 0.0249 0.0254 0.0469 0.0503 0.0564 0.0558 0.0342 0.0672 0.0545 0.0214 0.0604 0.0670 0.0370 0.0704 0.0815 -0.0759 -0.0092 -0.0035 0.0010 0.0637 0.0671 -0.0638 UTR_3_UCSC.extend.500.bed NaN 0.3915 0.4048 0.0859 0.1592 0.0450 0.0622 0.0497 0.0661 0.0224 0.0274 0.0271 -0.0202 -0.0361 0.0096 0.0143 0.0220 0.0216 0.0659 0.0701 0.0809 0.0852 0.0327 0.0788 0.0695 0.0238 0.0617 0.0657 0.0390 0.0799 0.0976 -0.0229 0.0361 -0.0042 0.0010 0.1205 0.1239 -0.0762 UTR_5_UCSC.bed NaN 0.2720 0.1596 0.0982 0.0752 0.0054 0.0050 0.0466 0.0316 0.0461 0.0535 0.0285 -0.0090 -0.0179 0.0227 0.0368 0.0615 0.0374 0.0319 0.0286 0.0452 0.0445 0.0258 0.0449 0.0340 0.0704 0.0746 0.0553 0.0567 0.0760 0.0575 -0.0214 0.0621 0.0092 0.0233 0.2010 0.1902 -0.0434 UTR_5_UCSC.extend.500.bed NaN 0.1627 0.4248 0.0914 0.1870 0.0051 0.0125 0.0825 0.0776 0.0867 0.0934 0.0648 -0.0158 -0.0239 0.0764 0.0986 0.1093 0.0798 0.0654 0.0622 0.1039 0.0949 0.0639 0.0955 0.0777 0.1387 0.1677 0.1311 0.1165 0.1587 0.1334 0.0888 0.1665 0.0221 0.0789 0.4172 0.3897 -0.0949 WeakEnhancer_Hoffman.bed NaN 0.0185 0.0086 0.0251 0.0685 0.0241 0.0477 0.1607 0.1288 0.1754 0.1936 0.1429 0.0551 0.0726 0.1049 0.1579 0.1582 0.1528 0.1001 0.0953 0.1359 0.1242 0.2219 0.1526 0.1064 0.1226 0.1663 0.1463 0.1322 0.1742 0.1483 0.0133 0.0154 0.0227 0.0608 0.0347 0.0345 -0.1263 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0172 0.0062 0.0301 0.0954 0.0732 0.1080 0.1556 0.2372 0.1701 0.1982 0.2594 0.0538 0.1148 0.1935 0.2991 0.1688 0.2663 0.1893 0.1864 0.2425 0.2332 0.2558 0.2652 0.2147 0.1341 0.2209 0.2565 0.1497 0.2456 0.2668 0.0195 0.0228 0.0570 0.1333 0.0712 0.0712 -0.2113 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 -0.1213 0.0504 0.0500 0.0665 0.0527 0.0856 0.0334 0.0738 0.0596 0.5753 0.3915 0.2720 0.1627 0.0185 0.0172 Coding_UCSC.extend.500.bed -0.2495 0.0899 0.0904 0.1121 0.0894 0.1747 0.0698 0.1592 0.1363 0.2931 0.4048 0.1596 0.4248 0.0086 0.0062 Conserved_LindbladToh.bed -0.0694 0.0355 0.0349 0.0698 0.0496 0.0248 -0.0026 0.0620 0.0535 0.0888 0.0859 0.0982 0.0914 0.0251 0.0301 Conserved_LindbladToh.extend.500.bed -0.2016 0.1376 0.1365 0.1461 0.1389 0.0887 0.0216 0.1249 0.1284 0.1098 0.1592 0.0752 0.1870 0.0685 0.0954 CTCF_Hoffman.bed -0.0588 0.0228 0.0236 0.2391 0.1773 -0.0592 -0.0331 0.0251 0.0407 0.0213 0.0450 0.0054 0.0051 0.0241 0.0732 CTCF_Hoffman.extend.500.bed -0.0742 0.0450 0.0487 0.1853 0.2777 -0.0391 -0.0316 0.0338 0.0694 0.0362 0.0622 0.0050 0.0125 0.0477 0.1080 DGF_ENCODE.bed -0.1893 0.1611 0.1599 0.3623 0.2422 0.0144 -0.0328 0.2008 0.1803 0.0403 0.0497 0.0466 0.0825 0.1607 0.1556 DGF_ENCODE.extend.500.bed -0.2736 0.2346 0.2360 0.2901 0.4161 0.0577 -0.0224 0.1349 0.1790 0.0536 0.0661 0.0316 0.0776 0.1288 0.2372 DHS_peaks_Trynka.bed -0.1561 0.1300 0.1280 0.3447 0.2203 -0.0258 -0.0574 0.2247 0.1873 0.0275 0.0224 0.0461 0.0867 0.1754 0.1701 DHS_Trynka.bed -0.1832 0.1508 0.1482 0.3959 0.2673 -0.0250 -0.0636 0.2387 0.2082 0.0331 0.0274 0.0535 0.0934 0.1936 0.1982 DHS_Trynka.extend.500.bed -0.2264 0.2038 0.2040 0.2658 0.3905 0.0097 -0.0476 0.1525 0.1922 0.0347 0.0271 0.0285 0.0648 0.1429 0.2594 Enhancer_Andersson.bed -0.0539 0.0757 0.0742 0.1120 0.0708 -0.0183 -0.0294 0.1032 0.0962 -0.0131 -0.0202 -0.0090 -0.0158 0.0551 0.0538 Enhancer_Andersson.extend.500.bed -0.0995 0.1394 0.1387 0.1317 0.1312 -0.0337 -0.0495 0.1374 0.1682 -0.0269 -0.0361 -0.0179 -0.0239 0.0726 0.1148 Enhancer_Hoffman.bed -0.2307 0.1835 0.1820 0.2958 0.2446 -0.0252 -0.0525 0.1809 0.2905 0.0094 0.0096 0.0227 0.0764 0.1049 0.1935 Enhancer_Hoffman.extend.500.bed -0.3066 0.2506 0.2534 0.2996 0.3362 -0.0158 -0.0486 0.2723 0.4159 0.0151 0.0143 0.0368 0.0986 0.1579 0.2991 FetalDHS_Trynka.bed -0.1548 0.1413 0.1385 0.3341 0.2132 -0.0423 -0.0720 0.2695 0.2314 0.0249 0.0220 0.0615 0.1093 0.1582 0.1688 FetalDHS_Trynka.extend.500.bed -0.2109 0.2197 0.2200 0.2757 0.3469 -0.0244 -0.0673 0.2146 0.2558 0.0254 0.0216 0.0374 0.0798 0.1528 0.2663 H3K27ac_Hnisz.bed -0.3677 0.5539 0.5536 0.2123 0.2904 0.1544 0.0575 0.1445 0.1981 0.0469 0.0659 0.0319 0.0654 0.1001 0.1893 H3K27ac_Hnisz.extend.500.bed -0.3618 0.5173 0.5245 0.2039 0.2898 0.1548 0.0577 0.1348 0.1892 0.0503 0.0701 0.0286 0.0622 0.0953 0.1864 H3K27ac_PGC2.bed -0.3817 0.4102 0.4133 0.3007 0.3664 0.1041 0.0215 0.2317 0.3124 0.0564 0.0809 0.0452 0.1039 0.1359 0.2425 H3K27ac_PGC2.extend.500.bed -0.3851 0.4118 0.4179 0.2661 0.3477 0.1276 0.0379 0.1934 0.2703 0.0558 0.0852 0.0445 0.0949 0.1242 0.2332 H3K4me1_peaks_Trynka.bed -0.2805 0.2551 0.2535 0.2833 0.2768 0.0626 -0.0046 0.1885 0.2248 0.0342 0.0327 0.0258 0.0639 0.2219 0.2558 H3K4me1_Trynka.bed -0.4050 0.3413 0.3430 0.2679 0.3469 0.1522 0.0253 0.1479 0.2073 0.0672 0.0788 0.0449 0.0955 0.1526 0.2652 H3K4me1_Trynka.extend.500.bed -0.3669 0.2956 0.2998 0.1909 0.2949 0.1659 0.0469 0.1065 0.1519 0.0545 0.0695 0.0340 0.0777 0.1064 0.2147 H3K4me3_peaks_Trynka.bed -0.1749 0.1505 0.1484 0.2639 0.1885 -0.0241 -0.0732 0.3344 0.2982 0.0214 0.0238 0.0704 0.1387 0.1226 0.1341 H3K4me3_Trynka.bed -0.3161 0.2803 0.2793 0.3496 0.3163 0.0333 -0.0377 0.3485 0.4092 0.0604 0.0617 0.0746 0.1677 0.1663 0.2209 H3K4me3_Trynka.extend.500.bed -0.3440 0.3101 0.3124 0.2945 0.3556 0.0735 0.0029 0.2419 0.3326 0.0670 0.0657 0.0553 0.1311 0.1463 0.2565 H3K9ac_peaks_Trynka.bed -0.2120 0.1976 0.1958 0.2361 0.1942 0.0369 -0.0181 0.2617 0.2455 0.0370 0.0390 0.0567 0.1165 0.1322 0.1497 H3K9ac_Trynka.bed -0.3732 0.3432 0.3431 0.3235 0.3188 0.0836 -0.0030 0.2902 0.3476 0.0704 0.0799 0.0760 0.1587 0.1742 0.2456 H3K9ac_Trynka.extend.500.bed -0.4378 0.3823 0.3862 0.2758 0.3452 0.1467 0.0416 0.2060 0.2834 0.0815 0.0976 0.0575 0.1334 0.1483 0.2668 Intron_UCSC.bed -0.3691 0.1767 0.1759 0.0177 0.0361 0.3789 0.2588 0.0313 0.0289 -0.0759 -0.0229 -0.0214 0.0888 0.0133 0.0195 Intron_UCSC.extend.500.bed -0.3931 0.1842 0.1832 0.0410 0.0507 0.3841 0.2541 0.0727 0.0623 -0.0092 0.0361 0.0621 0.1665 0.0154 0.0228 PromoterFlanking_Hoffman.bed -0.0824 0.0548 0.0557 0.0492 0.0776 -0.0250 -0.0166 0.0651 0.1899 -0.0035 -0.0042 0.0092 0.0221 0.0227 0.0570 PromoterFlanking_Hoffman.extend.500.bed -0.1455 0.1099 0.1133 0.1195 0.1573 -0.0520 -0.0454 0.2289 0.3723 0.0010 0.0010 0.0233 0.0789 0.0608 0.1333 Promoter_UCSC.bed -0.1542 0.0965 0.0987 0.1539 0.1339 -0.0222 -0.0576 0.3187 0.3539 0.0637 0.1205 0.2010 0.4172 0.0347 0.0712 Promoter_UCSC.extend.500.bed -0.1642 0.1066 0.1093 0.1514 0.1368 -0.0089 -0.0435 0.2999 0.3403 0.0671 0.1239 0.1902 0.3897 0.0345 0.0712 Repressed_Hoffman.bed 0.6365 -0.2583 -0.2599 -0.2119 -0.2460 -0.5565 -0.2592 -0.1230 -0.1724 -0.0638 -0.0762 -0.0434 -0.0949 -0.1263 -0.2113 Repressed_Hoffman.extend.500.bed 1.0000 -0.3423 -0.3438 -0.2305 -0.2713 -0.4687 -0.2187 -0.1906 -0.2488 -0.0907 -0.1042 -0.0668 -0.1470 -0.1366 -0.2194 SuperEnhancer_Hnisz.bed -0.3423 1.0000 0.9862 0.1871 0.2300 0.1490 0.0768 0.1702 0.2224 0.0407 0.0500 0.0287 0.0650 0.0986 0.1744 SuperEnhancer_Hnisz.extend.500.bed -0.3438 0.9862 1.0000 0.1855 0.2330 0.1502 0.0781 0.1684 0.2234 0.0395 0.0504 0.0277 0.0642 0.0986 0.1752 TFBS_ENCODE.bed -0.2305 0.1871 0.1855 1.0000 0.5474 -0.0226 -0.0741 0.3098 0.3047 0.0518 0.0872 0.0554 0.1194 0.1681 0.1903 TFBS_ENCODE.extend.500.bed -0.2713 0.2300 0.2330 0.5474 1.0000 0.0062 -0.0489 0.2017 0.2699 0.0469 0.0806 0.0349 0.0825 0.1494 0.2626 Transcribed_Hoffman.bed -0.4687 0.1490 0.1502 -0.0226 0.0062 1.0000 0.5589 -0.0793 -0.0695 0.0808 0.0886 0.0139 0.0315 -0.0249 -0.0404 Transcribed_Hoffman.extend.500.bed -0.2187 0.0768 0.0781 -0.0741 -0.0489 0.5589 1.0000 -0.1180 -0.0957 0.0437 0.0324 -0.0180 -0.0366 -0.0353 -0.0407 TSS_Hoffman.bed -0.1906 0.1702 0.1684 0.3098 0.2017 -0.0793 -0.1180 1.0000 0.7019 0.0251 0.0421 0.1244 0.2561 0.0689 0.0981 TSS_Hoffman.extend.500.bed -0.2488 0.2224 0.2234 0.3047 0.2699 -0.0695 -0.0957 0.7019 1.0000 0.0226 0.0418 0.0941 0.2205 0.0968 0.1762 UTR_3_UCSC.bed -0.0907 0.0407 0.0395 0.0518 0.0469 0.0808 0.0437 0.0251 0.0226 1.0000 0.6073 0.0977 0.0561 0.0201 0.0225 UTR_3_UCSC.extend.500.bed -0.1042 0.0500 0.0504 0.0872 0.0806 0.0886 0.0324 0.0421 0.0418 0.6073 1.0000 0.0899 0.1127 0.0125 0.0091 UTR_5_UCSC.bed -0.0668 0.0287 0.0277 0.0554 0.0349 0.0139 -0.0180 0.1244 0.0941 0.0977 0.0899 1.0000 0.4586 0.0045 0.0047 UTR_5_UCSC.extend.500.bed -0.1470 0.0650 0.0642 0.1194 0.0825 0.0315 -0.0366 0.2561 0.2205 0.0561 0.1127 0.4586 1.0000 0.0138 0.0264 WeakEnhancer_Hoffman.bed -0.1366 0.0986 0.0986 0.1681 0.1494 -0.0249 -0.0353 0.0689 0.0968 0.0201 0.0125 0.0045 0.0138 1.0000 0.4732 WeakEnhancer_Hoffman.extend.500.bed -0.2194 0.1744 0.1752 0.1903 0.2626 -0.0404 -0.0407 0.0981 0.1762 0.0225 0.0091 0.0047 0.0264 0.4732 1.0000 Annotation Matrix Column Sums base 141123.0 Coding_UCSC.bed 4200.0 Coding_UCSC.extend.500.bed 16618.0 Conserved_LindbladToh.bed 3762.0 Conserved_LindbladToh.extend.500.bed 48734.0 CTCF_Hoffman.bed 5351.0 CTCF_Hoffman.extend.500.bed 16238.0 DGF_ENCODE.bed 26172.0 DGF_ENCODE.extend.500.bed 92791.0 DHS_peaks_Trynka.bed 18923.0 DHS_Trynka.bed 27579.0 DHS_Trynka.extend.500.bed 79689.0 Enhancer_Andersson.bed 939.0 Enhancer_Andersson.extend.500.bed 3946.0 Enhancer_Hoffman.bed 8453.0 Enhancer_Hoffman.extend.500.bed 18791.0 FetalDHS_Trynka.bed 15552.0 FetalDHS_Trynka.extend.500.bed 51003.0 H3K27ac_Hnisz.bed 82654.0 H3K27ac_Hnisz.extend.500.bed 87275.0 H3K27ac_PGC2.bed 56443.0 H3K27ac_PGC2.extend.500.bed 69406.0 H3K4me1_peaks_Trynka.bed 35639.0 H3K4me1_Trynka.bed 82486.0 H3K4me1_Trynka.extend.500.bed 107463.0 H3K4me3_peaks_Trynka.bed 8813.0 H3K4me3_Trynka.bed 28100.0 H3K4me3_Trynka.extend.500.bed 51373.0 H3K9ac_peaks_Trynka.bed 11685.0 H3K9ac_Trynka.bed 35563.0 H3K9ac_Trynka.extend.500.bed 62254.0 Intron_UCSC.bed 64928.0 Intron_UCSC.extend.500.bed 67967.0 PromoterFlanking_Hoffman.bed 1650.0 PromoterFlanking_Hoffman.extend.500.bed 7028.0 Promoter_UCSC.bed 13176.0 Promoter_UCSC.extend.500.bed 16084.0 Repressed_Hoffman.bed 40789.0 Repressed_Hoffman.extend.500.bed 70678.0 SuperEnhancer_Hnisz.bed 42691.0 SuperEnhancer_Hnisz.extend.500.bed 43522.0 TFBS_ENCODE.bed 29349.0 TFBS_ENCODE.extend.500.bed 65909.0 Transcribed_Hoffman.bed 61330.0 Transcribed_Hoffman.extend.500.bed 100344.0 TSS_Hoffman.bed 5064.0 TSS_Hoffman.extend.500.bed 9912.0 UTR_3_UCSC.bed 3538.0 UTR_3_UCSC.extend.500.bed 9198.0 UTR_5_UCSC.bed 1691.0 UTR_5_UCSC.extend.500.bed 7693.0 WeakEnhancer_Hoffman.bed 5329.0 WeakEnhancer_Hoffman.extend.500.bed 21043.0 Summary of Annotation Matrix Row Sums count 141123.0000 mean 14.0865 std 7.5680 min 1.0000 25% 8.0000 50% 13.0000 75% 19.0000 max 42.0000 Analysis finished at Tue Oct 17 16:53:58 2017 Total time elapsed: 12.0m:42.77s