********************************************************************* * 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.14.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.14 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.14 \ --annot 1000G_Phase3_baseline_v1.1/baseline.14.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 324698 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.14.bim Read 53 annotations for 324698 SNPs from 1000G_Phase3_baseline_v1.1/baseline.14.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.14.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.14.bed Estimating LD Score. Reading list of 45556 SNPs for which to print LD Scores from hapmap3_snps/hm.14.snp After merging with --print-snps, LD Scores for 39504 SNPs will be printed. Writing LD Scores for 39504 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.14.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.14.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 0.2308 118.6593 1.5890 7.5909 3.4588 44.2335 2.7055 8.1350 14.1056 58.4627 11.6468 17.6508 53.9265 0.4695 1.9596 4.6933 10.0640 8.8091 29.8980 39.7518 43.3300 28.9514 36.1785 18.6321 46.6880 68.2243 4.4650 14.5779 27.9355 4.2277 13.2323 24.6181 52.3103 53.2518 1.2334 4.2896 5.2888 std 0.1432 129.4248 2.8566 12.7983 4.0860 49.4859 3.1443 8.7880 13.6215 55.8455 10.7868 16.2581 50.8871 0.9409 3.1223 6.3683 12.7661 8.2875 26.9635 44.2508 47.1432 31.5374 38.8350 19.5531 48.0556 69.8858 5.3521 17.4417 31.8916 5.8414 16.8325 29.7913 92.4993 93.3163 2.2422 6.6166 8.0456 min 0.0051 -1.0108 -0.2459 -0.6853 -0.2057 -0.7959 -0.1026 -0.2490 -0.1526 -0.6922 -0.2049 -0.2893 -0.4793 -0.0835 -0.1554 -0.2337 -0.4979 -0.2523 -0.9257 -0.7962 -0.9678 -0.6838 -0.7906 -0.3702 -0.5328 -1.0906 -0.2243 -0.6420 -0.8498 -0.1668 -0.4003 -0.6823 -2.8723 -2.9188 -0.0976 -0.2332 -0.5169 25% 0.1053 47.1646 0.0398 0.2463 1.1568 17.9930 0.7316 2.6479 5.5275 25.1063 4.8525 7.6242 24.2149 0.0173 0.1841 0.5292 1.4915 3.5021 13.1988 9.9627 12.2281 8.2025 10.9400 6.4276 18.0765 28.1253 1.1462 4.3290 9.7252 0.6170 2.4421 5.7578 3.1621 3.3632 0.0759 0.4649 0.3614 50% 0.2188 83.8980 0.3021 1.8092 2.4146 31.9778 1.7518 5.4701 9.9833 43.5655 8.6763 13.3002 41.2279 0.1000 0.7919 2.1263 5.1030 6.4676 22.8910 24.9993 27.7810 18.2496 23.1624 12.2341 32.2009 48.5546 2.6676 9.2538 18.7810 2.0120 6.8489 13.7167 21.9670 22.8143 0.3562 1.7827 1.9493 75% 0.3497 146.0069 1.8396 8.5956 4.4404 53.6743 3.5441 10.3467 17.9051 73.6088 14.7683 22.3901 67.7872 0.4921 2.2938 6.4663 14.1778 11.3534 38.0758 54.0511 57.4256 38.5974 47.7592 23.9139 57.7352 83.0941 5.7600 18.2521 34.4377 5.4894 17.7233 32.1244 66.8269 67.9286 1.3217 5.2156 6.6857 max 0.5000 1349.6036 44.5140 84.5300 40.8973 509.9955 51.0082 119.0019 108.7432 527.7163 89.4800 143.8271 507.4179 11.5908 29.5506 53.4405 101.2540 62.8801 236.1070 428.8373 429.1609 284.8348 332.9185 142.8757 410.9138 664.6397 41.1975 161.2033 303.0258 52.0987 126.2623 202.6017 929.4445 934.4038 20.3266 48.7250 83.3652 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 6.4738 49.5025 81.9407 16.3427 16.6410 13.6751 36.9258 52.8706 102.4938 2.0011 3.7940 1.2969 3.3948 0.6663 3.3207 2.2120 9.6360 std 9.7948 57.2718 99.8314 26.4268 26.7325 14.5358 36.7458 76.1162 118.1613 3.3444 5.9483 2.3886 6.1982 1.3950 7.0890 2.6865 10.8864 min -0.6551 -1.2250 -1.0234 -1.0703 -1.0924 -0.3328 -0.6698 -3.0432 -4.0829 -0.1405 -0.2602 -0.1126 -0.2672 -0.0761 -0.3110 -0.1078 -0.2292 25% 0.4541 13.9067 26.2977 0.2598 0.2702 4.8058 14.7805 15.0820 38.2391 0.0638 0.1851 0.0382 0.1687 0.0114 0.1292 0.4180 2.5485 50% 2.4244 31.5787 54.0673 3.6693 3.7957 9.0491 25.9816 30.4405 70.2199 0.4997 1.2279 0.2830 0.9573 0.1102 0.8813 1.2655 5.9733 75% 8.1773 63.2257 102.2282 23.6892 24.2347 17.5376 46.6315 62.9295 127.9205 2.4855 4.8743 1.4396 3.7067 0.6995 3.8893 2.9744 12.4392 max 88.2451 462.1447 1008.2570 425.8454 426.1560 115.9600 327.0096 789.8552 1245.6218 32.4719 50.9540 28.8928 57.6922 23.5484 248.2437 27.4370 81.6793 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 0.0746 0.0636 0.0395 0.0425 0.0624 0.1110 0.1231 0.0974 0.1004 0.1080 0.1030 0.0970 0.0403 0.0330 0.0834 0.0958 0.1054 0.1103 0.1018 0.1004 0.1060 0.1046 0.0966 0.0869 0.0799 0.0620 0.0624 0.0696 0.0884 0.0905 0.0877 0.0216 0.0225 0.0156 0.0489 baseL2 0.0746 1.0000 0.3831 0.5627 0.7967 0.9093 0.7234 0.7750 0.7876 0.9129 0.8016 0.8377 0.9244 0.3322 0.4610 0.4044 0.4605 0.7297 0.8275 0.5833 0.6304 0.6403 0.6710 0.7020 0.8053 0.8872 0.6960 0.7785 0.8364 0.4660 0.4860 0.5815 0.8501 0.8500 0.6397 0.6815 Coding_UCSC.bedL2 0.0636 0.3831 1.0000 0.8565 0.4142 0.5031 0.4529 0.4887 0.6216 0.5516 0.5583 0.5399 0.5108 0.3450 0.3941 0.5295 0.5943 0.5544 0.5290 0.6235 0.6286 0.6195 0.6270 0.6317 0.6237 0.5796 0.6246 0.6075 0.5786 0.7190 0.7357 0.7459 0.4550 0.4667 0.6362 0.6779 Coding_UCSC.extend.500.bedL2 0.0395 0.5627 0.8565 1.0000 0.5505 0.6937 0.5564 0.5843 0.7615 0.7206 0.7063 0.6999 0.6901 0.4028 0.4841 0.5960 0.6655 0.6867 0.6850 0.7342 0.7511 0.7373 0.7553 0.7623 0.7903 0.7659 0.7379 0.7348 0.7224 0.7716 0.8015 0.8494 0.6729 0.6827 0.7744 0.8197 Conserved_LindbladToh.bedL2 0.0425 0.7967 0.4142 0.5505 1.0000 0.9062 0.5579 0.5875 0.7064 0.7895 0.7359 0.7604 0.8107 0.2932 0.4062 0.4146 0.4523 0.6722 0.7427 0.5591 0.5976 0.5888 0.6194 0.6601 0.7376 0.7881 0.6130 0.6760 0.7169 0.4420 0.4650 0.5528 0.7837 0.7846 0.5781 0.5917 Conserved_LindbladToh.extend.500.bedL2 0.0624 0.9093 0.5031 0.6937 0.9062 1.0000 0.6877 0.7215 0.8475 0.9287 0.8650 0.8890 0.9417 0.3923 0.5208 0.5243 0.5777 0.8003 0.8758 0.6967 0.7389 0.7403 0.7708 0.8055 0.8879 0.9365 0.7461 0.8119 0.8555 0.5674 0.5952 0.6947 0.9065 0.9081 0.7154 0.7450 CTCF_Hoffman.bedL2 0.1110 0.7234 0.4529 0.5564 0.5579 0.6877 1.0000 0.9496 0.7502 0.7803 0.7193 0.7302 0.7507 0.3918 0.4744 0.5069 0.5627 0.6891 0.7268 0.6679 0.6939 0.6860 0.7010 0.6786 0.7323 0.7538 0.6951 0.7459 0.7769 0.5476 0.5601 0.6220 0.6394 0.6421 0.5507 0.6200 CTCF_Hoffman.extend.500.bedL2 0.1231 0.7750 0.4887 0.5843 0.5875 0.7215 0.9496 1.0000 0.7820 0.8210 0.7467 0.7610 0.7876 0.3965 0.4825 0.5317 0.5937 0.7121 0.7580 0.6926 0.7195 0.7126 0.7298 0.7100 0.7615 0.7850 0.7268 0.7700 0.8038 0.5869 0.5954 0.6563 0.6738 0.6767 0.5756 0.6505 DGF_ENCODE.bedL2 0.0974 0.7876 0.6216 0.7615 0.7064 0.8475 0.7502 0.7820 1.0000 0.9549 0.9627 0.9604 0.9307 0.5594 0.6667 0.7681 0.8246 0.9338 0.9411 0.8996 0.9194 0.9212 0.9324 0.9505 0.9620 0.9457 0.9054 0.9227 0.9348 0.8159 0.8424 0.8926 0.7855 0.7900 0.7430 0.8244 DGF_ENCODE.extend.500.bedL2 0.1004 0.9129 0.5516 0.7206 0.7895 0.9287 0.7803 0.8210 0.9549 1.0000 0.9481 0.9638 0.9872 0.4856 0.6064 0.6542 0.7186 0.8978 0.9506 0.8276 0.8610 0.8649 0.8866 0.9031 0.9575 0.9813 0.8547 0.9060 0.9436 0.7018 0.7286 0.8078 0.8589 0.8617 0.7408 0.8106 DHS_peaks_Trynka.bedL2 0.1080 0.8016 0.5583 0.7063 0.7359 0.8650 0.7193 0.7467 0.9627 0.9481 1.0000 0.9893 0.9501 0.5404 0.6457 0.7366 0.7842 0.9681 0.9697 0.8758 0.8978 0.9008 0.9123 0.9407 0.9559 0.9437 0.8704 0.8955 0.9193 0.7619 0.7880 0.8427 0.7882 0.7917 0.7118 0.7822 DHS_Trynka.bedL2 0.1030 0.8377 0.5399 0.6999 0.7604 0.8890 0.7302 0.7610 0.9604 0.9638 0.9893 1.0000 0.9704 0.5238 0.6381 0.7134 0.7619 0.9604 0.9766 0.8617 0.8869 0.8894 0.9032 0.9347 0.9595 0.9575 0.8690 0.8999 0.9287 0.7443 0.7687 0.8285 0.8167 0.8197 0.7133 0.7796 DHS_Trynka.extend.500.bedL2 0.0970 0.9244 0.5108 0.6901 0.8107 0.9417 0.7507 0.7876 0.9307 0.9872 0.9501 0.9704 1.0000 0.4619 0.5906 0.6200 0.6795 0.9002 0.9626 0.7986 0.8339 0.8372 0.8594 0.8908 0.9497 0.9790 0.8333 0.8891 0.9319 0.6706 0.6939 0.7757 0.8734 0.8754 0.7254 0.7860 Enhancer_Andersson.bedL2 0.0403 0.3322 0.3450 0.4028 0.2932 0.3923 0.3918 0.3965 0.5594 0.4856 0.5404 0.5238 0.4619 1.0000 0.8824 0.6246 0.5947 0.5693 0.5120 0.5588 0.5550 0.5699 0.5581 0.5566 0.5184 0.4739 0.5690 0.5326 0.5041 0.5027 0.5317 0.5253 0.3779 0.3815 0.3924 0.4443 Enhancer_Andersson.extend.500.bedL2 0.0330 0.4610 0.3941 0.4841 0.4062 0.5208 0.4744 0.4825 0.6667 0.6064 0.6457 0.6381 0.5906 0.8824 1.0000 0.6713 0.6428 0.6591 0.6279 0.6344 0.6377 0.6557 0.6471 0.6608 0.6363 0.6006 0.6701 0.6488 0.6309 0.5800 0.6078 0.6136 0.4968 0.5001 0.4978 0.5531 Enhancer_Hoffman.bedL2 0.0834 0.4044 0.5295 0.5960 0.4146 0.5243 0.5069 0.5317 0.7681 0.6542 0.7366 0.7134 0.6200 0.6246 0.6713 1.0000 0.9656 0.7571 0.7086 0.8063 0.7987 0.8243 0.8089 0.8089 0.7290 0.6465 0.7571 0.7139 0.6924 0.7935 0.8100 0.8013 0.4771 0.4828 0.5593 0.6465 Enhancer_Hoffman.extend.500.bedL2 0.0958 0.4605 0.5943 0.6655 0.4523 0.5777 0.5627 0.5937 0.8246 0.7186 0.7842 0.7619 0.6795 0.5947 0.6428 0.9656 1.0000 0.7967 0.7600 0.8654 0.8612 0.8795 0.8701 0.8606 0.7916 0.7130 0.7930 0.7616 0.7456 0.8452 0.8633 0.8653 0.5267 0.5332 0.6289 0.7283 FetalDHS_Trynka.bedL2 0.1054 0.7297 0.5544 0.6867 0.6722 0.8003 0.6891 0.7121 0.9338 0.8978 0.9681 0.9604 0.9002 0.5693 0.6591 0.7571 0.7967 1.0000 0.9641 0.8842 0.8986 0.9034 0.9076 0.9367 0.9311 0.9005 0.8782 0.8834 0.8959 0.7891 0.8085 0.8477 0.7197 0.7238 0.6846 0.7601 FetalDHS_Trynka.extend.500.bedL2 0.1103 0.8275 0.5290 0.6850 0.7427 0.8758 0.7268 0.7580 0.9411 0.9506 0.9697 0.9766 0.9626 0.5120 0.6279 0.7086 0.7600 0.9641 1.0000 0.8630 0.8864 0.8927 0.9043 0.9379 0.9584 0.9519 0.8639 0.8944 0.9258 0.7452 0.7668 0.8265 0.7970 0.8000 0.7049 0.7729 H3K27ac_Hnisz.bedL2 0.1018 0.5833 0.6235 0.7342 0.5591 0.6967 0.6679 0.6926 0.8996 0.8276 0.8758 0.8617 0.7986 0.5588 0.6344 0.8063 0.8654 0.8842 0.8630 1.0000 0.9969 0.9633 0.9648 0.9298 0.9099 0.8462 0.8692 0.8557 0.8613 0.8431 0.8706 0.9056 0.6522 0.6581 0.6744 0.7570 H3K27ac_Hnisz.extend.500.bedL2 0.1004 0.6304 0.6286 0.7511 0.5976 0.7389 0.6939 0.7195 0.9194 0.8610 0.8978 0.8869 0.8339 0.5550 0.6377 0.7987 0.8612 0.8986 0.8864 0.9969 1.0000 0.9684 0.9734 0.9417 0.9323 0.8784 0.8798 0.8753 0.8854 0.8373 0.8665 0.9096 0.6902 0.6959 0.7003 0.7811 H3K27ac_PGC2.bedL2 0.1060 0.6403 0.6195 0.7373 0.5888 0.7403 0.6860 0.7126 0.9212 0.8649 0.9008 0.8894 0.8372 0.5699 0.6557 0.8243 0.8795 0.9034 0.8927 0.9633 0.9684 1.0000 0.9959 0.9517 0.9325 0.8765 0.8932 0.8881 0.8943 0.8454 0.8698 0.9070 0.6932 0.6986 0.7042 0.7851 H3K27ac_PGC2.extend.500.bedL2 0.1046 0.6710 0.6270 0.7553 0.6194 0.7708 0.7010 0.7298 0.9324 0.8866 0.9123 0.9032 0.8594 0.5581 0.6471 0.8089 0.8701 0.9076 0.9043 0.9648 0.9734 0.9959 1.0000 0.9549 0.9472 0.8994 0.8918 0.8923 0.9038 0.8355 0.8622 0.9089 0.7204 0.7258 0.7206 0.8003 H3K4me1_peaks_Trynka.bedL2 0.0966 0.7020 0.6317 0.7623 0.6601 0.8055 0.6786 0.7100 0.9505 0.9031 0.9407 0.9347 0.8908 0.5566 0.6608 0.8089 0.8606 0.9367 0.9379 0.9298 0.9417 0.9517 0.9549 1.0000 0.9698 0.9228 0.9098 0.9112 0.9190 0.8631 0.8832 0.9205 0.7556 0.7605 0.7569 0.8258 H3K4me1_Trynka.bedL2 0.0869 0.8053 0.6237 0.7903 0.7376 0.8879 0.7323 0.7615 0.9620 0.9575 0.9559 0.9595 0.9497 0.5184 0.6363 0.7290 0.7916 0.9311 0.9584 0.9099 0.9323 0.9325 0.9472 0.9698 1.0000 0.9822 0.8970 0.9252 0.9496 0.7954 0.8246 0.8925 0.8335 0.8379 0.7867 0.8490 H3K4me1_Trynka.extend.500.bedL2 0.0799 0.8872 0.5796 0.7659 0.7881 0.9365 0.7538 0.7850 0.9457 0.9813 0.9437 0.9575 0.9790 0.4739 0.6006 0.6465 0.7130 0.9005 0.9519 0.8462 0.8784 0.8765 0.8994 0.9228 0.9822 1.0000 0.8622 0.9099 0.9460 0.7163 0.7448 0.8306 0.8796 0.8828 0.7817 0.8371 H3K4me3_peaks_Trynka.bedL2 0.0620 0.6960 0.6246 0.7379 0.6130 0.7461 0.6951 0.7268 0.9054 0.8547 0.8704 0.8690 0.8333 0.5690 0.6701 0.7571 0.7930 0.8782 0.8639 0.8692 0.8798 0.8932 0.8918 0.9098 0.8970 0.8622 1.0000 0.9539 0.9252 0.8474 0.8626 0.8783 0.6952 0.7008 0.7379 0.8165 H3K4me3_Trynka.bedL2 0.0624 0.7785 0.6075 0.7348 0.6760 0.8119 0.7459 0.7700 0.9227 0.9060 0.8955 0.8999 0.8891 0.5326 0.6488 0.7139 0.7616 0.8834 0.8944 0.8557 0.8753 0.8881 0.8923 0.9112 0.9252 0.9099 0.9539 1.0000 0.9806 0.7997 0.8268 0.8625 0.7551 0.7596 0.7515 0.8289 H3K4me3_Trynka.extend.500.bedL2 0.0696 0.8364 0.5786 0.7224 0.7169 0.8555 0.7769 0.8038 0.9348 0.9436 0.9193 0.9287 0.9319 0.5041 0.6309 0.6924 0.7456 0.8959 0.9258 0.8613 0.8854 0.8943 0.9038 0.9190 0.9496 0.9460 0.9252 0.9806 1.0000 0.7643 0.7897 0.8445 0.8006 0.8042 0.7497 0.8223 H3K9ac_peaks_Trynka.bedL2 0.0884 0.4660 0.7190 0.7716 0.4420 0.5674 0.5476 0.5869 0.8159 0.7018 0.7619 0.7443 0.6706 0.5027 0.5800 0.7935 0.8452 0.7891 0.7452 0.8431 0.8373 0.8454 0.8355 0.8631 0.7954 0.7163 0.8474 0.7997 0.7643 1.0000 0.9745 0.9465 0.5411 0.5495 0.6720 0.7640 H3K9ac_Trynka.bedL2 0.0905 0.4860 0.7357 0.8015 0.4650 0.5952 0.5601 0.5954 0.8424 0.7286 0.7880 0.7687 0.6939 0.5317 0.6078 0.8100 0.8633 0.8085 0.7668 0.8706 0.8665 0.8698 0.8622 0.8832 0.8246 0.7448 0.8626 0.8268 0.7897 0.9745 1.0000 0.9767 0.5530 0.5617 0.7043 0.7933 H3K9ac_Trynka.extend.500.bedL2 0.0877 0.5815 0.7459 0.8494 0.5528 0.6947 0.6220 0.6563 0.8926 0.8078 0.8427 0.8285 0.7757 0.5253 0.6136 0.8013 0.8653 0.8477 0.8265 0.9056 0.9096 0.9070 0.9089 0.9205 0.8925 0.8306 0.8783 0.8625 0.8445 0.9465 0.9767 1.0000 0.6480 0.6560 0.7563 0.8433 Intron_UCSC.bedL2 0.0216 0.8501 0.4550 0.6729 0.7837 0.9065 0.6394 0.6738 0.7855 0.8589 0.7882 0.8167 0.8734 0.3779 0.4968 0.4771 0.5267 0.7197 0.7970 0.6522 0.6902 0.6932 0.7204 0.7556 0.8335 0.8796 0.6952 0.7551 0.8006 0.5411 0.5530 0.6480 1.0000 0.9999 0.6448 0.6863 Intron_UCSC.extend.500.bedL2 0.0225 0.8500 0.4667 0.6827 0.7846 0.9081 0.6421 0.6767 0.7900 0.8617 0.7917 0.8197 0.8754 0.3815 0.5001 0.4828 0.5332 0.7238 0.8000 0.6581 0.6959 0.6986 0.7258 0.7605 0.8379 0.8828 0.7008 0.7596 0.8042 0.5495 0.5617 0.6560 0.9999 1.0000 0.6520 0.6934 PromoterFlanking_Hoffman.bedL2 0.0156 0.6397 0.6362 0.7744 0.5781 0.7154 0.5507 0.5756 0.7430 0.7408 0.7118 0.7133 0.7254 0.3924 0.4978 0.5593 0.6289 0.6846 0.7049 0.6744 0.7003 0.7042 0.7206 0.7569 0.7867 0.7817 0.7379 0.7515 0.7497 0.6720 0.7043 0.7563 0.6448 0.6520 1.0000 0.9263 PromoterFlanking_Hoffman.extend.500.bedL2 0.0489 0.6815 0.6779 0.8197 0.5917 0.7450 0.6200 0.6505 0.8244 0.8106 0.7822 0.7796 0.7860 0.4443 0.5531 0.6465 0.7283 0.7601 0.7729 0.7570 0.7811 0.7851 0.8003 0.8258 0.8490 0.8371 0.8165 0.8289 0.8223 0.7640 0.7933 0.8433 0.6863 0.6934 0.9263 1.0000 Promoter_UCSC.bedL2 0.1036 0.3943 0.7096 0.7498 0.3481 0.4752 0.5180 0.5419 0.6108 0.5494 0.5430 0.5285 0.5119 0.3601 0.4049 0.5122 0.5784 0.5520 0.5311 0.6294 0.6356 0.6303 0.6365 0.6099 0.6114 0.5743 0.6548 0.6352 0.5903 0.6533 0.6788 0.6999 0.4390 0.4482 0.6197 0.6712 Promoter_UCSC.extend.500.bedL2 0.1048 0.4061 0.7288 0.7660 0.3617 0.4894 0.5301 0.5537 0.6218 0.5614 0.5519 0.5378 0.5231 0.3630 0.4083 0.5171 0.5862 0.5610 0.5414 0.6387 0.6457 0.6389 0.6463 0.6206 0.6243 0.5878 0.6623 0.6443 0.6008 0.6652 0.6895 0.7138 0.4522 0.4615 0.6364 0.6890 Repressed_Hoffman.bedL2 0.0991 0.8219 0.0377 0.1436 0.5732 0.6132 0.4398 0.4875 0.4099 0.5868 0.4727 0.5187 0.6286 0.0969 0.1878 0.0235 0.0474 0.4067 0.5138 0.1835 0.2276 0.2410 0.2681 0.3060 0.4218 0.5389 0.3482 0.4301 0.4945 0.0723 0.0868 0.1568 0.5269 0.5237 0.3108 0.3152 Repressed_Hoffman.extend.500.bedL2 0.0760 0.9084 0.1084 0.2558 0.6854 0.7401 0.5425 0.5844 0.5338 0.7070 0.5885 0.6363 0.7475 0.1632 0.2776 0.1217 0.1522 0.5142 0.6281 0.3038 0.3517 0.3603 0.3901 0.4351 0.5559 0.6693 0.4602 0.5550 0.6232 0.1702 0.1829 0.2695 0.6737 0.6705 0.4102 0.4244 SuperEnhancer_Hnisz.bedL2 0.0813 0.2579 0.4358 0.4805 0.2519 0.3403 0.4189 0.4347 0.6363 0.5018 0.5897 0.5704 0.4719 0.4674 0.5173 0.6866 0.7049 0.6368 0.5819 0.7901 0.7600 0.7528 0.7295 0.6915 0.6172 0.5191 0.6706 0.6056 0.5952 0.7432 0.7415 0.7127 0.3641 0.3690 0.3838 0.4611 SuperEnhancer_Hnisz.extend.500.bedL2 0.0816 0.2616 0.4410 0.4857 0.2558 0.3449 0.4216 0.4379 0.6405 0.5062 0.5935 0.5743 0.4761 0.4690 0.5201 0.6881 0.7072 0.6400 0.5853 0.7932 0.7635 0.7560 0.7330 0.6947 0.6213 0.5235 0.6741 0.6090 0.5985 0.7464 0.7450 0.7166 0.3676 0.3726 0.3888 0.4660 TFBS_ENCODE.bedL2 0.0801 0.7906 0.6228 0.7609 0.7094 0.8388 0.7834 0.8115 0.9567 0.9329 0.9231 0.9277 0.9093 0.5573 0.6666 0.7777 0.8306 0.8976 0.9110 0.8739 0.8950 0.8981 0.9082 0.9248 0.9374 0.9241 0.9039 0.9217 0.9338 0.8101 0.8308 0.8761 0.7835 0.7885 0.7589 0.8347 TFBS_ENCODE.extend.500.bedL2 0.0936 0.8831 0.5741 0.7288 0.7611 0.8941 0.8082 0.8509 0.9481 0.9741 0.9295 0.9423 0.9563 0.5078 0.6276 0.7043 0.7644 0.8854 0.9288 0.8353 0.8652 0.8697 0.8874 0.9024 0.9411 0.9544 0.8674 0.9090 0.9411 0.7321 0.7555 0.8245 0.8347 0.8382 0.7471 0.8185 Transcribed_Hoffman.bedL2 0.0272 0.9266 0.5257 0.7343 0.7994 0.9362 0.7288 0.7695 0.8606 0.9354 0.8436 0.8697 0.9340 0.3932 0.5250 0.5285 0.5951 0.7791 0.8586 0.7022 0.7438 0.7512 0.7800 0.8090 0.8919 0.9410 0.7712 0.8431 0.8860 0.6104 0.6281 0.7275 0.9179 0.9196 0.7290 0.7813 Transcribed_Hoffman.extend.500.bedL2 0.0646 0.9955 0.3878 0.5756 0.8030 0.9154 0.7133 0.7651 0.7883 0.9125 0.8001 0.8362 0.9249 0.3294 0.4605 0.4069 0.4643 0.7263 0.8269 0.5858 0.6329 0.6437 0.6746 0.7073 0.8108 0.8914 0.6895 0.7754 0.8356 0.4709 0.4887 0.5875 0.8677 0.8675 0.6397 0.6827 TSS_Hoffman.bedL2 0.0693 0.3682 0.6667 0.6957 0.3207 0.4397 0.4605 0.5021 0.6891 0.5708 0.5995 0.5795 0.5207 0.4811 0.5337 0.6912 0.7543 0.6248 0.5729 0.6892 0.6852 0.6942 0.6868 0.6878 0.6372 0.5758 0.7316 0.6848 0.6289 0.8162 0.8116 0.7823 0.4118 0.4206 0.6240 0.7192 TSS_Hoffman.extend.500.bedL2 0.0710 0.3783 0.6595 0.7004 0.3053 0.4400 0.4834 0.5256 0.7058 0.5885 0.6137 0.5936 0.5369 0.4977 0.5515 0.7301 0.7910 0.6382 0.5938 0.7148 0.7101 0.7195 0.7125 0.7105 0.6591 0.5949 0.7429 0.6992 0.6466 0.8282 0.8315 0.8062 0.4138 0.4225 0.6469 0.7491 UTR_3_UCSC.bedL2 0.0400 0.4328 0.8215 0.7340 0.4546 0.5356 0.4787 0.5260 0.6212 0.5790 0.5694 0.5639 0.5458 0.3201 0.3743 0.5045 0.5714 0.5501 0.5470 0.6191 0.6287 0.6193 0.6285 0.6237 0.6255 0.5976 0.6273 0.6041 0.5812 0.6485 0.6696 0.6934 0.4943 0.5028 0.6092 0.6463 UTR_3_UCSC.extend.500.bedL2 0.0337 0.4965 0.7449 0.7536 0.5116 0.6062 0.5094 0.5470 0.6353 0.6112 0.5857 0.5797 0.5830 0.2982 0.3694 0.4803 0.5451 0.5466 0.5578 0.6049 0.6215 0.6149 0.6325 0.6125 0.6447 0.6383 0.6262 0.6122 0.5914 0.6182 0.6424 0.6879 0.5627 0.5713 0.6655 0.6753 UTR_5_UCSC.bedL2 0.0688 0.2348 0.6298 0.5981 0.2307 0.3079 0.3323 0.3573 0.4306 0.3620 0.3789 0.3543 0.3263 0.2045 0.2275 0.3493 0.4013 0.4075 0.3646 0.4792 0.4768 0.4664 0.4699 0.4506 0.4567 0.4133 0.4619 0.4237 0.4048 0.5018 0.5146 0.5253 0.2734 0.2818 0.4967 0.5081 UTR_5_UCSC.extend.500.bedL2 0.0639 0.3178 0.5537 0.6074 0.2709 0.3635 0.5000 0.4958 0.4856 0.4392 0.4275 0.4139 0.4014 0.2539 0.2883 0.3586 0.4143 0.4564 0.4327 0.5622 0.5596 0.5428 0.5456 0.4773 0.5160 0.4840 0.5251 0.4993 0.5035 0.4837 0.4973 0.5236 0.3491 0.3561 0.4660 0.5004 WeakEnhancer_Hoffman.bedL2 0.0754 0.5333 0.5072 0.5935 0.5083 0.6172 0.5815 0.5986 0.8084 0.7315 0.7916 0.7831 0.7202 0.4949 0.5823 0.7349 0.7791 0.7864 0.7748 0.7807 0.7855 0.7937 0.7909 0.8319 0.7859 0.7337 0.7497 0.7427 0.7509 0.7609 0.7679 0.7828 0.5925 0.5964 0.5611 0.6416 WeakEnhancer_Hoffman.extend.500.bedL2 0.0965 0.5977 0.5653 0.6653 0.5563 0.6831 0.6432 0.6726 0.8829 0.8150 0.8637 0.8545 0.7963 0.5543 0.6400 0.8288 0.8783 0.8608 0.8559 0.8743 0.8802 0.8875 0.8874 0.9122 0.8694 0.8158 0.8243 0.8197 0.8315 0.8260 0.8389 0.8634 0.6440 0.6488 0.6461 0.7423 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 0.1036 0.1048 0.0991 0.0760 0.0813 0.0816 0.0801 0.0936 0.0272 0.0646 0.0693 0.0710 0.0400 0.0337 0.0688 0.0639 0.0754 0.0965 baseL2 0.3943 0.4061 0.8219 0.9084 0.2579 0.2616 0.7906 0.8831 0.9266 0.9955 0.3682 0.3783 0.4328 0.4965 0.2348 0.3178 0.5333 0.5977 Coding_UCSC.bedL2 0.7096 0.7288 0.0377 0.1084 0.4358 0.4410 0.6228 0.5741 0.5257 0.3878 0.6667 0.6595 0.8215 0.7449 0.6298 0.5537 0.5072 0.5653 Coding_UCSC.extend.500.bedL2 0.7498 0.7660 0.1436 0.2558 0.4805 0.4857 0.7609 0.7288 0.7343 0.5756 0.6957 0.7004 0.7340 0.7536 0.5981 0.6074 0.5935 0.6653 Conserved_LindbladToh.bedL2 0.3481 0.3617 0.5732 0.6854 0.2519 0.2558 0.7094 0.7611 0.7994 0.8030 0.3207 0.3053 0.4546 0.5116 0.2307 0.2709 0.5083 0.5563 Conserved_LindbladToh.extend.500.bedL2 0.4752 0.4894 0.6132 0.7401 0.3403 0.3449 0.8388 0.8941 0.9362 0.9154 0.4397 0.4400 0.5356 0.6062 0.3079 0.3635 0.6172 0.6831 CTCF_Hoffman.bedL2 0.5180 0.5301 0.4398 0.5425 0.4189 0.4216 0.7834 0.8082 0.7288 0.7133 0.4605 0.4834 0.4787 0.5094 0.3323 0.5000 0.5815 0.6432 CTCF_Hoffman.extend.500.bedL2 0.5419 0.5537 0.4875 0.5844 0.4347 0.4379 0.8115 0.8509 0.7695 0.7651 0.5021 0.5256 0.5260 0.5470 0.3573 0.4958 0.5986 0.6726 DGF_ENCODE.bedL2 0.6108 0.6218 0.4099 0.5338 0.6363 0.6405 0.9567 0.9481 0.8606 0.7883 0.6891 0.7058 0.6212 0.6353 0.4306 0.4856 0.8084 0.8829 DGF_ENCODE.extend.500.bedL2 0.5494 0.5614 0.5868 0.7070 0.5018 0.5062 0.9329 0.9741 0.9354 0.9125 0.5708 0.5885 0.5790 0.6112 0.3620 0.4392 0.7315 0.8150 DHS_peaks_Trynka.bedL2 0.5430 0.5519 0.4727 0.5885 0.5897 0.5935 0.9231 0.9295 0.8436 0.8001 0.5995 0.6137 0.5694 0.5857 0.3789 0.4275 0.7916 0.8637 DHS_Trynka.bedL2 0.5285 0.5378 0.5187 0.6363 0.5704 0.5743 0.9277 0.9423 0.8697 0.8362 0.5795 0.5936 0.5639 0.5797 0.3543 0.4139 0.7831 0.8545 DHS_Trynka.extend.500.bedL2 0.5119 0.5231 0.6286 0.7475 0.4719 0.4761 0.9093 0.9563 0.9340 0.9249 0.5207 0.5369 0.5458 0.5830 0.3263 0.4014 0.7202 0.7963 Enhancer_Andersson.bedL2 0.3601 0.3630 0.0969 0.1632 0.4674 0.4690 0.5573 0.5078 0.3932 0.3294 0.4811 0.4977 0.3201 0.2982 0.2045 0.2539 0.4949 0.5543 Enhancer_Andersson.extend.500.bedL2 0.4049 0.4083 0.1878 0.2776 0.5173 0.5201 0.6666 0.6276 0.5250 0.4605 0.5337 0.5515 0.3743 0.3694 0.2275 0.2883 0.5823 0.6400 Enhancer_Hoffman.bedL2 0.5122 0.5171 0.0235 0.1217 0.6866 0.6881 0.7777 0.7043 0.5285 0.4069 0.6912 0.7301 0.5045 0.4803 0.3493 0.3586 0.7349 0.8288 Enhancer_Hoffman.extend.500.bedL2 0.5784 0.5862 0.0474 0.1522 0.7049 0.7072 0.8306 0.7644 0.5951 0.4643 0.7543 0.7910 0.5714 0.5451 0.4013 0.4143 0.7791 0.8783 FetalDHS_Trynka.bedL2 0.5520 0.5610 0.4067 0.5142 0.6368 0.6400 0.8976 0.8854 0.7791 0.7263 0.6248 0.6382 0.5501 0.5466 0.4075 0.4564 0.7864 0.8608 FetalDHS_Trynka.extend.500.bedL2 0.5311 0.5414 0.5138 0.6281 0.5819 0.5853 0.9110 0.9288 0.8586 0.8269 0.5729 0.5938 0.5470 0.5578 0.3646 0.4327 0.7748 0.8559 H3K27ac_Hnisz.bedL2 0.6294 0.6387 0.1835 0.3038 0.7901 0.7932 0.8739 0.8353 0.7022 0.5858 0.6892 0.7148 0.6191 0.6049 0.4792 0.5622 0.7807 0.8743 H3K27ac_Hnisz.extend.500.bedL2 0.6356 0.6457 0.2276 0.3517 0.7600 0.7635 0.8950 0.8652 0.7438 0.6329 0.6852 0.7101 0.6287 0.6215 0.4768 0.5596 0.7855 0.8802 H3K27ac_PGC2.bedL2 0.6303 0.6389 0.2410 0.3603 0.7528 0.7560 0.8981 0.8697 0.7512 0.6437 0.6942 0.7195 0.6193 0.6149 0.4664 0.5428 0.7937 0.8875 H3K27ac_PGC2.extend.500.bedL2 0.6365 0.6463 0.2681 0.3901 0.7295 0.7330 0.9082 0.8874 0.7800 0.6746 0.6868 0.7125 0.6285 0.6325 0.4699 0.5456 0.7909 0.8874 H3K4me1_peaks_Trynka.bedL2 0.6099 0.6206 0.3060 0.4351 0.6915 0.6947 0.9248 0.9024 0.8090 0.7073 0.6878 0.7105 0.6237 0.6125 0.4506 0.4773 0.8319 0.9122 H3K4me1_Trynka.bedL2 0.6114 0.6243 0.4218 0.5559 0.6172 0.6213 0.9374 0.9411 0.8919 0.8108 0.6372 0.6591 0.6255 0.6447 0.4567 0.5160 0.7859 0.8694 H3K4me1_Trynka.extend.500.bedL2 0.5743 0.5878 0.5389 0.6693 0.5191 0.5235 0.9241 0.9544 0.9410 0.8914 0.5758 0.5949 0.5976 0.6383 0.4133 0.4840 0.7337 0.8158 H3K4me3_peaks_Trynka.bedL2 0.6548 0.6623 0.3482 0.4602 0.6706 0.6741 0.9039 0.8674 0.7712 0.6895 0.7316 0.7429 0.6273 0.6262 0.4619 0.5251 0.7497 0.8243 H3K4me3_Trynka.bedL2 0.6352 0.6443 0.4301 0.5550 0.6056 0.6090 0.9217 0.9090 0.8431 0.7754 0.6848 0.6992 0.6041 0.6122 0.4237 0.4993 0.7427 0.8197 H3K4me3_Trynka.extend.500.bedL2 0.5903 0.6008 0.4945 0.6232 0.5952 0.5985 0.9338 0.9411 0.8860 0.8356 0.6289 0.6466 0.5812 0.5914 0.4048 0.5035 0.7509 0.8315 H3K9ac_peaks_Trynka.bedL2 0.6533 0.6652 0.0723 0.1702 0.7432 0.7464 0.8101 0.7321 0.6104 0.4709 0.8162 0.8282 0.6485 0.6182 0.5018 0.4837 0.7609 0.8260 H3K9ac_Trynka.bedL2 0.6788 0.6895 0.0868 0.1829 0.7415 0.7450 0.8308 0.7555 0.6281 0.4887 0.8116 0.8315 0.6696 0.6424 0.5146 0.4973 0.7679 0.8389 H3K9ac_Trynka.extend.500.bedL2 0.6999 0.7138 0.1568 0.2695 0.7127 0.7166 0.8761 0.8245 0.7275 0.5875 0.7823 0.8062 0.6934 0.6879 0.5253 0.5236 0.7828 0.8634 Intron_UCSC.bedL2 0.4390 0.4522 0.5269 0.6737 0.3641 0.3676 0.7835 0.8347 0.9179 0.8677 0.4118 0.4138 0.4943 0.5627 0.2734 0.3491 0.5925 0.6440 Intron_UCSC.extend.500.bedL2 0.4482 0.4615 0.5237 0.6705 0.3690 0.3726 0.7885 0.8382 0.9196 0.8675 0.4206 0.4225 0.5028 0.5713 0.2818 0.3561 0.5964 0.6488 PromoterFlanking_Hoffman.bedL2 0.6197 0.6364 0.3108 0.4102 0.3838 0.3888 0.7589 0.7471 0.7290 0.6397 0.6240 0.6469 0.6092 0.6655 0.4967 0.4660 0.5611 0.6461 PromoterFlanking_Hoffman.extend.500.bedL2 0.6712 0.6890 0.3152 0.4244 0.4611 0.4660 0.8347 0.8185 0.7813 0.6827 0.7192 0.7491 0.6463 0.6753 0.5081 0.5004 0.6416 0.7423 Promoter_UCSC.bedL2 1.0000 0.9956 0.0898 0.1499 0.4140 0.4193 0.6159 0.5758 0.5013 0.3836 0.6522 0.6658 0.6648 0.7465 0.6079 0.5932 0.4675 0.5448 Promoter_UCSC.extend.500.bedL2 0.9956 1.0000 0.0938 0.1568 0.4174 0.4228 0.6270 0.5881 0.5164 0.3964 0.6581 0.6710 0.6778 0.7521 0.6143 0.6008 0.4756 0.5552 Repressed_Hoffman.bedL2 0.0898 0.0938 1.0000 0.9688 -0.0428 -0.0404 0.4003 0.5260 0.5638 0.7916 0.0034 0.0084 0.0898 0.1584 0.0041 0.0709 0.1710 0.2062 Repressed_Hoffman.extend.500.bedL2 0.1499 0.1568 0.9688 1.0000 0.0404 0.0428 0.5312 0.6526 0.7119 0.8912 0.0778 0.0823 0.1693 0.2373 0.0358 0.1273 0.2909 0.3308 SuperEnhancer_Hnisz.bedL2 0.4140 0.4174 -0.0428 0.0404 1.0000 0.9998 0.6099 0.5278 0.3747 0.2641 0.5895 0.6113 0.4102 0.3702 0.3996 0.5063 0.6317 0.6868 SuperEnhancer_Hnisz.extend.500.bedL2 0.4193 0.4228 -0.0404 0.0428 0.9998 1.0000 0.6138 0.5318 0.3785 0.2675 0.5940 0.6154 0.4159 0.3771 0.4020 0.5080 0.6337 0.6889 TFBS_ENCODE.bedL2 0.6159 0.6270 0.4003 0.5312 0.6099 0.6138 1.0000 0.9706 0.8629 0.7901 0.7237 0.7387 0.6281 0.6369 0.4278 0.4973 0.8101 0.8796 TFBS_ENCODE.extend.500.bedL2 0.5758 0.5881 0.5260 0.6526 0.5278 0.5318 0.9706 1.0000 0.9191 0.8833 0.6239 0.6437 0.6000 0.6197 0.3825 0.4588 0.7587 0.8408 Transcribed_Hoffman.bedL2 0.5013 0.5164 0.5638 0.7119 0.3747 0.3785 0.8629 0.9191 1.0000 0.9452 0.5031 0.5109 0.5604 0.6140 0.3256 0.4020 0.6376 0.7032 Transcribed_Hoffman.extend.500.bedL2 0.3836 0.3964 0.7916 0.8912 0.2641 0.2675 0.7901 0.8833 0.9452 1.0000 0.3690 0.3780 0.4351 0.4971 0.2352 0.3200 0.5384 0.6021 TSS_Hoffman.bedL2 0.6522 0.6581 0.0034 0.0778 0.5895 0.5940 0.7237 0.6239 0.5031 0.3690 1.0000 0.9719 0.5856 0.5892 0.5053 0.5048 0.6216 0.6804 TSS_Hoffman.extend.500.bedL2 0.6658 0.6710 0.0084 0.0823 0.6113 0.6154 0.7387 0.6437 0.5109 0.3780 0.9719 1.0000 0.5858 0.5837 0.5148 0.5156 0.6365 0.7122 UTR_3_UCSC.bedL2 0.6648 0.6778 0.0898 0.1693 0.4102 0.4159 0.6281 0.6000 0.5604 0.4351 0.5856 0.5858 1.0000 0.8682 0.5412 0.4790 0.5224 0.5791 UTR_3_UCSC.extend.500.bedL2 0.7465 0.7521 0.1584 0.2373 0.3702 0.3771 0.6369 0.6197 0.6140 0.4971 0.5892 0.5837 0.8682 1.0000 0.5234 0.4782 0.4902 0.5413 UTR_5_UCSC.bedL2 0.6079 0.6143 0.0041 0.0358 0.3996 0.4020 0.4278 0.3825 0.3256 0.2352 0.5053 0.5148 0.5412 0.5234 1.0000 0.7776 0.3131 0.3759 UTR_5_UCSC.extend.500.bedL2 0.5932 0.6008 0.0709 0.1273 0.5063 0.5080 0.4973 0.4588 0.4020 0.3200 0.5048 0.5156 0.4790 0.4782 0.7776 1.0000 0.3411 0.4112 WeakEnhancer_Hoffman.bedL2 0.4675 0.4756 0.1710 0.2909 0.6317 0.6337 0.8101 0.7587 0.6376 0.5384 0.6216 0.6365 0.5224 0.4902 0.3131 0.3411 1.0000 0.9268 WeakEnhancer_Hoffman.extend.500.bedL2 0.5448 0.5552 0.2062 0.3308 0.6868 0.6889 0.8796 0.8408 0.7032 0.6021 0.6804 0.7122 0.5791 0.5413 0.3759 0.4112 0.9268 1.0000 LD Score Matrix Condition Number 1134.0136 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 0.4772 0.2509 0.1379 0.0065 0.0145 0.0600 0.0561 0.0414 0.0476 0.0406 -0.0084 -0.0160 0.0256 0.0325 0.0480 0.0353 0.0714 0.0703 0.0651 0.0667 0.0486 0.0821 0.0704 0.0671 0.0784 0.0654 0.0660 0.1002 0.0984 -0.0631 0.0500 3.7497e-03 0.0157 0.1413 0.1388 -0.0813 Coding_UCSC.extend.500.bed NaN 0.4772 1.0000 0.1363 0.3072 0.0137 0.0247 0.0754 0.0911 0.0605 0.0665 0.0691 -0.0157 -0.0248 0.0399 0.0529 0.0709 0.0586 0.1205 0.1200 0.1110 0.1155 0.0724 0.1460 0.1458 0.0891 0.1154 0.1015 0.1103 0.1748 0.1878 0.1805 0.2454 1.6130e-02 0.0462 0.2440 0.2383 -0.1681 Conserved_LindbladToh.bed NaN 0.2509 0.1363 1.0000 0.2360 0.0058 0.0041 0.0915 0.0662 0.1382 0.1407 0.0932 0.0212 0.0154 0.0460 0.0420 0.1511 0.1115 0.0481 0.0466 0.0616 0.0557 0.0725 0.0961 0.0790 0.0636 0.0826 0.0647 0.0474 0.0832 0.0745 -0.0039 0.0426 1.4906e-02 0.0230 0.0575 0.0541 -0.0322 Conserved_LindbladToh.extend.500.bed NaN 0.1379 0.3072 0.2360 1.0000 0.0376 0.0395 0.1159 0.1838 0.1632 0.1959 0.2570 0.0246 0.0450 0.1125 0.1258 0.1852 0.2645 0.1610 0.1604 0.1788 0.1743 0.1763 0.2516 0.2487 0.1045 0.1465 0.1363 0.1191 0.1900 0.1999 0.1521 0.1728 3.1823e-02 0.0589 0.1178 0.1160 -0.1100 CTCF_Hoffman.bed NaN 0.0065 0.0137 0.0058 0.0376 1.0000 0.5659 0.1065 0.1081 0.1219 0.1311 0.1029 0.0077 0.0125 0.0417 0.0620 0.1226 0.1147 0.0563 0.0564 0.0573 0.0547 0.0736 0.0754 0.0620 0.0440 0.0632 0.0665 0.0586 0.0837 0.0856 -0.0097 -0.0081 -3.1307e-03 0.0266 0.0245 0.0255 -0.1429 CTCF_Hoffman.extend.500.bed NaN 0.0145 0.0247 0.0041 0.0395 0.5659 1.0000 0.0834 0.1543 0.0891 0.1020 0.1438 0.0093 0.0185 0.0627 0.0910 0.0912 0.1448 0.0919 0.0930 0.0917 0.0910 0.0817 0.0999 0.0963 0.0504 0.0769 0.0984 0.0721 0.1120 0.1309 -0.0129 -0.0104 6.1800e-03 0.0400 0.0457 0.0468 -0.1170 DGF_ENCODE.bed NaN 0.0600 0.0754 0.0915 0.1159 0.1065 0.0834 1.0000 0.3712 0.5258 0.5088 0.2723 0.0981 0.0892 0.2114 0.2125 0.3678 0.2410 0.2221 0.2154 0.2503 0.2328 0.2927 0.2913 0.2209 0.1969 0.2681 0.2343 0.1796 0.2665 0.2492 0.0485 0.0622 5.9228e-02 0.1068 0.1100 0.1089 -0.1745 DGF_ENCODE.extend.500.bed NaN 0.0561 0.0911 0.0662 0.1838 0.1081 0.1543 0.3712 1.0000 0.2707 0.3356 0.5618 0.0512 0.1004 0.2021 0.2678 0.2288 0.3853 0.3600 0.3608 0.3737 0.3701 0.3228 0.4690 0.4481 0.1668 0.2850 0.3401 0.1697 0.3004 0.3549 0.0900 0.1003 7.5460e-02 0.1447 0.1164 0.1201 -0.2372 DHS_peaks_Trynka.bed NaN 0.0414 0.0605 0.1382 0.1632 0.1219 0.0891 0.5258 0.2707 1.0000 0.7734 0.3601 0.1075 0.1030 0.2264 0.2181 0.6542 0.3762 0.2019 0.1939 0.2419 0.2173 0.3036 0.2952 0.2223 0.2250 0.2749 0.2309 0.2097 0.2789 0.2452 0.0421 0.0545 3.7337e-02 0.0935 0.0981 0.0905 -0.1490 DHS_Trynka.bed NaN 0.0476 0.0665 0.1407 0.1959 0.1311 0.1020 0.5088 0.3356 0.7734 1.0000 0.4557 0.1069 0.1236 0.2645 0.2526 0.6876 0.4415 0.2429 0.2342 0.2895 0.2606 0.3535 0.3593 0.2730 0.2487 0.3122 0.2697 0.2327 0.3159 0.2835 0.0478 0.0609 4.1582e-02 0.0984 0.1018 0.0938 -0.1737 DHS_Trynka.extend.500.bed NaN 0.0406 0.0691 0.0932 0.2570 0.1029 0.1438 0.2723 0.5618 0.3601 0.4557 1.0000 0.0551 0.1080 0.2098 0.2741 0.3134 0.6430 0.3275 0.3305 0.3587 0.3467 0.3286 0.4817 0.4693 0.1587 0.2552 0.3099 0.1684 0.2900 0.3391 0.0841 0.0929 4.8006e-02 0.1115 0.0939 0.0879 -0.1937 Enhancer_Andersson.bed NaN -0.0084 -0.0157 0.0212 0.0246 0.0077 0.0093 0.0981 0.0512 0.1075 0.1069 0.0551 1.0000 0.4842 0.1042 0.0897 0.1240 0.0746 0.0650 0.0616 0.0817 0.0711 0.0713 0.0596 0.0432 0.0720 0.0957 0.0770 0.0557 0.0881 0.0740 0.0185 0.0172 1.0106e-02 0.0241 0.0114 0.0126 -0.0404 Enhancer_Andersson.extend.500.bed NaN -0.0160 -0.0248 0.0154 0.0450 0.0125 0.0185 0.0892 0.1004 0.1030 0.1236 0.1080 0.4842 1.0000 0.1771 0.1785 0.1286 0.1424 0.1251 0.1198 0.1558 0.1388 0.1252 0.1176 0.0862 0.1200 0.1642 0.1448 0.1159 0.1592 0.1415 0.0274 0.0254 2.7001e-02 0.0555 0.0215 0.0224 -0.0775 Enhancer_Hoffman.bed NaN 0.0256 0.0399 0.0460 0.1125 0.0417 0.0627 0.2114 0.2021 0.2264 0.2645 0.2098 0.1042 0.1771 1.0000 0.6730 0.2343 0.2534 0.2523 0.2392 0.3280 0.2892 0.2819 0.2437 0.1756 0.2436 0.3196 0.2815 0.2428 0.3431 0.2954 0.0407 0.0482 5.5344e-02 0.1493 0.1080 0.1081 -0.1941 Enhancer_Hoffman.extend.500.bed NaN 0.0325 0.0529 0.0420 0.1258 0.0620 0.0910 0.2125 0.2678 0.2181 0.2526 0.2741 0.0897 0.1785 0.6730 1.0000 0.2252 0.3052 0.3448 0.3378 0.4418 0.4073 0.2974 0.3188 0.2541 0.2263 0.3519 0.3657 0.2333 0.3786 0.3928 0.0564 0.0658 1.0695e-01 0.2457 0.1579 0.1577 -0.2665 FetalDHS_Trynka.bed NaN 0.0480 0.0709 0.1511 0.1852 0.1226 0.0912 0.3678 0.2288 0.6542 0.6876 0.3134 0.1240 0.1286 0.2343 0.2252 1.0000 0.4874 0.2056 0.1960 0.2457 0.2168 0.2998 0.2821 0.2085 0.2689 0.3096 0.2518 0.2423 0.3029 0.2600 0.0308 0.0456 3.6649e-02 0.1041 0.1190 0.1083 -0.1349 FetalDHS_Trynka.extend.500.bed NaN 0.0353 0.0586 0.1115 0.2645 0.1147 0.1448 0.2410 0.3853 0.3762 0.4415 0.6430 0.0746 0.1424 0.2534 0.3052 0.4874 1.0000 0.3213 0.3168 0.3643 0.3395 0.3473 0.4398 0.3822 0.2095 0.3118 0.3453 0.2144 0.3405 0.3642 0.0618 0.0710 5.4777e-02 0.1309 0.1161 0.1099 -0.1730 H3K27ac_Hnisz.bed NaN 0.0714 0.1205 0.0481 0.1610 0.0563 0.0919 0.2221 0.3600 0.2019 0.2429 0.3275 0.0650 0.1251 0.2523 0.3448 0.2056 0.3213 1.0000 0.9407 0.5753 0.6051 0.3427 0.4982 0.4648 0.1867 0.3183 0.3839 0.2058 0.3716 0.4559 0.1819 0.1929 7.7884e-02 0.1476 0.1400 0.1521 -0.2809 H3K27ac_Hnisz.extend.500.bed NaN 0.0703 0.1200 0.0466 0.1604 0.0564 0.0930 0.2154 0.3608 0.1939 0.2342 0.3305 0.0616 0.1198 0.2392 0.3378 0.1960 0.3168 0.9407 1.0000 0.5821 0.6235 0.3332 0.4992 0.4866 0.1774 0.3056 0.3818 0.1973 0.3582 0.4531 0.1801 0.1908 7.7956e-02 0.1495 0.1400 0.1528 -0.2804 H3K27ac_PGC2.bed NaN 0.0651 0.1110 0.0616 0.1788 0.0573 0.0917 0.2503 0.3737 0.2419 0.2895 0.3587 0.0817 0.1558 0.3280 0.4418 0.2457 0.3643 0.5753 0.5821 1.0000 0.8595 0.3850 0.5175 0.4407 0.2427 0.4186 0.4841 0.2580 0.4549 0.5216 0.1599 0.1723 1.1136e-01 0.1995 0.1900 0.1958 -0.2857 H3K27ac_PGC2.extend.500.bed NaN 0.0667 0.1155 0.0557 0.1743 0.0547 0.0910 0.2328 0.3701 0.2173 0.2606 0.3467 0.0711 0.1388 0.2892 0.4073 0.2168 0.3395 0.6051 0.6235 0.8595 1.0000 0.3626 0.5216 0.4745 0.2143 0.3764 0.4589 0.2316 0.4160 0.5075 0.1710 0.1830 1.0629e-01 0.1933 0.1869 0.1977 -0.2915 H3K4me1_peaks_Trynka.bed NaN 0.0486 0.0724 0.0725 0.1763 0.0736 0.0817 0.2927 0.3228 0.3036 0.3535 0.3286 0.0713 0.1252 0.2819 0.2974 0.2998 0.3473 0.3427 0.3332 0.3850 0.3626 1.0000 0.5291 0.3718 0.2771 0.3850 0.3483 0.2999 0.4205 0.3892 0.1334 0.1422 1.2942e-01 0.1813 0.1208 0.1250 -0.2340 H3K4me1_Trynka.bed NaN 0.0821 0.1460 0.0961 0.2516 0.0754 0.0999 0.2913 0.4690 0.2952 0.3593 0.4817 0.0596 0.1176 0.2437 0.3188 0.2821 0.4398 0.4982 0.4992 0.5175 0.5216 0.5291 1.0000 0.6965 0.2016 0.3505 0.4254 0.2216 0.4015 0.4860 0.2015 0.2150 1.0244e-01 0.1785 0.1438 0.1501 -0.3061 H3K4me1_Trynka.extend.500.bed NaN 0.0704 0.1458 0.0790 0.2487 0.0620 0.0963 0.2209 0.4481 0.2223 0.2730 0.4693 0.0432 0.0862 0.1756 0.2541 0.2085 0.3822 0.4648 0.4866 0.4407 0.4745 0.3718 0.6965 1.0000 0.1423 0.2531 0.3372 0.1587 0.2936 0.4041 0.2171 0.2283 7.6639e-02 0.1453 0.1252 0.1327 -0.2762 H3K4me3_peaks_Trynka.bed NaN 0.0671 0.0891 0.0636 0.1045 0.0440 0.0504 0.1969 0.1668 0.2250 0.2487 0.1587 0.0720 0.1200 0.2436 0.2263 0.2689 0.2095 0.1867 0.1774 0.2427 0.2143 0.2771 0.2016 0.1423 1.0000 0.5260 0.3592 0.3788 0.3652 0.2790 0.0418 0.0561 1.0569e-01 0.1671 0.1615 0.1563 -0.1290 H3K4me3_Trynka.bed NaN 0.0784 0.1154 0.0826 0.1465 0.0632 0.0769 0.2681 0.2850 0.2749 0.3122 0.2552 0.0957 0.1642 0.3196 0.3519 0.3096 0.3118 0.3183 0.3056 0.4186 0.3764 0.3850 0.3505 0.2531 0.5260 1.0000 0.6754 0.3517 0.5488 0.4691 0.0735 0.0922 1.8868e-01 0.2887 0.2433 0.2477 -0.2086 H3K4me3_Trynka.extend.500.bed NaN 0.0654 0.1015 0.0647 0.1363 0.0665 0.0984 0.2343 0.3401 0.2309 0.2697 0.3099 0.0770 0.1448 0.2815 0.3657 0.2518 0.3453 0.3839 0.3818 0.4841 0.4589 0.3483 0.4254 0.3372 0.3592 0.6754 1.0000 0.2714 0.4805 0.5367 0.0786 0.0921 1.4666e-01 0.2629 0.2014 0.2092 -0.2261 H3K9ac_peaks_Trynka.bed NaN 0.0660 0.1103 0.0474 0.1191 0.0586 0.0721 0.1796 0.1697 0.2097 0.2327 0.1684 0.0557 0.1159 0.2428 0.2333 0.2423 0.2144 0.2058 0.1973 0.2580 0.2316 0.2999 0.2216 0.1587 0.3788 0.3517 0.2714 1.0000 0.5343 0.3763 0.0786 0.0921 8.7722e-02 0.1505 0.1464 0.1431 -0.1498 H3K9ac_Trynka.bed NaN 0.1002 0.1748 0.0832 0.1900 0.0837 0.1120 0.2665 0.3004 0.2789 0.3159 0.2900 0.0881 0.1592 0.3431 0.3786 0.3029 0.3405 0.3716 0.3582 0.4549 0.4160 0.4205 0.4015 0.2936 0.3652 0.5488 0.4805 0.5343 1.0000 0.6995 0.1370 0.1577 1.6364e-01 0.2579 0.2278 0.2315 -0.2550 H3K9ac_Trynka.extend.500.bed NaN 0.0984 0.1878 0.0745 0.1999 0.0856 0.1309 0.2492 0.3549 0.2452 0.2835 0.3391 0.0740 0.1415 0.2954 0.3928 0.2600 0.3642 0.4559 0.4531 0.5216 0.5075 0.3892 0.4860 0.4041 0.2790 0.4691 0.5367 0.3763 0.6995 1.0000 0.1757 0.1936 1.4679e-01 0.2591 0.2087 0.2191 -0.3036 Intron_UCSC.bed NaN -0.0631 0.1805 -0.0039 0.1521 -0.0097 -0.0129 0.0485 0.0900 0.0421 0.0478 0.0841 0.0185 0.0274 0.0407 0.0564 0.0308 0.0618 0.1819 0.1801 0.1599 0.1710 0.1334 0.2015 0.2171 0.0418 0.0735 0.0786 0.0786 0.1370 0.1757 1.0000 0.9808 4.0590e-02 0.0331 0.0531 0.0613 -0.2462 Intron_UCSC.extend.500.bed NaN 0.0500 0.2454 0.0426 0.1728 -0.0081 -0.0104 0.0622 0.1003 0.0545 0.0609 0.0929 0.0172 0.0254 0.0482 0.0658 0.0456 0.0710 0.1929 0.1908 0.1723 0.1830 0.1422 0.2150 0.2283 0.0561 0.0922 0.0921 0.0921 0.1577 0.1936 0.9808 1.0000 4.2361e-02 0.0407 0.0858 0.0923 -0.2575 PromoterFlanking_Hoffman.bed NaN 0.0037 0.0161 0.0149 0.0318 -0.0031 0.0062 0.0592 0.0755 0.0373 0.0416 0.0480 0.0101 0.0270 0.0553 0.1070 0.0366 0.0548 0.0779 0.0780 0.1114 0.1063 0.1294 0.1024 0.0766 0.1057 0.1887 0.1467 0.0877 0.1636 0.1468 0.0406 0.0424 1.0000e+00 0.5100 0.1192 0.1317 -0.0861 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0157 0.0462 0.0230 0.0589 0.0266 0.0400 0.1068 0.1447 0.0935 0.0984 0.1115 0.0241 0.0555 0.1493 0.2457 0.1041 0.1309 0.1476 0.1495 0.1995 0.1933 0.1813 0.1785 0.1453 0.1671 0.2887 0.2629 0.1505 0.2579 0.2591 0.0331 0.0407 5.1004e-01 1.0000 0.2057 0.2175 -0.1447 Promoter_UCSC.bed NaN 0.1413 0.2440 0.0575 0.1178 0.0245 0.0457 0.1100 0.1164 0.0981 0.1018 0.0939 0.0114 0.0215 0.1080 0.1579 0.1190 0.1161 0.1400 0.1400 0.1900 0.1869 0.1208 0.1438 0.1252 0.1615 0.2433 0.2014 0.1464 0.2278 0.2087 0.0531 0.0858 1.1920e-01 0.2057 1.0000 0.9022 -0.1155 Promoter_UCSC.extend.500.bed NaN 0.1388 0.2383 0.0541 0.1160 0.0255 0.0468 0.1089 0.1201 0.0905 0.0938 0.0879 0.0126 0.0224 0.1081 0.1577 0.1083 0.1099 0.1521 0.1528 0.1958 0.1977 0.1250 0.1501 0.1327 0.1563 0.2477 0.2092 0.1431 0.2315 0.2191 0.0613 0.0923 1.3173e-01 0.2175 0.9022 1.0000 -0.1208 Repressed_Hoffman.bed NaN -0.0813 -0.1681 -0.0322 -0.1100 -0.1429 -0.1170 -0.1745 -0.2372 -0.1490 -0.1737 -0.1937 -0.0404 -0.0775 -0.1941 -0.2665 -0.1349 -0.1730 -0.2809 -0.2804 -0.2857 -0.2915 -0.2340 -0.3061 -0.2762 -0.1290 -0.2086 -0.2261 -0.1498 -0.2550 -0.3036 -0.2462 -0.2575 -8.6131e-02 -0.1447 -0.1155 -0.1208 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1309 -0.2756 -0.0419 -0.1598 -0.0612 -0.0828 -0.1935 -0.2655 -0.1640 -0.1893 -0.2190 -0.0602 -0.1114 -0.3060 -0.3855 -0.1614 -0.2123 -0.3822 -0.3788 -0.3959 -0.3996 -0.2856 -0.3776 -0.3437 -0.1764 -0.2848 -0.3004 -0.2170 -0.3654 -0.4229 -0.3513 -0.3702 -1.1412e-01 -0.1876 -0.1799 -0.1899 0.5712 SuperEnhancer_Hnisz.bed NaN 0.0536 0.0817 0.0224 0.0990 0.0430 0.0706 0.1830 0.2541 0.1433 0.1690 0.2166 0.0813 0.1458 0.2271 0.2843 0.1520 0.2242 0.5944 0.5592 0.4493 0.4521 0.2714 0.3571 0.3104 0.1675 0.2808 0.3182 0.1959 0.3432 0.3800 0.1804 0.1875 4.3582e-02 0.0917 0.0997 0.1080 -0.2194 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0547 0.0826 0.0220 0.0987 0.0433 0.0719 0.1827 0.2552 0.1419 0.1675 0.2170 0.0807 0.1456 0.2258 0.2851 0.1501 0.2238 0.5937 0.5646 0.4521 0.4564 0.2713 0.3585 0.3135 0.1661 0.2799 0.3194 0.1947 0.3425 0.3820 0.1798 0.1871 4.3875e-02 0.0932 0.1011 0.1098 -0.2209 TFBS_ENCODE.bed NaN 0.0678 0.0996 0.0777 0.1338 0.2366 0.1748 0.3844 0.2916 0.3806 0.4346 0.2833 0.1077 0.1365 0.3357 0.3345 0.3510 0.2895 0.2481 0.2394 0.2994 0.2714 0.2943 0.2867 0.2171 0.2633 0.3377 0.2931 0.2385 0.3287 0.2942 0.0386 0.0553 6.9894e-02 0.1550 0.1654 0.1607 -0.2213 TFBS_ENCODE.extend.500.bed NaN 0.0518 0.0839 0.0569 0.1582 0.1789 0.2694 0.2524 0.4286 0.2501 0.3041 0.4272 0.0693 0.1308 0.2856 0.3700 0.2336 0.3661 0.3314 0.3300 0.3788 0.3624 0.2992 0.3765 0.3346 0.1939 0.3135 0.3526 0.1976 0.3295 0.3585 0.0592 0.0705 8.8956e-02 0.1746 0.1413 0.1428 -0.2534 Transcribed_Hoffman.bed NaN 0.0675 0.1530 0.0019 0.0449 -0.0474 -0.0307 0.0126 0.0475 -0.0174 -0.0167 0.0144 -0.0069 -0.0088 -0.0240 -0.0150 -0.0320 -0.0164 0.1055 0.1073 0.0730 0.0918 0.0541 0.1113 0.1246 -0.0167 0.0037 0.0276 0.0148 0.0445 0.0944 0.3028 0.3063 -1.0565e-02 -0.0263 -0.0139 -0.0083 -0.7123 Transcribed_Hoffman.extend.500.bed NaN -0.0036 0.0049 -0.0216 -0.0168 -0.0478 -0.0539 -0.0560 -0.0321 -0.0737 -0.0779 -0.0462 -0.0283 -0.0430 -0.0989 -0.1054 -0.0913 -0.0787 -0.0368 -0.0330 -0.0514 -0.0380 -0.0469 -0.0305 -0.0052 -0.0894 -0.0969 -0.0658 -0.0727 -0.0923 -0.0615 0.1352 0.1277 -3.3643e-02 -0.0709 -0.1069 -0.1021 -0.1599 TSS_Hoffman.bed NaN 0.0991 0.1604 0.0605 0.1012 0.0256 0.0391 0.1986 0.1340 0.2125 0.2187 0.1374 0.0926 0.1348 0.1778 0.2442 0.2560 0.1910 0.1642 0.1555 0.2226 0.1934 0.1789 0.1537 0.1134 0.3129 0.3283 0.2332 0.2803 0.3197 0.2394 0.0255 0.0570 7.8503e-02 0.2245 0.3125 0.2926 -0.1250 TSS_Hoffman.extend.500.bed NaN 0.0836 0.1410 0.0521 0.1051 0.0421 0.0660 0.1853 0.1794 0.1869 0.2011 0.1751 0.0832 0.1552 0.2862 0.3770 0.2256 0.2327 0.2177 0.2100 0.2928 0.2612 0.2245 0.2084 0.1576 0.2891 0.3925 0.3108 0.2664 0.3782 0.3156 0.0298 0.0562 1.9645e-01 0.3653 0.3370 0.3268 -0.1721 UTR_3_UCSC.bed NaN 0.5647 0.2912 0.0793 0.0891 0.0078 0.0165 0.0313 0.0435 0.0214 0.0261 0.0306 -0.0069 -0.0131 0.0176 0.0229 0.0214 0.0264 0.0614 0.0613 0.0545 0.0582 0.0382 0.0664 0.0602 0.0215 0.0398 0.0384 0.0312 0.0621 0.0737 -0.0216 0.0174 2.9858e-05 0.0029 0.0858 0.0885 -0.0632 UTR_3_UCSC.extend.500.bed NaN 0.3884 0.4261 0.0729 0.1510 0.0152 0.0227 0.0500 0.0665 0.0354 0.0422 0.0489 -0.0079 -0.0118 0.0320 0.0386 0.0347 0.0397 0.0824 0.0821 0.0837 0.0876 0.0530 0.0930 0.0911 0.0411 0.0711 0.0654 0.0478 0.0901 0.1046 0.0349 0.0710 9.3677e-03 0.0180 0.1928 0.1908 -0.0977 UTR_5_UCSC.bed NaN 0.3137 0.1694 0.0786 0.0608 0.0188 0.0233 0.0538 0.0451 0.0519 0.0542 0.0373 -0.0057 -0.0101 0.0359 0.0413 0.0658 0.0466 0.0620 0.0596 0.0718 0.0669 0.0377 0.0593 0.0507 0.0823 0.0868 0.0672 0.0663 0.0848 0.0730 -0.0102 0.0415 7.9822e-03 0.0329 0.1925 0.1757 -0.0498 UTR_5_UCSC.extend.500.bed NaN 0.1827 0.4080 0.0679 0.1277 0.0354 0.0487 0.0837 0.0774 0.0824 0.0867 0.0635 -0.0120 -0.0158 0.0637 0.0793 0.1069 0.0839 0.1367 0.1317 0.1497 0.1411 0.0684 0.1126 0.1040 0.1356 0.1626 0.1423 0.1146 0.1456 0.1285 0.0514 0.0968 2.7155e-02 0.0821 0.3706 0.3424 -0.0921 WeakEnhancer_Hoffman.bed NaN -0.0003 -0.0021 0.0246 0.0589 0.0317 0.0430 0.1858 0.1377 0.1956 0.2143 0.1427 0.0590 0.0818 0.1213 0.1766 0.1688 0.1463 0.1292 0.1264 0.1553 0.1465 0.2166 0.1637 0.1179 0.1289 0.1767 0.1590 0.1355 0.1777 0.1656 0.0202 0.0215 2.2911e-02 0.0703 0.0235 0.0262 -0.1338 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0011 0.0002 0.0253 0.0943 0.0669 0.0986 0.1787 0.2645 0.1898 0.2252 0.2775 0.0664 0.1298 0.2387 0.3364 0.1769 0.2679 0.2480 0.2465 0.2909 0.2819 0.2781 0.3007 0.2443 0.1473 0.2441 0.2877 0.1657 0.2670 0.3033 0.0350 0.0366 6.1818e-02 0.1420 0.0502 0.0574 -0.2207 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 -0.1309 0.0536 0.0547 0.0678 0.0518 0.0675 -0.0036 0.0991 0.0836 5.6471e-01 0.3884 0.3137 0.1827 -0.0003 0.0011 Coding_UCSC.extend.500.bed -0.2756 0.0817 0.0826 0.0996 0.0839 0.1530 0.0049 0.1604 0.1410 2.9119e-01 0.4261 0.1694 0.4080 -0.0021 0.0002 Conserved_LindbladToh.bed -0.0419 0.0224 0.0220 0.0777 0.0569 0.0019 -0.0216 0.0605 0.0521 7.9252e-02 0.0729 0.0786 0.0679 0.0246 0.0253 Conserved_LindbladToh.extend.500.bed -0.1598 0.0990 0.0987 0.1338 0.1582 0.0449 -0.0168 0.1012 0.1051 8.9118e-02 0.1510 0.0608 0.1277 0.0589 0.0943 CTCF_Hoffman.bed -0.0612 0.0430 0.0433 0.2366 0.1789 -0.0474 -0.0478 0.0256 0.0421 7.7951e-03 0.0152 0.0188 0.0354 0.0317 0.0669 CTCF_Hoffman.extend.500.bed -0.0828 0.0706 0.0719 0.1748 0.2694 -0.0307 -0.0539 0.0391 0.0660 1.6463e-02 0.0227 0.0233 0.0487 0.0430 0.0986 DGF_ENCODE.bed -0.1935 0.1830 0.1827 0.3844 0.2524 0.0126 -0.0560 0.1986 0.1853 3.1262e-02 0.0500 0.0538 0.0837 0.1858 0.1787 DGF_ENCODE.extend.500.bed -0.2655 0.2541 0.2552 0.2916 0.4286 0.0475 -0.0321 0.1340 0.1794 4.3531e-02 0.0665 0.0451 0.0774 0.1377 0.2645 DHS_peaks_Trynka.bed -0.1640 0.1433 0.1419 0.3806 0.2501 -0.0174 -0.0737 0.2125 0.1869 2.1403e-02 0.0354 0.0519 0.0824 0.1956 0.1898 DHS_Trynka.bed -0.1893 0.1690 0.1675 0.4346 0.3041 -0.0167 -0.0779 0.2187 0.2011 2.6065e-02 0.0422 0.0542 0.0867 0.2143 0.2252 DHS_Trynka.extend.500.bed -0.2190 0.2166 0.2170 0.2833 0.4272 0.0144 -0.0462 0.1374 0.1751 3.0558e-02 0.0489 0.0373 0.0635 0.1427 0.2775 Enhancer_Andersson.bed -0.0602 0.0813 0.0807 0.1077 0.0693 -0.0069 -0.0283 0.0926 0.0832 -6.9457e-03 -0.0079 -0.0057 -0.0120 0.0590 0.0664 Enhancer_Andersson.extend.500.bed -0.1114 0.1458 0.1456 0.1365 0.1308 -0.0088 -0.0430 0.1348 0.1552 -1.3133e-02 -0.0118 -0.0101 -0.0158 0.0818 0.1298 Enhancer_Hoffman.bed -0.3060 0.2271 0.2258 0.3357 0.2856 -0.0240 -0.0989 0.1778 0.2862 1.7604e-02 0.0320 0.0359 0.0637 0.1213 0.2387 Enhancer_Hoffman.extend.500.bed -0.3855 0.2843 0.2851 0.3345 0.3700 -0.0150 -0.1054 0.2442 0.3770 2.2852e-02 0.0386 0.0413 0.0793 0.1766 0.3364 FetalDHS_Trynka.bed -0.1614 0.1520 0.1501 0.3510 0.2336 -0.0320 -0.0913 0.2560 0.2256 2.1443e-02 0.0347 0.0658 0.1069 0.1688 0.1769 FetalDHS_Trynka.extend.500.bed -0.2123 0.2242 0.2238 0.2895 0.3661 -0.0164 -0.0787 0.1910 0.2327 2.6386e-02 0.0397 0.0466 0.0839 0.1463 0.2679 H3K27ac_Hnisz.bed -0.3822 0.5944 0.5937 0.2481 0.3314 0.1055 -0.0368 0.1642 0.2177 6.1402e-02 0.0824 0.0620 0.1367 0.1292 0.2480 H3K27ac_Hnisz.extend.500.bed -0.3788 0.5592 0.5646 0.2394 0.3300 0.1073 -0.0330 0.1555 0.2100 6.1324e-02 0.0821 0.0596 0.1317 0.1264 0.2465 H3K27ac_PGC2.bed -0.3959 0.4493 0.4521 0.2994 0.3788 0.0730 -0.0514 0.2226 0.2928 5.4453e-02 0.0837 0.0718 0.1497 0.1553 0.2909 H3K27ac_PGC2.extend.500.bed -0.3996 0.4521 0.4564 0.2714 0.3624 0.0918 -0.0380 0.1934 0.2612 5.8189e-02 0.0876 0.0669 0.1411 0.1465 0.2819 H3K4me1_peaks_Trynka.bed -0.2856 0.2714 0.2713 0.2943 0.2992 0.0541 -0.0469 0.1789 0.2245 3.8185e-02 0.0530 0.0377 0.0684 0.2166 0.2781 H3K4me1_Trynka.bed -0.3776 0.3571 0.3585 0.2867 0.3765 0.1113 -0.0305 0.1537 0.2084 6.6434e-02 0.0930 0.0593 0.1126 0.1637 0.3007 H3K4me1_Trynka.extend.500.bed -0.3437 0.3104 0.3135 0.2171 0.3346 0.1246 -0.0052 0.1134 0.1576 6.0241e-02 0.0911 0.0507 0.1040 0.1179 0.2443 H3K4me3_peaks_Trynka.bed -0.1764 0.1675 0.1661 0.2633 0.1939 -0.0167 -0.0894 0.3129 0.2891 2.1497e-02 0.0411 0.0823 0.1356 0.1289 0.1473 H3K4me3_Trynka.bed -0.2848 0.2808 0.2799 0.3377 0.3135 0.0037 -0.0969 0.3283 0.3925 3.9761e-02 0.0711 0.0868 0.1626 0.1767 0.2441 H3K4me3_Trynka.extend.500.bed -0.3004 0.3182 0.3194 0.2931 0.3526 0.0276 -0.0658 0.2332 0.3108 3.8400e-02 0.0654 0.0672 0.1423 0.1590 0.2877 H3K9ac_peaks_Trynka.bed -0.2170 0.1959 0.1947 0.2385 0.1976 0.0148 -0.0727 0.2803 0.2664 3.1239e-02 0.0478 0.0663 0.1146 0.1355 0.1657 H3K9ac_Trynka.bed -0.3654 0.3432 0.3425 0.3287 0.3295 0.0445 -0.0923 0.3197 0.3782 6.2132e-02 0.0901 0.0848 0.1456 0.1777 0.2670 H3K9ac_Trynka.extend.500.bed -0.4229 0.3800 0.3820 0.2942 0.3585 0.0944 -0.0615 0.2394 0.3156 7.3674e-02 0.1046 0.0730 0.1285 0.1656 0.3033 Intron_UCSC.bed -0.3513 0.1804 0.1798 0.0386 0.0592 0.3028 0.1352 0.0255 0.0298 -2.1567e-02 0.0349 -0.0102 0.0514 0.0202 0.0350 Intron_UCSC.extend.500.bed -0.3702 0.1875 0.1871 0.0553 0.0705 0.3063 0.1277 0.0570 0.0562 1.7397e-02 0.0710 0.0415 0.0968 0.0215 0.0366 PromoterFlanking_Hoffman.bed -0.1141 0.0436 0.0439 0.0699 0.0890 -0.0106 -0.0336 0.0785 0.1965 2.9858e-05 0.0094 0.0080 0.0272 0.0229 0.0618 PromoterFlanking_Hoffman.extend.500.bed -0.1876 0.0917 0.0932 0.1550 0.1746 -0.0263 -0.0709 0.2245 0.3653 2.9026e-03 0.0180 0.0329 0.0821 0.0703 0.1420 Promoter_UCSC.bed -0.1799 0.0997 0.1011 0.1654 0.1413 -0.0139 -0.1069 0.3125 0.3370 8.5804e-02 0.1928 0.1925 0.3706 0.0235 0.0502 Promoter_UCSC.extend.500.bed -0.1899 0.1080 0.1098 0.1607 0.1428 -0.0083 -0.1021 0.2926 0.3268 8.8463e-02 0.1908 0.1757 0.3424 0.0262 0.0574 Repressed_Hoffman.bed 0.5712 -0.2194 -0.2209 -0.2213 -0.2534 -0.7123 -0.1599 -0.1250 -0.1721 -6.3172e-02 -0.0977 -0.0498 -0.0921 -0.1338 -0.2207 Repressed_Hoffman.extend.500.bed 1.0000 -0.3126 -0.3139 -0.2643 -0.2950 -0.3638 -0.0407 -0.2138 -0.2777 -1.0164e-01 -0.1540 -0.0735 -0.1423 -0.1487 -0.2458 SuperEnhancer_Hnisz.bed -0.3126 1.0000 0.9904 0.2079 0.2472 0.0970 -0.0137 0.1682 0.2099 4.2098e-02 0.0570 0.0639 0.1435 0.1070 0.1974 SuperEnhancer_Hnisz.extend.500.bed -0.3139 0.9904 1.0000 0.2070 0.2481 0.0980 -0.0133 0.1673 0.2109 4.3312e-02 0.0588 0.0639 0.1429 0.1065 0.1986 TFBS_ENCODE.bed -0.2643 0.2079 0.2070 1.0000 0.5404 -0.0206 -0.0988 0.3190 0.3197 3.4443e-02 0.0583 0.0824 0.1319 0.2132 0.2459 TFBS_ENCODE.extend.500.bed -0.2950 0.2472 0.2481 0.5404 1.0000 0.0092 -0.0678 0.1974 0.2640 3.7709e-02 0.0574 0.0565 0.0973 0.1676 0.3193 Transcribed_Hoffman.bed -0.3638 0.0970 0.0980 -0.0206 0.0092 1.0000 0.3573 -0.0614 -0.0560 6.3561e-02 0.0880 0.0069 0.0181 -0.0090 -0.0170 Transcribed_Hoffman.extend.500.bed -0.0407 -0.0137 -0.0133 -0.0988 -0.0678 0.3573 1.0000 -0.1591 -0.1477 1.4436e-02 0.0103 -0.0316 -0.0541 -0.0409 -0.0654 TSS_Hoffman.bed -0.2138 0.1682 0.1673 0.3190 0.1974 -0.0614 -0.1591 1.0000 0.7148 1.7092e-02 0.0522 0.1425 0.2362 0.0495 0.0777 TSS_Hoffman.extend.500.bed -0.2777 0.2099 0.2109 0.3197 0.2640 -0.0560 -0.1477 0.7148 1.0000 2.2412e-02 0.0552 0.1127 0.2082 0.0761 0.1499 UTR_3_UCSC.bed -0.1016 0.0421 0.0433 0.0344 0.0377 0.0636 0.0144 0.0171 0.0224 1.0000e+00 0.6200 0.1100 0.0682 0.0029 0.0064 UTR_3_UCSC.extend.500.bed -0.1540 0.0570 0.0588 0.0583 0.0574 0.0880 0.0103 0.0522 0.0552 6.2001e-01 1.0000 0.0873 0.1437 0.0074 0.0099 UTR_5_UCSC.bed -0.0735 0.0639 0.0639 0.0824 0.0565 0.0069 -0.0316 0.1425 0.1127 1.0998e-01 0.0873 1.0000 0.4346 0.0056 0.0097 UTR_5_UCSC.extend.500.bed -0.1423 0.1435 0.1429 0.1319 0.0973 0.0181 -0.0541 0.2362 0.2082 6.8217e-02 0.1437 0.4346 1.0000 0.0032 0.0160 WeakEnhancer_Hoffman.bed -0.1487 0.1070 0.1065 0.2132 0.1676 -0.0090 -0.0409 0.0495 0.0761 2.8935e-03 0.0074 0.0056 0.0032 1.0000 0.4708 WeakEnhancer_Hoffman.extend.500.bed -0.2458 0.1974 0.1986 0.2459 0.3193 -0.0170 -0.0654 0.0777 0.1499 6.3530e-03 0.0099 0.0097 0.0160 0.4708 1.0000 Annotation Matrix Column Sums base 324698.0 Coding_UCSC.bed 4897.0 Coding_UCSC.extend.500.bed 20462.0 Conserved_LindbladToh.bed 10526.0 Conserved_LindbladToh.extend.500.bed 121932.0 CTCF_Hoffman.bed 8559.0 CTCF_Hoffman.extend.500.bed 25309.0 DGF_ENCODE.bed 43226.0 DGF_ENCODE.extend.500.bed 171122.0 DHS_peaks_Trynka.bed 35591.0 DHS_Trynka.bed 53483.0 DHS_Trynka.extend.500.bed 158140.0 Enhancer_Andersson.bed 1480.0 Enhancer_Andersson.extend.500.bed 6219.0 Enhancer_Hoffman.bed 15378.0 Enhancer_Hoffman.extend.500.bed 32116.0 FetalDHS_Trynka.bed 27691.0 FetalDHS_Trynka.extend.500.bed 91522.0 H3K27ac_Hnisz.bed 126216.0 H3K27ac_Hnisz.extend.500.bed 135762.0 H3K27ac_PGC2.bed 90607.0 H3K27ac_PGC2.extend.500.bed 111642.0 H3K4me1_peaks_Trynka.bed 57062.0 H3K4me1_Trynka.bed 138948.0 H3K4me1_Trynka.extend.500.bed 196972.0 H3K4me3_peaks_Trynka.bed 14073.0 H3K4me3_Trynka.bed 44828.0 H3K4me3_Trynka.extend.500.bed 84383.0 H3K9ac_peaks_Trynka.bed 13436.0 H3K9ac_Trynka.bed 42146.0 H3K9ac_Trynka.extend.500.bed 75857.0 Intron_UCSC.bed 120530.0 Intron_UCSC.extend.500.bed 123484.0 PromoterFlanking_Hoffman.bed 3147.0 PromoterFlanking_Hoffman.extend.500.bed 11773.0 Promoter_UCSC.bed 16989.0 Promoter_UCSC.extend.500.bed 20627.0 Repressed_Hoffman.bed 140001.0 Repressed_Hoffman.extend.500.bed 226989.0 SuperEnhancer_Hnisz.bed 59574.0 SuperEnhancer_Hnisz.extend.500.bed 60514.0 TFBS_ENCODE.bed 42162.0 TFBS_ENCODE.extend.500.bed 109808.0 Transcribed_Hoffman.bed 131549.0 Transcribed_Hoffman.extend.500.bed 273441.0 TSS_Hoffman.bed 6562.0 TSS_Hoffman.extend.500.bed 12599.0 UTR_3_UCSC.bed 3807.0 UTR_3_UCSC.extend.500.bed 9721.0 UTR_5_UCSC.bed 2259.0 UTR_5_UCSC.extend.500.bed 11615.0 WeakEnhancer_Hoffman.bed 7490.0 WeakEnhancer_Hoffman.extend.500.bed 31259.0 Summary of Annotation Matrix Row Sums count 324698.0000 mean 11.4266 std 7.0223 min 1.0000 25% 6.0000 50% 9.0000 75% 15.0000 max 41.0000 Analysis finished at Tue Oct 17 17:19:21 2017 Total time elapsed: 38.0m:5.98s