********************************************************************* * 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.20.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.20 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.20 \ --annot 1000G_Phase3_baseline_v1.1/baseline.20.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 221626 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.20.bim Read 53 annotations for 221626 SNPs from 1000G_Phase3_baseline_v1.1/baseline.20.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.20.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.20.bed Estimating LD Score. Reading list of 36301 SNPs for which to print LD Scores from hapmap3_snps/hm.20.snp After merging with --print-snps, LD Scores for 31359 SNPs will be printed. Writing LD Scores for 31359 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.20.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.20.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 0.2336 92.2307 1.6587 8.4902 2.5322 32.7970 2.6281 7.9501 14.7069 55.2764 11.5777 17.2313 50.7928 0.5121 2.0568 4.5634 9.8816 8.5204 28.7737 42.7229 46.0450 29.8272 37.0247 18.6819 46.7689 64.1845 4.2214 12.9659 25.6646 4.5977 14.3888 26.6204 40.7481 42.0020 0.7907 3.3279 6.1166 std 0.1437 90.0670 3.0739 15.9771 3.2244 34.6307 3.2138 9.4569 17.0035 56.6415 11.7658 16.6541 47.8156 1.1069 3.3992 7.2539 14.9463 8.6832 26.9561 54.0075 56.3346 38.8983 47.0601 22.5404 52.4322 67.0560 6.2793 18.6297 33.8888 7.9152 23.5133 40.5454 58.4315 60.0057 1.5712 6.1115 11.9235 min 0.0051 -0.3238 -0.0992 -0.7195 -0.1454 -0.1561 -0.1254 -0.1927 -0.2491 -0.3991 -0.2424 -0.3831 -0.4176 -0.0663 -0.1441 -0.2719 -0.3515 -0.2426 -0.5279 -0.6723 -0.7181 -0.5292 -0.6352 -0.1899 -0.2183 -0.0864 -0.1268 -0.3328 -0.5784 -0.1745 -0.3981 -0.5986 -1.4788 -1.5116 -0.0672 -0.1472 -0.3693 25% 0.1063 38.0874 0.0483 0.2931 0.4747 11.3308 0.6084 2.2032 5.1075 22.1083 4.7252 7.1746 21.8578 0.0138 0.1593 0.4502 1.2748 3.4222 12.4625 12.1740 14.0904 8.1010 10.6890 6.3096 17.5354 26.0630 0.8781 3.1781 7.8447 0.5933 2.4147 5.4384 3.2515 3.4464 0.0303 0.2344 0.2801 50% 0.2219 64.6334 0.3576 2.0507 1.4310 21.5545 1.5956 5.0573 9.5661 38.4951 8.3192 12.4723 37.2050 0.0948 0.7425 1.8806 4.4018 6.0824 21.1480 26.5061 29.1343 17.6087 22.5649 11.6814 30.4796 44.1988 2.1901 7.0436 14.9802 1.8044 6.2857 13.1523 19.8836 20.9375 0.1608 1.1036 1.6572 75% 0.3569 111.3470 1.9358 8.8143 3.2664 40.5816 3.4182 10.0841 17.3624 66.0392 13.9423 20.9026 60.8683 0.4741 2.4607 5.3460 11.6707 10.3016 34.7843 51.0413 54.9050 34.3026 42.7508 21.6429 54.3743 75.8195 4.7594 14.2930 29.2426 4.9422 15.4768 29.5939 52.5598 53.9454 0.8010 3.5597 6.3619 max 0.5000 657.6678 30.5042 126.1954 27.7218 271.6291 27.0558 90.1247 147.6807 443.9052 112.9340 145.0687 375.4785 14.2480 33.9459 65.9675 119.2623 83.8304 239.0748 402.2367 419.7112 293.4766 349.8618 182.6321 401.3541 520.2092 59.0403 172.5307 265.2348 67.4091 213.0028 323.5570 421.5941 431.6739 12.4364 47.3490 109.5344 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 7.5567 35.5152 56.0649 18.1549 18.5055 16.5657 40.2709 35.8647 66.2608 2.1576 4.3723 1.3190 3.2658 0.6683 3.4171 2.0989 8.8907 std 14.7964 37.7881 55.7943 34.1872 34.5487 19.8849 41.5867 58.3122 75.0563 4.1556 7.8766 2.6351 6.3575 1.4915 7.2190 3.0321 11.6278 min -0.2201 -0.6822 -1.0970 -0.9073 -0.9102 -0.2870 -0.8095 -0.8064 -0.3993 -0.1477 -0.2683 -0.1410 -0.3211 -0.1213 -0.1955 -0.1440 -0.2426 25% 0.3512 10.2086 18.5087 0.3468 0.3693 5.2851 15.5965 6.9213 21.9826 0.0504 0.1585 0.0365 0.0991 0.0053 0.0997 0.2527 1.7981 50% 2.1061 25.0983 40.5776 3.7990 4.0216 10.4120 27.6862 15.3185 42.5882 0.4169 1.1301 0.2590 0.7249 0.0732 0.6844 0.9998 4.8554 75% 7.8417 47.1326 74.2756 21.7852 22.4410 19.5172 48.2953 36.6611 79.2751 2.2135 4.7071 1.3800 3.4824 0.5514 3.5154 2.6537 11.2210 max 138.1435 294.5303 421.2248 278.6174 280.9781 168.7161 322.9429 478.8120 574.3546 38.7211 64.1034 24.7348 54.2046 16.0764 79.4724 25.4445 91.8908 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 0.1950 0.1060 0.0992 0.1413 0.1667 0.1768 0.1804 0.1636 0.1838 0.1812 0.1911 0.1988 0.0768 0.0899 0.1187 0.1339 0.1828 0.1969 0.1436 0.1495 0.1450 0.1485 0.1508 0.1590 0.1724 0.1096 0.1150 0.1389 0.1000 0.1149 0.1291 0.1247 0.1254 0.0793 0.1044 baseL2 0.1950 1.0000 0.6560 0.7549 0.7339 0.8708 0.7710 0.8430 0.8784 0.9484 0.8905 0.9067 0.9558 0.5296 0.5597 0.6771 0.7171 0.8512 0.9026 0.8285 0.8467 0.8423 0.8569 0.8530 0.8926 0.9320 0.8061 0.8181 0.8753 0.7529 0.7804 0.8105 0.7577 0.7656 0.7026 0.7700 Coding_UCSC.bedL2 0.1060 0.6560 1.0000 0.8985 0.4202 0.5982 0.5988 0.6817 0.7696 0.7353 0.7189 0.7053 0.7037 0.4871 0.4736 0.6562 0.6958 0.6997 0.6906 0.7327 0.7366 0.7337 0.7362 0.7465 0.7425 0.7285 0.7168 0.7508 0.7647 0.7881 0.8083 0.7970 0.6866 0.7034 0.6581 0.7037 Coding_UCSC.extend.500.bedL2 0.0992 0.7549 0.8985 1.0000 0.5220 0.7373 0.6304 0.7169 0.8343 0.8267 0.7773 0.7741 0.7952 0.5153 0.5148 0.7179 0.7638 0.7476 0.7609 0.8267 0.8346 0.8218 0.8324 0.8261 0.8472 0.8379 0.7635 0.8034 0.8321 0.8470 0.8666 0.8854 0.8195 0.8335 0.7535 0.8079 Conserved_LindbladToh.bedL2 0.1413 0.7339 0.4202 0.5220 1.0000 0.8914 0.4517 0.4935 0.6344 0.7037 0.6683 0.6920 0.7380 0.3480 0.3899 0.5018 0.5456 0.6376 0.6833 0.6353 0.6481 0.6302 0.6476 0.6465 0.6871 0.7206 0.5617 0.5780 0.6225 0.5489 0.5670 0.6094 0.6049 0.6057 0.5404 0.5980 Conserved_LindbladToh.extend.500.bedL2 0.1667 0.8708 0.5982 0.7373 0.8914 1.0000 0.5917 0.6498 0.8000 0.8656 0.8168 0.8397 0.8897 0.4598 0.5057 0.6593 0.7095 0.7836 0.8412 0.8135 0.8273 0.8048 0.8248 0.8173 0.8635 0.8906 0.6946 0.7281 0.7791 0.7137 0.7347 0.7844 0.8076 0.8102 0.7006 0.7590 CTCF_Hoffman.bedL2 0.1768 0.7710 0.5988 0.6304 0.4517 0.5917 1.0000 0.9464 0.7909 0.7919 0.7892 0.7880 0.7782 0.5547 0.5766 0.6669 0.6801 0.7813 0.7863 0.7082 0.7153 0.7188 0.7153 0.7425 0.7370 0.7458 0.7486 0.7439 0.7623 0.7150 0.7239 0.7199 0.5570 0.5679 0.5511 0.6142 CTCF_Hoffman.extend.500.bedL2 0.1804 0.8430 0.6817 0.7169 0.4935 0.6498 0.9464 1.0000 0.8632 0.8644 0.8572 0.8497 0.8475 0.6055 0.6183 0.7231 0.7368 0.8424 0.8500 0.7730 0.7822 0.7943 0.7924 0.8134 0.8101 0.8200 0.8177 0.8127 0.8394 0.7832 0.7967 0.7933 0.6449 0.6563 0.6127 0.6799 DGF_ENCODE.bedL2 0.1636 0.8784 0.7696 0.8343 0.6344 0.8000 0.7909 0.8632 1.0000 0.9689 0.9667 0.9642 0.9472 0.6951 0.7176 0.8604 0.8897 0.9380 0.9465 0.9483 0.9516 0.9504 0.9531 0.9726 0.9630 0.9521 0.9028 0.9170 0.9474 0.9258 0.9420 0.9540 0.7831 0.7923 0.7843 0.8382 DGF_ENCODE.extend.500.bedL2 0.1838 0.9484 0.7353 0.8267 0.7037 0.8656 0.7919 0.8644 0.9689 1.0000 0.9591 0.9692 0.9882 0.6215 0.6542 0.7976 0.8385 0.9225 0.9592 0.9386 0.9488 0.9355 0.9469 0.9563 0.9740 0.9839 0.8616 0.8793 0.9300 0.8642 0.8904 0.9203 0.8108 0.8189 0.7820 0.8430 DHS_peaks_Trynka.bedL2 0.1812 0.8905 0.7189 0.7773 0.6683 0.8168 0.7892 0.8572 0.9667 0.9591 1.0000 0.9897 0.9615 0.6664 0.6837 0.8156 0.8436 0.9739 0.9729 0.9209 0.9266 0.9200 0.9250 0.9506 0.9496 0.9481 0.8522 0.8594 0.9021 0.8704 0.8901 0.9036 0.7770 0.7838 0.7490 0.8070 DHS_Trynka.bedL2 0.1911 0.9067 0.7053 0.7741 0.6920 0.8397 0.7880 0.8497 0.9642 0.9692 0.9897 1.0000 0.9767 0.6593 0.6874 0.8152 0.8443 0.9670 0.9783 0.9299 0.9369 0.9247 0.9318 0.9537 0.9571 0.9591 0.8456 0.8573 0.9011 0.8578 0.8794 0.8990 0.7834 0.7900 0.7510 0.8068 DHS_Trynka.extend.500.bedL2 0.1988 0.9558 0.7037 0.7952 0.7380 0.8897 0.7782 0.8475 0.9472 0.9882 0.9615 0.9767 1.0000 0.6037 0.6380 0.7743 0.8140 0.9254 0.9702 0.9228 0.9347 0.9170 0.9304 0.9416 0.9647 0.9805 0.8308 0.8493 0.9044 0.8320 0.8593 0.8913 0.8122 0.8187 0.7613 0.8228 Enhancer_Andersson.bedL2 0.0768 0.5296 0.4871 0.5153 0.3480 0.4598 0.5547 0.6055 0.6951 0.6215 0.6664 0.6593 0.6037 1.0000 0.9143 0.7371 0.7093 0.6814 0.6545 0.6721 0.6610 0.6972 0.6799 0.7024 0.6459 0.6099 0.6894 0.6955 0.6849 0.7072 0.7138 0.6871 0.4834 0.4883 0.4919 0.5335 Enhancer_Andersson.extend.500.bedL2 0.0899 0.5597 0.4736 0.5148 0.3899 0.5057 0.5766 0.6183 0.7176 0.6542 0.6837 0.6874 0.6380 0.9143 1.0000 0.7654 0.7418 0.6965 0.6822 0.7065 0.6960 0.7310 0.7119 0.7273 0.6744 0.6389 0.7233 0.7314 0.7123 0.7157 0.7188 0.7026 0.4833 0.4890 0.5170 0.5583 Enhancer_Hoffman.bedL2 0.1187 0.6771 0.6562 0.7179 0.5018 0.6593 0.6669 0.7231 0.8604 0.7976 0.8156 0.8152 0.7743 0.7371 0.7654 1.0000 0.9763 0.8077 0.8079 0.8618 0.8538 0.8765 0.8646 0.8754 0.8292 0.7939 0.8397 0.8490 0.8419 0.8825 0.8796 0.8711 0.6583 0.6661 0.7131 0.7648 Enhancer_Hoffman.extend.500.bedL2 0.1339 0.7171 0.6958 0.7638 0.5456 0.7095 0.6801 0.7368 0.8897 0.8385 0.8436 0.8443 0.8140 0.7093 0.7418 0.9763 1.0000 0.8272 0.8359 0.8998 0.8935 0.9087 0.9012 0.9038 0.8687 0.8369 0.8512 0.8684 0.8694 0.9074 0.9095 0.9103 0.6987 0.7069 0.7679 0.8266 FetalDHS_Trynka.bedL2 0.1828 0.8512 0.6997 0.7476 0.6376 0.7836 0.7813 0.8424 0.9380 0.9225 0.9739 0.9670 0.9254 0.6814 0.6965 0.8077 0.8272 1.0000 0.9697 0.8963 0.9010 0.8951 0.8973 0.9289 0.9202 0.9133 0.8399 0.8411 0.8768 0.8520 0.8675 0.8761 0.7486 0.7551 0.7144 0.7703 FetalDHS_Trynka.extend.500.bedL2 0.1969 0.9026 0.6906 0.7609 0.6833 0.8412 0.7863 0.8500 0.9465 0.9592 0.9729 0.9783 0.9702 0.6545 0.6822 0.8079 0.8359 0.9697 1.0000 0.9243 0.9316 0.9163 0.9234 0.9479 0.9533 0.9550 0.8340 0.8460 0.8914 0.8428 0.8641 0.8856 0.7855 0.7912 0.7397 0.7955 H3K27ac_Hnisz.bedL2 0.1436 0.8285 0.7327 0.8267 0.6353 0.8135 0.7082 0.7730 0.9483 0.9386 0.9209 0.9299 0.9228 0.6721 0.7065 0.8618 0.8998 0.8963 0.9243 1.0000 0.9985 0.9693 0.9748 0.9731 0.9685 0.9498 0.8531 0.8789 0.9136 0.9043 0.9245 0.9509 0.8129 0.8192 0.8160 0.8674 H3K27ac_Hnisz.extend.500.bedL2 0.1495 0.8467 0.7366 0.8346 0.6481 0.8273 0.7153 0.7822 0.9516 0.9488 0.9266 0.9369 0.9347 0.6610 0.6960 0.8538 0.8935 0.9010 0.9316 0.9985 1.0000 0.9697 0.9770 0.9741 0.9750 0.9605 0.8533 0.8797 0.9171 0.9001 0.9212 0.9504 0.8242 0.8307 0.8205 0.8738 H3K27ac_PGC2.bedL2 0.1450 0.8423 0.7337 0.8218 0.6302 0.8048 0.7188 0.7943 0.9504 0.9355 0.9200 0.9247 0.9170 0.6972 0.7310 0.8765 0.9087 0.8951 0.9163 0.9693 0.9697 1.0000 0.9969 0.9659 0.9577 0.9409 0.8935 0.9150 0.9376 0.9175 0.9329 0.9490 0.8040 0.8108 0.8070 0.8589 H3K27ac_PGC2.extend.500.bedL2 0.1485 0.8569 0.7362 0.8324 0.6476 0.8248 0.7153 0.7924 0.9531 0.9469 0.9250 0.9318 0.9304 0.6799 0.7119 0.8646 0.9012 0.8973 0.9234 0.9748 0.9770 0.9969 1.0000 0.9695 0.9692 0.9562 0.8835 0.9064 0.9357 0.9114 0.9280 0.9509 0.8222 0.8286 0.8177 0.8707 H3K4me1_peaks_Trynka.bedL2 0.1508 0.8530 0.7465 0.8261 0.6465 0.8173 0.7425 0.8134 0.9726 0.9563 0.9506 0.9537 0.9416 0.7024 0.7273 0.8754 0.9038 0.9289 0.9479 0.9731 0.9741 0.9659 0.9695 1.0000 0.9819 0.9629 0.8884 0.9067 0.9389 0.9286 0.9434 0.9616 0.8127 0.8193 0.8155 0.8667 H3K4me1_Trynka.bedL2 0.1590 0.8926 0.7425 0.8472 0.6871 0.8635 0.7370 0.8101 0.9630 0.9740 0.9496 0.9571 0.9647 0.6459 0.6744 0.8292 0.8687 0.9202 0.9533 0.9685 0.9750 0.9577 0.9692 0.9819 1.0000 0.9916 0.8559 0.8775 0.9241 0.8941 0.9168 0.9507 0.8424 0.8485 0.8209 0.8750 H3K4me1_Trynka.extend.500.bedL2 0.1724 0.9320 0.7285 0.8379 0.7206 0.8906 0.7458 0.8200 0.9521 0.9839 0.9481 0.9591 0.9805 0.6099 0.6389 0.7939 0.8369 0.9133 0.9550 0.9498 0.9605 0.9409 0.9562 0.9629 0.9916 1.0000 0.8414 0.8622 0.9160 0.8636 0.8875 0.9264 0.8511 0.8570 0.8094 0.8679 H3K4me3_peaks_Trynka.bedL2 0.1096 0.8061 0.7168 0.7635 0.5617 0.6946 0.7486 0.8177 0.9028 0.8616 0.8522 0.8456 0.8308 0.6894 0.7233 0.8397 0.8512 0.8399 0.8340 0.8531 0.8533 0.8935 0.8835 0.8884 0.8559 0.8414 1.0000 0.9773 0.9602 0.9156 0.9075 0.8991 0.6771 0.6881 0.7452 0.7976 H3K4me3_Trynka.bedL2 0.1150 0.8181 0.7508 0.8034 0.5780 0.7281 0.7439 0.8127 0.9170 0.8793 0.8594 0.8573 0.8493 0.6955 0.7314 0.8490 0.8684 0.8411 0.8460 0.8789 0.8797 0.9150 0.9064 0.9067 0.8775 0.8622 0.9773 1.0000 0.9831 0.9278 0.9304 0.9242 0.7082 0.7202 0.7534 0.8137 H3K4me3_Trynka.extend.500.bedL2 0.1389 0.8753 0.7647 0.8321 0.6225 0.7791 0.7623 0.8394 0.9474 0.9300 0.9021 0.9011 0.9044 0.6849 0.7123 0.8419 0.8694 0.8768 0.8914 0.9136 0.9171 0.9376 0.9357 0.9389 0.9241 0.9160 0.9602 0.9831 1.0000 0.9275 0.9419 0.9469 0.7582 0.7689 0.7784 0.8441 H3K9ac_peaks_Trynka.bedL2 0.1000 0.7529 0.7881 0.8470 0.5489 0.7137 0.7150 0.7832 0.9258 0.8642 0.8704 0.8578 0.8320 0.7072 0.7157 0.8825 0.9074 0.8520 0.8428 0.9043 0.9001 0.9175 0.9114 0.9286 0.8941 0.8636 0.9156 0.9278 0.9275 1.0000 0.9822 0.9684 0.7534 0.7634 0.7950 0.8504 H3K9ac_Trynka.bedL2 0.1149 0.7804 0.8083 0.8666 0.5670 0.7347 0.7239 0.7967 0.9420 0.8904 0.8901 0.8794 0.8593 0.7138 0.7188 0.8796 0.9095 0.8675 0.8641 0.9245 0.9212 0.9329 0.9280 0.9434 0.9168 0.8875 0.9075 0.9304 0.9419 0.9822 1.0000 0.9857 0.7663 0.7766 0.7938 0.8559 H3K9ac_Trynka.extend.500.bedL2 0.1291 0.8105 0.7970 0.8854 0.6094 0.7844 0.7199 0.7933 0.9540 0.9203 0.9036 0.8990 0.8913 0.6871 0.7026 0.8711 0.9103 0.8761 0.8856 0.9509 0.9504 0.9490 0.9509 0.9616 0.9507 0.9264 0.8991 0.9242 0.9469 0.9684 0.9857 1.0000 0.8040 0.8132 0.8257 0.8848 Intron_UCSC.bedL2 0.1247 0.7577 0.6866 0.8195 0.6049 0.8076 0.5570 0.6449 0.7831 0.8108 0.7770 0.7834 0.8122 0.4834 0.4833 0.6583 0.6987 0.7486 0.7855 0.8129 0.8242 0.8040 0.8222 0.8127 0.8424 0.8511 0.6771 0.7082 0.7582 0.7534 0.7663 0.8040 1.0000 0.9995 0.7144 0.7623 Intron_UCSC.extend.500.bedL2 0.1254 0.7656 0.7034 0.8335 0.6057 0.8102 0.5679 0.6563 0.7923 0.8189 0.7838 0.7900 0.8187 0.4883 0.4890 0.6661 0.7069 0.7551 0.7912 0.8192 0.8307 0.8108 0.8286 0.8193 0.8485 0.8570 0.6881 0.7202 0.7689 0.7634 0.7766 0.8132 0.9995 1.0000 0.7203 0.7699 PromoterFlanking_Hoffman.bedL2 0.0793 0.7026 0.6581 0.7535 0.5404 0.7006 0.5511 0.6127 0.7843 0.7820 0.7490 0.7510 0.7613 0.4919 0.5170 0.7131 0.7679 0.7144 0.7397 0.8160 0.8205 0.8070 0.8177 0.8155 0.8209 0.8094 0.7452 0.7534 0.7784 0.7950 0.7938 0.8257 0.7144 0.7203 1.0000 0.9399 PromoterFlanking_Hoffman.extend.500.bedL2 0.1044 0.7700 0.7037 0.8079 0.5980 0.7590 0.6142 0.6799 0.8382 0.8430 0.8070 0.8068 0.8228 0.5335 0.5583 0.7648 0.8266 0.7703 0.7955 0.8674 0.8738 0.8589 0.8707 0.8667 0.8750 0.8679 0.7976 0.8137 0.8441 0.8504 0.8559 0.8848 0.7623 0.7699 0.9399 1.0000 Promoter_UCSC.bedL2 0.0857 0.7719 0.8019 0.8773 0.5608 0.7121 0.6383 0.7184 0.8283 0.8194 0.7587 0.7601 0.7820 0.5412 0.5534 0.7082 0.7529 0.7158 0.7305 0.7988 0.8062 0.8025 0.8102 0.8108 0.8092 0.8096 0.8278 0.8591 0.8696 0.8482 0.8535 0.8642 0.7361 0.7518 0.7559 0.8174 Promoter_UCSC.extend.500.bedL2 0.0850 0.7734 0.7965 0.8755 0.5678 0.7177 0.6383 0.7158 0.8292 0.8222 0.7585 0.7609 0.7848 0.5413 0.5555 0.7079 0.7544 0.7142 0.7320 0.8037 0.8109 0.8056 0.8139 0.8137 0.8130 0.8135 0.8279 0.8594 0.8705 0.8486 0.8535 0.8671 0.7376 0.7531 0.7614 0.8232 Repressed_Hoffman.bedL2 0.1744 0.6294 0.1173 0.1474 0.4195 0.4117 0.3909 0.4113 0.2782 0.4167 0.3438 0.3751 0.4538 0.0576 0.0960 0.0269 0.0479 0.3178 0.3774 0.1786 0.2049 0.1941 0.2085 0.2085 0.2681 0.3538 0.2444 0.2469 0.3021 0.0759 0.1112 0.1250 0.1588 0.1652 0.0938 0.1413 Repressed_Hoffman.extend.500.bedL2 0.1851 0.7088 0.1832 0.2200 0.4874 0.4930 0.4715 0.4978 0.3710 0.5072 0.4396 0.4686 0.5447 0.1239 0.1638 0.1133 0.1357 0.4107 0.4711 0.2721 0.2993 0.2902 0.3053 0.3052 0.3643 0.4490 0.3330 0.3316 0.3896 0.1657 0.2002 0.2170 0.2453 0.2515 0.1825 0.2353 SuperEnhancer_Hnisz.bedL2 0.0866 0.6392 0.6789 0.6969 0.4682 0.6143 0.6187 0.6689 0.8321 0.7656 0.7837 0.7801 0.7417 0.7210 0.7405 0.8588 0.8686 0.7740 0.7730 0.8684 0.8524 0.8658 0.8491 0.8564 0.8027 0.7615 0.8043 0.8308 0.8279 0.8732 0.8793 0.8600 0.6324 0.6395 0.6739 0.7252 SuperEnhancer_Hnisz.extend.500.bedL2 0.0871 0.6417 0.6808 0.6994 0.4701 0.6172 0.6199 0.6704 0.8342 0.7683 0.7857 0.7824 0.7444 0.7200 0.7397 0.8601 0.8704 0.7757 0.7754 0.8706 0.8547 0.8678 0.8514 0.8587 0.8054 0.7643 0.8059 0.8323 0.8296 0.8747 0.8809 0.8621 0.6352 0.6423 0.6772 0.7282 TFBS_ENCODE.bedL2 0.1375 0.8074 0.7491 0.8047 0.5874 0.7430 0.7376 0.8075 0.9394 0.8971 0.9119 0.9114 0.8855 0.7052 0.7169 0.8583 0.8779 0.8865 0.8927 0.9024 0.9027 0.9074 0.9053 0.9248 0.9040 0.8863 0.8729 0.8881 0.9026 0.9082 0.9183 0.9167 0.7289 0.7382 0.7460 0.7924 TFBS_ENCODE.extend.500.bedL2 0.1724 0.9023 0.7389 0.8249 0.6747 0.8378 0.7661 0.8399 0.9579 0.9642 0.9446 0.9542 0.9605 0.6506 0.6802 0.8336 0.8697 0.9107 0.9433 0.9366 0.9432 0.9309 0.9384 0.9517 0.9564 0.9563 0.8613 0.8806 0.9193 0.8833 0.9022 0.9245 0.7896 0.7978 0.7850 0.8396 Transcribed_Hoffman.bedL2 0.1276 0.8529 0.7456 0.8585 0.6711 0.8492 0.6674 0.7515 0.8925 0.9080 0.8761 0.8762 0.9002 0.5774 0.5769 0.7771 0.8185 0.8429 0.8743 0.9046 0.9128 0.9067 0.9207 0.9138 0.9389 0.9394 0.8000 0.8169 0.8673 0.8602 0.8783 0.9116 0.8825 0.8864 0.8113 0.8618 Transcribed_Hoffman.extend.500.bedL2 0.1709 0.9715 0.6753 0.7846 0.7574 0.8997 0.7247 0.8040 0.8822 0.9389 0.8937 0.9047 0.9491 0.5411 0.5602 0.7086 0.7482 0.8570 0.9043 0.8546 0.8704 0.8679 0.8830 0.8750 0.9133 0.9439 0.8050 0.8170 0.8752 0.7876 0.8133 0.8447 0.8190 0.8241 0.7414 0.8039 TSS_Hoffman.bedL2 0.0865 0.6020 0.6809 0.7294 0.4528 0.6003 0.5736 0.6156 0.7790 0.7070 0.7136 0.7080 0.6722 0.5948 0.6339 0.8051 0.8438 0.7088 0.6959 0.7664 0.7625 0.7887 0.7808 0.7809 0.7484 0.7139 0.8159 0.8284 0.7915 0.8634 0.8383 0.8276 0.5990 0.6095 0.7397 0.7839 TSS_Hoffman.extend.500.bedL2 0.0914 0.6479 0.7080 0.7655 0.5037 0.6529 0.5927 0.6436 0.8193 0.7583 0.7482 0.7470 0.7233 0.6076 0.6540 0.8337 0.8821 0.7330 0.7347 0.8163 0.8131 0.8297 0.8250 0.8253 0.7956 0.7632 0.8366 0.8595 0.8334 0.8869 0.8730 0.8712 0.6418 0.6524 0.7850 0.8329 UTR_3_UCSC.bedL2 0.0895 0.6677 0.8944 0.8171 0.4644 0.6106 0.5796 0.6661 0.7705 0.7423 0.7201 0.7096 0.7109 0.5092 0.4946 0.6609 0.7010 0.6865 0.6931 0.7459 0.7479 0.7372 0.7422 0.7626 0.7524 0.7406 0.7253 0.7499 0.7711 0.7910 0.8059 0.7988 0.6929 0.7047 0.6730 0.7173 UTR_3_UCSC.extend.500.bedL2 0.0843 0.7117 0.8698 0.8591 0.4793 0.6348 0.6190 0.7065 0.7904 0.7692 0.7331 0.7294 0.7343 0.5045 0.5107 0.6701 0.7111 0.7026 0.7051 0.7480 0.7539 0.7460 0.7523 0.7688 0.7635 0.7594 0.7705 0.7950 0.8065 0.8096 0.8175 0.8137 0.7065 0.7217 0.6797 0.7336 UTR_5_UCSC.bedL2 0.0539 0.6324 0.6276 0.6745 0.4970 0.5911 0.5012 0.5691 0.6729 0.6716 0.6052 0.6093 0.6401 0.4453 0.4440 0.5570 0.6004 0.5672 0.5896 0.6541 0.6608 0.6518 0.6605 0.6689 0.6752 0.6749 0.6745 0.6955 0.7059 0.6797 0.6950 0.7102 0.5980 0.6087 0.6192 0.6655 UTR_5_UCSC.extend.500.bedL2 0.0695 0.7340 0.7635 0.8453 0.5684 0.7077 0.5562 0.6425 0.7880 0.7877 0.7182 0.7228 0.7528 0.5119 0.5113 0.6592 0.7093 0.6703 0.6903 0.7780 0.7852 0.7706 0.7839 0.7875 0.7958 0.7949 0.7640 0.7954 0.8187 0.8036 0.8162 0.8351 0.7476 0.7596 0.7409 0.7895 WeakEnhancer_Hoffman.bedL2 0.1178 0.6538 0.6160 0.6575 0.4307 0.5801 0.6872 0.7363 0.8229 0.7625 0.7940 0.7920 0.7465 0.6618 0.7082 0.8136 0.8262 0.7866 0.7806 0.7882 0.7853 0.8015 0.7918 0.8180 0.7772 0.7491 0.7927 0.8030 0.8000 0.8215 0.8195 0.8116 0.6137 0.6224 0.6477 0.7020 WeakEnhancer_Hoffman.extend.500.bedL2 0.1536 0.7660 0.6999 0.7590 0.5407 0.7057 0.7499 0.8135 0.9123 0.8702 0.8753 0.8740 0.8498 0.6709 0.7146 0.8801 0.9040 0.8591 0.8658 0.8803 0.8806 0.8939 0.8892 0.9083 0.8792 0.8578 0.8712 0.8827 0.8908 0.8953 0.8950 0.9010 0.7147 0.7241 0.7293 0.7939 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 0.0857 0.0850 0.1744 0.1851 0.0866 0.0871 0.1375 0.1724 0.1276 0.1709 0.0865 0.0914 0.0895 0.0843 0.0539 0.0695 0.1178 0.1536 baseL2 0.7719 0.7734 0.6294 0.7088 0.6392 0.6417 0.8074 0.9023 0.8529 0.9715 0.6020 0.6479 0.6677 0.7117 0.6324 0.7340 0.6538 0.7660 Coding_UCSC.bedL2 0.8019 0.7965 0.1173 0.1832 0.6789 0.6808 0.7491 0.7389 0.7456 0.6753 0.6809 0.7080 0.8944 0.8698 0.6276 0.7635 0.6160 0.6999 Coding_UCSC.extend.500.bedL2 0.8773 0.8755 0.1474 0.2200 0.6969 0.6994 0.8047 0.8249 0.8585 0.7846 0.7294 0.7655 0.8171 0.8591 0.6745 0.8453 0.6575 0.7590 Conserved_LindbladToh.bedL2 0.5608 0.5678 0.4195 0.4874 0.4682 0.4701 0.5874 0.6747 0.6711 0.7574 0.4528 0.5037 0.4644 0.4793 0.4970 0.5684 0.4307 0.5407 Conserved_LindbladToh.extend.500.bedL2 0.7121 0.7177 0.4117 0.4930 0.6143 0.6172 0.7430 0.8378 0.8492 0.8997 0.6003 0.6529 0.6106 0.6348 0.5911 0.7077 0.5801 0.7057 CTCF_Hoffman.bedL2 0.6383 0.6383 0.3909 0.4715 0.6187 0.6199 0.7376 0.7661 0.6674 0.7247 0.5736 0.5927 0.5796 0.6190 0.5012 0.5562 0.6872 0.7499 CTCF_Hoffman.extend.500.bedL2 0.7184 0.7158 0.4113 0.4978 0.6689 0.6704 0.8075 0.8399 0.7515 0.8040 0.6156 0.6436 0.6661 0.7065 0.5691 0.6425 0.7363 0.8135 DGF_ENCODE.bedL2 0.8283 0.8292 0.2782 0.3710 0.8321 0.8342 0.9394 0.9579 0.8925 0.8822 0.7790 0.8193 0.7705 0.7904 0.6729 0.7880 0.8229 0.9123 DGF_ENCODE.extend.500.bedL2 0.8194 0.8222 0.4167 0.5072 0.7656 0.7683 0.8971 0.9642 0.9080 0.9389 0.7070 0.7583 0.7423 0.7692 0.6716 0.7877 0.7625 0.8702 DHS_peaks_Trynka.bedL2 0.7587 0.7585 0.3438 0.4396 0.7837 0.7857 0.9119 0.9446 0.8761 0.8937 0.7136 0.7482 0.7201 0.7331 0.6052 0.7182 0.7940 0.8753 DHS_Trynka.bedL2 0.7601 0.7609 0.3751 0.4686 0.7801 0.7824 0.9114 0.9542 0.8762 0.9047 0.7080 0.7470 0.7096 0.7294 0.6093 0.7228 0.7920 0.8740 DHS_Trynka.extend.500.bedL2 0.7820 0.7848 0.4538 0.5447 0.7417 0.7444 0.8855 0.9605 0.9002 0.9491 0.6722 0.7233 0.7109 0.7343 0.6401 0.7528 0.7465 0.8498 Enhancer_Andersson.bedL2 0.5412 0.5413 0.0576 0.1239 0.7210 0.7200 0.7052 0.6506 0.5774 0.5411 0.5948 0.6076 0.5092 0.5045 0.4453 0.5119 0.6618 0.6709 Enhancer_Andersson.extend.500.bedL2 0.5534 0.5555 0.0960 0.1638 0.7405 0.7397 0.7169 0.6802 0.5769 0.5602 0.6339 0.6540 0.4946 0.5107 0.4440 0.5113 0.7082 0.7146 Enhancer_Hoffman.bedL2 0.7082 0.7079 0.0269 0.1133 0.8588 0.8601 0.8583 0.8336 0.7771 0.7086 0.8051 0.8337 0.6609 0.6701 0.5570 0.6592 0.8136 0.8801 Enhancer_Hoffman.extend.500.bedL2 0.7529 0.7544 0.0479 0.1357 0.8686 0.8704 0.8779 0.8697 0.8185 0.7482 0.8438 0.8821 0.7010 0.7111 0.6004 0.7093 0.8262 0.9040 FetalDHS_Trynka.bedL2 0.7158 0.7142 0.3178 0.4107 0.7740 0.7757 0.8865 0.9107 0.8429 0.8570 0.7088 0.7330 0.6865 0.7026 0.5672 0.6703 0.7866 0.8591 FetalDHS_Trynka.extend.500.bedL2 0.7305 0.7320 0.3774 0.4711 0.7730 0.7754 0.8927 0.9433 0.8743 0.9043 0.6959 0.7347 0.6931 0.7051 0.5896 0.6903 0.7806 0.8658 H3K27ac_Hnisz.bedL2 0.7988 0.8037 0.1786 0.2721 0.8684 0.8706 0.9024 0.9366 0.9046 0.8546 0.7664 0.8163 0.7459 0.7480 0.6541 0.7780 0.7882 0.8803 H3K27ac_Hnisz.extend.500.bedL2 0.8062 0.8109 0.2049 0.2993 0.8524 0.8547 0.9027 0.9432 0.9128 0.8704 0.7625 0.8131 0.7479 0.7539 0.6608 0.7852 0.7853 0.8806 H3K27ac_PGC2.bedL2 0.8025 0.8056 0.1941 0.2902 0.8658 0.8678 0.9074 0.9309 0.9067 0.8679 0.7887 0.8297 0.7372 0.7460 0.6518 0.7706 0.8015 0.8939 H3K27ac_PGC2.extend.500.bedL2 0.8102 0.8139 0.2085 0.3053 0.8491 0.8514 0.9053 0.9384 0.9207 0.8830 0.7808 0.8250 0.7422 0.7523 0.6605 0.7839 0.7918 0.8892 H3K4me1_peaks_Trynka.bedL2 0.8108 0.8137 0.2085 0.3052 0.8564 0.8587 0.9248 0.9517 0.9138 0.8750 0.7809 0.8253 0.7626 0.7688 0.6689 0.7875 0.8180 0.9083 H3K4me1_Trynka.bedL2 0.8092 0.8130 0.2681 0.3643 0.8027 0.8054 0.9040 0.9564 0.9389 0.9133 0.7484 0.7956 0.7524 0.7635 0.6752 0.7958 0.7772 0.8792 H3K4me1_Trynka.extend.500.bedL2 0.8096 0.8135 0.3538 0.4490 0.7615 0.7643 0.8863 0.9563 0.9394 0.9439 0.7139 0.7632 0.7406 0.7594 0.6749 0.7949 0.7491 0.8578 H3K4me3_peaks_Trynka.bedL2 0.8278 0.8279 0.2444 0.3330 0.8043 0.8059 0.8729 0.8613 0.8000 0.8050 0.8159 0.8366 0.7253 0.7705 0.6745 0.7640 0.7927 0.8712 H3K4me3_Trynka.bedL2 0.8591 0.8594 0.2469 0.3316 0.8308 0.8323 0.8881 0.8806 0.8169 0.8170 0.8284 0.8595 0.7499 0.7950 0.6955 0.7954 0.8030 0.8827 H3K4me3_Trynka.extend.500.bedL2 0.8696 0.8705 0.3021 0.3896 0.8279 0.8296 0.9026 0.9193 0.8673 0.8752 0.7915 0.8334 0.7711 0.8065 0.7059 0.8187 0.8000 0.8908 H3K9ac_peaks_Trynka.bedL2 0.8482 0.8486 0.0759 0.1657 0.8732 0.8747 0.9082 0.8833 0.8602 0.7876 0.8634 0.8869 0.7910 0.8096 0.6797 0.8036 0.8215 0.8953 H3K9ac_Trynka.bedL2 0.8535 0.8535 0.1112 0.2002 0.8793 0.8809 0.9183 0.9022 0.8783 0.8133 0.8383 0.8730 0.8059 0.8175 0.6950 0.8162 0.8195 0.8950 H3K9ac_Trynka.extend.500.bedL2 0.8642 0.8671 0.1250 0.2170 0.8600 0.8621 0.9167 0.9245 0.9116 0.8447 0.8276 0.8712 0.7988 0.8137 0.7102 0.8351 0.8116 0.9010 Intron_UCSC.bedL2 0.7361 0.7376 0.1588 0.2453 0.6324 0.6352 0.7289 0.7896 0.8825 0.8190 0.5990 0.6418 0.6929 0.7065 0.5980 0.7476 0.6137 0.7147 Intron_UCSC.extend.500.bedL2 0.7518 0.7531 0.1652 0.2515 0.6395 0.6423 0.7382 0.7978 0.8864 0.8241 0.6095 0.6524 0.7047 0.7217 0.6087 0.7596 0.6224 0.7241 PromoterFlanking_Hoffman.bedL2 0.7559 0.7614 0.0938 0.1825 0.6739 0.6772 0.7460 0.7850 0.8113 0.7414 0.7397 0.7850 0.6730 0.6797 0.6192 0.7409 0.6477 0.7293 PromoterFlanking_Hoffman.extend.500.bedL2 0.8174 0.8232 0.1413 0.2353 0.7252 0.7282 0.7924 0.8396 0.8618 0.8039 0.7839 0.8329 0.7173 0.7336 0.6655 0.7895 0.7020 0.7939 Promoter_UCSC.bedL2 1.0000 0.9981 0.2419 0.3139 0.7013 0.7035 0.7888 0.8127 0.7848 0.7661 0.7449 0.7906 0.8084 0.8795 0.7735 0.9272 0.6788 0.7781 Promoter_UCSC.extend.500.bedL2 0.9981 1.0000 0.2406 0.3131 0.7026 0.7047 0.7891 0.8159 0.7874 0.7680 0.7430 0.7916 0.8054 0.8751 0.7788 0.9289 0.6789 0.7794 Repressed_Hoffman.bedL2 0.2419 0.2406 1.0000 0.9864 0.0376 0.0386 0.2111 0.3394 0.1606 0.4920 -0.0068 0.0183 0.1114 0.1832 0.1774 0.1859 0.0874 0.1477 Repressed_Hoffman.extend.500.bedL2 0.3139 0.3131 0.9864 1.0000 0.1159 0.1172 0.2981 0.4287 0.2629 0.5861 0.0681 0.0967 0.1875 0.2561 0.2396 0.2579 0.1743 0.2414 SuperEnhancer_Hnisz.bedL2 0.7013 0.7026 0.0376 0.1159 1.0000 0.9999 0.8361 0.8017 0.7335 0.6670 0.7406 0.7784 0.6964 0.6763 0.5502 0.6589 0.7505 0.8112 SuperEnhancer_Hnisz.extend.500.bedL2 0.7035 0.7047 0.0386 0.1172 0.9999 1.0000 0.8379 0.8043 0.7361 0.6697 0.7428 0.7809 0.6984 0.6786 0.5521 0.6613 0.7521 0.8132 TFBS_ENCODE.bedL2 0.7888 0.7891 0.2111 0.2981 0.8361 0.8379 1.0000 0.9635 0.8403 0.8174 0.8062 0.8366 0.7479 0.7654 0.6376 0.7446 0.8081 0.8826 TFBS_ENCODE.extend.500.bedL2 0.8127 0.8159 0.3394 0.4287 0.8017 0.8043 0.9635 1.0000 0.8915 0.9017 0.7536 0.8007 0.7432 0.7662 0.6615 0.7748 0.7851 0.8850 Transcribed_Hoffman.bedL2 0.7848 0.7874 0.1606 0.2629 0.7335 0.7361 0.8403 0.8915 1.0000 0.9267 0.7081 0.7495 0.7632 0.7603 0.6685 0.7971 0.6992 0.8090 Transcribed_Hoffman.extend.500.bedL2 0.7661 0.7680 0.4920 0.5861 0.6670 0.6697 0.8174 0.9017 0.9267 1.0000 0.6358 0.6790 0.6945 0.7194 0.6367 0.7505 0.6621 0.7747 TSS_Hoffman.bedL2 0.7449 0.7430 -0.0068 0.0681 0.7406 0.7428 0.8062 0.7536 0.7081 0.6358 1.0000 0.9730 0.6675 0.7057 0.5860 0.6955 0.7181 0.7787 TSS_Hoffman.extend.500.bedL2 0.7906 0.7916 0.0183 0.0967 0.7784 0.7809 0.8366 0.8007 0.7495 0.6790 0.9730 1.0000 0.7072 0.7343 0.6372 0.7463 0.7500 0.8193 UTR_3_UCSC.bedL2 0.8084 0.8054 0.1114 0.1875 0.6964 0.6984 0.7479 0.7432 0.7632 0.6945 0.6675 0.7072 1.0000 0.9195 0.6523 0.7894 0.6030 0.6957 UTR_3_UCSC.extend.500.bedL2 0.8795 0.8751 0.1832 0.2561 0.6763 0.6786 0.7654 0.7662 0.7603 0.7194 0.7057 0.7343 0.9195 1.0000 0.6754 0.8225 0.6347 0.7264 UTR_5_UCSC.bedL2 0.7735 0.7788 0.1774 0.2396 0.5502 0.5521 0.6376 0.6615 0.6685 0.6367 0.5860 0.6372 0.6523 0.6754 1.0000 0.8830 0.5277 0.6140 UTR_5_UCSC.extend.500.bedL2 0.9272 0.9289 0.1859 0.2579 0.6589 0.6613 0.7446 0.7748 0.7971 0.7505 0.6955 0.7463 0.7894 0.8225 0.8830 1.0000 0.6111 0.7145 WeakEnhancer_Hoffman.bedL2 0.6788 0.6789 0.0874 0.1743 0.7505 0.7521 0.8081 0.7851 0.6992 0.6621 0.7181 0.7500 0.6030 0.6347 0.5277 0.6111 1.0000 0.9335 WeakEnhancer_Hoffman.extend.500.bedL2 0.7781 0.7794 0.1477 0.2414 0.8112 0.8132 0.8826 0.8850 0.8090 0.7747 0.7787 0.8193 0.6957 0.7264 0.6140 0.7145 0.9335 1.0000 LD Score Matrix Condition Number 890.6474 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 0.4686 0.2692 0.1562 0.0146 0.0199 0.0707 0.0644 0.0443 0.0542 0.0457 -0.0111 -0.0225 0.0256 0.0395 0.0455 0.0365 0.0614 0.0593 0.0570 0.0565 0.0501 0.0826 0.0671 0.0665 0.0903 0.0814 0.0679 0.1093 0.1078 -0.0874 0.0530 -0.0007 0.0126 0.1158 0.1122 -0.0853 Coding_UCSC.extend.500.bed NaN 0.4686 1.0000 0.1397 0.3586 0.0214 0.0349 0.0866 0.1093 0.0623 0.0701 0.0735 -0.0221 -0.0345 0.0483 0.0643 0.0703 0.0557 0.1107 0.1085 0.0995 0.0998 0.0706 0.1490 0.1314 0.1078 0.1466 0.1402 0.1168 0.1875 0.2020 0.1778 0.2587 0.0086 0.0386 0.2485 0.2431 -0.1706 Conserved_LindbladToh.bed NaN 0.2692 0.1397 1.0000 0.2320 0.0030 0.0027 0.0802 0.0545 0.1254 0.1291 0.0733 0.0171 0.0058 0.0359 0.0290 0.1352 0.0854 0.0295 0.0280 0.0427 0.0346 0.0622 0.0752 0.0597 0.0546 0.0725 0.0557 0.0450 0.0714 0.0540 -0.0145 0.0418 0.0080 0.0149 0.0421 0.0384 -0.0267 Conserved_LindbladToh.extend.500.bed NaN 0.1562 0.3586 0.2320 1.0000 0.0384 0.0305 0.1016 0.1515 0.1530 0.1821 0.2130 0.0268 0.0456 0.1040 0.1102 0.1803 0.2345 0.1124 0.1112 0.1449 0.1316 0.1537 0.2132 0.1896 0.1119 0.1608 0.1485 0.1200 0.1831 0.1742 0.1561 0.1856 0.0239 0.0481 0.1066 0.1036 -0.0996 CTCF_Hoffman.bed NaN 0.0146 0.0214 0.0030 0.0384 1.0000 0.5619 0.1167 0.1087 0.1327 0.1349 0.1076 0.0062 0.0058 0.0334 0.0555 0.1272 0.1219 0.0314 0.0323 0.0310 0.0265 0.0694 0.0649 0.0524 0.0395 0.0535 0.0587 0.0517 0.0738 0.0831 -0.0105 -0.0076 -0.0109 0.0111 0.0170 0.0191 -0.1469 CTCF_Hoffman.extend.500.bed NaN 0.0199 0.0349 0.0027 0.0305 0.5619 1.0000 0.0855 0.1487 0.0918 0.0972 0.1485 0.0111 0.0219 0.0525 0.0875 0.0919 0.1476 0.0560 0.0586 0.0540 0.0523 0.0728 0.0798 0.0799 0.0496 0.0694 0.0917 0.0618 0.0985 0.1249 -0.0101 -0.0063 -0.0052 0.0170 0.0334 0.0372 -0.1295 DGF_ENCODE.bed NaN 0.0707 0.0866 0.0802 0.1016 0.1167 0.0855 1.0000 0.3518 0.5113 0.4933 0.2499 0.1018 0.0828 0.1970 0.1913 0.3472 0.2113 0.1927 0.1861 0.2183 0.1976 0.2780 0.2745 0.1993 0.1823 0.2533 0.2162 0.1713 0.2507 0.2343 0.0304 0.0485 0.0371 0.0715 0.1053 0.1071 -0.1861 DGF_ENCODE.extend.500.bed NaN 0.0644 0.1093 0.0545 0.1515 0.1087 0.1487 0.3518 1.0000 0.2482 0.3109 0.5382 0.0518 0.0969 0.1786 0.2420 0.2070 0.3534 0.3195 0.3217 0.3228 0.3158 0.2953 0.4386 0.4218 0.1422 0.2456 0.3010 0.1565 0.2757 0.3347 0.0698 0.0829 0.0541 0.1050 0.1126 0.1173 -0.2555 DHS_peaks_Trynka.bed NaN 0.0443 0.0623 0.1254 0.1530 0.1327 0.0918 0.5113 0.2482 1.0000 0.7746 0.3380 0.1140 0.0969 0.2138 0.1950 0.6453 0.3556 0.1720 0.1640 0.2144 0.1861 0.2948 0.2739 0.1952 0.2196 0.2651 0.2145 0.1946 0.2537 0.2167 0.0262 0.0413 0.0268 0.0694 0.0896 0.0817 -0.1498 DHS_Trynka.bed NaN 0.0542 0.0701 0.1291 0.1821 0.1349 0.0972 0.4933 0.3109 0.7746 1.0000 0.4272 0.1144 0.1140 0.2426 0.2226 0.6725 0.4159 0.2079 0.1993 0.2555 0.2219 0.3472 0.3349 0.2407 0.2405 0.3009 0.2493 0.2193 0.2893 0.2481 0.0329 0.0491 0.0297 0.0734 0.0942 0.0856 -0.1733 DHS_Trynka.extend.500.bed NaN 0.0457 0.0735 0.0733 0.2130 0.1076 0.1485 0.2499 0.5382 0.3380 0.4272 1.0000 0.0562 0.1077 0.1857 0.2458 0.2873 0.6115 0.2887 0.2933 0.3206 0.3009 0.3037 0.4526 0.4374 0.1406 0.2332 0.2844 0.1528 0.2607 0.3089 0.0662 0.0748 0.0365 0.0836 0.0810 0.0756 -0.2057 Enhancer_Andersson.bed NaN -0.0111 -0.0221 0.0171 0.0268 0.0062 0.0111 0.1018 0.0518 0.1140 0.1144 0.0562 1.0000 0.4826 0.1156 0.1037 0.1401 0.0810 0.0671 0.0628 0.0890 0.0782 0.0834 0.0621 0.0428 0.0814 0.1133 0.0892 0.0716 0.1011 0.0831 0.0057 0.0035 0.0176 0.0296 0.0140 0.0180 -0.0504 Enhancer_Andersson.extend.500.bed NaN -0.0225 -0.0345 0.0058 0.0456 0.0058 0.0219 0.0828 0.0969 0.0969 0.1140 0.1077 0.4826 1.0000 0.1941 0.1955 0.1240 0.1517 0.1289 0.1210 0.1729 0.1520 0.1337 0.1184 0.0835 0.1299 0.1854 0.1621 0.1216 0.1719 0.1507 0.0091 0.0054 0.0267 0.0515 0.0245 0.0292 -0.0861 Enhancer_Hoffman.bed NaN 0.0256 0.0483 0.0359 0.1040 0.0334 0.0525 0.1970 0.1786 0.2138 0.2426 0.1857 0.1156 0.1941 1.0000 0.6605 0.2202 0.2309 0.2114 0.2011 0.2941 0.2587 0.2692 0.2163 0.1481 0.2516 0.3239 0.2734 0.2413 0.3263 0.2767 0.0093 0.0186 0.0429 0.1344 0.1296 0.1280 -0.1976 Enhancer_Hoffman.extend.500.bed NaN 0.0395 0.0643 0.0290 0.1102 0.0555 0.0875 0.1913 0.2420 0.1950 0.2226 0.2458 0.1037 0.1955 0.6605 1.0000 0.2043 0.2812 0.2932 0.2877 0.4040 0.3697 0.2734 0.2839 0.2200 0.2346 0.3551 0.3610 0.2325 0.3664 0.3735 0.0112 0.0239 0.0882 0.2206 0.1815 0.1820 -0.2758 FetalDHS_Trynka.bed NaN 0.0455 0.0703 0.1352 0.1803 0.1272 0.0919 0.3472 0.2070 0.6453 0.6725 0.2873 0.1401 0.1240 0.2202 0.2043 1.0000 0.4699 0.1694 0.1603 0.2156 0.1842 0.2881 0.2580 0.1824 0.2573 0.2983 0.2372 0.2237 0.2762 0.2257 0.0272 0.0438 0.0259 0.0789 0.1109 0.1013 -0.1289 FetalDHS_Trynka.extend.500.bed NaN 0.0365 0.0557 0.0854 0.2345 0.1219 0.1476 0.2113 0.3534 0.3556 0.4159 0.6115 0.0810 0.1517 0.2309 0.2812 0.4699 1.0000 0.2737 0.2710 0.3200 0.2920 0.3240 0.4071 0.3473 0.1917 0.2911 0.3228 0.1980 0.3063 0.3252 0.0520 0.0611 0.0376 0.0965 0.1033 0.0953 -0.1713 H3K27ac_Hnisz.bed NaN 0.0614 0.1107 0.0295 0.1124 0.0314 0.0560 0.1927 0.3195 0.1720 0.2079 0.2887 0.0671 0.1289 0.2114 0.2932 0.1694 0.2737 1.0000 0.9311 0.5122 0.5450 0.2919 0.4358 0.4038 0.1508 0.2697 0.3219 0.1856 0.3368 0.4103 0.1458 0.1558 0.0578 0.1156 0.1093 0.1175 -0.2862 H3K27ac_Hnisz.extend.500.bed NaN 0.0593 0.1085 0.0280 0.1112 0.0323 0.0586 0.1861 0.3217 0.1640 0.1993 0.2933 0.0628 0.1210 0.2011 0.2877 0.1603 0.2710 0.9311 1.0000 0.5178 0.5623 0.2808 0.4383 0.4277 0.1418 0.2575 0.3183 0.1759 0.3210 0.4059 0.1466 0.1558 0.0571 0.1180 0.1066 0.1166 -0.2845 H3K27ac_PGC2.bed NaN 0.0570 0.0995 0.0427 0.1449 0.0310 0.0540 0.2183 0.3228 0.2144 0.2555 0.3206 0.0890 0.1729 0.2941 0.4040 0.2156 0.3200 0.5122 0.5178 1.0000 0.8461 0.3435 0.4630 0.3864 0.2244 0.3862 0.4377 0.2465 0.4327 0.4858 0.1381 0.1497 0.0918 0.1751 0.1631 0.1660 -0.3011 H3K27ac_PGC2.extend.500.bed NaN 0.0565 0.0998 0.0346 0.1316 0.0265 0.0523 0.1976 0.3158 0.1861 0.2219 0.3009 0.0782 0.1520 0.2587 0.3697 0.1842 0.2920 0.5450 0.5623 0.8461 1.0000 0.3192 0.4660 0.4163 0.1942 0.3439 0.4084 0.2178 0.3917 0.4680 0.1503 0.1614 0.0870 0.1693 0.1569 0.1648 -0.3082 H3K4me1_peaks_Trynka.bed NaN 0.0501 0.0706 0.0622 0.1537 0.0694 0.0728 0.2780 0.2953 0.2948 0.3472 0.3037 0.0834 0.1337 0.2692 0.2734 0.2881 0.3240 0.2919 0.2808 0.3435 0.3192 1.0000 0.4913 0.3293 0.2676 0.3731 0.3208 0.2945 0.3942 0.3520 0.0957 0.1050 0.0924 0.1398 0.1157 0.1182 -0.2301 H3K4me1_Trynka.bed NaN 0.0826 0.1490 0.0752 0.2132 0.0649 0.0798 0.2745 0.4386 0.2739 0.3349 0.4526 0.0621 0.1184 0.2163 0.2839 0.2580 0.4071 0.4358 0.4383 0.4630 0.4660 0.4913 1.0000 0.6640 0.1768 0.3141 0.3848 0.2053 0.3734 0.4534 0.1691 0.1828 0.0714 0.1310 0.1252 0.1300 -0.3101 H3K4me1_Trynka.extend.500.bed NaN 0.0671 0.1314 0.0597 0.1896 0.0524 0.0799 0.1993 0.4218 0.1952 0.2407 0.4374 0.0428 0.0835 0.1481 0.2200 0.1824 0.3473 0.4038 0.4277 0.3864 0.4163 0.3293 0.6640 1.0000 0.1157 0.2123 0.2935 0.1400 0.2624 0.3699 0.1810 0.1913 0.0493 0.1024 0.1057 0.1106 -0.2783 H3K4me3_peaks_Trynka.bed NaN 0.0665 0.1078 0.0546 0.1119 0.0395 0.0496 0.1823 0.1422 0.2196 0.2405 0.1406 0.0814 0.1299 0.2516 0.2346 0.2573 0.1917 0.1508 0.1418 0.2244 0.1942 0.2676 0.1768 0.1157 1.0000 0.5347 0.3560 0.3739 0.3524 0.2616 0.0402 0.0596 0.0800 0.1419 0.1820 0.1741 -0.1363 H3K4me3_Trynka.bed NaN 0.0903 0.1466 0.0725 0.1608 0.0535 0.0694 0.2533 0.2456 0.2651 0.3009 0.2332 0.1133 0.1854 0.3239 0.3551 0.2983 0.2911 0.2697 0.2575 0.3862 0.3439 0.3731 0.3141 0.2123 0.5347 1.0000 0.6572 0.3490 0.5397 0.4497 0.0721 0.0966 0.1497 0.2430 0.2610 0.2653 -0.2271 H3K4me3_Trynka.extend.500.bed NaN 0.0814 0.1402 0.0557 0.1485 0.0587 0.0917 0.2162 0.3010 0.2145 0.2493 0.2844 0.0892 0.1621 0.2734 0.3610 0.2372 0.3228 0.3219 0.3183 0.4377 0.4084 0.3208 0.3848 0.2935 0.3560 0.6572 1.0000 0.2653 0.4727 0.5281 0.0785 0.0981 0.1130 0.2193 0.2164 0.2247 -0.2555 H3K9ac_peaks_Trynka.bed NaN 0.0679 0.1168 0.0450 0.1200 0.0517 0.0618 0.1713 0.1565 0.1946 0.2193 0.1528 0.0716 0.1216 0.2413 0.2325 0.2237 0.1980 0.1856 0.1759 0.2465 0.2178 0.2945 0.2053 0.1400 0.3739 0.3490 0.2653 1.0000 0.5280 0.3616 0.0728 0.0879 0.0684 0.1228 0.1566 0.1561 -0.1556 H3K9ac_Trynka.bed NaN 0.1093 0.1875 0.0714 0.1831 0.0738 0.0985 0.2507 0.2757 0.2537 0.2893 0.2607 0.1011 0.1719 0.3263 0.3664 0.2762 0.3063 0.3368 0.3210 0.4327 0.3917 0.3942 0.3734 0.2624 0.3524 0.5397 0.4727 0.5280 1.0000 0.6785 0.1149 0.1401 0.1233 0.2100 0.2405 0.2459 -0.2701 H3K9ac_Trynka.extend.500.bed NaN 0.1078 0.2020 0.0540 0.1742 0.0831 0.1249 0.2343 0.3347 0.2167 0.2481 0.3089 0.0831 0.1507 0.2767 0.3735 0.2257 0.3252 0.4103 0.4059 0.4858 0.4680 0.3520 0.4534 0.3699 0.2616 0.4497 0.5281 0.3616 0.6785 1.0000 0.1490 0.1711 0.1059 0.2053 0.2172 0.2258 -0.3305 Intron_UCSC.bed NaN -0.0874 0.1778 -0.0145 0.1561 -0.0105 -0.0101 0.0304 0.0698 0.0262 0.0329 0.0662 0.0057 0.0091 0.0093 0.0112 0.0272 0.0520 0.1458 0.1466 0.1381 0.1503 0.0957 0.1691 0.1810 0.0402 0.0721 0.0785 0.0728 0.1149 0.1490 1.0000 0.9721 0.0383 0.0279 0.0786 0.0872 -0.2195 Intron_UCSC.extend.500.bed NaN 0.0530 0.2587 0.0418 0.1856 -0.0076 -0.0063 0.0485 0.0829 0.0413 0.0491 0.0748 0.0035 0.0054 0.0186 0.0239 0.0438 0.0611 0.1558 0.1558 0.1497 0.1614 0.1050 0.1828 0.1913 0.0596 0.0966 0.0981 0.0879 0.1401 0.1711 0.9721 1.0000 0.0388 0.0370 0.1221 0.1271 -0.2347 PromoterFlanking_Hoffman.bed NaN -0.0007 0.0086 0.0080 0.0239 -0.0109 -0.0052 0.0371 0.0541 0.0268 0.0297 0.0365 0.0176 0.0267 0.0429 0.0882 0.0259 0.0376 0.0578 0.0571 0.0918 0.0870 0.0924 0.0714 0.0493 0.0800 0.1497 0.1130 0.0684 0.1233 0.1059 0.0383 0.0388 1.0000 0.4803 0.1124 0.1208 -0.0725 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0126 0.0386 0.0149 0.0481 0.0111 0.0170 0.0715 0.1050 0.0694 0.0734 0.0836 0.0296 0.0515 0.1344 0.2206 0.0789 0.0965 0.1156 0.1180 0.1751 0.1693 0.1398 0.1310 0.1024 0.1419 0.2430 0.2193 0.1228 0.2100 0.2053 0.0279 0.0370 0.4803 1.0000 0.2162 0.2264 -0.1316 Promoter_UCSC.bed NaN 0.1158 0.2485 0.0421 0.1066 0.0170 0.0334 0.1053 0.1126 0.0896 0.0942 0.0810 0.0140 0.0245 0.1296 0.1815 0.1109 0.1033 0.1093 0.1066 0.1631 0.1569 0.1157 0.1252 0.1057 0.1820 0.2610 0.2164 0.1566 0.2405 0.2172 0.0786 0.1221 0.1124 0.2162 1.0000 0.8952 -0.1250 Promoter_UCSC.extend.500.bed NaN 0.1122 0.2431 0.0384 0.1036 0.0191 0.0372 0.1071 0.1173 0.0817 0.0856 0.0756 0.0180 0.0292 0.1280 0.1820 0.1013 0.0953 0.1175 0.1166 0.1660 0.1648 0.1182 0.1300 0.1106 0.1741 0.2653 0.2247 0.1561 0.2459 0.2258 0.0872 0.1271 0.1208 0.2264 0.8952 1.0000 -0.1325 Repressed_Hoffman.bed NaN -0.0853 -0.1706 -0.0267 -0.0996 -0.1469 -0.1295 -0.1861 -0.2555 -0.1498 -0.1733 -0.2057 -0.0504 -0.0861 -0.1976 -0.2758 -0.1289 -0.1713 -0.2862 -0.2845 -0.3011 -0.3082 -0.2301 -0.3101 -0.2783 -0.1363 -0.2271 -0.2555 -0.1556 -0.2701 -0.3305 -0.2195 -0.2347 -0.0725 -0.1316 -0.1250 -0.1325 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1302 -0.2626 -0.0369 -0.1398 -0.0636 -0.0903 -0.1996 -0.2787 -0.1505 -0.1759 -0.2220 -0.0677 -0.1213 -0.2862 -0.3766 -0.1441 -0.2001 -0.3815 -0.3770 -0.4114 -0.4193 -0.2718 -0.3791 -0.3450 -0.1820 -0.3044 -0.3323 -0.2173 -0.3687 -0.4427 -0.3261 -0.3475 -0.0899 -0.1629 -0.1807 -0.1923 0.6195 SuperEnhancer_Hnisz.bed NaN 0.0536 0.0888 0.0108 0.0614 0.0178 0.0392 0.1577 0.2151 0.1110 0.1297 0.1759 0.0868 0.1590 0.2142 0.2826 0.1107 0.1705 0.5427 0.5053 0.4053 0.4058 0.2264 0.2958 0.2549 0.1433 0.2443 0.2681 0.1855 0.3223 0.3511 0.1041 0.1136 0.0422 0.0862 0.1100 0.1169 -0.2405 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0536 0.0898 0.0095 0.0613 0.0184 0.0408 0.1568 0.2158 0.1100 0.1287 0.1761 0.0861 0.1580 0.2136 0.2844 0.1098 0.1703 0.5421 0.5116 0.4081 0.4101 0.2257 0.2971 0.2580 0.1420 0.2446 0.2704 0.1849 0.3232 0.3550 0.1039 0.1137 0.0435 0.0887 0.1128 0.1203 -0.2426 TFBS_ENCODE.bed NaN 0.0666 0.1085 0.0596 0.1177 0.2233 0.1662 0.3595 0.2789 0.3559 0.4063 0.2717 0.1091 0.1349 0.3016 0.3058 0.3220 0.2705 0.2261 0.2166 0.2691 0.2403 0.2889 0.2747 0.1973 0.2440 0.3273 0.2823 0.2214 0.3120 0.2872 0.0204 0.0395 0.0470 0.1062 0.1543 0.1544 -0.2337 TFBS_ENCODE.extend.500.bed NaN 0.0505 0.0863 0.0385 0.1177 0.1617 0.2482 0.2285 0.3999 0.2224 0.2686 0.3971 0.0670 0.1259 0.2394 0.3253 0.2031 0.3307 0.2950 0.2922 0.3235 0.3049 0.2637 0.3412 0.2983 0.1679 0.2743 0.3150 0.1705 0.2890 0.3300 0.0329 0.0454 0.0603 0.1237 0.1299 0.1339 -0.2536 Transcribed_Hoffman.bed NaN 0.0810 0.1723 0.0092 0.0625 -0.0444 -0.0241 0.0164 0.0466 -0.0301 -0.0287 0.0059 -0.0025 -0.0045 -0.0065 0.0089 -0.0409 -0.0237 0.1449 0.1451 0.1194 0.1429 0.0530 0.1226 0.1290 -0.0071 0.0259 0.0570 0.0418 0.0812 0.1365 0.3447 0.3498 0.0089 -0.0010 -0.0053 0.0047 -0.5758 Transcribed_Hoffman.extend.500.bed NaN 0.0160 0.0394 -0.0038 0.0032 -0.0274 -0.0340 -0.0490 -0.0553 -0.0687 -0.0721 -0.0674 -0.0148 -0.0249 -0.0619 -0.0628 -0.0751 -0.0799 0.0072 0.0083 -0.0054 0.0071 -0.0405 -0.0268 -0.0131 -0.0647 -0.0677 -0.0448 -0.0317 -0.0369 -0.0195 0.2028 0.1968 -0.0011 -0.0236 -0.0665 -0.0576 -0.2090 TSS_Hoffman.bed NaN 0.0751 0.1419 0.0445 0.1116 0.0234 0.0294 0.1757 0.1240 0.1997 0.2047 0.1259 0.1007 0.1382 0.1739 0.2657 0.2383 0.1800 0.1485 0.1384 0.2226 0.1902 0.1824 0.1420 0.1013 0.3083 0.3323 0.2354 0.2719 0.3129 0.2323 0.0357 0.0674 0.0721 0.2079 0.3162 0.2979 -0.1330 TSS_Hoffman.extend.500.bed NaN 0.0629 0.1258 0.0384 0.1091 0.0391 0.0638 0.1628 0.1675 0.1693 0.1808 0.1610 0.0846 0.1621 0.3045 0.4206 0.2057 0.2179 0.2018 0.1939 0.2958 0.2624 0.2166 0.1931 0.1437 0.2891 0.3966 0.3177 0.2616 0.3729 0.3154 0.0305 0.0562 0.1674 0.3356 0.3367 0.3286 -0.1884 UTR_3_UCSC.bed NaN 0.5925 0.2988 0.0794 0.0930 0.0112 0.0151 0.0441 0.0496 0.0271 0.0330 0.0374 -0.0076 -0.0188 0.0247 0.0343 0.0289 0.0366 0.0471 0.0467 0.0506 0.0512 0.0454 0.0702 0.0567 0.0320 0.0590 0.0623 0.0418 0.0796 0.0845 -0.0475 0.0036 0.0020 0.0059 0.0723 0.0752 -0.0695 UTR_3_UCSC.extend.500.bed NaN 0.4384 0.4568 0.0744 0.1504 0.0176 0.0230 0.0587 0.0676 0.0333 0.0420 0.0470 -0.0128 -0.0219 0.0341 0.0482 0.0368 0.0396 0.0649 0.0641 0.0678 0.0693 0.0569 0.0939 0.0796 0.0547 0.0875 0.0925 0.0658 0.1129 0.1210 0.0180 0.0701 0.0025 0.0071 0.1540 0.1557 -0.1011 UTR_5_UCSC.bed NaN 0.2856 0.1584 0.0753 0.0621 0.0025 0.0063 0.0491 0.0390 0.0441 0.0495 0.0265 -0.0066 -0.0123 0.0334 0.0460 0.0584 0.0343 0.0346 0.0349 0.0469 0.0453 0.0339 0.0417 0.0363 0.0746 0.0810 0.0609 0.0577 0.0807 0.0668 -0.0088 0.0551 0.0063 0.0293 0.2087 0.1945 -0.0486 UTR_5_UCSC.extend.500.bed NaN 0.1745 0.4399 0.0717 0.1625 0.0059 0.0148 0.0841 0.0793 0.0866 0.0927 0.0594 -0.0127 -0.0129 0.0794 0.1013 0.1130 0.0785 0.0772 0.0746 0.1078 0.1014 0.0723 0.0977 0.0829 0.1540 0.1756 0.1383 0.1319 0.1762 0.1540 0.0908 0.1548 0.0286 0.0882 0.4294 0.4009 -0.1071 WeakEnhancer_Hoffman.bed NaN 0.0089 0.0107 0.0128 0.0466 0.0236 0.0467 0.1601 0.1206 0.1694 0.1853 0.1229 0.0726 0.0811 0.1125 0.1576 0.1523 0.1289 0.0996 0.0960 0.1344 0.1224 0.1973 0.1411 0.0972 0.1233 0.1735 0.1502 0.1379 0.1674 0.1479 0.0078 0.0106 0.0077 0.0500 0.0452 0.0470 -0.1348 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0116 0.0219 0.0149 0.0669 0.0759 0.1143 0.1557 0.2300 0.1596 0.1875 0.2279 0.0718 0.1239 0.2113 0.3069 0.1559 0.2322 0.1902 0.1901 0.2353 0.2293 0.2402 0.2492 0.1995 0.1307 0.2252 0.2636 0.1502 0.2384 0.2714 0.0110 0.0132 0.0491 0.1123 0.0792 0.0854 -0.2312 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 -0.1302 0.0536 0.0536 0.0666 0.0505 0.0810 0.0160 0.0751 0.0629 0.5925 0.4384 0.2856 0.1745 0.0089 0.0116 Coding_UCSC.extend.500.bed -0.2626 0.0888 0.0898 0.1085 0.0863 0.1723 0.0394 0.1419 0.1258 0.2988 0.4568 0.1584 0.4399 0.0107 0.0219 Conserved_LindbladToh.bed -0.0369 0.0108 0.0095 0.0596 0.0385 0.0092 -0.0038 0.0445 0.0384 0.0794 0.0744 0.0753 0.0717 0.0128 0.0149 Conserved_LindbladToh.extend.500.bed -0.1398 0.0614 0.0613 0.1177 0.1177 0.0625 0.0032 0.1116 0.1091 0.0930 0.1504 0.0621 0.1625 0.0466 0.0669 CTCF_Hoffman.bed -0.0636 0.0178 0.0184 0.2233 0.1617 -0.0444 -0.0274 0.0234 0.0391 0.0112 0.0176 0.0025 0.0059 0.0236 0.0759 CTCF_Hoffman.extend.500.bed -0.0903 0.0392 0.0408 0.1662 0.2482 -0.0241 -0.0340 0.0294 0.0638 0.0151 0.0230 0.0063 0.0148 0.0467 0.1143 DGF_ENCODE.bed -0.1996 0.1577 0.1568 0.3595 0.2285 0.0164 -0.0490 0.1757 0.1628 0.0441 0.0587 0.0491 0.0841 0.1601 0.1557 DGF_ENCODE.extend.500.bed -0.2787 0.2151 0.2158 0.2789 0.3999 0.0466 -0.0553 0.1240 0.1675 0.0496 0.0676 0.0390 0.0793 0.1206 0.2300 DHS_peaks_Trynka.bed -0.1505 0.1110 0.1100 0.3559 0.2224 -0.0301 -0.0687 0.1997 0.1693 0.0271 0.0333 0.0441 0.0866 0.1694 0.1596 DHS_Trynka.bed -0.1759 0.1297 0.1287 0.4063 0.2686 -0.0287 -0.0721 0.2047 0.1808 0.0330 0.0420 0.0495 0.0927 0.1853 0.1875 DHS_Trynka.extend.500.bed -0.2220 0.1759 0.1761 0.2717 0.3971 0.0059 -0.0674 0.1259 0.1610 0.0374 0.0470 0.0265 0.0594 0.1229 0.2279 Enhancer_Andersson.bed -0.0677 0.0868 0.0861 0.1091 0.0670 -0.0025 -0.0148 0.1007 0.0846 -0.0076 -0.0128 -0.0066 -0.0127 0.0726 0.0718 Enhancer_Andersson.extend.500.bed -0.1213 0.1590 0.1580 0.1349 0.1259 -0.0045 -0.0249 0.1382 0.1621 -0.0188 -0.0219 -0.0123 -0.0129 0.0811 0.1239 Enhancer_Hoffman.bed -0.2862 0.2142 0.2136 0.3016 0.2394 -0.0065 -0.0619 0.1739 0.3045 0.0247 0.0341 0.0334 0.0794 0.1125 0.2113 Enhancer_Hoffman.extend.500.bed -0.3766 0.2826 0.2844 0.3058 0.3253 0.0089 -0.0628 0.2657 0.4206 0.0343 0.0482 0.0460 0.1013 0.1576 0.3069 FetalDHS_Trynka.bed -0.1441 0.1107 0.1098 0.3220 0.2031 -0.0409 -0.0751 0.2383 0.2057 0.0289 0.0368 0.0584 0.1130 0.1523 0.1559 FetalDHS_Trynka.extend.500.bed -0.2001 0.1705 0.1703 0.2705 0.3307 -0.0237 -0.0799 0.1800 0.2179 0.0366 0.0396 0.0343 0.0785 0.1289 0.2322 H3K27ac_Hnisz.bed -0.3815 0.5427 0.5421 0.2261 0.2950 0.1449 0.0072 0.1485 0.2018 0.0471 0.0649 0.0346 0.0772 0.0996 0.1902 H3K27ac_Hnisz.extend.500.bed -0.3770 0.5053 0.5116 0.2166 0.2922 0.1451 0.0083 0.1384 0.1939 0.0467 0.0641 0.0349 0.0746 0.0960 0.1901 H3K27ac_PGC2.bed -0.4114 0.4053 0.4081 0.2691 0.3235 0.1194 -0.0054 0.2226 0.2958 0.0506 0.0678 0.0469 0.1078 0.1344 0.2353 H3K27ac_PGC2.extend.500.bed -0.4193 0.4058 0.4101 0.2403 0.3049 0.1429 0.0071 0.1902 0.2624 0.0512 0.0693 0.0453 0.1014 0.1224 0.2293 H3K4me1_peaks_Trynka.bed -0.2718 0.2264 0.2257 0.2889 0.2637 0.0530 -0.0405 0.1824 0.2166 0.0454 0.0569 0.0339 0.0723 0.1973 0.2402 H3K4me1_Trynka.bed -0.3791 0.2958 0.2971 0.2747 0.3412 0.1226 -0.0268 0.1420 0.1931 0.0702 0.0939 0.0417 0.0977 0.1411 0.2492 H3K4me1_Trynka.extend.500.bed -0.3450 0.2549 0.2580 0.1973 0.2983 0.1290 -0.0131 0.1013 0.1437 0.0567 0.0796 0.0363 0.0829 0.0972 0.1995 H3K4me3_peaks_Trynka.bed -0.1820 0.1433 0.1420 0.2440 0.1679 -0.0071 -0.0647 0.3083 0.2891 0.0320 0.0547 0.0746 0.1540 0.1233 0.1307 H3K4me3_Trynka.bed -0.3044 0.2443 0.2446 0.3273 0.2743 0.0259 -0.0677 0.3323 0.3966 0.0590 0.0875 0.0810 0.1756 0.1735 0.2252 H3K4me3_Trynka.extend.500.bed -0.3323 0.2681 0.2704 0.2823 0.3150 0.0570 -0.0448 0.2354 0.3177 0.0623 0.0925 0.0609 0.1383 0.1502 0.2636 H3K9ac_peaks_Trynka.bed -0.2173 0.1855 0.1849 0.2214 0.1705 0.0418 -0.0317 0.2719 0.2616 0.0418 0.0658 0.0577 0.1319 0.1379 0.1502 H3K9ac_Trynka.bed -0.3687 0.3223 0.3232 0.3120 0.2890 0.0812 -0.0369 0.3129 0.3729 0.0796 0.1129 0.0807 0.1762 0.1674 0.2384 H3K9ac_Trynka.extend.500.bed -0.4427 0.3511 0.3550 0.2872 0.3300 0.1365 -0.0195 0.2323 0.3154 0.0845 0.1210 0.0668 0.1540 0.1479 0.2714 Intron_UCSC.bed -0.3261 0.1041 0.1039 0.0204 0.0329 0.3447 0.2028 0.0357 0.0305 -0.0475 0.0180 -0.0088 0.0908 0.0078 0.0110 Intron_UCSC.extend.500.bed -0.3475 0.1136 0.1137 0.0395 0.0454 0.3498 0.1968 0.0674 0.0562 0.0036 0.0701 0.0551 0.1548 0.0106 0.0132 PromoterFlanking_Hoffman.bed -0.0899 0.0422 0.0435 0.0470 0.0603 0.0089 -0.0011 0.0721 0.1674 0.0020 0.0025 0.0063 0.0286 0.0077 0.0491 PromoterFlanking_Hoffman.extend.500.bed -0.1629 0.0862 0.0887 0.1062 0.1237 -0.0010 -0.0236 0.2079 0.3356 0.0059 0.0071 0.0293 0.0882 0.0500 0.1123 Promoter_UCSC.bed -0.1807 0.1100 0.1128 0.1543 0.1299 -0.0053 -0.0665 0.3162 0.3367 0.0723 0.1540 0.2087 0.4294 0.0452 0.0792 Promoter_UCSC.extend.500.bed -0.1923 0.1169 0.1203 0.1544 0.1339 0.0047 -0.0576 0.2979 0.3286 0.0752 0.1557 0.1945 0.4009 0.0470 0.0854 Repressed_Hoffman.bed 0.6195 -0.2405 -0.2426 -0.2337 -0.2536 -0.5758 -0.2090 -0.1330 -0.1884 -0.0695 -0.1011 -0.0486 -0.1071 -0.1348 -0.2312 Repressed_Hoffman.extend.500.bed 1.0000 -0.3377 -0.3397 -0.2680 -0.2881 -0.4656 -0.1594 -0.2114 -0.2818 -0.1063 -0.1507 -0.0701 -0.1610 -0.1470 -0.2576 SuperEnhancer_Hnisz.bed -0.3377 1.0000 0.9878 0.2033 0.2344 0.1230 0.0192 0.1679 0.2149 0.0446 0.0604 0.0388 0.0739 0.0894 0.1662 SuperEnhancer_Hnisz.extend.500.bed -0.3397 0.9878 1.0000 0.2035 0.2357 0.1243 0.0203 0.1685 0.2173 0.0450 0.0615 0.0386 0.0742 0.0905 0.1688 TFBS_ENCODE.bed -0.2680 0.2033 0.2035 1.0000 0.5281 0.0027 -0.0702 0.2748 0.2842 0.0483 0.0704 0.0607 0.1210 0.1774 0.2167 TFBS_ENCODE.extend.500.bed -0.2881 0.2344 0.2357 0.5281 1.0000 0.0223 -0.0630 0.1694 0.2318 0.0449 0.0650 0.0356 0.0803 0.1352 0.2536 Transcribed_Hoffman.bed -0.4656 0.1230 0.1243 0.0027 0.0223 1.0000 0.4853 -0.0404 -0.0253 0.0716 0.1034 0.0159 0.0443 -0.0143 -0.0050 Transcribed_Hoffman.extend.500.bed -0.1594 0.0192 0.0203 -0.0702 -0.0630 0.4853 1.0000 -0.0875 -0.0773 0.0220 0.0321 -0.0186 -0.0303 -0.0388 -0.0530 TSS_Hoffman.bed -0.2114 0.1679 0.1685 0.2748 0.1694 -0.0404 -0.0875 1.0000 0.6959 0.0345 0.0558 0.1204 0.2484 0.0658 0.0958 TSS_Hoffman.extend.500.bed -0.2818 0.2149 0.2173 0.2842 0.2318 -0.0253 -0.0773 0.6959 1.0000 0.0333 0.0526 0.1001 0.2182 0.0924 0.1695 UTR_3_UCSC.bed -0.1063 0.0446 0.0450 0.0483 0.0449 0.0716 0.0220 0.0345 0.0333 1.0000 0.6476 0.0934 0.0594 0.0119 0.0189 UTR_3_UCSC.extend.500.bed -0.1507 0.0604 0.0615 0.0704 0.0650 0.1034 0.0321 0.0558 0.0526 0.6476 1.0000 0.0833 0.1125 0.0145 0.0286 UTR_5_UCSC.bed -0.0701 0.0388 0.0386 0.0607 0.0356 0.0159 -0.0186 0.1204 0.1001 0.0934 0.0833 1.0000 0.4514 0.0114 0.0165 UTR_5_UCSC.extend.500.bed -0.1610 0.0739 0.0742 0.1210 0.0803 0.0443 -0.0303 0.2484 0.2182 0.0594 0.1125 0.4514 1.0000 0.0232 0.0369 WeakEnhancer_Hoffman.bed -0.1470 0.0894 0.0905 0.1774 0.1352 -0.0143 -0.0388 0.0658 0.0924 0.0119 0.0145 0.0114 0.0232 1.0000 0.4729 WeakEnhancer_Hoffman.extend.500.bed -0.2576 0.1662 0.1688 0.2167 0.2536 -0.0050 -0.0530 0.0958 0.1695 0.0189 0.0286 0.0165 0.0369 0.4729 1.0000 Annotation Matrix Column Sums base 221626.0 Coding_UCSC.bed 4290.0 Coding_UCSC.extend.500.bed 18281.0 Conserved_LindbladToh.bed 6293.0 Conserved_LindbladToh.extend.500.bed 77986.0 CTCF_Hoffman.bed 6865.0 CTCF_Hoffman.extend.500.bed 20376.0 DGF_ENCODE.bed 37479.0 DGF_ENCODE.extend.500.bed 137827.0 DHS_peaks_Trynka.bed 29914.0 DHS_Trynka.bed 44231.0 DHS_Trynka.extend.500.bed 127954.0 Enhancer_Andersson.bed 1364.0 Enhancer_Andersson.extend.500.bed 5741.0 Enhancer_Hoffman.bed 12032.0 Enhancer_Hoffman.extend.500.bed 25774.0 FetalDHS_Trynka.bed 22461.0 FetalDHS_Trynka.extend.500.bed 74925.0 H3K27ac_Hnisz.bed 106774.0 H3K27ac_Hnisz.extend.500.bed 114685.0 H3K27ac_PGC2.bed 72654.0 H3K27ac_PGC2.extend.500.bed 89807.0 H3K4me1_peaks_Trynka.bed 46974.0 H3K4me1_Trynka.bed 115759.0 H3K4me1_Trynka.extend.500.bed 157944.0 H3K4me3_peaks_Trynka.bed 10690.0 H3K4me3_Trynka.bed 32637.0 H3K4me3_Trynka.extend.500.bed 63297.0 H3K9ac_peaks_Trynka.bed 11434.0 H3K9ac_Trynka.bed 35625.0 H3K9ac_Trynka.extend.500.bed 65109.0 Intron_UCSC.bed 91714.0 Intron_UCSC.extend.500.bed 94765.0 PromoterFlanking_Hoffman.bed 1698.0 PromoterFlanking_Hoffman.extend.500.bed 7176.0 Promoter_UCSC.bed 13355.0 Promoter_UCSC.extend.500.bed 16420.0 Repressed_Hoffman.bed 89697.0 Repressed_Hoffman.extend.500.bed 141654.0 SuperEnhancer_Hnisz.bed 47641.0 SuperEnhancer_Hnisz.extend.500.bed 48567.0 TFBS_ENCODE.bed 43129.0 TFBS_ENCODE.extend.500.bed 102880.0 Transcribed_Hoffman.bed 73157.0 Transcribed_Hoffman.extend.500.bed 149959.0 TSS_Hoffman.bed 5618.0 TSS_Hoffman.extend.500.bed 11297.0 UTR_3_UCSC.bed 3194.0 UTR_3_UCSC.extend.500.bed 7467.0 UTR_5_UCSC.bed 1551.0 UTR_5_UCSC.extend.500.bed 7409.0 WeakEnhancer_Hoffman.bed 5770.0 WeakEnhancer_Hoffman.extend.500.bed 23661.0 Summary of Annotation Matrix Row Sums count 221626.0000 mean 12.5734 std 7.0257 min 1.0000 25% 7.0000 50% 11.0000 75% 17.0000 max 42.0000 Analysis finished at Tue Oct 17 17:00:42 2017 Total time elapsed: 19.0m:26.28s