********************************************************************* * 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.1.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.1 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.1 \ --annot 1000G_Phase3_baseline_v1.1/baseline.1.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 779354 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.1.bim Read 53 annotations for 779354 SNPs from 1000G_Phase3_baseline_v1.1/baseline.1.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.1.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.1.bed Estimating LD Score. Reading list of 116564 SNPs for which to print LD Scores from hapmap3_snps/hm.1.snp After merging with --print-snps, LD Scores for 98690 SNPs will be printed. Writing LD Scores for 98690 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.1.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.1.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 0.2329 115.2290 2.3063 10.1037 3.3441 42.6980 2.8984 8.5321 16.6886 65.5287 12.7119 19.2446 57.5338 0.4603 2.0123 5.5200 11.7196 9.3919 31.4542 46.4586 50.1889 32.3249 40.2790 20.4350 51.0101 71.8693 4.8559 15.7396 29.8342 4.8615 15.9923 28.9124 52.6002 53.9967 1.2768 4.6846 6.3779 std 0.1442 98.7881 3.7855 15.1552 3.3350 35.8852 2.9592 7.9079 13.9860 51.4946 9.8582 14.6115 43.8259 0.7726 2.6679 7.0572 14.0816 7.4981 24.0394 44.1341 46.2987 31.0654 37.8381 18.6145 44.1651 59.5960 5.2528 16.2958 28.3731 6.2298 19.0946 32.3216 70.7877 71.9151 2.1044 6.3733 9.9380 min 0.0051 -3.5976 -0.2878 -0.5400 -0.2261 -0.7131 -0.2109 -0.4538 -0.3616 -1.4217 -0.2872 -0.3748 -1.0723 -0.0759 -0.1995 -0.3257 -0.6107 -0.2705 -1.0651 -1.6532 -1.7400 -1.2893 -1.5033 -0.4718 -1.0077 -1.6241 -0.3109 -0.5816 -1.3039 -0.3118 -0.6499 -1.0004 -3.5892 -3.4880 -0.1261 -0.3505 -0.4473 25% 0.1056 50.8991 0.1120 0.6974 0.9987 18.5769 0.9157 3.1719 7.1705 30.8324 5.9261 9.1968 28.0663 0.0260 0.2542 0.8703 2.2255 4.2138 15.1307 15.6158 18.2486 10.7169 14.0858 7.9521 21.6812 32.9559 1.3499 4.7920 10.6575 0.9205 3.5208 7.8751 7.1317 7.5468 0.0953 0.6699 0.5240 50% 0.2219 87.1014 0.7976 4.1380 2.3587 33.1360 2.0384 6.3737 12.8803 51.7662 10.1180 15.5958 46.1741 0.1397 1.0360 2.9771 6.7561 7.4459 25.1822 33.2327 36.5124 23.0987 29.3207 14.8241 38.0692 54.8042 3.1147 10.4113 21.0492 2.7122 9.6849 18.6290 30.3447 31.5946 0.4542 2.2832 2.5629 75% 0.3548 149.8244 3.0209 13.4490 4.5799 55.6042 3.9170 11.2822 21.7909 85.6398 16.6072 25.1372 75.0635 0.5553 2.7548 7.4205 15.9238 12.3749 40.8367 63.2849 67.5213 43.8350 54.2588 26.7474 66.2516 92.8626 6.4503 20.9061 39.1605 6.1475 21.1175 37.8165 71.3895 73.3556 1.5707 6.2661 8.2349 max 0.5000 860.4554 69.6021 208.4575 23.8076 281.2577 46.8101 68.4552 113.7464 439.6408 74.9399 119.9997 388.3100 12.5859 27.2133 97.3724 166.1558 55.8077 201.2567 364.8565 369.0286 306.8287 348.4451 151.5075 377.4370 511.4850 54.8231 198.1787 231.8556 61.5920 208.4821 285.8988 747.2984 750.7428 33.3068 66.8271 145.0942 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 7.7974 47.7913 76.4624 19.7975 20.1798 15.8885 40.7616 49.6309 96.7996 2.3135 4.4142 1.6447 3.8380 0.7331 3.8037 2.8369 11.7928 std 11.9428 54.2543 79.5455 28.7662 29.1434 14.0072 33.5071 57.3685 87.8821 3.7439 6.5785 2.6341 6.3702 1.4440 6.0530 3.0152 11.7460 min -0.4783 -1.8372 -2.6829 -1.1164 -1.1262 -0.5209 -0.8413 -2.3919 -2.7057 -0.1955 -0.3842 -0.2015 -0.2629 -0.1044 -0.3473 -0.2028 -0.4630 25% 0.6634 14.6827 27.1397 0.8409 0.8706 6.2869 18.1130 16.0350 40.0208 0.1122 0.3208 0.0794 0.2308 0.0229 0.2472 0.7374 3.7247 50% 3.2688 31.3618 53.3322 7.7670 8.0123 11.7835 31.4883 31.4234 71.3117 0.7277 1.7030 0.4965 1.2984 0.1566 1.3627 1.8376 8.0935 75% 10.1594 60.4271 97.6501 28.6561 29.2267 20.8437 53.2739 61.5891 126.4269 2.8969 5.7662 2.1229 4.9759 0.8408 4.8240 3.8876 15.8763 max 168.1242 622.2847 850.5882 337.9027 338.1361 110.0912 271.7647 560.5619 794.2851 39.9172 65.4214 31.8193 103.1697 19.2233 60.4665 27.5283 105.1834 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 0.1968 0.0656 0.0770 0.1331 0.1679 0.1366 0.1577 0.1772 0.1962 0.1959 0.2009 0.2079 0.0683 0.1073 0.1029 0.1106 0.1892 0.2039 0.1502 0.1554 0.1510 0.1548 0.1504 0.1617 0.1758 0.1196 0.1329 0.1516 0.0979 0.1136 0.1221 0.0958 0.0965 0.0638 0.0971 baseL2 0.1968 1.0000 0.4251 0.5024 0.6307 0.8326 0.6127 0.6999 0.7665 0.8954 0.7764 0.8186 0.9059 0.2454 0.3036 0.4245 0.4931 0.6995 0.7766 0.5789 0.6169 0.6088 0.6415 0.6345 0.7201 0.8130 0.5942 0.6343 0.7217 0.4291 0.4790 0.5360 0.6869 0.6896 0.5043 0.5712 Coding_UCSC.bedL2 0.0656 0.4251 1.0000 0.8558 0.4200 0.5436 0.5158 0.5589 0.5751 0.5466 0.5036 0.4904 0.4856 0.2805 0.3069 0.4798 0.5401 0.4979 0.4858 0.5990 0.6070 0.5980 0.6088 0.5647 0.6065 0.5843 0.6374 0.6610 0.6634 0.6100 0.6347 0.6558 0.4720 0.4907 0.5263 0.5944 Coding_UCSC.extend.500.bedL2 0.0770 0.5024 0.8558 1.0000 0.4791 0.6673 0.5443 0.6039 0.6711 0.6488 0.5962 0.5809 0.5852 0.2991 0.3387 0.5311 0.6088 0.5737 0.5787 0.6971 0.7082 0.6972 0.7124 0.6653 0.7278 0.7089 0.6951 0.7267 0.7246 0.6983 0.7397 0.7718 0.6215 0.6396 0.6050 0.6813 Conserved_LindbladToh.bedL2 0.1331 0.6307 0.4200 0.4791 1.0000 0.8250 0.4419 0.4994 0.6016 0.6518 0.6399 0.6487 0.6737 0.2036 0.2606 0.3952 0.4394 0.6227 0.6528 0.5319 0.5523 0.5433 0.5632 0.5755 0.6302 0.6635 0.5158 0.5396 0.5808 0.4822 0.5225 0.5481 0.5380 0.5440 0.3950 0.4709 Conserved_LindbladToh.extend.500.bedL2 0.1679 0.8326 0.5436 0.6673 0.8250 1.0000 0.6401 0.7188 0.8477 0.9035 0.8627 0.8770 0.9064 0.3311 0.3991 0.5778 0.6518 0.8179 0.8667 0.7600 0.7872 0.7729 0.8014 0.8055 0.8734 0.9109 0.6994 0.7368 0.7968 0.6386 0.6927 0.7451 0.7987 0.8040 0.6130 0.6994 CTCF_Hoffman.bedL2 0.1366 0.6127 0.5158 0.5443 0.4419 0.6401 1.0000 0.9270 0.7460 0.7309 0.7049 0.7080 0.7048 0.3519 0.3922 0.5690 0.6177 0.6916 0.7084 0.6644 0.6804 0.6633 0.6775 0.6814 0.7100 0.7151 0.6438 0.6716 0.7042 0.6168 0.6329 0.6674 0.5701 0.5787 0.5078 0.6076 CTCF_Hoffman.extend.500.bedL2 0.1577 0.6999 0.5589 0.6039 0.4994 0.7188 0.9270 1.0000 0.8214 0.8172 0.7716 0.7790 0.7889 0.3814 0.4280 0.6257 0.6858 0.7486 0.7780 0.7263 0.7457 0.7270 0.7449 0.7494 0.7838 0.7953 0.7088 0.7401 0.7779 0.6725 0.6907 0.7328 0.6469 0.6558 0.5765 0.6785 DGF_ENCODE.bedL2 0.1772 0.7665 0.5751 0.6711 0.6016 0.8477 0.7460 0.8214 1.0000 0.9535 0.9513 0.9477 0.9262 0.4661 0.5452 0.7713 0.8319 0.9035 0.9260 0.8898 0.9069 0.8975 0.9129 0.9329 0.9485 0.9455 0.8351 0.8662 0.9036 0.7807 0.8230 0.8585 0.7611 0.7683 0.6929 0.7821 DGF_ENCODE.extend.500.bedL2 0.1962 0.8954 0.5466 0.6488 0.6518 0.9035 0.7309 0.8172 0.9535 1.0000 0.9343 0.9524 0.9820 0.4006 0.4773 0.6662 0.7398 0.8721 0.9288 0.8295 0.8566 0.8428 0.8692 0.8707 0.9268 0.9636 0.7693 0.8114 0.8761 0.6758 0.7314 0.7852 0.7836 0.7893 0.6543 0.7428 DHS_peaks_Trynka.bedL2 0.1959 0.7764 0.5036 0.5962 0.6399 0.8627 0.7049 0.7716 0.9513 0.9343 1.0000 0.9844 0.9434 0.4428 0.5266 0.7197 0.7749 0.9552 0.9596 0.8675 0.8847 0.8714 0.8868 0.9125 0.9301 0.9324 0.7836 0.8131 0.8615 0.7248 0.7746 0.8098 0.7296 0.7347 0.6302 0.7202 DHS_Trynka.bedL2 0.2009 0.8186 0.4904 0.5809 0.6487 0.8770 0.7080 0.7790 0.9477 0.9524 0.9844 1.0000 0.9670 0.4360 0.5204 0.6989 0.7546 0.9435 0.9622 0.8500 0.8703 0.8583 0.8764 0.8951 0.9242 0.9371 0.7641 0.7972 0.8523 0.6942 0.7451 0.7841 0.7342 0.7388 0.6186 0.7064 DHS_Trynka.extend.500.bedL2 0.2079 0.9059 0.4856 0.5852 0.6737 0.9064 0.7048 0.7889 0.9262 0.9820 0.9434 0.9670 1.0000 0.3835 0.4613 0.6286 0.6973 0.8831 0.9457 0.8006 0.8288 0.8125 0.8384 0.8495 0.9055 0.9481 0.7234 0.7649 0.8362 0.6319 0.6877 0.7406 0.7604 0.7644 0.6131 0.6976 Enhancer_Andersson.bedL2 0.0683 0.2454 0.2805 0.2991 0.2036 0.3311 0.3519 0.3814 0.4661 0.4006 0.4428 0.4360 0.3835 1.0000 0.8261 0.5237 0.5256 0.4652 0.4405 0.5029 0.4974 0.5141 0.5041 0.4829 0.4675 0.4221 0.4647 0.4800 0.4650 0.4489 0.4667 0.4670 0.3070 0.3112 0.3343 0.3810 Enhancer_Andersson.extend.500.bedL2 0.1073 0.3036 0.3069 0.3387 0.2606 0.3991 0.3922 0.4280 0.5452 0.4773 0.5266 0.5204 0.4613 0.8261 1.0000 0.5897 0.5953 0.5473 0.5263 0.5872 0.5804 0.6054 0.5929 0.5677 0.5427 0.4932 0.5335 0.5502 0.5390 0.5119 0.5318 0.5275 0.3202 0.3256 0.3656 0.4244 Enhancer_Hoffman.bedL2 0.1029 0.4245 0.4798 0.5311 0.3952 0.5778 0.5690 0.6257 0.7713 0.6662 0.7197 0.6989 0.6286 0.5237 0.5897 1.0000 0.9673 0.7280 0.6994 0.7935 0.7878 0.8215 0.8090 0.8139 0.7547 0.6935 0.7776 0.7782 0.7612 0.7880 0.7946 0.7889 0.5171 0.5250 0.5957 0.6878 Enhancer_Hoffman.extend.500.bedL2 0.1106 0.4931 0.5401 0.6088 0.4394 0.6518 0.6177 0.6858 0.8319 0.7398 0.7749 0.7546 0.6973 0.5256 0.5953 0.9673 1.0000 0.7780 0.7588 0.8521 0.8509 0.8808 0.8752 0.8711 0.8293 0.7754 0.8298 0.8398 0.8304 0.8326 0.8452 0.8531 0.5942 0.6030 0.6805 0.7741 FetalDHS_Trynka.bedL2 0.1892 0.6995 0.4979 0.5737 0.6227 0.8179 0.6916 0.7486 0.9035 0.8721 0.9552 0.9435 0.8831 0.4652 0.5473 0.7280 0.7780 1.0000 0.9593 0.8649 0.8759 0.8641 0.8735 0.9014 0.9030 0.8888 0.7927 0.8114 0.8430 0.7441 0.7865 0.8134 0.6786 0.6844 0.6073 0.7057 FetalDHS_Trynka.extend.500.bedL2 0.2039 0.7766 0.4858 0.5787 0.6528 0.8667 0.7084 0.7780 0.9260 0.9288 0.9596 0.9622 0.9457 0.4405 0.5263 0.6994 0.7588 0.9593 1.0000 0.8664 0.8832 0.8666 0.8822 0.9043 0.9283 0.9321 0.7656 0.7962 0.8486 0.7131 0.7653 0.8060 0.7247 0.7292 0.6123 0.7119 H3K27ac_Hnisz.bedL2 0.1502 0.5789 0.5990 0.6971 0.5319 0.7600 0.6644 0.7263 0.8898 0.8295 0.8675 0.8500 0.8006 0.5029 0.5872 0.7935 0.8521 0.8649 0.8664 1.0000 0.9973 0.9515 0.9568 0.9322 0.9349 0.8860 0.8284 0.8508 0.8704 0.8334 0.8820 0.9112 0.6692 0.6785 0.6807 0.7708 H3K27ac_Hnisz.extend.500.bedL2 0.1554 0.6169 0.6070 0.7082 0.5523 0.7872 0.6804 0.7457 0.9069 0.8566 0.8847 0.8703 0.8288 0.4974 0.5804 0.7878 0.8509 0.8759 0.8832 0.9973 1.0000 0.9539 0.9629 0.9385 0.9499 0.9099 0.8317 0.8577 0.8840 0.8273 0.8775 0.9117 0.6939 0.7031 0.6922 0.7825 H3K27ac_PGC2.bedL2 0.1510 0.6088 0.5980 0.6972 0.5433 0.7729 0.6633 0.7270 0.8975 0.8428 0.8714 0.8583 0.8125 0.5141 0.6054 0.8215 0.8808 0.8641 0.8666 0.9515 0.9539 1.0000 0.9945 0.9429 0.9378 0.8918 0.8597 0.8858 0.9001 0.8502 0.8964 0.9139 0.6779 0.6871 0.6993 0.7928 H3K27ac_PGC2.extend.500.bedL2 0.1548 0.6415 0.6088 0.7124 0.5632 0.8014 0.6775 0.7449 0.9129 0.8692 0.8868 0.8764 0.8384 0.5041 0.5929 0.8090 0.8752 0.8735 0.8822 0.9568 0.9629 0.9945 1.0000 0.9478 0.9556 0.9187 0.8547 0.8845 0.9081 0.8407 0.8892 0.9174 0.7075 0.7166 0.7103 0.8055 H3K4me1_peaks_Trynka.bedL2 0.1504 0.6345 0.5647 0.6653 0.5755 0.8055 0.6814 0.7494 0.9329 0.8707 0.9125 0.8951 0.8495 0.4829 0.5677 0.8139 0.8711 0.9014 0.9043 0.9322 0.9385 0.9429 0.9478 1.0000 0.9632 0.9225 0.8616 0.8778 0.8953 0.8578 0.8892 0.9135 0.7291 0.7362 0.7112 0.7896 H3K4me1_Trynka.bedL2 0.1617 0.7201 0.6065 0.7278 0.6302 0.8734 0.7100 0.7838 0.9485 0.9268 0.9301 0.9242 0.9055 0.4675 0.5427 0.7547 0.8293 0.9030 0.9283 0.9349 0.9499 0.9378 0.9556 0.9632 1.0000 0.9813 0.8369 0.8723 0.9101 0.8114 0.8648 0.9097 0.7790 0.7870 0.7199 0.8072 H3K4me1_Trynka.extend.500.bedL2 0.1758 0.8130 0.5843 0.7089 0.6635 0.9109 0.7151 0.7953 0.9455 0.9636 0.9324 0.9371 0.9481 0.4221 0.4932 0.6935 0.7754 0.8888 0.9321 0.8860 0.9099 0.8918 0.9187 0.9225 0.9813 1.0000 0.7994 0.8418 0.8962 0.7397 0.7967 0.8535 0.8090 0.8157 0.7099 0.7933 H3K4me3_peaks_Trynka.bedL2 0.1196 0.5942 0.6374 0.6951 0.5158 0.6994 0.6438 0.7088 0.8351 0.7693 0.7836 0.7641 0.7234 0.4647 0.5335 0.7776 0.8298 0.7927 0.7656 0.8284 0.8317 0.8597 0.8547 0.8616 0.8369 0.7994 1.0000 0.9531 0.9255 0.8711 0.8770 0.8699 0.6174 0.6288 0.7040 0.7835 H3K4me3_Trynka.bedL2 0.1329 0.6343 0.6610 0.7267 0.5396 0.7368 0.6716 0.7401 0.8662 0.8114 0.8131 0.7972 0.7649 0.4800 0.5502 0.7782 0.8398 0.8114 0.7962 0.8508 0.8577 0.8858 0.8845 0.8778 0.8723 0.8418 0.9531 1.0000 0.9723 0.8579 0.8885 0.8863 0.6574 0.6691 0.7081 0.8054 H3K4me3_Trynka.extend.500.bedL2 0.1516 0.7217 0.6634 0.7246 0.5808 0.7968 0.7042 0.7779 0.9036 0.8761 0.8615 0.8523 0.8362 0.4650 0.5390 0.7612 0.8304 0.8430 0.8486 0.8704 0.8840 0.9001 0.9081 0.8953 0.9101 0.8962 0.9255 0.9723 1.0000 0.8248 0.8631 0.8833 0.7139 0.7241 0.7047 0.8036 H3K9ac_peaks_Trynka.bedL2 0.0979 0.4291 0.6100 0.6983 0.4822 0.6386 0.6168 0.6725 0.7807 0.6758 0.7248 0.6942 0.6319 0.4489 0.5119 0.7880 0.8326 0.7441 0.7131 0.8334 0.8273 0.8502 0.8407 0.8578 0.8114 0.7397 0.8711 0.8579 0.8248 1.0000 0.9559 0.9393 0.5563 0.5683 0.6688 0.7596 H3K9ac_Trynka.bedL2 0.1136 0.4790 0.6347 0.7397 0.5225 0.6927 0.6329 0.6907 0.8230 0.7314 0.7746 0.7451 0.6877 0.4667 0.5318 0.7946 0.8452 0.7865 0.7653 0.8820 0.8775 0.8964 0.8892 0.8892 0.8648 0.7967 0.8770 0.8885 0.8631 0.9559 1.0000 0.9816 0.5864 0.5990 0.6804 0.7787 H3K9ac_Trynka.extend.500.bedL2 0.1221 0.5360 0.6558 0.7718 0.5481 0.7451 0.6674 0.7328 0.8585 0.7852 0.8098 0.7841 0.7406 0.4670 0.5275 0.7889 0.8531 0.8134 0.8060 0.9112 0.9117 0.9139 0.9174 0.9135 0.9097 0.8535 0.8699 0.8863 0.8833 0.9393 0.9816 1.0000 0.6481 0.6603 0.7123 0.8111 Intron_UCSC.bedL2 0.0958 0.6869 0.4720 0.6215 0.5380 0.7987 0.5701 0.6469 0.7611 0.7836 0.7296 0.7342 0.7604 0.3070 0.3202 0.5171 0.5942 0.6786 0.7247 0.6692 0.6939 0.6779 0.7075 0.7291 0.7790 0.8090 0.6174 0.6574 0.7139 0.5563 0.5864 0.6481 1.0000 0.9996 0.5826 0.6596 Intron_UCSC.extend.500.bedL2 0.0965 0.6896 0.4907 0.6396 0.5440 0.8040 0.5787 0.6558 0.7683 0.7893 0.7347 0.7388 0.7644 0.3112 0.3256 0.5250 0.6030 0.6844 0.7292 0.6785 0.7031 0.6871 0.7166 0.7362 0.7870 0.8157 0.6288 0.6691 0.7241 0.5683 0.5990 0.6603 0.9996 1.0000 0.5907 0.6693 PromoterFlanking_Hoffman.bedL2 0.0638 0.5043 0.5263 0.6050 0.3950 0.6130 0.5078 0.5765 0.6929 0.6543 0.6302 0.6186 0.6131 0.3343 0.3656 0.5957 0.6805 0.6073 0.6123 0.6807 0.6922 0.6993 0.7103 0.7112 0.7199 0.7099 0.7040 0.7081 0.7047 0.6688 0.6804 0.7123 0.5826 0.5907 1.0000 0.9047 PromoterFlanking_Hoffman.extend.500.bedL2 0.0971 0.5712 0.5944 0.6813 0.4709 0.6994 0.6076 0.6785 0.7821 0.7428 0.7202 0.7064 0.6976 0.3810 0.4244 0.6878 0.7741 0.7057 0.7119 0.7708 0.7825 0.7928 0.8055 0.7896 0.8072 0.7933 0.7835 0.8054 0.8036 0.7596 0.7787 0.8111 0.6596 0.6693 0.9047 1.0000 Promoter_UCSC.bedL2 0.0864 0.4884 0.7284 0.7698 0.4195 0.5685 0.5667 0.6276 0.6274 0.5996 0.5477 0.5390 0.5437 0.3091 0.3562 0.5493 0.6146 0.5385 0.5293 0.6347 0.6484 0.6503 0.6601 0.6170 0.6501 0.6372 0.7040 0.7406 0.7413 0.6642 0.6727 0.6872 0.4982 0.5162 0.6018 0.6741 Promoter_UCSC.extend.500.bedL2 0.0872 0.4896 0.7297 0.7735 0.4180 0.5691 0.5698 0.6306 0.6311 0.6029 0.5512 0.5408 0.5452 0.3132 0.3588 0.5555 0.6209 0.5407 0.5318 0.6411 0.6545 0.6552 0.6652 0.6237 0.6562 0.6423 0.7110 0.7470 0.7485 0.6704 0.6793 0.6957 0.5003 0.5181 0.6068 0.6785 Repressed_Hoffman.bedL2 0.1792 0.7558 0.0443 0.0325 0.3686 0.4149 0.2438 0.2923 0.2502 0.4486 0.3215 0.3849 0.5003 -0.0250 0.0215 -0.0730 -0.0539 0.2500 0.3276 0.0424 0.0778 0.0754 0.0990 0.0782 0.1700 0.2953 0.1129 0.1395 0.2290 -0.0955 -0.0529 -0.0250 0.2013 0.1988 0.0148 0.0351 Repressed_Hoffman.extend.500.bedL2 0.1868 0.8297 0.0921 0.0927 0.4298 0.5121 0.3350 0.3904 0.3640 0.5558 0.4282 0.4929 0.6055 0.0304 0.0793 0.0076 0.0391 0.3513 0.4367 0.1406 0.1795 0.1732 0.2010 0.1839 0.2809 0.4081 0.1888 0.2235 0.3218 -0.0233 0.0239 0.0610 0.3276 0.3248 0.1013 0.1377 SuperEnhancer_Hnisz.bedL2 0.1027 0.2524 0.4370 0.4904 0.3280 0.4469 0.4208 0.4572 0.6025 0.4946 0.5762 0.5467 0.4654 0.4583 0.5423 0.6910 0.6928 0.6122 0.5822 0.7733 0.7459 0.7514 0.7236 0.7019 0.6347 0.5423 0.6457 0.6480 0.6199 0.7085 0.7393 0.7146 0.3615 0.3695 0.4063 0.5085 SuperEnhancer_Hnisz.extend.500.bedL2 0.1032 0.2570 0.4410 0.4948 0.3311 0.4518 0.4253 0.4624 0.6077 0.4998 0.5808 0.5513 0.4704 0.4599 0.5436 0.6945 0.6969 0.6164 0.5869 0.7773 0.7503 0.7551 0.7277 0.7061 0.6398 0.5479 0.6494 0.6525 0.6248 0.7119 0.7427 0.7187 0.3674 0.3754 0.4108 0.5137 TFBS_ENCODE.bedL2 0.1633 0.7251 0.6175 0.7044 0.5698 0.8094 0.7599 0.8282 0.9466 0.9081 0.9048 0.9016 0.8776 0.4879 0.5631 0.8228 0.8783 0.8751 0.8861 0.8813 0.8942 0.8971 0.9060 0.9099 0.9173 0.9048 0.8654 0.8891 0.9057 0.8120 0.8443 0.8712 0.7069 0.7168 0.7115 0.8078 TFBS_ENCODE.extend.500.bedL2 0.1840 0.8269 0.5826 0.6820 0.6079 0.8646 0.7565 0.8422 0.9549 0.9652 0.9260 0.9353 0.9447 0.4452 0.5236 0.7474 0.8171 0.8768 0.9163 0.8626 0.8832 0.8773 0.8954 0.8956 0.9300 0.9438 0.8179 0.8522 0.8963 0.7430 0.7878 0.8315 0.7575 0.7653 0.6903 0.7831 Transcribed_Hoffman.bedL2 0.1224 0.8382 0.5558 0.6873 0.6162 0.8597 0.6288 0.7191 0.8593 0.9025 0.8197 0.8324 0.8804 0.3162 0.3464 0.5921 0.6812 0.7603 0.8160 0.7466 0.7754 0.7632 0.7957 0.8093 0.8664 0.9104 0.7144 0.7521 0.8127 0.6485 0.6831 0.7486 0.8433 0.8478 0.6888 0.7579 Transcribed_Hoffman.extend.500.bedL2 0.1853 0.9913 0.4260 0.5146 0.6374 0.8406 0.5994 0.6900 0.7727 0.8973 0.7802 0.8202 0.9076 0.2423 0.2931 0.4310 0.5044 0.7033 0.7819 0.5893 0.6270 0.6187 0.6525 0.6495 0.7338 0.8252 0.5966 0.6376 0.7258 0.4437 0.4915 0.5515 0.7220 0.7240 0.5239 0.5910 TSS_Hoffman.bedL2 0.0674 0.4124 0.5995 0.6755 0.4027 0.5655 0.5432 0.6083 0.6908 0.6015 0.6130 0.5850 0.5448 0.4302 0.4608 0.7301 0.7830 0.6253 0.5861 0.6987 0.7002 0.7242 0.7200 0.7079 0.6919 0.6511 0.7970 0.7944 0.7430 0.8068 0.7946 0.7876 0.5103 0.5237 0.7138 0.8064 TSS_Hoffman.extend.500.bedL2 0.0752 0.4477 0.6044 0.6799 0.4240 0.5993 0.5836 0.6482 0.7336 0.6457 0.6547 0.6299 0.5907 0.4440 0.4879 0.7746 0.8302 0.6664 0.6340 0.7385 0.7403 0.7671 0.7628 0.7537 0.7343 0.6924 0.8236 0.8309 0.7848 0.8304 0.8201 0.8164 0.5486 0.5613 0.7332 0.8375 UTR_3_UCSC.bedL2 0.0808 0.3981 0.8194 0.7686 0.3834 0.5420 0.4783 0.5323 0.5790 0.5446 0.5120 0.4980 0.4916 0.2639 0.2943 0.5003 0.5604 0.5050 0.4972 0.6102 0.6148 0.6068 0.6180 0.5912 0.6173 0.5913 0.6111 0.6396 0.6220 0.6217 0.6459 0.6630 0.4834 0.4982 0.5417 0.6025 UTR_3_UCSC.extend.500.bedL2 0.0833 0.4452 0.7843 0.8289 0.3978 0.5725 0.5047 0.5650 0.5952 0.5736 0.5212 0.5098 0.5109 0.2787 0.3102 0.4881 0.5594 0.5077 0.5006 0.6124 0.6207 0.6031 0.6187 0.5828 0.6300 0.6135 0.6319 0.6557 0.6456 0.6251 0.6493 0.6782 0.5111 0.5279 0.5502 0.6087 UTR_5_UCSC.bedL2 0.0708 0.3481 0.5813 0.6047 0.3321 0.4467 0.4233 0.4691 0.5096 0.4709 0.4440 0.4389 0.4292 0.2459 0.2702 0.4577 0.5126 0.4548 0.4429 0.5185 0.5267 0.5334 0.5421 0.5059 0.5278 0.5097 0.5613 0.5884 0.5720 0.5549 0.5632 0.5697 0.4083 0.4235 0.5053 0.5673 UTR_5_UCSC.extend.500.bedL2 0.0778 0.4492 0.6610 0.7667 0.3932 0.5660 0.5178 0.5773 0.6163 0.5834 0.5408 0.5331 0.5336 0.2865 0.3271 0.5302 0.5986 0.5341 0.5297 0.6206 0.6335 0.6381 0.6485 0.6107 0.6466 0.6313 0.6691 0.7022 0.6858 0.6477 0.6602 0.6787 0.5392 0.5554 0.5941 0.6662 WeakEnhancer_Hoffman.bedL2 0.1430 0.4207 0.4379 0.4862 0.3777 0.5504 0.5762 0.6336 0.7367 0.6460 0.7070 0.6882 0.6222 0.4617 0.5465 0.7395 0.7722 0.7107 0.6949 0.7330 0.7297 0.7522 0.7442 0.7772 0.7199 0.6649 0.7017 0.7085 0.7003 0.7267 0.7377 0.7333 0.4762 0.4832 0.4987 0.6060 WeakEnhancer_Hoffman.extend.500.bedL2 0.1465 0.5495 0.4940 0.5541 0.4582 0.6766 0.6607 0.7347 0.8474 0.7791 0.8078 0.7967 0.7530 0.4984 0.5810 0.8252 0.8719 0.8004 0.8086 0.8295 0.8337 0.8483 0.8509 0.8743 0.8391 0.7990 0.7742 0.7888 0.8024 0.7872 0.8037 0.8233 0.6155 0.6222 0.6195 0.7272 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 0.0864 0.0872 0.1792 0.1868 0.1027 0.1032 0.1633 0.1840 0.1224 0.1853 0.0674 0.0752 0.0808 0.0833 0.0708 0.0778 0.1430 0.1465 baseL2 0.4884 0.4896 0.7558 0.8297 0.2524 0.2570 0.7251 0.8269 0.8382 0.9913 0.4124 0.4477 0.3981 0.4452 0.3481 0.4492 0.4207 0.5495 Coding_UCSC.bedL2 0.7284 0.7297 0.0443 0.0921 0.4370 0.4410 0.6175 0.5826 0.5558 0.4260 0.5995 0.6044 0.8194 0.7843 0.5813 0.6610 0.4379 0.4940 Coding_UCSC.extend.500.bedL2 0.7698 0.7735 0.0325 0.0927 0.4904 0.4948 0.7044 0.6820 0.6873 0.5146 0.6755 0.6799 0.7686 0.8289 0.6047 0.7667 0.4862 0.5541 Conserved_LindbladToh.bedL2 0.4195 0.4180 0.3686 0.4298 0.3280 0.3311 0.5698 0.6079 0.6162 0.6374 0.4027 0.4240 0.3834 0.3978 0.3321 0.3932 0.3777 0.4582 Conserved_LindbladToh.extend.500.bedL2 0.5685 0.5691 0.4149 0.5121 0.4469 0.4518 0.8094 0.8646 0.8597 0.8406 0.5655 0.5993 0.5420 0.5725 0.4467 0.5660 0.5504 0.6766 CTCF_Hoffman.bedL2 0.5667 0.5698 0.2438 0.3350 0.4208 0.4253 0.7599 0.7565 0.6288 0.5994 0.5432 0.5836 0.4783 0.5047 0.4233 0.5178 0.5762 0.6607 CTCF_Hoffman.extend.500.bedL2 0.6276 0.6306 0.2923 0.3904 0.4572 0.4624 0.8282 0.8422 0.7191 0.6900 0.6083 0.6482 0.5323 0.5650 0.4691 0.5773 0.6336 0.7347 DGF_ENCODE.bedL2 0.6274 0.6311 0.2502 0.3640 0.6025 0.6077 0.9466 0.9549 0.8593 0.7727 0.6908 0.7336 0.5790 0.5952 0.5096 0.6163 0.7367 0.8474 DGF_ENCODE.extend.500.bedL2 0.5996 0.6029 0.4486 0.5558 0.4946 0.4998 0.9081 0.9652 0.9025 0.8973 0.6015 0.6457 0.5446 0.5736 0.4709 0.5834 0.6460 0.7791 DHS_peaks_Trynka.bedL2 0.5477 0.5512 0.3215 0.4282 0.5762 0.5808 0.9048 0.9260 0.8197 0.7802 0.6130 0.6547 0.5120 0.5212 0.4440 0.5408 0.7070 0.8078 DHS_Trynka.bedL2 0.5390 0.5408 0.3849 0.4929 0.5467 0.5513 0.9016 0.9353 0.8324 0.8202 0.5850 0.6299 0.4980 0.5098 0.4389 0.5331 0.6882 0.7967 DHS_Trynka.extend.500.bedL2 0.5437 0.5452 0.5003 0.6055 0.4654 0.4704 0.8776 0.9447 0.8804 0.9076 0.5448 0.5907 0.4916 0.5109 0.4292 0.5336 0.6222 0.7530 Enhancer_Andersson.bedL2 0.3091 0.3132 -0.0250 0.0304 0.4583 0.4599 0.4879 0.4452 0.3162 0.2423 0.4302 0.4440 0.2639 0.2787 0.2459 0.2865 0.4617 0.4984 Enhancer_Andersson.extend.500.bedL2 0.3562 0.3588 0.0215 0.0793 0.5423 0.5436 0.5631 0.5236 0.3464 0.2931 0.4608 0.4879 0.2943 0.3102 0.2702 0.3271 0.5465 0.5810 Enhancer_Hoffman.bedL2 0.5493 0.5555 -0.0730 0.0076 0.6910 0.6945 0.8228 0.7474 0.5921 0.4310 0.7301 0.7746 0.5003 0.4881 0.4577 0.5302 0.7395 0.8252 Enhancer_Hoffman.extend.500.bedL2 0.6146 0.6209 -0.0539 0.0391 0.6928 0.6969 0.8783 0.8171 0.6812 0.5044 0.7830 0.8302 0.5604 0.5594 0.5126 0.5986 0.7722 0.8719 FetalDHS_Trynka.bedL2 0.5385 0.5407 0.2500 0.3513 0.6122 0.6164 0.8751 0.8768 0.7603 0.7033 0.6253 0.6664 0.5050 0.5077 0.4548 0.5341 0.7107 0.8004 FetalDHS_Trynka.extend.500.bedL2 0.5293 0.5318 0.3276 0.4367 0.5822 0.5869 0.8861 0.9163 0.8160 0.7819 0.5861 0.6340 0.4972 0.5006 0.4429 0.5297 0.6949 0.8086 H3K27ac_Hnisz.bedL2 0.6347 0.6411 0.0424 0.1406 0.7733 0.7773 0.8813 0.8626 0.7466 0.5893 0.6987 0.7385 0.6102 0.6124 0.5185 0.6206 0.7330 0.8295 H3K27ac_Hnisz.extend.500.bedL2 0.6484 0.6545 0.0778 0.1795 0.7459 0.7503 0.8942 0.8832 0.7754 0.6270 0.7002 0.7403 0.6148 0.6207 0.5267 0.6335 0.7297 0.8337 H3K27ac_PGC2.bedL2 0.6503 0.6552 0.0754 0.1732 0.7514 0.7551 0.8971 0.8773 0.7632 0.6187 0.7242 0.7671 0.6068 0.6031 0.5334 0.6381 0.7522 0.8483 H3K27ac_PGC2.extend.500.bedL2 0.6601 0.6652 0.0990 0.2010 0.7236 0.7277 0.9060 0.8954 0.7957 0.6525 0.7200 0.7628 0.6180 0.6187 0.5421 0.6485 0.7442 0.8509 H3K4me1_peaks_Trynka.bedL2 0.6170 0.6237 0.0782 0.1839 0.7019 0.7061 0.9099 0.8956 0.8093 0.6495 0.7079 0.7537 0.5912 0.5828 0.5059 0.6107 0.7772 0.8743 H3K4me1_Trynka.bedL2 0.6501 0.6562 0.1700 0.2809 0.6347 0.6398 0.9173 0.9300 0.8664 0.7338 0.6919 0.7343 0.6173 0.6300 0.5278 0.6466 0.7199 0.8391 H3K4me1_Trynka.extend.500.bedL2 0.6372 0.6423 0.2953 0.4081 0.5423 0.5479 0.9048 0.9438 0.9104 0.8252 0.6511 0.6924 0.5913 0.6135 0.5097 0.6313 0.6649 0.7990 H3K4me3_peaks_Trynka.bedL2 0.7040 0.7110 0.1129 0.1888 0.6457 0.6494 0.8654 0.8179 0.7144 0.5966 0.7970 0.8236 0.6111 0.6319 0.5613 0.6691 0.7017 0.7742 H3K4me3_Trynka.bedL2 0.7406 0.7470 0.1395 0.2235 0.6480 0.6525 0.8891 0.8522 0.7521 0.6376 0.7944 0.8309 0.6396 0.6557 0.5884 0.7022 0.7085 0.7888 H3K4me3_Trynka.extend.500.bedL2 0.7413 0.7485 0.2290 0.3218 0.6199 0.6248 0.9057 0.8963 0.8127 0.7258 0.7430 0.7848 0.6220 0.6456 0.5720 0.6858 0.7003 0.8024 H3K9ac_peaks_Trynka.bedL2 0.6642 0.6704 -0.0955 -0.0233 0.7085 0.7119 0.8120 0.7430 0.6485 0.4437 0.8068 0.8304 0.6217 0.6251 0.5549 0.6477 0.7267 0.7872 H3K9ac_Trynka.bedL2 0.6727 0.6793 -0.0529 0.0239 0.7393 0.7427 0.8443 0.7878 0.6831 0.4915 0.7946 0.8201 0.6459 0.6493 0.5632 0.6602 0.7377 0.8037 H3K9ac_Trynka.extend.500.bedL2 0.6872 0.6957 -0.0250 0.0610 0.7146 0.7187 0.8712 0.8315 0.7486 0.5515 0.7876 0.8164 0.6630 0.6782 0.5697 0.6787 0.7333 0.8233 Intron_UCSC.bedL2 0.4982 0.5003 0.2013 0.3276 0.3615 0.3674 0.7069 0.7575 0.8433 0.7220 0.5103 0.5486 0.4834 0.5111 0.4083 0.5392 0.4762 0.6155 Intron_UCSC.extend.500.bedL2 0.5162 0.5181 0.1988 0.3248 0.3695 0.3754 0.7168 0.7653 0.8478 0.7240 0.5237 0.5613 0.4982 0.5279 0.4235 0.5554 0.4832 0.6222 PromoterFlanking_Hoffman.bedL2 0.6018 0.6068 0.0148 0.1013 0.4063 0.4108 0.7115 0.6903 0.6888 0.5239 0.7138 0.7332 0.5417 0.5502 0.5053 0.5941 0.4987 0.6195 PromoterFlanking_Hoffman.extend.500.bedL2 0.6741 0.6785 0.0351 0.1377 0.5085 0.5137 0.8078 0.7831 0.7579 0.5910 0.8064 0.8375 0.6025 0.6087 0.5673 0.6662 0.6060 0.7272 Promoter_UCSC.bedL2 1.0000 0.9965 0.0922 0.1485 0.4128 0.4173 0.6791 0.6474 0.5944 0.4840 0.6999 0.7081 0.6342 0.7081 0.6712 0.8164 0.4805 0.5514 Promoter_UCSC.extend.500.bedL2 0.9965 1.0000 0.0888 0.1442 0.4187 0.4232 0.6833 0.6510 0.5992 0.4860 0.7036 0.7118 0.6364 0.7100 0.6693 0.8164 0.4887 0.5586 Repressed_Hoffman.bedL2 0.0922 0.0888 1.0000 0.9806 -0.1245 -0.1236 0.2098 0.3420 0.2978 0.7062 -0.0886 -0.0723 -0.0089 0.0497 -0.0026 0.0383 -0.0137 0.0328 Repressed_Hoffman.extend.500.bedL2 0.1485 0.1442 0.9806 1.0000 -0.0734 -0.0715 0.3133 0.4491 0.4151 0.7905 -0.0162 0.0088 0.0432 0.0980 0.0490 0.0982 0.0714 0.1419 SuperEnhancer_Hnisz.bedL2 0.4128 0.4187 -0.1245 -0.0734 1.0000 0.9998 0.6259 0.5589 0.4057 0.2567 0.5408 0.5793 0.4572 0.4340 0.3123 0.3783 0.6408 0.6408 SuperEnhancer_Hnisz.extend.500.bedL2 0.4173 0.4232 -0.1236 -0.0715 0.9998 1.0000 0.6309 0.5640 0.4114 0.2614 0.5451 0.5838 0.4614 0.4385 0.3162 0.3827 0.6434 0.6448 TFBS_ENCODE.bedL2 0.6791 0.6833 0.2098 0.3133 0.6259 0.6309 1.0000 0.9676 0.8182 0.7266 0.7735 0.8122 0.6137 0.6371 0.5451 0.6575 0.7580 0.8616 TFBS_ENCODE.extend.500.bedL2 0.6474 0.6510 0.3420 0.4491 0.5589 0.5640 0.9676 1.0000 0.8735 0.8288 0.6827 0.7284 0.5819 0.6119 0.5130 0.6253 0.7090 0.8342 Transcribed_Hoffman.bedL2 0.5944 0.5992 0.2978 0.4151 0.4057 0.4114 0.8182 0.8735 1.0000 0.8792 0.6143 0.6489 0.5651 0.5835 0.4746 0.5856 0.5391 0.6924 Transcribed_Hoffman.extend.500.bedL2 0.4840 0.4860 0.7062 0.7905 0.2567 0.2614 0.7266 0.8288 0.8792 1.0000 0.4268 0.4620 0.4059 0.4465 0.3517 0.4503 0.4211 0.5569 TSS_Hoffman.bedL2 0.6999 0.7036 -0.0886 -0.0162 0.5408 0.5451 0.7735 0.6827 0.6143 0.4268 1.0000 0.9679 0.5946 0.6132 0.5754 0.6797 0.5995 0.6824 TSS_Hoffman.extend.500.bedL2 0.7081 0.7118 -0.0723 0.0088 0.5793 0.5838 0.8122 0.7284 0.6489 0.4620 0.9679 1.0000 0.6086 0.6182 0.5694 0.6857 0.6389 0.7269 UTR_3_UCSC.bedL2 0.6342 0.6364 -0.0089 0.0432 0.4572 0.4614 0.6137 0.5819 0.5651 0.4059 0.5946 0.6086 1.0000 0.8790 0.5398 0.6249 0.4547 0.5131 UTR_3_UCSC.extend.500.bedL2 0.7081 0.7100 0.0497 0.0980 0.4340 0.4385 0.6371 0.6119 0.5835 0.4465 0.6132 0.6182 0.8790 1.0000 0.5356 0.6551 0.4393 0.4951 UTR_5_UCSC.bedL2 0.6712 0.6693 -0.0026 0.0490 0.3123 0.3162 0.5451 0.5130 0.4746 0.3517 0.5754 0.5694 0.5398 0.5356 1.0000 0.8395 0.4043 0.4657 UTR_5_UCSC.extend.500.bedL2 0.8164 0.8164 0.0383 0.0982 0.3783 0.3827 0.6575 0.6253 0.5856 0.4503 0.6797 0.6857 0.6249 0.6551 0.8395 1.0000 0.4604 0.5370 WeakEnhancer_Hoffman.bedL2 0.4805 0.4887 -0.0137 0.0714 0.6408 0.6434 0.7580 0.7090 0.5391 0.4211 0.5995 0.6389 0.4547 0.4393 0.4043 0.4604 1.0000 0.9036 WeakEnhancer_Hoffman.extend.500.bedL2 0.5514 0.5586 0.0328 0.1419 0.6408 0.6448 0.8616 0.8342 0.6924 0.5569 0.6824 0.7269 0.5131 0.4951 0.4657 0.5370 0.9036 1.0000 LD Score Matrix Condition Number 879.525 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 0.4809 0.2666 0.1487 0.0200 0.0287 0.0575 0.0528 0.0432 0.0440 0.0351 -0.0105 -0.0187 0.0299 0.0343 0.0475 0.0387 0.0646 0.0630 0.0643 0.0663 0.0479 0.0756 0.0641 0.0655 0.0829 0.0712 0.0662 0.0974 0.0935 -0.0917 0.0475 0.0047 0.0160 0.1256 0.1217 -0.0837 Coding_UCSC.extend.500.bed NaN 0.4809 1.0000 0.1465 0.3457 0.0267 0.0402 0.0729 0.0864 0.0602 0.0618 0.0633 -0.0180 -0.0268 0.0462 0.0599 0.0715 0.0632 0.1141 0.1128 0.1094 0.1142 0.0686 0.1396 0.1332 0.0991 0.1337 0.1207 0.1088 0.1663 0.1784 0.1719 0.2512 0.0186 0.0509 0.2520 0.2428 -0.1670 Conserved_LindbladToh.bed NaN 0.2666 0.1465 1.0000 0.2341 0.0121 0.0141 0.0955 0.0652 0.1362 0.1382 0.0886 0.0192 0.0093 0.0475 0.0441 0.1460 0.1048 0.0518 0.0501 0.0626 0.0567 0.0785 0.0982 0.0788 0.0685 0.0900 0.0720 0.0600 0.0946 0.0821 -0.0198 0.0420 0.0131 0.0242 0.0575 0.0559 -0.0391 Conserved_LindbladToh.extend.500.bed NaN 0.1487 0.3457 0.2341 1.0000 0.0549 0.0604 0.1263 0.1943 0.1736 0.2078 0.2572 0.0329 0.0573 0.1176 0.1327 0.1964 0.2734 0.1830 0.1813 0.1940 0.1902 0.1955 0.2745 0.2604 0.1203 0.1726 0.1675 0.1397 0.2239 0.2322 0.1436 0.1731 0.0415 0.0725 0.1235 0.1214 -0.1284 CTCF_Hoffman.bed NaN 0.0200 0.0267 0.0121 0.0549 1.0000 0.5696 0.1097 0.1129 0.1203 0.1275 0.1100 0.0061 0.0092 0.0410 0.0624 0.1239 0.1273 0.0522 0.0537 0.0555 0.0558 0.0784 0.0796 0.0692 0.0440 0.0640 0.0708 0.0640 0.0924 0.0971 -0.0032 0.0011 -0.0055 0.0228 0.0154 0.0179 -0.1443 CTCF_Hoffman.extend.500.bed NaN 0.0287 0.0402 0.0141 0.0604 0.5696 1.0000 0.0853 0.1581 0.0880 0.0969 0.1482 0.0097 0.0205 0.0623 0.0947 0.0943 0.1548 0.0880 0.0908 0.0903 0.0940 0.0874 0.1049 0.1084 0.0517 0.0794 0.1014 0.0758 0.1190 0.1426 0.0015 0.0077 0.0083 0.0416 0.0364 0.0388 -0.1260 DGF_ENCODE.bed NaN 0.0575 0.0729 0.0955 0.1263 0.1097 0.0853 1.0000 0.3538 0.5202 0.5005 0.2621 0.0911 0.0853 0.2084 0.2012 0.3573 0.2297 0.2032 0.1969 0.2344 0.2168 0.2927 0.2860 0.2123 0.1915 0.2545 0.2193 0.1748 0.2538 0.2325 0.0347 0.0518 0.0605 0.1037 0.1056 0.1051 -0.1779 DGF_ENCODE.extend.500.bed NaN 0.0528 0.0864 0.0652 0.1943 0.1129 0.1581 0.3538 1.0000 0.2557 0.3186 0.5566 0.0482 0.0938 0.1881 0.2508 0.2170 0.3742 0.3264 0.3296 0.3420 0.3400 0.3073 0.4521 0.4427 0.1494 0.2607 0.3111 0.1587 0.2826 0.3340 0.0708 0.0826 0.0704 0.1344 0.1062 0.1110 -0.2351 DHS_peaks_Trynka.bed NaN 0.0432 0.0602 0.1362 0.1736 0.1203 0.0880 0.5202 0.2557 1.0000 0.7721 0.3512 0.1072 0.0986 0.2299 0.2110 0.6524 0.3698 0.1892 0.1806 0.2309 0.2042 0.3085 0.2906 0.2127 0.2272 0.2697 0.2223 0.2056 0.2695 0.2319 0.0267 0.0421 0.0414 0.0966 0.0968 0.0881 -0.1501 DHS_Trynka.bed NaN 0.0440 0.0618 0.1382 0.2078 0.1275 0.0969 0.5005 0.3186 0.7721 1.0000 0.4459 0.1053 0.1168 0.2664 0.2444 0.6769 0.4338 0.2263 0.2168 0.2745 0.2436 0.3573 0.3541 0.2620 0.2463 0.3040 0.2570 0.2291 0.3074 0.2675 0.0306 0.0458 0.0437 0.1014 0.0978 0.0886 -0.1738 DHS_Trynka.extend.500.bed NaN 0.0351 0.0633 0.0886 0.2572 0.1100 0.1482 0.2621 0.5566 0.3512 0.4459 1.0000 0.0535 0.1036 0.2069 0.2688 0.3018 0.6227 0.3079 0.3125 0.3415 0.3270 0.3258 0.4772 0.4622 0.1516 0.2471 0.2956 0.1639 0.2842 0.3270 0.0637 0.0725 0.0521 0.1149 0.0892 0.0833 -0.1985 Enhancer_Andersson.bed NaN -0.0105 -0.0180 0.0192 0.0329 0.0061 0.0097 0.0911 0.0482 0.1072 0.1053 0.0535 1.0000 0.4828 0.1148 0.0967 0.1290 0.0771 0.0636 0.0602 0.0782 0.0688 0.0726 0.0609 0.0436 0.0831 0.1009 0.0774 0.0620 0.0877 0.0713 0.0127 0.0107 0.0131 0.0359 0.0113 0.0150 -0.0423 Enhancer_Andersson.extend.500.bed NaN -0.0187 -0.0268 0.0093 0.0573 0.0092 0.0205 0.0853 0.0938 0.0986 0.1168 0.1036 0.4828 1.0000 0.1815 0.1790 0.1211 0.1437 0.1223 0.1160 0.1521 0.1354 0.1241 0.1175 0.0853 0.1198 0.1677 0.1455 0.1041 0.1550 0.1377 0.0157 0.0126 0.0320 0.0647 0.0197 0.0251 -0.0760 Enhancer_Hoffman.bed NaN 0.0299 0.0462 0.0475 0.1176 0.0410 0.0623 0.2084 0.1881 0.2299 0.2664 0.2069 0.1148 0.1815 1.0000 0.6705 0.2402 0.2494 0.2379 0.2262 0.3255 0.2847 0.2844 0.2364 0.1683 0.2580 0.3239 0.2793 0.2456 0.3328 0.2832 0.0231 0.0323 0.0591 0.1605 0.1267 0.1219 -0.2021 Enhancer_Hoffman.extend.500.bed NaN 0.0343 0.0599 0.0441 0.1327 0.0624 0.0947 0.2012 0.2508 0.2110 0.2444 0.2688 0.0967 0.1790 0.6705 1.0000 0.2252 0.3027 0.3261 0.3215 0.4414 0.4056 0.2935 0.3120 0.2445 0.2408 0.3611 0.3720 0.2366 0.3787 0.3841 0.0372 0.0488 0.1159 0.2561 0.1810 0.1770 -0.2813 FetalDHS_Trynka.bed NaN 0.0475 0.0715 0.1460 0.1964 0.1239 0.0943 0.3573 0.2170 0.6524 0.6769 0.3018 0.1290 0.1211 0.2402 0.2252 1.0000 0.4847 0.1958 0.1864 0.2378 0.2092 0.3015 0.2772 0.2015 0.2711 0.3028 0.2446 0.2401 0.2974 0.2507 0.0224 0.0406 0.0353 0.1079 0.1200 0.1082 -0.1366 FetalDHS_Trynka.extend.500.bed NaN 0.0387 0.0632 0.1048 0.2734 0.1273 0.1548 0.2297 0.3742 0.3698 0.4338 0.6227 0.0771 0.1437 0.2494 0.3027 0.4847 1.0000 0.3096 0.3080 0.3490 0.3260 0.3479 0.4368 0.3756 0.2077 0.3075 0.3338 0.2133 0.3422 0.3591 0.0553 0.0662 0.0603 0.1373 0.1186 0.1093 -0.1815 H3K27ac_Hnisz.bed NaN 0.0646 0.1141 0.0518 0.1830 0.0522 0.0880 0.2032 0.3264 0.1892 0.2263 0.3079 0.0636 0.1223 0.2379 0.3261 0.1958 0.3096 1.0000 0.9362 0.5410 0.5727 0.3194 0.4782 0.4453 0.1705 0.3024 0.3635 0.1987 0.3637 0.4442 0.1550 0.1670 0.0783 0.1464 0.1303 0.1416 -0.2818 H3K27ac_Hnisz.extend.500.bed NaN 0.0630 0.1128 0.0501 0.1813 0.0537 0.0908 0.1969 0.3296 0.1806 0.2168 0.3125 0.0602 0.1160 0.2262 0.3215 0.1864 0.3080 0.9362 1.0000 0.5460 0.5901 0.3090 0.4797 0.4683 0.1611 0.2894 0.3602 0.1889 0.3496 0.4410 0.1535 0.1648 0.0765 0.1467 0.1282 0.1400 -0.2825 H3K27ac_PGC2.bed NaN 0.0643 0.1094 0.0626 0.1940 0.0555 0.0903 0.2344 0.3420 0.2309 0.2745 0.3415 0.0782 0.1521 0.3255 0.4414 0.2378 0.3490 0.5410 0.5460 1.0000 0.8507 0.3689 0.4979 0.4182 0.2366 0.4097 0.4698 0.2565 0.4616 0.5228 0.1335 0.1477 0.1121 0.2103 0.1843 0.1897 -0.2957 H3K27ac_PGC2.extend.500.bed NaN 0.0663 0.1142 0.0567 0.1902 0.0558 0.0940 0.2168 0.3400 0.2042 0.2436 0.3270 0.0688 0.1354 0.2847 0.4056 0.2092 0.3260 0.5727 0.5901 0.8507 1.0000 0.3463 0.5043 0.4537 0.2072 0.3680 0.4432 0.2288 0.4217 0.5085 0.1429 0.1561 0.1059 0.2000 0.1797 0.1894 -0.3012 H3K4me1_peaks_Trynka.bed NaN 0.0479 0.0686 0.0785 0.1955 0.0784 0.0874 0.2927 0.3073 0.3085 0.3573 0.3258 0.0726 0.1241 0.2844 0.2935 0.3015 0.3479 0.3194 0.3090 0.3689 0.3463 1.0000 0.5166 0.3577 0.2794 0.3843 0.3441 0.3019 0.4112 0.3747 0.1084 0.1189 0.1267 0.1788 0.1244 0.1263 -0.2369 H3K4me1_Trynka.bed NaN 0.0756 0.1396 0.0982 0.2745 0.0796 0.1049 0.2860 0.4521 0.2906 0.3541 0.4772 0.0609 0.1175 0.2364 0.3120 0.2772 0.4368 0.4782 0.4797 0.4979 0.5043 0.5166 1.0000 0.6864 0.1967 0.3457 0.4171 0.2191 0.4026 0.4854 0.1791 0.1942 0.0982 0.1733 0.1411 0.1482 -0.3113 H3K4me1_Trynka.extend.500.bed NaN 0.0641 0.1332 0.0788 0.2604 0.0692 0.1084 0.2123 0.4427 0.2127 0.2620 0.4622 0.0436 0.0853 0.1683 0.2445 0.2015 0.3756 0.4453 0.4683 0.4182 0.4537 0.3577 0.6864 1.0000 0.1348 0.2442 0.3265 0.1557 0.2930 0.4047 0.1931 0.2053 0.0703 0.1368 0.1198 0.1271 -0.2870 H3K4me3_peaks_Trynka.bed NaN 0.0655 0.0991 0.0685 0.1203 0.0440 0.0517 0.1915 0.1494 0.2272 0.2463 0.1516 0.0831 0.1198 0.2580 0.2408 0.2711 0.2077 0.1705 0.1611 0.2366 0.2072 0.2794 0.1967 0.1348 1.0000 0.5262 0.3595 0.3874 0.3563 0.2689 0.0464 0.0648 0.1064 0.1739 0.1783 0.1741 -0.1398 H3K4me3_Trynka.bed NaN 0.0829 0.1337 0.0900 0.1726 0.0640 0.0794 0.2545 0.2607 0.2697 0.3040 0.2471 0.1009 0.1677 0.3239 0.3611 0.3028 0.3075 0.3024 0.2894 0.4097 0.3680 0.3843 0.3457 0.2442 0.5262 1.0000 0.6762 0.3524 0.5495 0.4634 0.0897 0.1137 0.1919 0.2970 0.2661 0.2726 -0.2267 H3K4me3_Trynka.extend.500.bed NaN 0.0712 0.1207 0.0720 0.1675 0.0708 0.1014 0.2193 0.3111 0.2223 0.2570 0.2956 0.0774 0.1455 0.2793 0.3720 0.2446 0.3338 0.3635 0.3602 0.4698 0.4432 0.3441 0.4171 0.3265 0.3595 0.6762 1.0000 0.2705 0.4873 0.5380 0.0981 0.1163 0.1465 0.2721 0.2223 0.2324 -0.2497 H3K9ac_peaks_Trynka.bed NaN 0.0662 0.1088 0.0600 0.1397 0.0640 0.0758 0.1748 0.1587 0.2056 0.2291 0.1639 0.0620 0.1041 0.2456 0.2366 0.2401 0.2133 0.1987 0.1889 0.2565 0.2288 0.3019 0.2191 0.1557 0.3874 0.3524 0.2705 1.0000 0.5221 0.3659 0.0680 0.0845 0.0852 0.1479 0.1573 0.1561 -0.1535 H3K9ac_Trynka.bed NaN 0.0974 0.1663 0.0946 0.2239 0.0924 0.1190 0.2538 0.2826 0.2695 0.3074 0.2842 0.0877 0.1550 0.3328 0.3787 0.2974 0.3422 0.3637 0.3496 0.4616 0.4217 0.4112 0.4026 0.2930 0.3563 0.5495 0.4873 0.5221 1.0000 0.6948 0.1183 0.1434 0.1550 0.2525 0.2422 0.2456 -0.2614 H3K9ac_Trynka.extend.500.bed NaN 0.0935 0.1784 0.0821 0.2322 0.0971 0.1426 0.2325 0.3340 0.2319 0.2675 0.3270 0.0713 0.1377 0.2832 0.3841 0.2507 0.3591 0.4442 0.4410 0.5228 0.5085 0.3747 0.4854 0.4047 0.2689 0.4634 0.5380 0.3659 0.6948 1.0000 0.1560 0.1772 0.1338 0.2472 0.2179 0.2268 -0.3106 Intron_UCSC.bed NaN -0.0917 0.1719 -0.0198 0.1436 -0.0032 0.0015 0.0347 0.0708 0.0267 0.0306 0.0637 0.0127 0.0157 0.0231 0.0372 0.0224 0.0553 0.1550 0.1535 0.1335 0.1429 0.1084 0.1791 0.1931 0.0464 0.0897 0.0981 0.0680 0.1183 0.1560 1.0000 0.9730 0.0376 0.0343 0.0653 0.0753 -0.2456 Intron_UCSC.extend.500.bed NaN 0.0475 0.2512 0.0420 0.1731 0.0011 0.0077 0.0518 0.0826 0.0421 0.0458 0.0725 0.0107 0.0126 0.0323 0.0488 0.0406 0.0662 0.1670 0.1648 0.1477 0.1561 0.1189 0.1942 0.2053 0.0648 0.1137 0.1163 0.0845 0.1434 0.1772 0.9730 1.0000 0.0396 0.0444 0.1058 0.1133 -0.2598 PromoterFlanking_Hoffman.bed NaN 0.0047 0.0186 0.0131 0.0415 -0.0055 0.0083 0.0605 0.0704 0.0414 0.0437 0.0521 0.0131 0.0320 0.0591 0.1159 0.0353 0.0603 0.0783 0.0765 0.1121 0.1059 0.1267 0.0982 0.0703 0.1064 0.1919 0.1465 0.0852 0.1550 0.1338 0.0376 0.0396 1.0000 0.5008 0.1330 0.1438 -0.0883 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0160 0.0509 0.0242 0.0725 0.0228 0.0416 0.1037 0.1344 0.0966 0.1014 0.1149 0.0359 0.0647 0.1605 0.2561 0.1079 0.1373 0.1464 0.1467 0.2103 0.2000 0.1788 0.1733 0.1368 0.1739 0.2970 0.2721 0.1479 0.2525 0.2472 0.0343 0.0444 0.5008 1.0000 0.2409 0.2487 -0.1518 Promoter_UCSC.bed NaN 0.1256 0.2520 0.0575 0.1235 0.0154 0.0364 0.1056 0.1062 0.0968 0.0978 0.0892 0.0113 0.0197 0.1267 0.1810 0.1200 0.1186 0.1303 0.1282 0.1843 0.1797 0.1244 0.1411 0.1198 0.1783 0.2661 0.2223 0.1573 0.2422 0.2179 0.0653 0.1058 0.1330 0.2409 1.0000 0.8965 -0.1203 Promoter_UCSC.extend.500.bed NaN 0.1217 0.2428 0.0559 0.1214 0.0179 0.0388 0.1051 0.1110 0.0881 0.0886 0.0833 0.0150 0.0251 0.1219 0.1770 0.1082 0.1093 0.1416 0.1400 0.1897 0.1894 0.1263 0.1482 0.1271 0.1741 0.2726 0.2324 0.1561 0.2456 0.2268 0.0753 0.1133 0.1438 0.2487 0.8965 1.0000 -0.1280 Repressed_Hoffman.bed NaN -0.0837 -0.1670 -0.0391 -0.1284 -0.1443 -0.1260 -0.1779 -0.2351 -0.1501 -0.1738 -0.1985 -0.0423 -0.0760 -0.2021 -0.2813 -0.1366 -0.1815 -0.2818 -0.2825 -0.2957 -0.3012 -0.2369 -0.3113 -0.2870 -0.1398 -0.2267 -0.2497 -0.1535 -0.2614 -0.3106 -0.2456 -0.2598 -0.0883 -0.1518 -0.1203 -0.1280 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1280 -0.2608 -0.0545 -0.1798 -0.0692 -0.0926 -0.1882 -0.2483 -0.1565 -0.1793 -0.2096 -0.0609 -0.1074 -0.3089 -0.3953 -0.1572 -0.2103 -0.3677 -0.3637 -0.3945 -0.3967 -0.2800 -0.3738 -0.3467 -0.1886 -0.3038 -0.3241 -0.2170 -0.3607 -0.4168 -0.3405 -0.3622 -0.1164 -0.1980 -0.1808 -0.1909 0.5960 SuperEnhancer_Hnisz.bed NaN 0.0544 0.0870 0.0384 0.1328 0.0398 0.0682 0.1599 0.2239 0.1261 0.1454 0.1917 0.0757 0.1393 0.2218 0.2847 0.1334 0.2066 0.5680 0.5317 0.4256 0.4292 0.2527 0.3333 0.2873 0.1566 0.2689 0.2955 0.1914 0.3290 0.3635 0.1274 0.1371 0.0546 0.1083 0.1112 0.1210 -0.2266 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0553 0.0878 0.0382 0.1324 0.0410 0.0698 0.1597 0.2249 0.1251 0.1441 0.1922 0.0747 0.1379 0.2212 0.2862 0.1321 0.2063 0.5675 0.5378 0.4283 0.4335 0.2524 0.3348 0.2904 0.1555 0.2686 0.2974 0.1902 0.3286 0.3657 0.1270 0.1367 0.0565 0.1113 0.1134 0.1237 -0.2284 TFBS_ENCODE.bed NaN 0.0665 0.0992 0.0830 0.1499 0.2355 0.1774 0.3719 0.2848 0.3820 0.4377 0.2880 0.1081 0.1369 0.3490 0.3424 0.3556 0.2975 0.2357 0.2281 0.2936 0.2638 0.2974 0.2832 0.2100 0.2641 0.3407 0.2934 0.2339 0.3197 0.2837 0.0269 0.0463 0.0733 0.1581 0.1658 0.1597 -0.2314 TFBS_ENCODE.extend.500.bed NaN 0.0522 0.0827 0.0612 0.1730 0.1813 0.2683 0.2426 0.4195 0.2463 0.3000 0.4336 0.0650 0.1269 0.2830 0.3717 0.2320 0.3733 0.3162 0.3160 0.3657 0.3478 0.2956 0.3725 0.3288 0.1915 0.3091 0.3474 0.1905 0.3191 0.3477 0.0459 0.0590 0.0890 0.1753 0.1413 0.1417 -0.2610 Transcribed_Hoffman.bed NaN 0.0685 0.1421 0.0059 0.0438 -0.0513 -0.0316 -0.0009 0.0254 -0.0340 -0.0365 -0.0036 -0.0144 -0.0242 -0.0335 -0.0248 -0.0479 -0.0323 0.0858 0.0877 0.0530 0.0717 0.0377 0.0943 0.1109 -0.0177 0.0040 0.0292 0.0062 0.0274 0.0745 0.2923 0.2961 -0.0065 -0.0240 -0.0200 -0.0104 -0.6837 Transcribed_Hoffman.extend.500.bed NaN -0.0030 0.0007 -0.0234 -0.0370 -0.0439 -0.0502 -0.0647 -0.0467 -0.0875 -0.0946 -0.0624 -0.0327 -0.0530 -0.1111 -0.1133 -0.1047 -0.0963 -0.0437 -0.0400 -0.0727 -0.0573 -0.0665 -0.0504 -0.0175 -0.1006 -0.1058 -0.0797 -0.0837 -0.1076 -0.0808 0.1252 0.1163 -0.0251 -0.0689 -0.1044 -0.0969 -0.1538 TSS_Hoffman.bed NaN 0.0871 0.1561 0.0624 0.1136 0.0256 0.0388 0.1884 0.1226 0.2139 0.2159 0.1318 0.1021 0.1366 0.1936 0.2537 0.2611 0.1925 0.1501 0.1412 0.2218 0.1902 0.1801 0.1475 0.1074 0.3282 0.3333 0.2343 0.2826 0.3156 0.2316 0.0336 0.0686 0.1025 0.2525 0.3350 0.3167 -0.1281 TSS_Hoffman.extend.500.bed NaN 0.0726 0.1416 0.0535 0.1214 0.0453 0.0685 0.1710 0.1620 0.1867 0.1957 0.1686 0.0890 0.1495 0.2957 0.3827 0.2276 0.2310 0.2007 0.1920 0.2906 0.2558 0.2216 0.1983 0.1471 0.3058 0.4019 0.3150 0.2749 0.3771 0.3103 0.0439 0.0727 0.2109 0.3869 0.3660 0.3526 -0.1756 UTR_3_UCSC.bed NaN 0.6028 0.3110 0.0783 0.0944 0.0184 0.0254 0.0305 0.0413 0.0193 0.0209 0.0265 -0.0087 -0.0168 0.0149 0.0189 0.0182 0.0277 0.0528 0.0535 0.0467 0.0520 0.0348 0.0590 0.0551 0.0208 0.0394 0.0395 0.0327 0.0584 0.0682 -0.0472 -0.0021 0.0025 0.0081 0.0601 0.0639 -0.0684 UTR_3_UCSC.extend.500.bed NaN 0.4537 0.4574 0.0797 0.1530 0.0234 0.0333 0.0458 0.0591 0.0305 0.0323 0.0368 -0.0100 -0.0184 0.0245 0.0320 0.0323 0.0371 0.0708 0.0708 0.0654 0.0718 0.0454 0.0796 0.0769 0.0397 0.0653 0.0625 0.0497 0.0857 0.0981 0.0119 0.0587 0.0080 0.0220 0.1329 0.1319 -0.0941 UTR_5_UCSC.bed NaN 0.3273 0.1799 0.0905 0.0693 0.0086 0.0150 0.0537 0.0407 0.0590 0.0607 0.0361 -0.0057 -0.0094 0.0421 0.0491 0.0765 0.0495 0.0489 0.0469 0.0627 0.0577 0.0400 0.0509 0.0417 0.0845 0.0892 0.0663 0.0710 0.0886 0.0718 -0.0173 0.0538 0.0125 0.0378 0.1996 0.1830 -0.0491 UTR_5_UCSC.extend.500.bed NaN 0.1841 0.4628 0.0806 0.1729 0.0135 0.0269 0.0820 0.0721 0.0901 0.0915 0.0687 -0.0109 -0.0126 0.0805 0.1002 0.1154 0.0893 0.0891 0.0863 0.1166 0.1103 0.0758 0.1033 0.0902 0.1529 0.1707 0.1300 0.1343 0.1701 0.1471 0.0918 0.1521 0.0363 0.0994 0.4130 0.3815 -0.1007 WeakEnhancer_Hoffman.bed NaN 0.0055 0.0039 0.0353 0.0720 0.0351 0.0586 0.1939 0.1379 0.2036 0.2275 0.1492 0.0696 0.0780 0.1291 0.1797 0.1752 0.1554 0.1292 0.1250 0.1627 0.1502 0.2233 0.1664 0.1181 0.1306 0.1794 0.1623 0.1364 0.1809 0.1659 0.0101 0.0114 0.0261 0.0772 0.0288 0.0317 -0.1480 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0025 0.0048 0.0340 0.1111 0.0771 0.1164 0.1789 0.2631 0.1872 0.2274 0.2810 0.0672 0.1254 0.2519 0.3519 0.1781 0.2714 0.2451 0.2444 0.2987 0.2876 0.2790 0.2976 0.2407 0.1413 0.2448 0.2878 0.1601 0.2708 0.3012 0.0184 0.0195 0.0639 0.1482 0.0589 0.0658 -0.2457 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 -0.1280 0.0544 0.0553 0.0665 0.0522 0.0685 -0.0030 0.0871 0.0726 0.6028 0.4537 0.3273 0.1841 0.0055 0.0025 Coding_UCSC.extend.500.bed -0.2608 0.0870 0.0878 0.0992 0.0827 0.1421 0.0007 0.1561 0.1416 0.3110 0.4574 0.1799 0.4628 0.0039 0.0048 Conserved_LindbladToh.bed -0.0545 0.0384 0.0382 0.0830 0.0612 0.0059 -0.0234 0.0624 0.0535 0.0783 0.0797 0.0905 0.0806 0.0353 0.0340 Conserved_LindbladToh.extend.500.bed -0.1798 0.1328 0.1324 0.1499 0.1730 0.0438 -0.0370 0.1136 0.1214 0.0944 0.1530 0.0693 0.1729 0.0720 0.1111 CTCF_Hoffman.bed -0.0692 0.0398 0.0410 0.2355 0.1813 -0.0513 -0.0439 0.0256 0.0453 0.0184 0.0234 0.0086 0.0135 0.0351 0.0771 CTCF_Hoffman.extend.500.bed -0.0926 0.0682 0.0698 0.1774 0.2683 -0.0316 -0.0502 0.0388 0.0685 0.0254 0.0333 0.0150 0.0269 0.0586 0.1164 DGF_ENCODE.bed -0.1882 0.1599 0.1597 0.3719 0.2426 -0.0009 -0.0647 0.1884 0.1710 0.0305 0.0458 0.0537 0.0820 0.1939 0.1789 DGF_ENCODE.extend.500.bed -0.2483 0.2239 0.2249 0.2848 0.4195 0.0254 -0.0467 0.1226 0.1620 0.0413 0.0591 0.0407 0.0721 0.1379 0.2631 DHS_peaks_Trynka.bed -0.1565 0.1261 0.1251 0.3820 0.2463 -0.0340 -0.0875 0.2139 0.1867 0.0193 0.0305 0.0590 0.0901 0.2036 0.1872 DHS_Trynka.bed -0.1793 0.1454 0.1441 0.4377 0.3000 -0.0365 -0.0946 0.2159 0.1957 0.0209 0.0323 0.0607 0.0915 0.2275 0.2274 DHS_Trynka.extend.500.bed -0.2096 0.1917 0.1922 0.2880 0.4336 -0.0036 -0.0624 0.1318 0.1686 0.0265 0.0368 0.0361 0.0687 0.1492 0.2810 Enhancer_Andersson.bed -0.0609 0.0757 0.0747 0.1081 0.0650 -0.0144 -0.0327 0.1021 0.0890 -0.0087 -0.0100 -0.0057 -0.0109 0.0696 0.0672 Enhancer_Andersson.extend.500.bed -0.1074 0.1393 0.1379 0.1369 0.1269 -0.0242 -0.0530 0.1366 0.1495 -0.0168 -0.0184 -0.0094 -0.0126 0.0780 0.1254 Enhancer_Hoffman.bed -0.3089 0.2218 0.2212 0.3490 0.2830 -0.0335 -0.1111 0.1936 0.2957 0.0149 0.0245 0.0421 0.0805 0.1291 0.2519 Enhancer_Hoffman.extend.500.bed -0.3953 0.2847 0.2862 0.3424 0.3717 -0.0248 -0.1133 0.2537 0.3827 0.0189 0.0320 0.0491 0.1002 0.1797 0.3519 FetalDHS_Trynka.bed -0.1572 0.1334 0.1321 0.3556 0.2320 -0.0479 -0.1047 0.2611 0.2276 0.0182 0.0323 0.0765 0.1154 0.1752 0.1781 FetalDHS_Trynka.extend.500.bed -0.2103 0.2066 0.2063 0.2975 0.3733 -0.0323 -0.0963 0.1925 0.2310 0.0277 0.0371 0.0495 0.0893 0.1554 0.2714 H3K27ac_Hnisz.bed -0.3677 0.5680 0.5675 0.2357 0.3162 0.0858 -0.0437 0.1501 0.2007 0.0528 0.0708 0.0489 0.0891 0.1292 0.2451 H3K27ac_Hnisz.extend.500.bed -0.3637 0.5317 0.5378 0.2281 0.3160 0.0877 -0.0400 0.1412 0.1920 0.0535 0.0708 0.0469 0.0863 0.1250 0.2444 H3K27ac_PGC2.bed -0.3945 0.4256 0.4283 0.2936 0.3657 0.0530 -0.0727 0.2218 0.2906 0.0467 0.0654 0.0627 0.1166 0.1627 0.2987 H3K27ac_PGC2.extend.500.bed -0.3967 0.4292 0.4335 0.2638 0.3478 0.0717 -0.0573 0.1902 0.2558 0.0520 0.0718 0.0577 0.1103 0.1502 0.2876 H3K4me1_peaks_Trynka.bed -0.2800 0.2527 0.2524 0.2974 0.2956 0.0377 -0.0665 0.1801 0.2216 0.0348 0.0454 0.0400 0.0758 0.2233 0.2790 H3K4me1_Trynka.bed -0.3738 0.3333 0.3348 0.2832 0.3725 0.0943 -0.0504 0.1475 0.1983 0.0590 0.0796 0.0509 0.1033 0.1664 0.2976 H3K4me1_Trynka.extend.500.bed -0.3467 0.2873 0.2904 0.2100 0.3288 0.1109 -0.0175 0.1074 0.1471 0.0551 0.0769 0.0417 0.0902 0.1181 0.2407 H3K4me3_peaks_Trynka.bed -0.1886 0.1566 0.1555 0.2641 0.1915 -0.0177 -0.1006 0.3282 0.3058 0.0208 0.0397 0.0845 0.1529 0.1306 0.1413 H3K4me3_Trynka.bed -0.3038 0.2689 0.2686 0.3407 0.3091 0.0040 -0.1058 0.3333 0.4019 0.0394 0.0653 0.0892 0.1707 0.1794 0.2448 H3K4me3_Trynka.extend.500.bed -0.3241 0.2955 0.2974 0.2934 0.3474 0.0292 -0.0797 0.2343 0.3150 0.0395 0.0625 0.0663 0.1300 0.1623 0.2878 H3K9ac_peaks_Trynka.bed -0.2170 0.1914 0.1902 0.2339 0.1905 0.0062 -0.0837 0.2826 0.2749 0.0327 0.0497 0.0710 0.1343 0.1364 0.1601 H3K9ac_Trynka.bed -0.3607 0.3290 0.3286 0.3197 0.3191 0.0274 -0.1076 0.3156 0.3771 0.0584 0.0857 0.0886 0.1701 0.1809 0.2708 H3K9ac_Trynka.extend.500.bed -0.4168 0.3635 0.3657 0.2837 0.3477 0.0745 -0.0808 0.2316 0.3103 0.0682 0.0981 0.0718 0.1471 0.1659 0.3012 Intron_UCSC.bed -0.3405 0.1274 0.1270 0.0269 0.0459 0.2923 0.1252 0.0336 0.0439 -0.0472 0.0119 -0.0173 0.0918 0.0101 0.0184 Intron_UCSC.extend.500.bed -0.3622 0.1371 0.1367 0.0463 0.0590 0.2961 0.1163 0.0686 0.0727 -0.0021 0.0587 0.0538 0.1521 0.0114 0.0195 PromoterFlanking_Hoffman.bed -0.1164 0.0546 0.0565 0.0733 0.0890 -0.0065 -0.0251 0.1025 0.2109 0.0025 0.0080 0.0125 0.0363 0.0261 0.0639 PromoterFlanking_Hoffman.extend.500.bed -0.1980 0.1083 0.1113 0.1581 0.1753 -0.0240 -0.0689 0.2525 0.3869 0.0081 0.0220 0.0378 0.0994 0.0772 0.1482 Promoter_UCSC.bed -0.1808 0.1112 0.1134 0.1658 0.1413 -0.0200 -0.1044 0.3350 0.3660 0.0601 0.1329 0.1996 0.4130 0.0288 0.0589 Promoter_UCSC.extend.500.bed -0.1909 0.1210 0.1237 0.1597 0.1417 -0.0104 -0.0969 0.3167 0.3526 0.0639 0.1319 0.1830 0.3815 0.0317 0.0658 Repressed_Hoffman.bed 0.5960 -0.2266 -0.2284 -0.2314 -0.2610 -0.6837 -0.1538 -0.1281 -0.1756 -0.0684 -0.0941 -0.0491 -0.1007 -0.1480 -0.2457 Repressed_Hoffman.extend.500.bed 1.0000 -0.3174 -0.3195 -0.2664 -0.2919 -0.3876 -0.0498 -0.2109 -0.2733 -0.1058 -0.1464 -0.0745 -0.1558 -0.1622 -0.2638 SuperEnhancer_Hnisz.bed -0.3174 1.0000 0.9888 0.1926 0.2325 0.0785 -0.0328 0.1535 0.1981 0.0424 0.0548 0.0428 0.0726 0.1112 0.2026 SuperEnhancer_Hnisz.extend.500.bed -0.3195 0.9888 1.0000 0.1927 0.2341 0.0793 -0.0327 0.1522 0.1990 0.0438 0.0564 0.0428 0.0727 0.1109 0.2035 TFBS_ENCODE.bed -0.2664 0.1926 0.1927 1.0000 0.5418 -0.0355 -0.1129 0.3138 0.3188 0.0366 0.0596 0.0732 0.1267 0.2309 0.2587 TFBS_ENCODE.extend.500.bed -0.2919 0.2325 0.2341 0.5418 1.0000 -0.0070 -0.0849 0.1917 0.2549 0.0403 0.0556 0.0489 0.0921 0.1772 0.3304 Transcribed_Hoffman.bed -0.3876 0.0785 0.0793 -0.0355 -0.0070 1.0000 0.3847 -0.0705 -0.0612 0.0736 0.0914 0.0066 0.0238 -0.0254 -0.0349 Transcribed_Hoffman.extend.500.bed -0.0498 -0.0328 -0.0327 -0.1129 -0.0849 0.3847 1.0000 -0.1636 -0.1526 0.0181 0.0136 -0.0389 -0.0673 -0.0586 -0.0842 TSS_Hoffman.bed -0.2109 0.1535 0.1522 0.3138 0.1917 -0.0705 -0.1636 1.0000 0.7187 0.0221 0.0569 0.1477 0.2612 0.0512 0.0790 TSS_Hoffman.extend.500.bed -0.2733 0.1981 0.1990 0.3188 0.2549 -0.0612 -0.1526 0.7187 1.0000 0.0238 0.0554 0.1221 0.2343 0.0819 0.1497 UTR_3_UCSC.bed -0.1058 0.0424 0.0438 0.0366 0.0403 0.0736 0.0181 0.0221 0.0238 1.0000 0.6551 0.1028 0.0579 0.0072 0.0087 UTR_3_UCSC.extend.500.bed -0.1464 0.0548 0.0564 0.0596 0.0556 0.0914 0.0136 0.0569 0.0554 0.6551 1.0000 0.0865 0.1220 0.0080 0.0104 UTR_5_UCSC.bed -0.0745 0.0428 0.0428 0.0732 0.0489 0.0066 -0.0389 0.1477 0.1221 0.1028 0.0865 1.0000 0.4421 0.0084 0.0096 UTR_5_UCSC.extend.500.bed -0.1558 0.0726 0.0727 0.1267 0.0921 0.0238 -0.0673 0.2612 0.2343 0.0579 0.1220 0.4421 1.0000 0.0102 0.0208 WeakEnhancer_Hoffman.bed -0.1622 0.1112 0.1109 0.2309 0.1772 -0.0254 -0.0586 0.0512 0.0819 0.0072 0.0080 0.0084 0.0102 1.0000 0.4763 WeakEnhancer_Hoffman.extend.500.bed -0.2638 0.2026 0.2035 0.2587 0.3304 -0.0349 -0.0842 0.0790 0.1497 0.0087 0.0104 0.0096 0.0208 0.4763 1.0000 Annotation Matrix Column Sums base 779354.0 Coding_UCSC.bed 16795.0 Coding_UCSC.extend.500.bed 67766.0 Conserved_LindbladToh.bed 25598.0 Conserved_LindbladToh.extend.500.bed 298184.0 CTCF_Hoffman.bed 22412.0 CTCF_Hoffman.extend.500.bed 65177.0 DGF_ENCODE.bed 122943.0 DGF_ENCODE.extend.500.bed 467115.0 DHS_peaks_Trynka.bed 93813.0 DHS_Trynka.bed 140845.0 DHS_Trynka.extend.500.bed 409911.0 Enhancer_Andersson.bed 3888.0 Enhancer_Andersson.extend.500.bed 16412.0 Enhancer_Hoffman.bed 42595.0 Enhancer_Hoffman.extend.500.bed 88809.0 FetalDHS_Trynka.bed 71548.0 FetalDHS_Trynka.extend.500.bed 234433.0 H3K27ac_Hnisz.bed 346469.0 H3K27ac_Hnisz.extend.500.bed 371988.0 H3K27ac_PGC2.bed 240627.0 H3K27ac_PGC2.extend.500.bed 297425.0 H3K4me1_peaks_Trynka.bed 153089.0 H3K4me1_Trynka.bed 369200.0 H3K4me1_Trynka.extend.500.bed 511585.0 H3K4me3_peaks_Trynka.bed 36871.0 H3K4me3_Trynka.bed 116470.0 H3K4me3_Trynka.extend.500.bed 216357.0 H3K9ac_peaks_Trynka.bed 37836.0 H3K9ac_Trynka.bed 121125.0 H3K9ac_Trynka.extend.500.bed 215091.0 Intron_UCSC.bed 333727.0 Intron_UCSC.extend.500.bed 344195.0 PromoterFlanking_Hoffman.bed 8512.0 PromoterFlanking_Hoffman.extend.500.bed 32867.0 Promoter_UCSC.bed 45267.0 Promoter_UCSC.extend.500.bed 55538.0 Repressed_Hoffman.bed 322669.0 Repressed_Hoffman.extend.500.bed 518644.0 SuperEnhancer_Hnisz.bed 159922.0 SuperEnhancer_Hnisz.extend.500.bed 162814.0 TFBS_ENCODE.bed 117924.0 TFBS_ENCODE.extend.500.bed 294517.0 Transcribed_Hoffman.bed 313345.0 Transcribed_Hoffman.extend.500.bed 638736.0 TSS_Hoffman.bed 17684.0 TSS_Hoffman.extend.500.bed 33523.0 UTR_3_UCSC.bed 11614.0 UTR_3_UCSC.extend.500.bed 26540.0 UTR_5_UCSC.bed 5384.0 UTR_5_UCSC.extend.500.bed 26790.0 WeakEnhancer_Hoffman.bed 23438.0 WeakEnhancer_Hoffman.extend.500.bed 93709.0 Summary of Annotation Matrix Row Sums count 779354.0000 mean 12.3039 std 7.1452 min 1.0000 25% 7.0000 50% 11.0000 75% 17.0000 max 43.0000 Analysis finished at Tue Oct 17 19:16:30 2017 Total time elapsed: 2.0h:35.0m:14.68s