********************************************************************* * 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.3.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.3 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.3 \ --annot 1000G_Phase3_baseline_v1.1/baseline.3.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 706350 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.3.bim Read 53 annotations for 706350 SNPs from 1000G_Phase3_baseline_v1.1/baseline.3.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.3.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.3.bed Estimating LD Score. Reading list of 96664 SNPs for which to print LD Scores from hapmap3_snps/hm.3.snp After merging with --print-snps, LD Scores for 83286 SNPs will be printed. Writing LD Scores for 83286 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.3.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.3.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 0.2395 132.9937 1.7435 8.0373 3.6716 45.8445 2.4704 7.3538 15.9298 66.3617 13.1684 20.0798 61.9008 0.4125 1.8896 4.0263 8.8238 9.7483 33.4991 44.6095 48.7185 31.1423 39.2879 19.9771 51.1750 74.9320 4.3167 14.2957 28.3598 4.0936 13.8012 25.3135 57.3908 58.4944 1.0077 3.7117 5.0819 std 0.1436 121.5086 3.4977 14.6369 3.8933 37.0642 2.9915 7.7778 14.0520 53.9443 10.2910 15.2686 47.4311 0.8463 2.9805 5.6561 11.5292 7.9245 25.5415 46.0768 48.5220 32.3757 39.4847 19.3822 46.6649 63.5354 5.0124 16.4667 28.9680 6.4458 19.6969 32.2310 78.0797 79.3577 1.7293 5.3738 8.7884 min 0.0051 -1.7217 -0.1897 -0.5009 -0.2141 -0.9494 -0.3291 -0.7300 -0.3283 -1.8048 -0.7427 -0.2974 -1.5697 -0.1170 -0.3668 -0.6224 -1.2346 -0.6533 -1.6059 -1.2226 -1.2706 -0.5856 -0.7189 -0.4080 -1.0589 -0.9061 -0.2331 -1.4884 -1.9391 -0.4881 -0.3774 -0.6496 -2.3776 -2.4242 -0.1626 -0.3406 -0.6569 25% 0.1145 56.3606 0.0446 0.3559 1.2456 20.9304 0.6170 2.3762 6.7332 30.5199 6.1042 9.5299 29.6542 0.0198 0.1928 0.4842 1.4499 4.3750 16.0184 13.6217 16.3467 10.0274 13.4303 7.7128 21.7771 34.2347 1.2446 4.4520 10.3241 0.6769 2.9266 6.6950 7.3557 7.5378 0.0642 0.4516 0.3458 50% 0.2311 98.1344 0.3448 2.0701 2.5685 36.1620 1.5680 5.0757 11.9395 51.7833 10.4859 16.1837 49.7142 0.0991 0.7791 1.8707 4.6003 7.6248 27.0055 30.2048 33.9046 20.9002 26.9789 14.0759 37.7625 57.3253 2.7080 9.0474 19.7460 1.9680 7.1921 14.7844 33.0353 33.7614 0.3217 1.6748 1.7810 75% 0.3630 166.4526 1.8321 9.2607 4.6866 59.0512 3.2383 9.6016 20.4109 84.8844 17.1638 26.1548 79.6026 0.4352 2.3316 5.1792 11.7142 12.7149 43.2557 59.0814 63.8418 40.9268 51.4515 25.1058 63.6286 93.7132 5.5000 17.8623 35.5550 4.7858 16.4612 31.2627 77.6733 78.9604 1.1863 4.5828 6.0565 max 0.5000 1088.0116 35.3655 151.0263 50.7998 407.8337 54.2324 111.5614 144.3459 472.2207 128.3415 176.9725 413.4746 15.7738 47.4911 66.9929 93.9336 96.2986 246.4805 423.1093 447.0175 311.2772 381.1800 187.4141 420.0922 537.9229 42.2594 147.0516 240.6180 58.5010 171.7569 271.3122 842.5687 847.8651 29.9878 54.5356 82.9136 Promoter_UCSC.extend.500.bedL2 Repressed_Hoffman.bedL2 Repressed_Hoffman.extend.500.bedL2 SuperEnhancer_Hnisz.bedL2 SuperEnhancer_Hnisz.extend.500.bedL2 TFBS_ENCODE.bedL2 TFBS_ENCODE.extend.500.bedL2 Transcribed_Hoffman.bedL2 Transcribed_Hoffman.extend.500.bedL2 TSS_Hoffman.bedL2 TSS_Hoffman.extend.500.bedL2 UTR_3_UCSC.bedL2 UTR_3_UCSC.extend.500.bedL2 UTR_5_UCSC.bedL2 UTR_5_UCSC.extend.500.bedL2 WeakEnhancer_Hoffman.bedL2 WeakEnhancer_Hoffman.extend.500.bedL2 mean 6.2900 64.5747 99.8766 17.1947 17.5226 14.3028 39.4187 43.5323 97.7961 1.7030 3.1723 1.2882 3.0000 0.6177 3.0984 1.7876 8.2565 std 10.7570 76.2336 108.5747 27.9038 28.3047 13.6367 33.7026 51.3225 94.6408 3.3567 5.8343 2.4557 5.8015 1.3498 5.9918 2.4436 9.8653 min -0.7035 -1.5537 -1.8098 -2.0328 -2.0850 -0.9185 -1.3355 -1.3964 -2.1468 -0.3408 -0.5988 -0.1674 -0.4581 -0.1400 -0.2169 -0.2463 -0.9110 25% 0.4338 20.0485 35.1842 0.5236 0.5449 5.4692 16.9704 12.5286 37.7614 0.0550 0.1528 0.0352 0.1217 0.0127 0.1509 0.2847 2.1036 50% 2.2539 42.1737 69.0129 4.0582 4.2235 10.2649 29.9956 25.8608 69.2695 0.3798 0.8884 0.2615 0.7983 0.1031 0.8589 0.9644 5.0991 75% 7.5546 79.5735 123.0623 22.9289 23.3660 18.3459 50.8378 53.7417 123.7621 1.8332 3.6879 1.3565 3.3196 0.5699 3.3969 2.3202 10.6686 max 101.3496 742.9114 1036.7049 272.2776 275.1796 139.3293 317.1177 434.8391 800.5749 31.4261 55.4132 25.6811 78.8016 15.9373 67.2795 25.8986 95.2565 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 0.1854 0.0853 0.0942 0.1439 0.1942 0.1459 0.1510 0.1809 0.2030 0.2068 0.2168 0.2204 0.0515 0.0723 0.1066 0.1173 0.2009 0.2210 0.1521 0.1589 0.1488 0.1577 0.1586 0.1772 0.1917 0.1167 0.1235 0.1475 0.0875 0.1032 0.1191 0.1055 0.1061 0.0747 0.1061 baseL2 0.1854 1.0000 0.3604 0.4011 0.6026 0.7851 0.6389 0.6874 0.7135 0.8648 0.7511 0.7942 0.9003 0.2779 0.3198 0.3516 0.4018 0.6841 0.7742 0.5003 0.5442 0.5480 0.5824 0.5823 0.6670 0.7874 0.5939 0.6156 0.7060 0.4349 0.4629 0.5114 0.5926 0.5947 0.3891 0.4742 Coding_UCSC.bedL2 0.0853 0.3604 1.0000 0.9197 0.4601 0.5602 0.5410 0.5789 0.6656 0.5893 0.5766 0.5514 0.5194 0.3673 0.4717 0.5946 0.6628 0.5946 0.5706 0.6725 0.6818 0.6942 0.6990 0.6970 0.7051 0.6458 0.7175 0.7542 0.7165 0.7965 0.7867 0.7906 0.5185 0.5375 0.6147 0.7417 Coding_UCSC.extend.500.bedL2 0.0942 0.4011 0.9197 1.0000 0.4720 0.6272 0.5614 0.6175 0.7135 0.6401 0.6263 0.6031 0.5697 0.3975 0.5006 0.6380 0.7127 0.6364 0.6184 0.7244 0.7359 0.7395 0.7471 0.7448 0.7609 0.7055 0.7513 0.7825 0.7497 0.8176 0.8101 0.8257 0.6230 0.6408 0.6592 0.7837 Conserved_LindbladToh.bedL2 0.1439 0.6026 0.4601 0.4720 1.0000 0.8449 0.4210 0.4580 0.5996 0.6396 0.6591 0.6669 0.6944 0.2261 0.3030 0.3862 0.4350 0.6303 0.6818 0.4951 0.5245 0.5123 0.5322 0.5833 0.6270 0.6715 0.5275 0.5563 0.5877 0.4857 0.5061 0.5287 0.5939 0.5991 0.3876 0.4758 Conserved_LindbladToh.extend.500.bedL2 0.1942 0.7851 0.5602 0.6272 0.8449 1.0000 0.6038 0.6697 0.8085 0.8629 0.8614 0.8754 0.9000 0.3426 0.4378 0.5451 0.6050 0.8267 0.8828 0.7078 0.7414 0.7141 0.7417 0.7896 0.8437 0.8967 0.7153 0.7286 0.7848 0.6252 0.6542 0.7014 0.7755 0.7802 0.5455 0.6452 CTCF_Hoffman.bedL2 0.1459 0.6389 0.5410 0.5614 0.4210 0.6038 1.0000 0.9399 0.7439 0.7646 0.6919 0.7028 0.7180 0.4374 0.4998 0.4975 0.5485 0.6879 0.7122 0.6222 0.6431 0.6567 0.6749 0.6864 0.7156 0.7312 0.6600 0.7034 0.7196 0.6169 0.6615 0.6851 0.5050 0.5127 0.4544 0.5574 CTCF_Hoffman.extend.500.bedL2 0.1510 0.6874 0.5789 0.6175 0.4580 0.6697 0.9399 1.0000 0.8073 0.8255 0.7569 0.7645 0.7790 0.4704 0.5352 0.5599 0.6172 0.7443 0.7715 0.6860 0.7091 0.7184 0.7381 0.7574 0.7845 0.8026 0.7228 0.7585 0.7834 0.6831 0.7170 0.7485 0.5862 0.5941 0.5121 0.6225 DGF_ENCODE.bedL2 0.1809 0.7135 0.6656 0.7135 0.5996 0.8085 0.7439 0.8073 1.0000 0.9495 0.9474 0.9410 0.9012 0.5430 0.6510 0.7741 0.8231 0.9149 0.9154 0.8922 0.9107 0.9102 0.9261 0.9338 0.9507 0.9407 0.8810 0.9024 0.9293 0.8174 0.8559 0.8892 0.6950 0.7037 0.6397 0.7652 DGF_ENCODE.extend.500.bedL2 0.2030 0.8648 0.5893 0.6401 0.6396 0.8629 0.7646 0.8255 0.9495 1.0000 0.9338 0.9501 0.9731 0.4636 0.5571 0.6523 0.7103 0.8865 0.9323 0.8105 0.8417 0.8365 0.8647 0.8680 0.9187 0.9616 0.8229 0.8493 0.9073 0.7091 0.7545 0.8021 0.7118 0.7180 0.5939 0.7099 DHS_peaks_Trynka.bedL2 0.2068 0.7511 0.5766 0.6263 0.6591 0.8614 0.6919 0.7569 0.9474 0.9338 1.0000 0.9852 0.9380 0.4833 0.5916 0.7126 0.7540 0.9566 0.9564 0.8508 0.8734 0.8584 0.8767 0.8986 0.9229 0.9349 0.8219 0.8337 0.8801 0.7327 0.7731 0.8132 0.7031 0.7092 0.5756 0.6953 DHS_Trynka.bedL2 0.2168 0.7942 0.5514 0.6031 0.6669 0.8754 0.7028 0.7645 0.9410 0.9501 0.9852 1.0000 0.9624 0.4719 0.5793 0.6850 0.7262 0.9504 0.9638 0.8365 0.8614 0.8433 0.8640 0.8838 0.9174 0.9420 0.8089 0.8220 0.8763 0.7034 0.7490 0.7908 0.7001 0.7054 0.5603 0.6752 DHS_Trynka.extend.500.bedL2 0.2204 0.9003 0.5194 0.5697 0.6944 0.9000 0.7180 0.7790 0.9012 0.9731 0.9380 0.9624 1.0000 0.4109 0.5004 0.5859 0.6397 0.8884 0.9518 0.7563 0.7909 0.7753 0.8053 0.8236 0.8819 0.9453 0.7637 0.7842 0.8567 0.6371 0.6796 0.7303 0.7069 0.7113 0.5377 0.6454 Enhancer_Andersson.bedL2 0.0515 0.2779 0.3673 0.3975 0.2261 0.3426 0.4374 0.4704 0.5430 0.4636 0.4833 0.4719 0.4109 1.0000 0.8635 0.5532 0.5553 0.5182 0.4861 0.5672 0.5597 0.5863 0.5709 0.5452 0.5327 0.4835 0.5379 0.5450 0.5278 0.4979 0.5281 0.5289 0.3638 0.3686 0.3599 0.4076 Enhancer_Andersson.extend.500.bedL2 0.0723 0.3198 0.4717 0.5006 0.3030 0.4378 0.4998 0.5352 0.6510 0.5571 0.5916 0.5793 0.5004 0.8635 1.0000 0.6746 0.6743 0.6236 0.5862 0.6961 0.6881 0.7164 0.6989 0.6613 0.6447 0.5793 0.6496 0.6627 0.6400 0.6131 0.6468 0.6461 0.4213 0.4280 0.4523 0.5195 Enhancer_Hoffman.bedL2 0.1066 0.3516 0.5946 0.6380 0.3862 0.5451 0.4975 0.5599 0.7741 0.6523 0.7126 0.6850 0.5859 0.5532 0.6746 1.0000 0.9698 0.7202 0.6720 0.8063 0.8003 0.8191 0.8089 0.8097 0.7676 0.6900 0.7814 0.7690 0.7490 0.7934 0.8051 0.8093 0.5505 0.5597 0.5585 0.6893 Enhancer_Hoffman.extend.500.bedL2 0.1173 0.4018 0.6628 0.7127 0.4350 0.6050 0.5485 0.6172 0.8231 0.7103 0.7540 0.7262 0.6397 0.5553 0.6743 0.9698 1.0000 0.7575 0.7196 0.8543 0.8525 0.8686 0.8630 0.8629 0.8300 0.7557 0.8288 0.8245 0.8083 0.8424 0.8566 0.8677 0.6052 0.6156 0.6268 0.7655 FetalDHS_Trynka.bedL2 0.2009 0.6841 0.5946 0.6364 0.6303 0.8267 0.6879 0.7443 0.9149 0.8865 0.9566 0.9504 0.8884 0.5182 0.6236 0.7202 0.7575 1.0000 0.9591 0.8582 0.8758 0.8535 0.8680 0.9036 0.9139 0.9100 0.8262 0.8284 0.8648 0.7487 0.7812 0.8163 0.6802 0.6871 0.5664 0.6875 FetalDHS_Trynka.extend.500.bedL2 0.2210 0.7742 0.5706 0.6184 0.6818 0.8828 0.7122 0.7715 0.9154 0.9323 0.9564 0.9638 0.9518 0.4861 0.5862 0.6720 0.7196 0.9591 1.0000 0.8322 0.8575 0.8345 0.8560 0.8908 0.9228 0.9464 0.8049 0.8160 0.8684 0.7086 0.7466 0.7908 0.7117 0.7174 0.5602 0.6740 H3K27ac_Hnisz.bedL2 0.1521 0.5003 0.6725 0.7244 0.4951 0.7078 0.6222 0.6860 0.8922 0.8105 0.8508 0.8365 0.7563 0.5672 0.6961 0.8063 0.8543 0.8582 0.8322 1.0000 0.9970 0.9513 0.9544 0.9283 0.9208 0.8565 0.8512 0.8610 0.8690 0.8253 0.8656 0.8930 0.6312 0.6409 0.6425 0.7550 H3K27ac_Hnisz.extend.500.bedL2 0.1589 0.5442 0.6818 0.7359 0.5245 0.7414 0.6431 0.7091 0.9107 0.8417 0.8734 0.8614 0.7909 0.5597 0.6881 0.8003 0.8525 0.8758 0.8575 0.9970 1.0000 0.9544 0.9613 0.9390 0.9388 0.8854 0.8624 0.8734 0.8870 0.8288 0.8682 0.8992 0.6566 0.6662 0.6521 0.7681 H3K27ac_PGC2.bedL2 0.1488 0.5480 0.6942 0.7395 0.5123 0.7141 0.6567 0.7184 0.9102 0.8365 0.8584 0.8433 0.7753 0.5863 0.7164 0.8191 0.8686 0.8535 0.8345 0.9513 0.9544 1.0000 0.9950 0.9363 0.9300 0.8712 0.8886 0.9029 0.9044 0.8600 0.8974 0.9194 0.6536 0.6636 0.6510 0.7745 H3K27ac_PGC2.extend.500.bedL2 0.1577 0.5824 0.6990 0.7471 0.5322 0.7417 0.6749 0.7381 0.9261 0.8647 0.8767 0.8640 0.8053 0.5709 0.6989 0.8089 0.8630 0.8680 0.8560 0.9544 0.9613 0.9950 1.0000 0.9448 0.9466 0.8977 0.8906 0.9066 0.9156 0.8544 0.8929 0.9207 0.6733 0.6831 0.6588 0.7851 H3K4me1_peaks_Trynka.bedL2 0.1586 0.5823 0.6970 0.7448 0.5833 0.7896 0.6864 0.7574 0.9338 0.8680 0.8986 0.8838 0.8236 0.5452 0.6613 0.8097 0.8629 0.9036 0.8908 0.9283 0.9390 0.9363 0.9448 1.0000 0.9754 0.9300 0.9074 0.9105 0.9220 0.8704 0.8955 0.9262 0.7318 0.7404 0.6759 0.7928 H3K4me1_Trynka.bedL2 0.1772 0.6670 0.7051 0.7609 0.6270 0.8437 0.7156 0.7845 0.9507 0.9187 0.9229 0.9174 0.8819 0.5327 0.6447 0.7676 0.8300 0.9139 0.9228 0.9208 0.9388 0.9300 0.9466 0.9754 1.0000 0.9757 0.9006 0.9144 0.9386 0.8416 0.8779 0.9157 0.7553 0.7640 0.6719 0.7954 H3K4me1_Trynka.extend.500.bedL2 0.1917 0.7874 0.6458 0.7055 0.6715 0.8967 0.7312 0.8026 0.9407 0.9616 0.9349 0.9420 0.9453 0.4835 0.5793 0.6900 0.7557 0.9100 0.9464 0.8565 0.8854 0.8712 0.8977 0.9300 0.9757 1.0000 0.8624 0.8758 0.9253 0.7665 0.8017 0.8511 0.7827 0.7893 0.6353 0.7547 H3K4me3_peaks_Trynka.bedL2 0.1167 0.5939 0.7175 0.7513 0.5275 0.7153 0.6600 0.7228 0.8810 0.8229 0.8219 0.8089 0.7637 0.5379 0.6496 0.7814 0.8288 0.8262 0.8049 0.8512 0.8624 0.8886 0.8906 0.9074 0.9006 0.8624 1.0000 0.9544 0.9414 0.8915 0.9019 0.9137 0.6780 0.6885 0.6650 0.7969 H3K4me3_Trynka.bedL2 0.1235 0.6156 0.7542 0.7825 0.5563 0.7286 0.7034 0.7585 0.9024 0.8493 0.8337 0.8220 0.7842 0.5450 0.6627 0.7690 0.8245 0.8284 0.8160 0.8610 0.8734 0.9029 0.9066 0.9105 0.9144 0.8758 0.9544 1.0000 0.9769 0.9016 0.9288 0.9349 0.6557 0.6679 0.6828 0.8070 H3K4me3_Trynka.extend.500.bedL2 0.1475 0.7060 0.7165 0.7497 0.5877 0.7848 0.7196 0.7834 0.9293 0.9073 0.8801 0.8763 0.8567 0.5278 0.6400 0.7490 0.8083 0.8648 0.8684 0.8690 0.8870 0.9044 0.9156 0.9220 0.9386 0.9253 0.9414 0.9769 1.0000 0.8636 0.8939 0.9186 0.6938 0.7042 0.6559 0.7860 H3K9ac_peaks_Trynka.bedL2 0.0875 0.4349 0.7965 0.8176 0.4857 0.6252 0.6169 0.6831 0.8174 0.7091 0.7327 0.7034 0.6371 0.4979 0.6131 0.7934 0.8424 0.7487 0.7086 0.8253 0.8288 0.8600 0.8544 0.8704 0.8416 0.7665 0.8915 0.9016 0.8636 1.0000 0.9698 0.9615 0.6122 0.6267 0.6415 0.7848 H3K9ac_Trynka.bedL2 0.1032 0.4629 0.7867 0.8101 0.5061 0.6542 0.6615 0.7170 0.8559 0.7545 0.7731 0.7490 0.6796 0.5281 0.6468 0.8051 0.8566 0.7812 0.7466 0.8656 0.8682 0.8974 0.8929 0.8955 0.8779 0.8017 0.9019 0.9288 0.8939 0.9698 1.0000 0.9874 0.6109 0.6248 0.6478 0.7894 H3K9ac_Trynka.extend.500.bedL2 0.1191 0.5114 0.7906 0.8257 0.5287 0.7014 0.6851 0.7485 0.8892 0.8021 0.8132 0.7908 0.7303 0.5289 0.6461 0.8093 0.8677 0.8163 0.7908 0.8930 0.8992 0.9194 0.9207 0.9262 0.9157 0.8511 0.9137 0.9349 0.9186 0.9615 0.9874 1.0000 0.6645 0.6775 0.6669 0.8123 Intron_UCSC.bedL2 0.1055 0.5926 0.5185 0.6230 0.5939 0.7755 0.5050 0.5862 0.6950 0.7118 0.7031 0.7001 0.7069 0.3638 0.4213 0.5505 0.6052 0.6802 0.7117 0.6312 0.6566 0.6536 0.6733 0.7318 0.7553 0.7827 0.6780 0.6557 0.6938 0.6122 0.6109 0.6645 1.0000 0.9997 0.5000 0.5849 Intron_UCSC.extend.500.bedL2 0.1061 0.5947 0.5375 0.6408 0.5991 0.7802 0.5127 0.5941 0.7037 0.7180 0.7092 0.7054 0.7113 0.3686 0.4280 0.5597 0.6156 0.6871 0.7174 0.6409 0.6662 0.6636 0.6831 0.7404 0.7640 0.7893 0.6885 0.6679 0.7042 0.6267 0.6248 0.6775 0.9997 1.0000 0.5092 0.5973 PromoterFlanking_Hoffman.bedL2 0.0747 0.3891 0.6147 0.6592 0.3876 0.5455 0.4544 0.5121 0.6397 0.5939 0.5756 0.5603 0.5377 0.3599 0.4523 0.5585 0.6268 0.5664 0.5602 0.6425 0.6521 0.6510 0.6588 0.6759 0.6719 0.6353 0.6650 0.6828 0.6559 0.6415 0.6478 0.6669 0.5000 0.5092 1.0000 0.8831 PromoterFlanking_Hoffman.extend.500.bedL2 0.1061 0.4742 0.7417 0.7837 0.4758 0.6452 0.5574 0.6225 0.7652 0.7099 0.6953 0.6752 0.6454 0.4076 0.5195 0.6893 0.7655 0.6875 0.6740 0.7550 0.7681 0.7745 0.7851 0.7928 0.7954 0.7547 0.7969 0.8070 0.7860 0.7848 0.7894 0.8123 0.5849 0.5973 0.8831 1.0000 Promoter_UCSC.bedL2 0.0914 0.4298 0.8421 0.8772 0.4808 0.6166 0.6150 0.6505 0.7361 0.6707 0.6503 0.6318 0.6007 0.4201 0.5287 0.6560 0.7237 0.6633 0.6411 0.7349 0.7463 0.7640 0.7693 0.7659 0.7779 0.7239 0.7877 0.8218 0.7858 0.8280 0.8360 0.8408 0.5779 0.5945 0.6708 0.8060 Promoter_UCSC.extend.500.bedL2 0.0931 0.4347 0.8454 0.8782 0.4876 0.6240 0.6195 0.6541 0.7401 0.6766 0.6548 0.6365 0.6062 0.4119 0.5242 0.6567 0.7248 0.6666 0.6450 0.7380 0.7497 0.7657 0.7718 0.7684 0.7812 0.7283 0.7881 0.8231 0.7877 0.8286 0.8380 0.8435 0.5800 0.5965 0.6743 0.8099 Repressed_Hoffman.bedL2 0.1425 0.8696 -0.0070 -0.0026 0.3940 0.4976 0.4010 0.4159 0.3415 0.5518 0.4221 0.4816 0.6298 0.0732 0.0483 -0.0374 -0.0144 0.3540 0.4624 0.0971 0.1405 0.1470 0.1783 0.1704 0.2685 0.4307 0.2159 0.2382 0.3395 0.0393 0.0624 0.0973 0.2700 0.2666 0.0565 0.0785 Repressed_Hoffman.extend.500.bedL2 0.1537 0.9096 0.0384 0.0516 0.4460 0.5664 0.4554 0.4756 0.4191 0.6270 0.4976 0.5553 0.6984 0.1046 0.0953 0.0246 0.0535 0.4249 0.5341 0.1688 0.2148 0.2180 0.2523 0.2500 0.3478 0.5105 0.2819 0.3034 0.4095 0.0946 0.1210 0.1630 0.3522 0.3487 0.1125 0.1458 SuperEnhancer_Hnisz.bedL2 0.0874 0.2359 0.5239 0.5422 0.3038 0.4341 0.4686 0.4959 0.6648 0.5323 0.6076 0.5858 0.4729 0.5553 0.6761 0.7256 0.7340 0.6303 0.5807 0.8135 0.7878 0.8004 0.7718 0.7239 0.6814 0.5724 0.6796 0.6893 0.6541 0.7046 0.7479 0.7361 0.4001 0.4085 0.4590 0.5547 SuperEnhancer_Hnisz.extend.500.bedL2 0.0881 0.2391 0.5284 0.5468 0.3067 0.4376 0.4716 0.4993 0.6684 0.5362 0.6107 0.5889 0.4763 0.5571 0.6781 0.7276 0.7367 0.6333 0.5838 0.8164 0.7910 0.8033 0.7750 0.7270 0.6852 0.5765 0.6828 0.6928 0.6576 0.7079 0.7512 0.7396 0.4029 0.4113 0.4630 0.5594 TFBS_ENCODE.bedL2 0.1716 0.6748 0.6908 0.7407 0.5744 0.7778 0.7467 0.8021 0.9500 0.9062 0.9007 0.8966 0.8563 0.5523 0.6668 0.8093 0.8565 0.8731 0.8731 0.8818 0.8980 0.9010 0.9116 0.9117 0.9235 0.9035 0.8804 0.8973 0.9123 0.8357 0.8700 0.8953 0.6770 0.6873 0.6505 0.7911 TFBS_ENCODE.extend.500.bedL2 0.1911 0.7998 0.6302 0.6831 0.6181 0.8404 0.7652 0.8311 0.9537 0.9669 0.9301 0.9391 0.9371 0.5121 0.6147 0.7286 0.7852 0.8892 0.9198 0.8526 0.8774 0.8740 0.8945 0.8964 0.9296 0.9474 0.8531 0.8739 0.9164 0.7662 0.8061 0.8470 0.7128 0.7204 0.6276 0.7593 Transcribed_Hoffman.bedL2 0.1570 0.7375 0.6710 0.7454 0.6249 0.8108 0.6113 0.6843 0.8402 0.8619 0.8111 0.8180 0.8377 0.3523 0.4612 0.6533 0.7155 0.7709 0.8054 0.7525 0.7792 0.7760 0.8016 0.8192 0.8534 0.8750 0.7858 0.7953 0.8339 0.7267 0.7420 0.7878 0.7432 0.7514 0.6344 0.7621 Transcribed_Hoffman.extend.500.bedL2 0.1826 0.9806 0.3961 0.4451 0.6338 0.8054 0.6148 0.6677 0.7258 0.8668 0.7587 0.7982 0.9005 0.2580 0.3150 0.3869 0.4393 0.6906 0.7788 0.5210 0.5642 0.5681 0.6031 0.6092 0.6877 0.8011 0.6143 0.6347 0.7213 0.4689 0.4926 0.5422 0.6308 0.6333 0.4237 0.5153 TSS_Hoffman.bedL2 0.0710 0.3824 0.7716 0.8080 0.4317 0.5577 0.5309 0.5952 0.7180 0.6179 0.6231 0.5945 0.5471 0.4324 0.5479 0.7283 0.7904 0.6392 0.5992 0.7155 0.7229 0.7465 0.7448 0.7547 0.7390 0.6756 0.8066 0.8102 0.7652 0.8623 0.8367 0.8334 0.5489 0.5644 0.6646 0.8164 TSS_Hoffman.extend.500.bedL2 0.0766 0.3947 0.7826 0.8191 0.4511 0.5769 0.5514 0.6180 0.7391 0.6392 0.6457 0.6157 0.5677 0.4512 0.5621 0.7484 0.8163 0.6582 0.6253 0.7410 0.7487 0.7744 0.7731 0.7811 0.7665 0.7009 0.8192 0.8308 0.7851 0.8799 0.8590 0.8582 0.5657 0.5812 0.7009 0.8514 UTR_3_UCSC.bedL2 0.0843 0.3361 0.8564 0.7905 0.3490 0.4938 0.4693 0.5121 0.5864 0.5264 0.5101 0.4946 0.4670 0.2963 0.4022 0.4990 0.5593 0.5155 0.4970 0.6041 0.6114 0.6193 0.6227 0.6067 0.6141 0.5699 0.6124 0.6349 0.6194 0.6594 0.6591 0.6759 0.4600 0.4748 0.5425 0.6582 UTR_3_UCSC.extend.500.bedL2 0.0827 0.3574 0.8342 0.8440 0.3963 0.5252 0.4842 0.5302 0.6122 0.5491 0.5251 0.5107 0.4890 0.2982 0.4017 0.5254 0.5957 0.5338 0.5180 0.6121 0.6230 0.6278 0.6347 0.6240 0.6372 0.5915 0.6331 0.6606 0.6405 0.6995 0.6945 0.7099 0.4783 0.4955 0.5317 0.6807 UTR_5_UCSC.bedL2 0.0593 0.3457 0.7319 0.7321 0.3969 0.4948 0.4680 0.4970 0.5748 0.5226 0.5025 0.4914 0.4663 0.3438 0.4149 0.5070 0.5611 0.5147 0.4952 0.5644 0.5758 0.5921 0.5960 0.5829 0.5936 0.5549 0.6231 0.6312 0.6050 0.6467 0.6456 0.6503 0.4710 0.4857 0.4914 0.6236 UTR_5_UCSC.extend.500.bedL2 0.0859 0.3832 0.8124 0.8733 0.4485 0.5663 0.5307 0.5723 0.6651 0.5951 0.5815 0.5634 0.5330 0.3987 0.4841 0.6012 0.6666 0.5901 0.5704 0.6629 0.6752 0.6913 0.6976 0.6835 0.6982 0.6457 0.7157 0.7398 0.7042 0.7639 0.7599 0.7639 0.5481 0.5653 0.6065 0.7357 WeakEnhancer_Hoffman.bedL2 0.0863 0.4409 0.5378 0.5969 0.3614 0.5617 0.5801 0.6513 0.7518 0.6744 0.6974 0.6829 0.6204 0.5845 0.6408 0.7172 0.7549 0.7127 0.6919 0.7337 0.7386 0.7551 0.7548 0.7972 0.7647 0.7221 0.7536 0.7327 0.7384 0.7317 0.7304 0.7557 0.6180 0.6241 0.4857 0.5986 WeakEnhancer_Hoffman.extend.500.bedL2 0.1158 0.5022 0.6117 0.6713 0.4461 0.6576 0.6580 0.7273 0.8384 0.7670 0.7841 0.7686 0.7130 0.5726 0.6630 0.7885 0.8372 0.7934 0.7832 0.8196 0.8281 0.8381 0.8424 0.8846 0.8602 0.8183 0.8167 0.8102 0.8230 0.7942 0.8054 0.8375 0.6891 0.6963 0.5665 0.6963 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 0.0914 0.0931 0.1425 0.1537 0.0874 0.0881 0.1716 0.1911 0.1570 0.1826 0.0710 0.0766 0.0843 0.0827 0.0593 0.0859 0.0863 0.1158 baseL2 0.4298 0.4347 0.8696 0.9096 0.2359 0.2391 0.6748 0.7998 0.7375 0.9806 0.3824 0.3947 0.3361 0.3574 0.3457 0.3832 0.4409 0.5022 Coding_UCSC.bedL2 0.8421 0.8454 -0.0070 0.0384 0.5239 0.5284 0.6908 0.6302 0.6710 0.3961 0.7716 0.7826 0.8564 0.8342 0.7319 0.8124 0.5378 0.6117 Coding_UCSC.extend.500.bedL2 0.8772 0.8782 -0.0026 0.0516 0.5422 0.5468 0.7407 0.6831 0.7454 0.4451 0.8080 0.8191 0.7905 0.8440 0.7321 0.8733 0.5969 0.6713 Conserved_LindbladToh.bedL2 0.4808 0.4876 0.3940 0.4460 0.3038 0.3067 0.5744 0.6181 0.6249 0.6338 0.4317 0.4511 0.3490 0.3963 0.3969 0.4485 0.3614 0.4461 Conserved_LindbladToh.extend.500.bedL2 0.6166 0.6240 0.4976 0.5664 0.4341 0.4376 0.7778 0.8404 0.8108 0.8054 0.5577 0.5769 0.4938 0.5252 0.4948 0.5663 0.5617 0.6576 CTCF_Hoffman.bedL2 0.6150 0.6195 0.4010 0.4554 0.4686 0.4716 0.7467 0.7652 0.6113 0.6148 0.5309 0.5514 0.4693 0.4842 0.4680 0.5307 0.5801 0.6580 CTCF_Hoffman.extend.500.bedL2 0.6505 0.6541 0.4159 0.4756 0.4959 0.4993 0.8021 0.8311 0.6843 0.6677 0.5952 0.6180 0.5121 0.5302 0.4970 0.5723 0.6513 0.7273 DGF_ENCODE.bedL2 0.7361 0.7401 0.3415 0.4191 0.6648 0.6684 0.9500 0.9537 0.8402 0.7258 0.7180 0.7391 0.5864 0.6122 0.5748 0.6651 0.7518 0.8384 DGF_ENCODE.extend.500.bedL2 0.6707 0.6766 0.5518 0.6270 0.5323 0.5362 0.9062 0.9669 0.8619 0.8668 0.6179 0.6392 0.5264 0.5491 0.5226 0.5951 0.6744 0.7670 DHS_peaks_Trynka.bedL2 0.6503 0.6548 0.4221 0.4976 0.6076 0.6107 0.9007 0.9301 0.8111 0.7587 0.6231 0.6457 0.5101 0.5251 0.5025 0.5815 0.6974 0.7841 DHS_Trynka.bedL2 0.6318 0.6365 0.4816 0.5553 0.5858 0.5889 0.8966 0.9391 0.8180 0.7982 0.5945 0.6157 0.4946 0.5107 0.4914 0.5634 0.6829 0.7686 DHS_Trynka.extend.500.bedL2 0.6007 0.6062 0.6298 0.6984 0.4729 0.4763 0.8563 0.9371 0.8377 0.9005 0.5471 0.5677 0.4670 0.4890 0.4663 0.5330 0.6204 0.7130 Enhancer_Andersson.bedL2 0.4201 0.4119 0.0732 0.1046 0.5553 0.5571 0.5523 0.5121 0.3523 0.2580 0.4324 0.4512 0.2963 0.2982 0.3438 0.3987 0.5845 0.5726 Enhancer_Andersson.extend.500.bedL2 0.5287 0.5242 0.0483 0.0953 0.6761 0.6781 0.6668 0.6147 0.4612 0.3150 0.5479 0.5621 0.4022 0.4017 0.4149 0.4841 0.6408 0.6630 Enhancer_Hoffman.bedL2 0.6560 0.6567 -0.0374 0.0246 0.7256 0.7276 0.8093 0.7286 0.6533 0.3869 0.7283 0.7484 0.4990 0.5254 0.5070 0.6012 0.7172 0.7885 Enhancer_Hoffman.extend.500.bedL2 0.7237 0.7248 -0.0144 0.0535 0.7340 0.7367 0.8565 0.7852 0.7155 0.4393 0.7904 0.8163 0.5593 0.5957 0.5611 0.6666 0.7549 0.8372 FetalDHS_Trynka.bedL2 0.6633 0.6666 0.3540 0.4249 0.6303 0.6333 0.8731 0.8892 0.7709 0.6906 0.6392 0.6582 0.5155 0.5338 0.5147 0.5901 0.7127 0.7934 FetalDHS_Trynka.extend.500.bedL2 0.6411 0.6450 0.4624 0.5341 0.5807 0.5838 0.8731 0.9198 0.8054 0.7788 0.5992 0.6253 0.4970 0.5180 0.4952 0.5704 0.6919 0.7832 H3K27ac_Hnisz.bedL2 0.7349 0.7380 0.0971 0.1688 0.8135 0.8164 0.8818 0.8526 0.7525 0.5210 0.7155 0.7410 0.6041 0.6121 0.5644 0.6629 0.7337 0.8196 H3K27ac_Hnisz.extend.500.bedL2 0.7463 0.7497 0.1405 0.2148 0.7878 0.7910 0.8980 0.8774 0.7792 0.5642 0.7229 0.7487 0.6114 0.6230 0.5758 0.6752 0.7386 0.8281 H3K27ac_PGC2.bedL2 0.7640 0.7657 0.1470 0.2180 0.8004 0.8033 0.9010 0.8740 0.7760 0.5681 0.7465 0.7744 0.6193 0.6278 0.5921 0.6913 0.7551 0.8381 H3K27ac_PGC2.extend.500.bedL2 0.7693 0.7718 0.1783 0.2523 0.7718 0.7750 0.9116 0.8945 0.8016 0.6031 0.7448 0.7731 0.6227 0.6347 0.5960 0.6976 0.7548 0.8424 H3K4me1_peaks_Trynka.bedL2 0.7659 0.7684 0.1704 0.2500 0.7239 0.7270 0.9117 0.8964 0.8192 0.6092 0.7547 0.7811 0.6067 0.6240 0.5829 0.6835 0.7972 0.8846 H3K4me1_Trynka.bedL2 0.7779 0.7812 0.2685 0.3478 0.6814 0.6852 0.9235 0.9296 0.8534 0.6877 0.7390 0.7665 0.6141 0.6372 0.5936 0.6982 0.7647 0.8602 H3K4me1_Trynka.extend.500.bedL2 0.7239 0.7283 0.4307 0.5105 0.5724 0.5765 0.9035 0.9474 0.8750 0.8011 0.6756 0.7009 0.5699 0.5915 0.5549 0.6457 0.7221 0.8183 H3K4me3_peaks_Trynka.bedL2 0.7877 0.7881 0.2159 0.2819 0.6796 0.6828 0.8804 0.8531 0.7858 0.6143 0.8066 0.8192 0.6124 0.6331 0.6231 0.7157 0.7536 0.8167 H3K4me3_Trynka.bedL2 0.8218 0.8231 0.2382 0.3034 0.6893 0.6928 0.8973 0.8739 0.7953 0.6347 0.8102 0.8308 0.6349 0.6606 0.6312 0.7398 0.7327 0.8102 H3K4me3_Trynka.extend.500.bedL2 0.7858 0.7877 0.3395 0.4095 0.6541 0.6576 0.9123 0.9164 0.8339 0.7213 0.7652 0.7851 0.6194 0.6405 0.6050 0.7042 0.7384 0.8230 H3K9ac_peaks_Trynka.bedL2 0.8280 0.8286 0.0393 0.0946 0.7046 0.7079 0.8357 0.7662 0.7267 0.4689 0.8623 0.8799 0.6594 0.6995 0.6467 0.7639 0.7317 0.7942 H3K9ac_Trynka.bedL2 0.8360 0.8380 0.0624 0.1210 0.7479 0.7512 0.8700 0.8061 0.7420 0.4926 0.8367 0.8590 0.6591 0.6945 0.6456 0.7599 0.7304 0.8054 H3K9ac_Trynka.extend.500.bedL2 0.8408 0.8435 0.0973 0.1630 0.7361 0.7396 0.8953 0.8470 0.7878 0.5422 0.8334 0.8582 0.6759 0.7099 0.6503 0.7639 0.7557 0.8375 Intron_UCSC.bedL2 0.5779 0.5800 0.2700 0.3522 0.4001 0.4029 0.6770 0.7128 0.7432 0.6308 0.5489 0.5657 0.4600 0.4783 0.4710 0.5481 0.6180 0.6891 Intron_UCSC.extend.500.bedL2 0.5945 0.5965 0.2666 0.3487 0.4085 0.4113 0.6873 0.7204 0.7514 0.6333 0.5644 0.5812 0.4748 0.4955 0.4857 0.5653 0.6241 0.6963 PromoterFlanking_Hoffman.bedL2 0.6708 0.6743 0.0565 0.1125 0.4590 0.4630 0.6505 0.6276 0.6344 0.4237 0.6646 0.7009 0.5425 0.5317 0.4914 0.6065 0.4857 0.5665 PromoterFlanking_Hoffman.extend.500.bedL2 0.8060 0.8099 0.0785 0.1458 0.5547 0.5594 0.7911 0.7593 0.7621 0.5153 0.8164 0.8514 0.6582 0.6807 0.6236 0.7357 0.5986 0.6963 Promoter_UCSC.bedL2 1.0000 0.9969 0.0523 0.1072 0.5793 0.5834 0.7723 0.7162 0.7056 0.4595 0.8368 0.8478 0.7330 0.7983 0.7530 0.8751 0.5934 0.6810 Promoter_UCSC.extend.500.bedL2 0.9969 1.0000 0.0560 0.1115 0.5816 0.5858 0.7757 0.7210 0.7102 0.4649 0.8348 0.8469 0.7394 0.8030 0.7493 0.8691 0.5892 0.6795 Repressed_Hoffman.bedL2 0.0523 0.0560 1.0000 0.9884 -0.0793 -0.0777 0.2934 0.4539 0.3261 0.8003 0.0002 0.0019 0.0165 0.0220 0.0441 0.0237 0.1101 0.1239 Repressed_Hoffman.extend.500.bedL2 0.1072 0.1115 0.9884 1.0000 -0.0347 -0.0329 0.3680 0.5303 0.4090 0.8532 0.0513 0.0562 0.0567 0.0623 0.0872 0.0708 0.1778 0.2032 SuperEnhancer_Hnisz.bedL2 0.5793 0.5816 -0.0793 -0.0347 1.0000 0.9998 0.6832 0.6078 0.4840 0.2523 0.5681 0.5963 0.4739 0.4617 0.4163 0.5036 0.6144 0.6603 SuperEnhancer_Hnisz.extend.500.bedL2 0.5834 0.5858 -0.0777 -0.0329 0.9998 1.0000 0.6869 0.6117 0.4878 0.2555 0.5722 0.6005 0.4774 0.4655 0.4196 0.5076 0.6162 0.6627 TFBS_ENCODE.bedL2 0.7723 0.7757 0.2934 0.3680 0.6832 0.6869 1.0000 0.9648 0.8260 0.6867 0.7737 0.7910 0.6116 0.6477 0.6127 0.7065 0.7511 0.8419 TFBS_ENCODE.extend.500.bedL2 0.7162 0.7210 0.4539 0.5303 0.6078 0.6117 0.9648 1.0000 0.8587 0.8056 0.6881 0.7109 0.5675 0.5925 0.5589 0.6418 0.7206 0.8152 Transcribed_Hoffman.bedL2 0.7056 0.7102 0.3261 0.4090 0.4840 0.4878 0.8260 0.8587 1.0000 0.8160 0.6890 0.7062 0.5946 0.6315 0.5726 0.6690 0.6105 0.7082 Transcribed_Hoffman.extend.500.bedL2 0.4595 0.4649 0.8003 0.8532 0.2523 0.2555 0.6867 0.8056 0.8160 1.0000 0.4241 0.4371 0.3604 0.3883 0.3730 0.4169 0.4470 0.5184 TSS_Hoffman.bedL2 0.8368 0.8348 0.0002 0.0513 0.5681 0.5722 0.7737 0.6881 0.6890 0.4241 1.0000 0.9757 0.6517 0.7150 0.6687 0.7783 0.6229 0.6911 TSS_Hoffman.extend.500.bedL2 0.8478 0.8469 0.0019 0.0562 0.5963 0.6005 0.7910 0.7109 0.7062 0.4371 0.9757 1.0000 0.6591 0.7187 0.6672 0.7858 0.6448 0.7176 UTR_3_UCSC.bedL2 0.7330 0.7394 0.0165 0.0567 0.4739 0.4774 0.6116 0.5675 0.5946 0.3604 0.6517 0.6591 1.0000 0.8980 0.6383 0.6967 0.4458 0.5036 UTR_3_UCSC.extend.500.bedL2 0.7983 0.8030 0.0220 0.0623 0.4617 0.4655 0.6477 0.5925 0.6315 0.3883 0.7150 0.7187 0.8980 1.0000 0.6889 0.7628 0.4706 0.5296 UTR_5_UCSC.bedL2 0.7530 0.7493 0.0441 0.0872 0.4163 0.4196 0.6127 0.5589 0.5726 0.3730 0.6687 0.6672 0.6383 0.6889 1.0000 0.8677 0.4651 0.5289 UTR_5_UCSC.extend.500.bedL2 0.8751 0.8691 0.0237 0.0708 0.5036 0.5076 0.7065 0.6418 0.6690 0.4169 0.7783 0.7858 0.6967 0.7628 0.8677 1.0000 0.5480 0.6208 WeakEnhancer_Hoffman.bedL2 0.5934 0.5892 0.1101 0.1778 0.6144 0.6162 0.7511 0.7206 0.6105 0.4470 0.6229 0.6448 0.4458 0.4706 0.4651 0.5480 1.0000 0.9277 WeakEnhancer_Hoffman.extend.500.bedL2 0.6810 0.6795 0.1239 0.2032 0.6603 0.6627 0.8419 0.8152 0.7082 0.5184 0.6911 0.7176 0.5036 0.5296 0.5289 0.6208 0.9277 1.0000 LD Score Matrix Condition Number 1165.8109 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 0.4721 0.2234 0.1214 0.0141 0.0203 0.0515 0.0520 0.0383 0.0399 0.0348 -0.0069 -0.0133 0.0309 0.0362 0.0410 0.0318 0.0590 0.0580 0.0654 0.0666 0.0445 0.0697 0.0623 0.0618 0.0712 0.0581 0.0638 0.0885 0.0841 -0.0641 0.0391 0.0060 0.0172 0.1323 0.1273 -0.0772 Coding_UCSC.extend.500.bed NaN 0.4721 1.0000 0.1237 0.2880 0.0220 0.0334 0.0690 0.0884 0.0601 0.0631 0.0665 -0.0128 -0.0198 0.0446 0.0585 0.0656 0.0581 0.1083 0.1074 0.1109 0.1156 0.0690 0.1275 0.1252 0.0900 0.1151 0.0982 0.1075 0.1546 0.1630 0.1551 0.2126 0.0231 0.0573 0.2414 0.2335 -0.1531 Conserved_LindbladToh.bed NaN 0.2234 0.1237 1.0000 0.2361 0.0068 0.0059 0.0889 0.0610 0.1341 0.1384 0.0904 0.0149 0.0101 0.0389 0.0359 0.1460 0.1052 0.0458 0.0447 0.0577 0.0518 0.0740 0.0946 0.0783 0.0607 0.0802 0.0650 0.0492 0.0802 0.0692 0.0040 0.0434 0.0129 0.0194 0.0492 0.0481 -0.0322 Conserved_LindbladToh.extend.500.bed NaN 0.1214 0.2880 0.2361 1.0000 0.0395 0.0445 0.1134 0.1847 0.1713 0.2039 0.2690 0.0234 0.0455 0.1019 0.1138 0.1939 0.2805 0.1764 0.1767 0.1843 0.1800 0.1791 0.2624 0.2585 0.1011 0.1484 0.1485 0.1167 0.1890 0.1991 0.1553 0.1731 0.0353 0.0639 0.1009 0.1016 -0.1044 CTCF_Hoffman.bed NaN 0.0141 0.0220 0.0068 0.0395 1.0000 0.5669 0.1102 0.1062 0.1161 0.1224 0.1009 0.0125 0.0142 0.0297 0.0541 0.1170 0.1094 0.0469 0.0481 0.0498 0.0507 0.0697 0.0742 0.0631 0.0370 0.0518 0.0592 0.0554 0.0847 0.0939 0.0033 0.0065 -0.0032 0.0200 0.0132 0.0142 -0.1374 CTCF_Hoffman.extend.500.bed NaN 0.0203 0.0334 0.0059 0.0445 0.5669 1.0000 0.0836 0.1508 0.0876 0.0941 0.1432 0.0152 0.0245 0.0482 0.0798 0.0864 0.1428 0.0755 0.0786 0.0784 0.0812 0.0775 0.0984 0.1017 0.0431 0.0633 0.0852 0.0723 0.1119 0.1376 0.0114 0.0150 0.0073 0.0355 0.0273 0.0290 -0.1177 DGF_ENCODE.bed NaN 0.0515 0.0690 0.0889 0.1134 0.1102 0.0836 1.0000 0.3654 0.5247 0.5019 0.2614 0.0828 0.0762 0.1886 0.1828 0.3465 0.2208 0.2090 0.2025 0.2346 0.2185 0.2888 0.2891 0.2175 0.1801 0.2368 0.2089 0.1578 0.2381 0.2293 0.0526 0.0636 0.0611 0.0929 0.0895 0.0901 -0.1764 DGF_ENCODE.extend.500.bed NaN 0.0520 0.0884 0.0610 0.1847 0.1062 0.1508 0.3654 1.0000 0.2631 0.3267 0.5593 0.0455 0.0917 0.1733 0.2343 0.2159 0.3698 0.3469 0.3516 0.3588 0.3591 0.3102 0.4661 0.4552 0.1467 0.2538 0.3119 0.1503 0.2746 0.3318 0.1026 0.1108 0.0691 0.1274 0.1025 0.1066 -0.2428 DHS_peaks_Trynka.bed NaN 0.0383 0.0601 0.1341 0.1713 0.1161 0.0876 0.5247 0.2631 1.0000 0.7704 0.3534 0.0910 0.0835 0.2065 0.1903 0.6409 0.3652 0.1939 0.1861 0.2281 0.2059 0.3048 0.2980 0.2221 0.2113 0.2568 0.2169 0.1833 0.2553 0.2308 0.0491 0.0592 0.0436 0.0852 0.0854 0.0799 -0.1513 DHS_Trynka.bed NaN 0.0399 0.0631 0.1384 0.2039 0.1224 0.0941 0.5019 0.3267 0.7704 1.0000 0.4492 0.0888 0.0997 0.2353 0.2176 0.6727 0.4277 0.2320 0.2235 0.2701 0.2430 0.3493 0.3611 0.2714 0.2273 0.2885 0.2518 0.2051 0.2894 0.2640 0.0561 0.0661 0.0450 0.0859 0.0854 0.0800 -0.1760 DHS_Trynka.extend.500.bed NaN 0.0348 0.0665 0.0904 0.2690 0.1009 0.1432 0.2614 0.5593 0.3534 0.4492 1.0000 0.0464 0.0952 0.1800 0.2390 0.3021 0.6258 0.3179 0.3241 0.3396 0.3293 0.3153 0.4795 0.4758 0.1388 0.2293 0.2876 0.1471 0.2643 0.3149 0.1020 0.1087 0.0475 0.1019 0.0825 0.0808 -0.1973 Enhancer_Andersson.bed NaN -0.0069 -0.0128 0.0149 0.0234 0.0125 0.0152 0.0828 0.0455 0.0910 0.0888 0.0464 1.0000 0.4648 0.1029 0.0891 0.1043 0.0627 0.0603 0.0569 0.0762 0.0668 0.0651 0.0565 0.0413 0.0677 0.0930 0.0720 0.0506 0.0814 0.0713 0.0125 0.0115 0.0189 0.0337 0.0138 0.0135 -0.0392 Enhancer_Andersson.extend.500.bed NaN -0.0133 -0.0198 0.0101 0.0455 0.0142 0.0245 0.0762 0.0917 0.0835 0.0997 0.0952 0.4648 1.0000 0.1712 0.1719 0.1016 0.1271 0.1229 0.1176 0.1524 0.1351 0.1126 0.1122 0.0836 0.1016 0.1513 0.1368 0.0960 0.1490 0.1358 0.0231 0.0213 0.0291 0.0569 0.0202 0.0240 -0.0762 Enhancer_Hoffman.bed NaN 0.0309 0.0446 0.0389 0.1019 0.0297 0.0482 0.1886 0.1733 0.2065 0.2353 0.1800 0.1029 0.1712 1.0000 0.6697 0.2125 0.2174 0.2226 0.2116 0.3023 0.2631 0.2461 0.2117 0.1519 0.2262 0.2836 0.2484 0.2271 0.3035 0.2598 0.0473 0.0535 0.0427 0.1239 0.0942 0.0920 -0.1855 Enhancer_Hoffman.extend.500.bed NaN 0.0362 0.0585 0.0359 0.1138 0.0541 0.0798 0.1828 0.2343 0.1903 0.2176 0.2390 0.0891 0.1719 0.6697 1.0000 0.1984 0.2647 0.3071 0.3005 0.4124 0.3767 0.2567 0.2823 0.2220 0.2104 0.3148 0.3301 0.2174 0.3460 0.3550 0.0656 0.0741 0.0903 0.2063 0.1460 0.1440 -0.2597 FetalDHS_Trynka.bed NaN 0.0410 0.0656 0.1460 0.1939 0.1170 0.0864 0.3465 0.2159 0.6409 0.6727 0.3021 0.1043 0.1016 0.2125 0.1984 1.0000 0.4828 0.1932 0.1841 0.2260 0.2012 0.2931 0.2814 0.2079 0.2480 0.2852 0.2358 0.2138 0.2794 0.2436 0.0442 0.0564 0.0378 0.0915 0.1056 0.0967 -0.1330 FetalDHS_Trynka.extend.500.bed NaN 0.0318 0.0581 0.1052 0.2805 0.1094 0.1428 0.2208 0.3698 0.3652 0.4277 0.6258 0.0627 0.1271 0.2174 0.2647 0.4828 1.0000 0.3041 0.3024 0.3341 0.3146 0.3277 0.4335 0.3838 0.1811 0.2770 0.3166 0.1884 0.3129 0.3417 0.0878 0.0951 0.0502 0.1163 0.1042 0.0991 -0.1719 H3K27ac_Hnisz.bed NaN 0.0590 0.1083 0.0458 0.1764 0.0469 0.0755 0.2090 0.3469 0.1939 0.2320 0.3179 0.0603 0.1229 0.2226 0.3071 0.1932 0.3041 1.0000 0.9361 0.5519 0.5801 0.3191 0.4761 0.4409 0.1644 0.2865 0.3516 0.1874 0.3522 0.4350 0.1950 0.2028 0.0761 0.1361 0.1202 0.1313 -0.2855 H3K27ac_Hnisz.extend.500.bed NaN 0.0580 0.1074 0.0447 0.1767 0.0481 0.0786 0.2025 0.3516 0.1861 0.2235 0.3241 0.0569 0.1176 0.2116 0.3005 0.1841 0.3024 0.9361 1.0000 0.5579 0.5984 0.3099 0.4769 0.4633 0.1559 0.2744 0.3488 0.1782 0.3377 0.4316 0.1930 0.2006 0.0754 0.1374 0.1189 0.1303 -0.2829 H3K27ac_PGC2.bed NaN 0.0654 0.1109 0.0577 0.1843 0.0498 0.0784 0.2346 0.3588 0.2281 0.2701 0.3396 0.0762 0.1524 0.3023 0.4124 0.2260 0.3341 0.5519 0.5579 1.0000 0.8528 0.3600 0.4976 0.4226 0.2236 0.3865 0.4565 0.2435 0.4516 0.5280 0.1622 0.1720 0.1068 0.1907 0.1686 0.1758 -0.2971 H3K27ac_PGC2.extend.500.bed NaN 0.0666 0.1156 0.0518 0.1800 0.0507 0.0812 0.2185 0.3591 0.2059 0.2430 0.3293 0.0668 0.1351 0.2631 0.3767 0.2012 0.3146 0.5801 0.5984 0.8528 1.0000 0.3418 0.5044 0.4553 0.1964 0.3483 0.4303 0.2167 0.4109 0.5101 0.1759 0.1853 0.0986 0.1795 0.1637 0.1735 -0.3036 H3K4me1_peaks_Trynka.bed NaN 0.0445 0.0690 0.0740 0.1791 0.0697 0.0775 0.2888 0.3102 0.3048 0.3493 0.3153 0.0651 0.1126 0.2461 0.2567 0.2931 0.3277 0.3191 0.3099 0.3600 0.3418 1.0000 0.5246 0.3659 0.2584 0.3581 0.3280 0.2748 0.3836 0.3651 0.1317 0.1387 0.1195 0.1642 0.1146 0.1178 -0.2344 H3K4me1_Trynka.bed NaN 0.0697 0.1275 0.0946 0.2624 0.0742 0.0984 0.2891 0.4661 0.2980 0.3611 0.4795 0.0565 0.1122 0.2117 0.2823 0.2814 0.4335 0.4761 0.4769 0.4976 0.5044 0.5246 1.0000 0.6911 0.1857 0.3243 0.4067 0.2030 0.3790 0.4699 0.2063 0.2161 0.0935 0.1625 0.1310 0.1377 -0.3031 H3K4me1_Trynka.extend.500.bed NaN 0.0623 0.1252 0.0783 0.2585 0.0631 0.1017 0.2175 0.4552 0.2221 0.2714 0.4758 0.0413 0.0836 0.1519 0.2220 0.2079 0.3838 0.4409 0.4633 0.4226 0.4553 0.3659 0.6911 1.0000 0.1284 0.2301 0.3184 0.1442 0.2730 0.3808 0.2215 0.2296 0.0669 0.1274 0.1110 0.1185 -0.2690 H3K4me3_peaks_Trynka.bed NaN 0.0618 0.0900 0.0607 0.1011 0.0370 0.0431 0.1801 0.1467 0.2113 0.2273 0.1388 0.0677 0.1016 0.2262 0.2104 0.2480 0.1811 0.1644 0.1559 0.2236 0.1964 0.2584 0.1857 0.1284 1.0000 0.5246 0.3529 0.3685 0.3499 0.2678 0.0481 0.0612 0.1065 0.1646 0.1597 0.1568 -0.1279 H3K4me3_Trynka.bed NaN 0.0712 0.1151 0.0802 0.1484 0.0518 0.0633 0.2368 0.2538 0.2568 0.2885 0.2293 0.0930 0.1513 0.2836 0.3148 0.2852 0.2770 0.2865 0.2744 0.3865 0.3483 0.3581 0.3243 0.2301 0.5246 1.0000 0.6650 0.3380 0.5358 0.4573 0.0882 0.1035 0.1797 0.2739 0.2325 0.2379 -0.2060 H3K4me3_Trynka.extend.500.bed NaN 0.0581 0.0982 0.0650 0.1485 0.0592 0.0852 0.2089 0.3119 0.2169 0.2518 0.2876 0.0720 0.1368 0.2484 0.3301 0.2358 0.3166 0.3516 0.3488 0.4565 0.4303 0.3280 0.4067 0.3184 0.3529 0.6650 1.0000 0.2575 0.4729 0.5358 0.0982 0.1098 0.1360 0.2504 0.1917 0.1991 -0.2269 H3K9ac_peaks_Trynka.bed NaN 0.0638 0.1075 0.0492 0.1167 0.0554 0.0723 0.1578 0.1503 0.1833 0.2051 0.1471 0.0506 0.0960 0.2271 0.2174 0.2138 0.1884 0.1874 0.1782 0.2435 0.2167 0.2748 0.2030 0.1442 0.3685 0.3380 0.2575 1.0000 0.5191 0.3647 0.0663 0.0786 0.0878 0.1497 0.1536 0.1522 -0.1392 H3K9ac_Trynka.bed NaN 0.0885 0.1546 0.0802 0.1890 0.0847 0.1119 0.2381 0.2746 0.2553 0.2894 0.2643 0.0814 0.1490 0.3035 0.3460 0.2794 0.3129 0.3522 0.3377 0.4516 0.4109 0.3836 0.3790 0.2730 0.3499 0.5358 0.4729 0.5191 1.0000 0.6968 0.1196 0.1367 0.1517 0.2426 0.2321 0.2359 -0.2395 H3K9ac_Trynka.extend.500.bed NaN 0.0841 0.1630 0.0692 0.1991 0.0939 0.1376 0.2293 0.3318 0.2308 0.2640 0.3149 0.0713 0.1358 0.2598 0.3550 0.2436 0.3417 0.4350 0.4316 0.5280 0.5101 0.3651 0.4699 0.3808 0.2678 0.4573 0.5358 0.3647 0.6968 1.0000 0.1569 0.1715 0.1309 0.2386 0.2113 0.2200 -0.2821 Intron_UCSC.bed NaN -0.0641 0.1551 0.0040 0.1553 0.0033 0.0114 0.0526 0.1026 0.0491 0.0561 0.1020 0.0125 0.0231 0.0473 0.0656 0.0442 0.0878 0.1950 0.1930 0.1622 0.1759 0.1317 0.2063 0.2215 0.0481 0.0882 0.0982 0.0663 0.1196 0.1569 1.0000 0.9841 0.0374 0.0382 0.0723 0.0831 -0.2282 Intron_UCSC.extend.500.bed NaN 0.0391 0.2126 0.0434 0.1731 0.0065 0.0150 0.0636 0.1108 0.0592 0.0661 0.1087 0.0115 0.0213 0.0535 0.0741 0.0564 0.0951 0.2028 0.2006 0.1720 0.1853 0.1387 0.2161 0.2296 0.0612 0.1035 0.1098 0.0786 0.1367 0.1715 0.9841 1.0000 0.0385 0.0457 0.1017 0.1104 -0.2381 PromoterFlanking_Hoffman.bed NaN 0.0060 0.0231 0.0129 0.0353 -0.0032 0.0073 0.0611 0.0691 0.0436 0.0450 0.0475 0.0189 0.0291 0.0427 0.0903 0.0378 0.0502 0.0761 0.0754 0.1068 0.0986 0.1195 0.0935 0.0669 0.1065 0.1797 0.1360 0.0878 0.1517 0.1309 0.0374 0.0385 1.0000 0.5086 0.1211 0.1301 -0.0845 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0172 0.0573 0.0194 0.0639 0.0200 0.0355 0.0929 0.1274 0.0852 0.0859 0.1019 0.0337 0.0569 0.1239 0.2063 0.0915 0.1163 0.1361 0.1374 0.1907 0.1795 0.1642 0.1625 0.1274 0.1646 0.2739 0.2504 0.1497 0.2426 0.2386 0.0382 0.0457 0.5086 1.0000 0.2195 0.2261 -0.1405 Promoter_UCSC.bed NaN 0.1323 0.2414 0.0492 0.1009 0.0132 0.0273 0.0895 0.1025 0.0854 0.0854 0.0825 0.0138 0.0202 0.0942 0.1460 0.1056 0.1042 0.1202 0.1189 0.1686 0.1637 0.1146 0.1310 0.1110 0.1597 0.2325 0.1917 0.1536 0.2321 0.2113 0.0723 0.1017 0.1211 0.2195 1.0000 0.8971 -0.1104 Promoter_UCSC.extend.500.bed NaN 0.1273 0.2335 0.0481 0.1016 0.0142 0.0290 0.0901 0.1066 0.0799 0.0800 0.0808 0.0135 0.0240 0.0920 0.1440 0.0967 0.0991 0.1313 0.1303 0.1758 0.1735 0.1178 0.1377 0.1185 0.1568 0.2379 0.1991 0.1522 0.2359 0.2200 0.0831 0.1104 0.1301 0.2261 0.8971 1.0000 -0.1168 Repressed_Hoffman.bed NaN -0.0772 -0.1531 -0.0322 -0.1044 -0.1374 -0.1177 -0.1764 -0.2428 -0.1513 -0.1760 -0.1973 -0.0392 -0.0762 -0.1855 -0.2597 -0.1330 -0.1719 -0.2855 -0.2829 -0.2971 -0.3036 -0.2344 -0.3031 -0.2690 -0.1279 -0.2060 -0.2269 -0.1392 -0.2395 -0.2821 -0.2282 -0.2381 -0.0845 -0.1405 -0.1104 -0.1168 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1265 -0.2577 -0.0427 -0.1497 -0.0635 -0.0863 -0.1889 -0.2623 -0.1570 -0.1811 -0.2128 -0.0589 -0.1126 -0.3074 -0.3913 -0.1528 -0.2047 -0.3878 -0.3808 -0.4116 -0.4131 -0.2763 -0.3652 -0.3259 -0.1753 -0.2812 -0.3033 -0.2057 -0.3434 -0.3934 -0.3212 -0.3375 -0.1139 -0.1881 -0.1735 -0.1830 0.5499 SuperEnhancer_Hnisz.bed NaN 0.0494 0.0817 0.0290 0.1145 0.0343 0.0551 0.1578 0.2289 0.1204 0.1397 0.1858 0.0687 0.1339 0.2043 0.2661 0.1237 0.1912 0.5505 0.5154 0.4212 0.4221 0.2453 0.3269 0.2785 0.1435 0.2467 0.2756 0.1731 0.3184 0.3579 0.1796 0.1854 0.0477 0.0945 0.1027 0.1119 -0.2284 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0499 0.0826 0.0289 0.1143 0.0349 0.0565 0.1575 0.2301 0.1195 0.1388 0.1865 0.0680 0.1331 0.2036 0.2669 0.1229 0.1911 0.5500 0.5208 0.4234 0.4257 0.2450 0.3285 0.2814 0.1424 0.2460 0.2769 0.1724 0.3175 0.3597 0.1793 0.1851 0.0489 0.0972 0.1044 0.1139 -0.2292 TFBS_ENCODE.bed NaN 0.0607 0.0906 0.0753 0.1315 0.2396 0.1752 0.3646 0.2764 0.3668 0.4177 0.2694 0.0992 0.1248 0.3104 0.3063 0.3270 0.2684 0.2319 0.2237 0.2803 0.2542 0.2738 0.2716 0.2041 0.2321 0.3004 0.2649 0.2095 0.2938 0.2712 0.0462 0.0595 0.0652 0.1338 0.1393 0.1359 -0.2274 TFBS_ENCODE.extend.500.bed NaN 0.0472 0.0818 0.0546 0.1643 0.1757 0.2716 0.2386 0.4167 0.2413 0.2949 0.4179 0.0605 0.1213 0.2559 0.3380 0.2217 0.3506 0.3200 0.3196 0.3627 0.3484 0.2823 0.3673 0.3289 0.1731 0.2807 0.3223 0.1789 0.3048 0.3385 0.0738 0.0826 0.0794 0.1553 0.1252 0.1258 -0.2573 Transcribed_Hoffman.bed NaN 0.0723 0.1528 0.0054 0.0408 -0.0332 -0.0157 0.0227 0.0590 -0.0088 -0.0093 0.0228 -0.0024 0.0012 -0.0003 0.0097 -0.0205 -0.0024 0.1284 0.1268 0.0984 0.1172 0.0695 0.1196 0.1270 0.0042 0.0255 0.0477 0.0270 0.0567 0.1022 0.2842 0.2887 0.0051 -0.0006 0.0060 0.0150 -0.6399 Transcribed_Hoffman.extend.500.bed NaN 0.0117 0.0336 -0.0140 -0.0160 -0.0311 -0.0388 -0.0408 -0.0344 -0.0581 -0.0639 -0.0449 -0.0159 -0.0249 -0.0693 -0.0739 -0.0671 -0.0652 -0.0140 -0.0141 -0.0296 -0.0186 -0.0337 -0.0264 -0.0048 -0.0538 -0.0607 -0.0443 -0.0422 -0.0560 -0.0361 0.1576 0.1540 -0.0142 -0.0384 -0.0588 -0.0537 -0.2063 TSS_Hoffman.bed NaN 0.0956 0.1615 0.0525 0.0868 0.0238 0.0312 0.1583 0.1067 0.1712 0.1673 0.1033 0.0601 0.0847 0.1447 0.2087 0.2091 0.1484 0.1315 0.1240 0.1899 0.1627 0.1514 0.1234 0.0905 0.2898 0.2914 0.2031 0.2610 0.2838 0.2093 0.0319 0.0601 0.0958 0.2362 0.3355 0.3158 -0.1118 TSS_Hoffman.extend.500.bed NaN 0.0766 0.1443 0.0445 0.0930 0.0428 0.0604 0.1450 0.1408 0.1506 0.1528 0.1315 0.0600 0.1073 0.2270 0.3178 0.1848 0.1801 0.1741 0.1678 0.2502 0.2198 0.1853 0.1648 0.1236 0.2671 0.3501 0.2698 0.2525 0.3378 0.2762 0.0383 0.0606 0.1924 0.3640 0.3598 0.3475 -0.1525 UTR_3_UCSC.bed NaN 0.6060 0.3100 0.0708 0.0830 0.0106 0.0150 0.0264 0.0387 0.0188 0.0207 0.0278 -0.0059 -0.0114 0.0158 0.0221 0.0171 0.0231 0.0554 0.0545 0.0496 0.0527 0.0326 0.0538 0.0504 0.0242 0.0331 0.0323 0.0325 0.0534 0.0603 -0.0315 0.0049 0.0048 0.0057 0.0620 0.0660 -0.0625 UTR_3_UCSC.extend.500.bed NaN 0.4527 0.4457 0.0739 0.1298 0.0177 0.0248 0.0384 0.0529 0.0296 0.0310 0.0370 -0.0077 -0.0127 0.0265 0.0357 0.0286 0.0300 0.0706 0.0704 0.0691 0.0736 0.0417 0.0719 0.0709 0.0365 0.0523 0.0499 0.0497 0.0768 0.0895 0.0223 0.0585 0.0116 0.0201 0.1321 0.1330 -0.0891 UTR_5_UCSC.bed NaN 0.3191 0.1790 0.0773 0.0557 0.0075 0.0102 0.0515 0.0390 0.0495 0.0507 0.0335 -0.0031 -0.0070 0.0386 0.0467 0.0646 0.0408 0.0439 0.0418 0.0559 0.0530 0.0362 0.0468 0.0394 0.0835 0.0784 0.0586 0.0721 0.0846 0.0704 -0.0090 0.0472 0.0126 0.0386 0.2031 0.1895 -0.0454 UTR_5_UCSC.extend.500.bed NaN 0.1912 0.4529 0.0698 0.1390 0.0132 0.0213 0.0761 0.0744 0.0803 0.0826 0.0655 -0.0071 -0.0103 0.0629 0.0848 0.0992 0.0784 0.0849 0.0823 0.1083 0.1036 0.0707 0.0939 0.0843 0.1346 0.1487 0.1152 0.1299 0.1610 0.1422 0.0817 0.1281 0.0393 0.0981 0.4091 0.3819 -0.0943 WeakEnhancer_Hoffman.bed NaN 0.0054 0.0093 0.0257 0.0532 0.0285 0.0444 0.1615 0.1128 0.1671 0.1803 0.1163 0.0552 0.0586 0.0886 0.1426 0.1483 0.1210 0.1064 0.1028 0.1345 0.1222 0.1924 0.1396 0.0993 0.1205 0.1592 0.1393 0.1224 0.1582 0.1470 0.0277 0.0297 0.0161 0.0623 0.0233 0.0266 -0.1233 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0055 0.0165 0.0295 0.0951 0.0650 0.0971 0.1562 0.2255 0.1635 0.1910 0.2299 0.0527 0.1029 0.1976 0.2936 0.1591 0.2290 0.2084 0.2065 0.2579 0.2459 0.2455 0.2646 0.2095 0.1329 0.2211 0.2577 0.1434 0.2400 0.2758 0.0536 0.0558 0.0559 0.1327 0.0529 0.0573 -0.2083 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 -0.1265 0.0494 0.0499 0.0607 0.0472 0.0723 0.0117 0.0956 0.0766 0.6060 0.4527 0.3191 0.1912 0.0054 0.0055 Coding_UCSC.extend.500.bed -0.2577 0.0817 0.0826 0.0906 0.0818 0.1528 0.0336 0.1615 0.1443 0.3100 0.4457 0.1790 0.4529 0.0093 0.0165 Conserved_LindbladToh.bed -0.0427 0.0290 0.0289 0.0753 0.0546 0.0054 -0.0140 0.0525 0.0445 0.0708 0.0739 0.0773 0.0698 0.0257 0.0295 Conserved_LindbladToh.extend.500.bed -0.1497 0.1145 0.1143 0.1315 0.1643 0.0408 -0.0160 0.0868 0.0930 0.0830 0.1298 0.0557 0.1390 0.0532 0.0951 CTCF_Hoffman.bed -0.0635 0.0343 0.0349 0.2396 0.1757 -0.0332 -0.0311 0.0238 0.0428 0.0106 0.0177 0.0075 0.0132 0.0285 0.0650 CTCF_Hoffman.extend.500.bed -0.0863 0.0551 0.0565 0.1752 0.2716 -0.0157 -0.0388 0.0312 0.0604 0.0150 0.0248 0.0102 0.0213 0.0444 0.0971 DGF_ENCODE.bed -0.1889 0.1578 0.1575 0.3646 0.2386 0.0227 -0.0408 0.1583 0.1450 0.0264 0.0384 0.0515 0.0761 0.1615 0.1562 DGF_ENCODE.extend.500.bed -0.2623 0.2289 0.2301 0.2764 0.4167 0.0590 -0.0344 0.1067 0.1408 0.0387 0.0529 0.0390 0.0744 0.1128 0.2255 DHS_peaks_Trynka.bed -0.1570 0.1204 0.1195 0.3668 0.2413 -0.0088 -0.0581 0.1712 0.1506 0.0188 0.0296 0.0495 0.0803 0.1671 0.1635 DHS_Trynka.bed -0.1811 0.1397 0.1388 0.4177 0.2949 -0.0093 -0.0639 0.1673 0.1528 0.0207 0.0310 0.0507 0.0826 0.1803 0.1910 DHS_Trynka.extend.500.bed -0.2128 0.1858 0.1865 0.2694 0.4179 0.0228 -0.0449 0.1033 0.1315 0.0278 0.0370 0.0335 0.0655 0.1163 0.2299 Enhancer_Andersson.bed -0.0589 0.0687 0.0680 0.0992 0.0605 -0.0024 -0.0159 0.0601 0.0600 -0.0059 -0.0077 -0.0031 -0.0071 0.0552 0.0527 Enhancer_Andersson.extend.500.bed -0.1126 0.1339 0.1331 0.1248 0.1213 0.0012 -0.0249 0.0847 0.1073 -0.0114 -0.0127 -0.0070 -0.0103 0.0586 0.1029 Enhancer_Hoffman.bed -0.3074 0.2043 0.2036 0.3104 0.2559 -0.0003 -0.0693 0.1447 0.2270 0.0158 0.0265 0.0386 0.0629 0.0886 0.1976 Enhancer_Hoffman.extend.500.bed -0.3913 0.2661 0.2669 0.3063 0.3380 0.0097 -0.0739 0.2087 0.3178 0.0221 0.0357 0.0467 0.0848 0.1426 0.2936 FetalDHS_Trynka.bed -0.1528 0.1237 0.1229 0.3270 0.2217 -0.0205 -0.0671 0.2091 0.1848 0.0171 0.0286 0.0646 0.0992 0.1483 0.1591 FetalDHS_Trynka.extend.500.bed -0.2047 0.1912 0.1911 0.2684 0.3506 -0.0024 -0.0652 0.1484 0.1801 0.0231 0.0300 0.0408 0.0784 0.1210 0.2290 H3K27ac_Hnisz.bed -0.3878 0.5505 0.5500 0.2319 0.3200 0.1284 -0.0140 0.1315 0.1741 0.0554 0.0706 0.0439 0.0849 0.1064 0.2084 H3K27ac_Hnisz.extend.500.bed -0.3808 0.5154 0.5208 0.2237 0.3196 0.1268 -0.0141 0.1240 0.1678 0.0545 0.0704 0.0418 0.0823 0.1028 0.2065 H3K27ac_PGC2.bed -0.4116 0.4212 0.4234 0.2803 0.3627 0.0984 -0.0296 0.1899 0.2502 0.0496 0.0691 0.0559 0.1083 0.1345 0.2579 H3K27ac_PGC2.extend.500.bed -0.4131 0.4221 0.4257 0.2542 0.3484 0.1172 -0.0186 0.1627 0.2198 0.0527 0.0736 0.0530 0.1036 0.1222 0.2459 H3K4me1_peaks_Trynka.bed -0.2763 0.2453 0.2450 0.2738 0.2823 0.0695 -0.0337 0.1514 0.1853 0.0326 0.0417 0.0362 0.0707 0.1924 0.2455 H3K4me1_Trynka.bed -0.3652 0.3269 0.3285 0.2716 0.3673 0.1196 -0.0264 0.1234 0.1648 0.0538 0.0719 0.0468 0.0939 0.1396 0.2646 H3K4me1_Trynka.extend.500.bed -0.3259 0.2785 0.2814 0.2041 0.3289 0.1270 -0.0048 0.0905 0.1236 0.0504 0.0709 0.0394 0.0843 0.0993 0.2095 H3K4me3_peaks_Trynka.bed -0.1753 0.1435 0.1424 0.2321 0.1731 0.0042 -0.0538 0.2898 0.2671 0.0242 0.0365 0.0835 0.1346 0.1205 0.1329 H3K4me3_Trynka.bed -0.2812 0.2467 0.2460 0.3004 0.2807 0.0255 -0.0607 0.2914 0.3501 0.0331 0.0523 0.0784 0.1487 0.1592 0.2211 H3K4me3_Trynka.extend.500.bed -0.3033 0.2756 0.2769 0.2649 0.3223 0.0477 -0.0443 0.2031 0.2698 0.0323 0.0499 0.0586 0.1152 0.1393 0.2577 H3K9ac_peaks_Trynka.bed -0.2057 0.1731 0.1724 0.2095 0.1789 0.0270 -0.0422 0.2610 0.2525 0.0325 0.0497 0.0721 0.1299 0.1224 0.1434 H3K9ac_Trynka.bed -0.3434 0.3184 0.3175 0.2938 0.3048 0.0567 -0.0560 0.2838 0.3378 0.0534 0.0768 0.0846 0.1610 0.1582 0.2400 H3K9ac_Trynka.extend.500.bed -0.3934 0.3579 0.3597 0.2712 0.3385 0.1022 -0.0361 0.2093 0.2762 0.0603 0.0895 0.0704 0.1422 0.1470 0.2758 Intron_UCSC.bed -0.3212 0.1796 0.1793 0.0462 0.0738 0.2842 0.1576 0.0319 0.0383 -0.0315 0.0223 -0.0090 0.0817 0.0277 0.0536 Intron_UCSC.extend.500.bed -0.3375 0.1854 0.1851 0.0595 0.0826 0.2887 0.1540 0.0601 0.0606 0.0049 0.0585 0.0472 0.1281 0.0297 0.0558 PromoterFlanking_Hoffman.bed -0.1139 0.0477 0.0489 0.0652 0.0794 0.0051 -0.0142 0.0958 0.1924 0.0048 0.0116 0.0126 0.0393 0.0161 0.0559 PromoterFlanking_Hoffman.extend.500.bed -0.1881 0.0945 0.0972 0.1338 0.1553 -0.0006 -0.0384 0.2362 0.3640 0.0057 0.0201 0.0386 0.0981 0.0623 0.1327 Promoter_UCSC.bed -0.1735 0.1027 0.1044 0.1393 0.1252 0.0060 -0.0588 0.3355 0.3598 0.0620 0.1321 0.2031 0.4091 0.0233 0.0529 Promoter_UCSC.extend.500.bed -0.1830 0.1119 0.1139 0.1359 0.1258 0.0150 -0.0537 0.3158 0.3475 0.0660 0.1330 0.1895 0.3819 0.0266 0.0573 Repressed_Hoffman.bed 0.5499 -0.2284 -0.2292 -0.2274 -0.2573 -0.6399 -0.2063 -0.1118 -0.1525 -0.0625 -0.0891 -0.0454 -0.0943 -0.1233 -0.2083 Repressed_Hoffman.extend.500.bed 1.0000 -0.3402 -0.3408 -0.2655 -0.3009 -0.4332 -0.1203 -0.1990 -0.2560 -0.1025 -0.1461 -0.0735 -0.1536 -0.1381 -0.2368 SuperEnhancer_Hnisz.bed -0.3402 1.0000 0.9895 0.1820 0.2260 0.1260 0.0113 0.1335 0.1704 0.0464 0.0529 0.0351 0.0670 0.0897 0.1710 SuperEnhancer_Hnisz.extend.500.bed -0.3408 0.9895 1.0000 0.1817 0.2267 0.1261 0.0115 0.1329 0.1711 0.0466 0.0532 0.0355 0.0673 0.0892 0.1719 TFBS_ENCODE.bed -0.2655 0.1820 0.1817 1.0000 0.5335 0.0038 -0.0641 0.2650 0.2662 0.0356 0.0516 0.0683 0.1129 0.1818 0.2156 TFBS_ENCODE.extend.500.bed -0.3009 0.2260 0.2267 0.5335 1.0000 0.0280 -0.0544 0.1652 0.2178 0.0360 0.0520 0.0456 0.0873 0.1387 0.2700 Transcribed_Hoffman.bed -0.4332 0.1260 0.1261 0.0038 0.0280 1.0000 0.4198 -0.0378 -0.0309 0.0743 0.0984 0.0109 0.0379 -0.0009 0.0039 Transcribed_Hoffman.extend.500.bed -0.1203 0.0113 0.0115 -0.0641 -0.0544 0.4198 1.0000 -0.0936 -0.0894 0.0250 0.0309 -0.0213 -0.0276 -0.0295 -0.0460 TSS_Hoffman.bed -0.1990 0.1335 0.1329 0.2650 0.1652 -0.0378 -0.0936 1.0000 0.7217 0.0269 0.0547 0.1558 0.2563 0.0345 0.0567 TSS_Hoffman.extend.500.bed -0.2560 0.1704 0.1711 0.2662 0.2178 -0.0309 -0.0894 0.7217 1.0000 0.0251 0.0541 0.1264 0.2284 0.0556 0.1047 UTR_3_UCSC.bed -0.1025 0.0464 0.0466 0.0356 0.0360 0.0743 0.0250 0.0269 0.0251 1.0000 0.6625 0.0897 0.0571 0.0062 0.0128 UTR_3_UCSC.extend.500.bed -0.1461 0.0529 0.0532 0.0516 0.0520 0.0984 0.0309 0.0547 0.0541 0.6625 1.0000 0.0813 0.1259 0.0090 0.0150 UTR_5_UCSC.bed -0.0735 0.0351 0.0355 0.0683 0.0456 0.0109 -0.0213 0.1558 0.1264 0.0897 0.0813 1.0000 0.4490 0.0103 0.0135 UTR_5_UCSC.extend.500.bed -0.1536 0.0670 0.0673 0.1129 0.0873 0.0379 -0.0276 0.2563 0.2284 0.0571 0.1259 0.4490 1.0000 0.0162 0.0304 WeakEnhancer_Hoffman.bed -0.1381 0.0897 0.0892 0.1818 0.1387 -0.0009 -0.0295 0.0345 0.0556 0.0062 0.0090 0.0103 0.0162 1.0000 0.4619 WeakEnhancer_Hoffman.extend.500.bed -0.2368 0.1710 0.1719 0.2156 0.2700 0.0039 -0.0460 0.0567 0.1047 0.0128 0.0150 0.0135 0.0304 0.4619 1.0000 Annotation Matrix Column Sums base 706350.0 Coding_UCSC.bed 9114.0 Coding_UCSC.extend.500.bed 39136.0 Conserved_LindbladToh.bed 22057.0 Conserved_LindbladToh.extend.500.bed 258738.0 CTCF_Hoffman.bed 13958.0 CTCF_Hoffman.extend.500.bed 41697.0 DGF_ENCODE.bed 92694.0 DGF_ENCODE.extend.500.bed 374961.0 DHS_peaks_Trynka.bed 77547.0 DHS_Trynka.bed 117325.0 DHS_Trynka.extend.500.bed 350899.0 Enhancer_Andersson.bed 2543.0 Enhancer_Andersson.extend.500.bed 11618.0 Enhancer_Hoffman.bed 24890.0 Enhancer_Hoffman.extend.500.bed 53187.0 FetalDHS_Trynka.bed 58396.0 FetalDHS_Trynka.extend.500.bed 196929.0 H3K27ac_Hnisz.bed 262880.0 H3K27ac_Hnisz.extend.500.bed 285001.0 H3K27ac_PGC2.bed 181775.0 H3K27ac_PGC2.extend.500.bed 227946.0 H3K4me1_peaks_Trynka.bed 116945.0 H3K4me1_Trynka.bed 292736.0 H3K4me1_Trynka.extend.500.bed 421742.0 H3K4me3_peaks_Trynka.bed 24764.0 H3K4me3_Trynka.bed 80690.0 H3K4me3_Trynka.extend.500.bed 159498.0 H3K9ac_peaks_Trynka.bed 23125.0 H3K9ac_Trynka.bed 77685.0 H3K9ac_Trynka.extend.500.bed 143295.0 Intron_UCSC.bed 292300.0 Intron_UCSC.extend.500.bed 297790.0 PromoterFlanking_Hoffman.bed 5305.0 PromoterFlanking_Hoffman.extend.500.bed 20077.0 Promoter_UCSC.bed 26268.0 Promoter_UCSC.extend.500.bed 32350.0 Repressed_Hoffman.bed 342734.0 Repressed_Hoffman.extend.500.bed 534783.0 SuperEnhancer_Hnisz.bed 107569.0 SuperEnhancer_Hnisz.extend.500.bed 109509.0 TFBS_ENCODE.bed 82764.0 TFBS_ENCODE.extend.500.bed 224637.0 Transcribed_Hoffman.bed 216022.0 Transcribed_Hoffman.extend.500.bed 504530.0 TSS_Hoffman.bed 9243.0 TSS_Hoffman.extend.500.bed 17537.0 UTR_3_UCSC.bed 6837.0 UTR_3_UCSC.extend.500.bed 15388.0 UTR_5_UCSC.bed 3285.0 UTR_5_UCSC.extend.500.bed 16001.0 WeakEnhancer_Hoffman.bed 11207.0 WeakEnhancer_Hoffman.extend.500.bed 49627.0 Summary of Annotation Matrix Row Sums count 706350.0000 mean 10.8670 std 6.6068 min 1.0000 25% 6.0000 50% 9.0000 75% 15.0000 max 42.0000 Analysis finished at Tue Oct 17 18:33:05 2017 Total time elapsed: 1.0h:51.0m:50.0s