********************************************************************* * 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.6.snp \ --ld-wind-cm 1.0 \ --out 1000G_Phase3_baseline_v1.1_rerun/baseline.6 \ --bfile 1000G_EUR_Phase3_plink/1000G.EUR.QC.6 \ --annot 1000G_Phase3_baseline_v1.1/baseline.6.annot.gz \ --l2 Beginning analysis at Tue Oct 17 16:41:15 2017 Read list of 664016 SNPs from 1000G_EUR_Phase3_plink/1000G.EUR.QC.6.bim Read 53 annotations for 664016 SNPs from 1000G_Phase3_baseline_v1.1/baseline.6.annot.gz Read list of 489 individuals from 1000G_EUR_Phase3_plink/1000G.EUR.QC.6.fam Reading genotypes from 1000G_EUR_Phase3_plink/1000G.EUR.QC.6.bed Estimating LD Score. Reading list of 91491 SNPs for which to print LD Scores from hapmap3_snps/hm.6.snp After merging with --print-snps, LD Scores for 80218 SNPs will be printed. Writing LD Scores for 80218 SNPs to 1000G_Phase3_baseline_v1.1_rerun/baseline.6.l2.ldscore.gz Summary of LD Scores in 1000G_Phase3_baseline_v1.1_rerun/baseline.6.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 0.2331 175.6253 3.6475 13.2399 3.6213 46.9112 4.4208 13.2075 25.1340 94.4737 18.4051 27.4630 81.4304 0.8212 3.5219 8.7217 18.5789 13.9651 45.7123 64.8933 70.3059 46.4761 57.4115 28.0511 70.1237 100.3143 8.7171 27.2755 48.5377 6.9032 22.0301 39.2244 57.7346 60.7411 2.1432 8.8778 13.7311 std 0.1441 213.8112 8.5713 26.5967 4.1117 46.6170 7.7352 22.6509 37.9240 125.2397 22.7909 33.0025 95.0711 2.3032 8.3798 18.2122 37.2653 18.4473 55.6682 95.4754 101.4718 69.0753 82.1255 39.4949 93.3466 124.7711 16.6865 49.7380 77.8929 13.1074 39.6609 65.1751 75.2575 79.3972 5.3555 21.8397 36.1783 min 0.0051 -1.0273 -0.3765 -0.6073 -0.2332 -1.3676 -0.6825 -0.3742 -0.5442 -0.8292 -0.3979 -0.6362 -1.2430 -0.1313 -0.1973 -0.3095 -0.4874 -0.3049 -0.9900 -1.6892 -1.6346 -1.1240 -1.2363 -0.6364 -0.9043 -1.3294 -0.3078 -0.6741 -0.7523 -0.2838 -0.5102 -0.8747 -2.8986 -2.9029 -0.2248 -0.4033 -0.3261 25% 0.1074 57.9103 0.0921 0.5659 0.8525 16.6711 0.8848 3.1340 7.5973 33.3167 6.6254 10.2722 31.3340 0.0301 0.3509 0.9788 2.5180 4.7282 17.1547 16.3970 19.0874 12.2893 16.1093 8.4554 23.3542 36.0797 1.5861 5.6279 12.6065 0.9803 3.7829 8.3777 6.8037 7.0618 0.1009 0.6982 0.4957 50% 0.2219 103.6263 0.5554 3.1045 2.2899 33.2474 2.0064 6.3096 13.3914 55.9165 11.3695 17.3314 52.3330 0.1347 1.1436 2.7784 6.5385 8.3502 29.0199 34.9828 38.8358 24.4944 31.2274 15.4604 40.9723 61.4219 3.3866 11.1171 23.2405 2.4546 9.0721 18.1140 31.6984 32.6161 0.4040 2.1605 2.1409 75% 0.3558 193.4239 2.4673 11.8318 4.8755 60.4103 4.2229 12.1434 24.2927 97.1355 19.8321 29.8697 89.6077 0.6545 3.2787 7.2013 15.8051 14.5864 49.1754 69.1356 74.5841 48.1472 60.4309 28.8278 72.9744 107.9707 6.9653 22.5189 44.8418 5.8821 19.8352 37.8397 80.4557 83.6578 1.6102 6.0253 7.3980 max 0.5000 1682.8129 97.4917 237.7523 30.0027 386.7746 69.4336 196.0552 353.4623 1105.0203 207.2582 300.0629 840.1439 51.3650 190.8246 248.9613 446.4622 175.1975 594.8416 1044.1756 1075.5076 839.3443 921.5952 366.9003 878.5604 1109.6931 155.0061 470.6796 711.0195 119.4881 371.7937 613.3879 859.3294 860.6295 63.1697 245.9807 350.0678 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 16.4867 80.5856 124.2359 29.5812 30.3783 27.9768 64.1508 53.5344 117.2310 6.2243 10.6531 3.0074 7.6523 1.6263 6.8887 2.9360 13.0259 std 42.9402 105.5803 153.7756 59.7981 61.4780 50.8078 95.1699 64.6651 128.6384 17.3430 28.4820 7.4772 19.7437 4.5600 16.9163 4.7706 20.1060 min -0.3713 -4.5563 -7.3539 -1.4877 -1.4997 -0.4132 -0.7665 -1.1636 -1.6972 -0.3716 -0.4850 -0.4110 -0.6146 -0.3577 -0.2710 -0.2495 -0.5038 25% 0.6272 18.0935 32.8673 1.0276 1.0612 7.1434 20.3837 13.9204 38.2019 0.1421 0.3784 0.0607 0.1905 0.0244 0.2291 0.4152 2.6275 50% 2.7080 43.3862 71.0103 6.5194 6.7537 12.6663 35.2388 30.1469 74.4111 0.6385 1.5252 0.3675 1.0050 0.1435 1.1359 1.2719 6.0420 75% 9.1729 98.0077 147.5134 30.8048 31.5151 23.0720 61.1747 65.3610 142.1831 2.8332 5.5371 1.8818 4.2863 0.8463 4.4106 3.1448 13.7799 max 417.3689 997.1431 1406.8621 873.7967 884.7269 510.6664 866.6364 523.3498 1170.0041 169.0601 280.2831 96.6625 239.8004 53.4339 153.3013 47.9758 183.9550 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 \ MAF 1.0000e+00 0.1120 0.0006 0.0200 0.0975 0.1354 0.0498 0.0514 0.0511 0.0769 0.0779 0.0851 0.0987 0.0251 0.0342 0.0188 0.0227 0.0691 0.0885 0.0512 0.0547 0.0514 0.0565 0.0523 0.0678 0.0835 0.0205 0.0263 0.0449 0.0098 0.0163 0.0276 0.1116 0.1054 0.0040 baseL2 1.1195e-01 1.0000 0.7463 0.7597 0.7347 0.8545 0.8335 0.8571 0.8711 0.9146 0.8797 0.8902 0.9255 0.5986 0.6319 0.7714 0.7895 0.8583 0.8887 0.8106 0.8251 0.8255 0.8372 0.8247 0.8580 0.8978 0.8510 0.8657 0.8943 0.7731 0.7869 0.8031 0.6464 0.6926 0.7067 Coding_UCSC.bedL2 6.3147e-04 0.7463 1.0000 0.9689 0.5998 0.6605 0.8592 0.8849 0.9112 0.8899 0.8809 0.8756 0.8671 0.6675 0.6907 0.8650 0.8877 0.8881 0.8761 0.9001 0.9016 0.8971 0.8998 0.8985 0.9030 0.8902 0.9053 0.9074 0.8955 0.9222 0.9210 0.9215 0.4945 0.5684 0.7787 Coding_UCSC.extend.500.bedL2 1.9962e-02 0.7597 0.9689 1.0000 0.6121 0.6985 0.8663 0.8870 0.9162 0.9035 0.8915 0.8881 0.8856 0.7066 0.7284 0.8678 0.8886 0.9003 0.8957 0.9185 0.9204 0.9167 0.9187 0.9094 0.9216 0.9109 0.9013 0.9095 0.8995 0.9197 0.9199 0.9215 0.5578 0.6283 0.7601 Conserved_LindbladToh.bedL2 9.7506e-02 0.7347 0.5998 0.6121 1.0000 0.8953 0.5865 0.6104 0.6623 0.6890 0.6888 0.6947 0.7089 0.4382 0.4719 0.5726 0.5934 0.6755 0.6905 0.6250 0.6363 0.6574 0.6661 0.6525 0.6724 0.6989 0.6458 0.6675 0.6824 0.6133 0.6247 0.6336 0.5954 0.6251 0.5464 Conserved_LindbladToh.extend.500.bedL2 1.3545e-01 0.8545 0.6605 0.6985 0.8953 1.0000 0.6773 0.7031 0.7540 0.7949 0.7875 0.7950 0.8221 0.5359 0.5802 0.6525 0.6743 0.7710 0.8027 0.7376 0.7493 0.7605 0.7715 0.7443 0.7779 0.8106 0.7206 0.7435 0.7708 0.6716 0.6867 0.7069 0.7259 0.7553 0.5984 CTCF_Hoffman.bedL2 4.9754e-02 0.8335 0.8592 0.8663 0.5865 0.6773 1.0000 0.9882 0.9372 0.9414 0.9144 0.9192 0.9227 0.6877 0.6969 0.8788 0.8880 0.9075 0.9231 0.9006 0.9077 0.8936 0.8995 0.9211 0.9331 0.9310 0.9010 0.9050 0.9095 0.8948 0.9009 0.9112 0.5358 0.6027 0.7003 CTCF_Hoffman.extend.500.bedL2 5.1411e-02 0.8571 0.8849 0.8870 0.6104 0.7031 0.9882 1.0000 0.9578 0.9600 0.9337 0.9375 0.9416 0.7107 0.7217 0.9029 0.9124 0.9282 0.9426 0.9226 0.9293 0.9167 0.9220 0.9391 0.9506 0.9491 0.9264 0.9299 0.9344 0.9158 0.9215 0.9302 0.5366 0.6056 0.7305 DGF_ENCODE.bedL2 5.1055e-02 0.8711 0.9112 0.9162 0.6623 0.7540 0.9372 0.9578 1.0000 0.9884 0.9849 0.9838 0.9715 0.7208 0.7401 0.9447 0.9601 0.9778 0.9722 0.9669 0.9717 0.9673 0.9726 0.9825 0.9842 0.9794 0.9749 0.9760 0.9783 0.9598 0.9680 0.9747 0.5670 0.6347 0.8190 DGF_ENCODE.extend.500.bedL2 7.6925e-02 0.9146 0.8899 0.9035 0.6890 0.7949 0.9414 0.9600 0.9884 1.0000 0.9833 0.9873 0.9921 0.7253 0.7468 0.9204 0.9357 0.9726 0.9834 0.9568 0.9647 0.9570 0.9644 0.9678 0.9835 0.9911 0.9541 0.9600 0.9700 0.9277 0.9388 0.9499 0.6120 0.6759 0.7929 DHS_peaks_Trynka.bedL2 7.7911e-02 0.8797 0.8809 0.8915 0.6888 0.7875 0.9144 0.9337 0.9849 0.9833 1.0000 0.9965 0.9803 0.6925 0.7142 0.9266 0.9415 0.9866 0.9784 0.9533 0.9596 0.9560 0.9636 0.9752 0.9800 0.9820 0.9555 0.9553 0.9630 0.9347 0.9475 0.9581 0.6127 0.6739 0.8252 DHS_Trynka.bedL2 8.5135e-02 0.8902 0.8756 0.8881 0.6947 0.7950 0.9192 0.9375 0.9838 0.9873 0.9965 1.0000 0.9874 0.6961 0.7177 0.9196 0.9345 0.9841 0.9820 0.9524 0.9594 0.9550 0.9630 0.9737 0.9818 0.9858 0.9498 0.9523 0.9622 0.9286 0.9420 0.9532 0.6216 0.6823 0.8064 DHS_Trynka.extend.500.bedL2 9.8718e-02 0.9255 0.8671 0.8856 0.7089 0.8221 0.9227 0.9416 0.9715 0.9921 0.9803 0.9874 1.0000 0.7144 0.7387 0.8910 0.9070 0.9667 0.9870 0.9429 0.9520 0.9443 0.9531 0.9541 0.9759 0.9893 0.9281 0.9375 0.9528 0.8993 0.9124 0.9258 0.6452 0.7048 0.7623 Enhancer_Andersson.bedL2 2.5147e-02 0.5986 0.6675 0.7066 0.4382 0.5359 0.6877 0.7107 0.7208 0.7253 0.6925 0.6961 0.7144 1.0000 0.9776 0.7597 0.7456 0.7429 0.7649 0.7864 0.7832 0.7917 0.7760 0.6956 0.7357 0.7231 0.6897 0.6976 0.6876 0.6664 0.6607 0.6591 0.3185 0.3812 0.4775 Enhancer_Andersson.extend.500.bedL2 3.4188e-02 0.6319 0.6907 0.7284 0.4719 0.5802 0.6969 0.7217 0.7401 0.7468 0.7142 0.7177 0.7387 0.9776 1.0000 0.7723 0.7622 0.7642 0.7878 0.8090 0.8059 0.8178 0.8027 0.7133 0.7556 0.7456 0.7119 0.7203 0.7113 0.6802 0.6771 0.6764 0.3541 0.4161 0.5074 Enhancer_Hoffman.bedL2 1.8804e-02 0.7714 0.8650 0.8678 0.5726 0.6525 0.8788 0.9029 0.9447 0.9204 0.9266 0.9196 0.8910 0.7597 0.7723 1.0000 0.9937 0.9396 0.9120 0.9306 0.9302 0.9407 0.9372 0.9321 0.9252 0.9089 0.9482 0.9348 0.9217 0.9323 0.9366 0.9353 0.4533 0.5230 0.8437 Enhancer_Hoffman.extend.500.bedL2 2.2687e-02 0.7895 0.8877 0.8886 0.5934 0.6743 0.8880 0.9124 0.9601 0.9357 0.9415 0.9345 0.9070 0.7456 0.7622 0.9937 1.0000 0.9521 0.9247 0.9448 0.9450 0.9541 0.9523 0.9490 0.9410 0.9257 0.9642 0.9536 0.9420 0.9494 0.9549 0.9548 0.4773 0.5472 0.8620 FetalDHS_Trynka.bedL2 6.9088e-02 0.8583 0.8881 0.9003 0.6755 0.7710 0.9075 0.9282 0.9778 0.9726 0.9866 0.9841 0.9667 0.7429 0.7642 0.9396 0.9521 1.0000 0.9829 0.9624 0.9666 0.9672 0.9706 0.9692 0.9759 0.9734 0.9579 0.9566 0.9587 0.9377 0.9479 0.9547 0.5828 0.6471 0.8214 FetalDHS_Trynka.extend.500.bedL2 8.8467e-02 0.8887 0.8761 0.8957 0.6905 0.8027 0.9231 0.9426 0.9722 0.9834 0.9784 0.9820 0.9870 0.7649 0.7878 0.9120 0.9247 0.9829 1.0000 0.9629 0.9692 0.9634 0.9682 0.9619 0.9813 0.9852 0.9334 0.9409 0.9503 0.9111 0.9215 0.9325 0.6157 0.6786 0.7548 H3K27ac_Hnisz.bedL2 5.1179e-02 0.8106 0.9001 0.9185 0.6250 0.7376 0.9006 0.9226 0.9669 0.9568 0.9533 0.9524 0.9429 0.7864 0.8090 0.9306 0.9448 0.9624 0.9629 1.0000 0.9992 0.9858 0.9871 0.9677 0.9762 0.9624 0.9393 0.9448 0.9445 0.9376 0.9451 0.9521 0.5489 0.6167 0.7629 H3K27ac_Hnisz.extend.500.bedL2 5.4650e-02 0.8251 0.9016 0.9204 0.6363 0.7493 0.9077 0.9293 0.9717 0.9647 0.9596 0.9594 0.9520 0.7832 0.8059 0.9302 0.9450 0.9666 0.9692 0.9992 1.0000 0.9866 0.9888 0.9708 0.9808 0.9696 0.9431 0.9494 0.9506 0.9385 0.9466 0.9543 0.5599 0.6274 0.7656 H3K27ac_PGC2.bedL2 5.1411e-02 0.8255 0.8971 0.9167 0.6574 0.7605 0.8936 0.9167 0.9673 0.9570 0.9560 0.9550 0.9443 0.7917 0.8178 0.9407 0.9541 0.9672 0.9634 0.9858 0.9866 1.0000 0.9985 0.9669 0.9756 0.9630 0.9496 0.9559 0.9538 0.9393 0.9476 0.9526 0.5637 0.6302 0.7858 H3K27ac_PGC2.extend.500.bedL2 5.6511e-02 0.8372 0.8998 0.9187 0.6661 0.7715 0.8995 0.9220 0.9726 0.9644 0.9636 0.9630 0.9531 0.7760 0.8027 0.9372 0.9523 0.9706 0.9682 0.9871 0.9888 0.9985 1.0000 0.9722 0.9811 0.9708 0.9516 0.9581 0.9585 0.9409 0.9503 0.9575 0.5796 0.6452 0.7905 H3K4me1_peaks_Trynka.bedL2 5.2338e-02 0.8247 0.8985 0.9094 0.6525 0.7443 0.9211 0.9391 0.9825 0.9678 0.9752 0.9737 0.9541 0.6956 0.7133 0.9321 0.9490 0.9692 0.9619 0.9677 0.9708 0.9669 0.9722 1.0000 0.9891 0.9747 0.9604 0.9627 0.9638 0.9660 0.9734 0.9809 0.5870 0.6518 0.8029 H3K4me1_Trynka.bedL2 6.7757e-02 0.8580 0.9030 0.9216 0.6724 0.7779 0.9331 0.9506 0.9842 0.9835 0.9800 0.9818 0.9759 0.7357 0.7556 0.9252 0.9410 0.9759 0.9813 0.9762 0.9808 0.9756 0.9811 0.9891 1.0000 0.9935 0.9509 0.9581 0.9638 0.9471 0.9568 0.9679 0.6174 0.6819 0.7801 H3K4me1_Trynka.extend.500.bedL2 8.3509e-02 0.8978 0.8902 0.9109 0.6989 0.8106 0.9310 0.9491 0.9794 0.9911 0.9820 0.9858 0.9893 0.7231 0.7456 0.9089 0.9257 0.9734 0.9852 0.9624 0.9696 0.9630 0.9708 0.9747 0.9935 1.0000 0.9429 0.9519 0.9629 0.9259 0.9375 0.9513 0.6478 0.7092 0.7812 H3K4me3_peaks_Trynka.bedL2 2.0522e-02 0.8510 0.9053 0.9013 0.6458 0.7206 0.9010 0.9264 0.9749 0.9541 0.9555 0.9498 0.9281 0.6897 0.7119 0.9482 0.9642 0.9579 0.9334 0.9393 0.9431 0.9496 0.9516 0.9604 0.9509 0.9429 1.0000 0.9913 0.9844 0.9675 0.9725 0.9704 0.5132 0.5823 0.8708 H3K4me3_Trynka.bedL2 2.6304e-02 0.8657 0.9074 0.9095 0.6675 0.7435 0.9050 0.9299 0.9760 0.9600 0.9553 0.9523 0.9375 0.6976 0.7203 0.9348 0.9536 0.9566 0.9409 0.9448 0.9494 0.9559 0.9581 0.9627 0.9581 0.9519 0.9913 1.0000 0.9949 0.9641 0.9712 0.9693 0.5377 0.6063 0.8427 H3K4me3_Trynka.extend.500.bedL2 4.4900e-02 0.8943 0.8955 0.8995 0.6824 0.7708 0.9095 0.9344 0.9783 0.9700 0.9630 0.9622 0.9528 0.6876 0.7113 0.9217 0.9420 0.9587 0.9503 0.9445 0.9506 0.9538 0.9585 0.9638 0.9638 0.9629 0.9844 0.9949 1.0000 0.9536 0.9626 0.9651 0.5690 0.6346 0.8275 H3K9ac_peaks_Trynka.bedL2 9.8001e-03 0.7731 0.9222 0.9197 0.6133 0.6716 0.8948 0.9158 0.9598 0.9277 0.9347 0.9286 0.8993 0.6664 0.6802 0.9323 0.9494 0.9377 0.9111 0.9376 0.9385 0.9393 0.9409 0.9660 0.9471 0.9259 0.9675 0.9641 0.9536 1.0000 0.9927 0.9872 0.4979 0.5687 0.8249 H3K9ac_Trynka.bedL2 1.6305e-02 0.7869 0.9210 0.9199 0.6247 0.6867 0.9009 0.9215 0.9680 0.9388 0.9475 0.9420 0.9124 0.6607 0.6771 0.9366 0.9549 0.9479 0.9215 0.9451 0.9466 0.9476 0.9503 0.9734 0.9568 0.9375 0.9725 0.9712 0.9626 0.9927 1.0000 0.9957 0.5109 0.5809 0.8372 H3K9ac_Trynka.extend.500.bedL2 2.7647e-02 0.8031 0.9215 0.9215 0.6336 0.7069 0.9112 0.9302 0.9747 0.9499 0.9581 0.9532 0.9258 0.6591 0.6764 0.9353 0.9548 0.9547 0.9325 0.9521 0.9543 0.9526 0.9575 0.9809 0.9679 0.9513 0.9704 0.9693 0.9651 0.9872 0.9957 1.0000 0.5395 0.6076 0.8384 Intron_UCSC.bedL2 1.1156e-01 0.6464 0.4945 0.5578 0.5954 0.7259 0.5358 0.5366 0.5670 0.6120 0.6127 0.6216 0.6452 0.3185 0.3541 0.4533 0.4773 0.5828 0.6157 0.5489 0.5599 0.5637 0.5796 0.5870 0.6174 0.6478 0.5132 0.5377 0.5690 0.4979 0.5109 0.5395 1.0000 0.9957 0.4503 Intron_UCSC.extend.500.bedL2 1.0537e-01 0.6926 0.5684 0.6283 0.6251 0.7553 0.6027 0.6056 0.6347 0.6759 0.6739 0.6823 0.7048 0.3812 0.4161 0.5230 0.5472 0.6471 0.6786 0.6167 0.6274 0.6302 0.6452 0.6518 0.6819 0.7092 0.5823 0.6063 0.6346 0.5687 0.5809 0.6076 0.9957 1.0000 0.5022 PromoterFlanking_Hoffman.bedL2 3.9515e-03 0.7067 0.7787 0.7601 0.5464 0.5984 0.7003 0.7305 0.8190 0.7929 0.8252 0.8064 0.7623 0.4775 0.5074 0.8437 0.8620 0.8214 0.7548 0.7629 0.7656 0.7858 0.7905 0.8029 0.7801 0.7812 0.8708 0.8427 0.8275 0.8249 0.8372 0.8384 0.4503 0.5022 1.0000 PromoterFlanking_Hoffman.extend.500.bedL2 3.5328e-03 0.7614 0.8538 0.8351 0.5793 0.6351 0.7887 0.8183 0.8919 0.8661 0.8868 0.8714 0.8347 0.5621 0.5895 0.9019 0.9204 0.8869 0.8320 0.8396 0.8429 0.8570 0.8610 0.8713 0.8541 0.8522 0.9313 0.9102 0.8953 0.8902 0.9016 0.9017 0.4644 0.5258 0.9774 Promoter_UCSC.bedL2 8.4177e-04 0.7797 0.9084 0.8961 0.5820 0.6372 0.8557 0.8824 0.9341 0.9074 0.9163 0.9052 0.8748 0.6213 0.6418 0.9348 0.9495 0.9188 0.8776 0.8877 0.8908 0.8972 0.8998 0.9138 0.9004 0.8933 0.9603 0.9459 0.9298 0.9367 0.9438 0.9403 0.4600 0.5301 0.9200 Promoter_UCSC.extend.500.bedL2 1.7591e-03 0.7802 0.9074 0.8959 0.5834 0.6393 0.8541 0.8807 0.9335 0.9073 0.9165 0.9051 0.8751 0.6231 0.6446 0.9345 0.9494 0.9193 0.8780 0.8880 0.8911 0.8976 0.9002 0.9129 0.8999 0.8932 0.9597 0.9453 0.9292 0.9350 0.9423 0.9391 0.4623 0.5320 0.9222 Repressed_Hoffman.bedL2 1.3387e-01 0.9185 0.5047 0.5192 0.6350 0.7454 0.6474 0.6669 0.6476 0.7229 0.6622 0.6826 0.7504 0.4700 0.4995 0.5231 0.5350 0.6400 0.6989 0.5741 0.5932 0.5889 0.6005 0.5733 0.6286 0.6915 0.6205 0.6443 0.6856 0.5104 0.5250 0.5391 0.5230 0.5536 0.4572 Repressed_Hoffman.extend.500.bedL2 1.3519e-01 0.9453 0.5484 0.5602 0.6669 0.7765 0.6915 0.7107 0.6960 0.7668 0.7140 0.7327 0.7926 0.4746 0.5051 0.5723 0.5855 0.6871 0.7395 0.6180 0.6371 0.6331 0.6463 0.6277 0.6780 0.7389 0.6696 0.6909 0.7315 0.5626 0.5789 0.5948 0.5636 0.5958 0.5177 SuperEnhancer_Hnisz.bedL2 2.3643e-02 0.6980 0.8464 0.8594 0.5358 0.6364 0.8153 0.8387 0.8795 0.8568 0.8556 0.8514 0.8365 0.8286 0.8506 0.9009 0.9022 0.8881 0.8767 0.9324 0.9249 0.9305 0.9216 0.8788 0.8859 0.8595 0.8690 0.8646 0.8499 0.8700 0.8707 0.8703 0.4391 0.5071 0.7124 SuperEnhancer_Hnisz.extend.500.bedL2 2.3364e-02 0.7029 0.8502 0.8633 0.5385 0.6388 0.8210 0.8443 0.8840 0.8615 0.8595 0.8555 0.8410 0.8297 0.8513 0.9039 0.9055 0.8916 0.8808 0.9355 0.9283 0.9337 0.9249 0.8830 0.8902 0.8641 0.8735 0.8695 0.8549 0.8744 0.8750 0.8745 0.4408 0.5092 0.7144 TFBS_ENCODE.bedL2 3.3284e-02 0.8392 0.9285 0.9288 0.6287 0.7114 0.9307 0.9526 0.9846 0.9713 0.9641 0.9618 0.9503 0.7631 0.7815 0.9605 0.9720 0.9706 0.9601 0.9628 0.9658 0.9650 0.9660 0.9643 0.9690 0.9616 0.9729 0.9709 0.9646 0.9561 0.9613 0.9626 0.5151 0.5875 0.8286 TFBS_ENCODE.extend.500.bedL2 5.9363e-02 0.8858 0.9178 0.9213 0.6674 0.7639 0.9392 0.9605 0.9913 0.9900 0.9806 0.9809 0.9770 0.7349 0.7572 0.9441 0.9591 0.9773 0.9761 0.9627 0.9683 0.9648 0.9698 0.9715 0.9808 0.9816 0.9698 0.9713 0.9741 0.9476 0.9563 0.9632 0.5734 0.6411 0.8249 Transcribed_Hoffman.bedL2 9.3673e-02 0.8673 0.7554 0.7740 0.7020 0.8199 0.7607 0.7822 0.8378 0.8546 0.8557 0.8571 0.8621 0.4650 0.4999 0.7416 0.7718 0.8196 0.8259 0.7939 0.8034 0.8077 0.8241 0.8431 0.8470 0.8663 0.8170 0.8266 0.8503 0.7953 0.8072 0.8311 0.7338 0.7693 0.7447 Transcribed_Hoffman.extend.500.bedL2 1.3233e-01 0.9627 0.6438 0.6559 0.7372 0.8566 0.7209 0.7449 0.7733 0.8231 0.8011 0.8125 0.8475 0.4454 0.4846 0.6566 0.6802 0.7653 0.7939 0.7010 0.7168 0.7239 0.7403 0.7368 0.7667 0.8156 0.7537 0.7708 0.8088 0.6751 0.6927 0.7151 0.6980 0.7272 0.6578 TSS_Hoffman.bedL2 -3.3334e-03 0.7695 0.9114 0.9090 0.5785 0.6363 0.8578 0.8865 0.9380 0.9105 0.9103 0.9023 0.8805 0.7312 0.7522 0.9456 0.9591 0.9303 0.8968 0.9182 0.9191 0.9312 0.9271 0.9168 0.9124 0.8999 0.9617 0.9548 0.9339 0.9413 0.9439 0.9341 0.4357 0.5100 0.8700 TSS_Hoffman.extend.500.bedL2 -1.9436e-03 0.7770 0.9111 0.9100 0.5827 0.6447 0.8663 0.8942 0.9427 0.9173 0.9170 0.9088 0.8876 0.7407 0.7615 0.9555 0.9680 0.9364 0.9045 0.9248 0.9258 0.9371 0.9333 0.9221 0.9190 0.9071 0.9646 0.9570 0.9370 0.9420 0.9455 0.9379 0.4430 0.5170 0.8768 UTR_3_UCSC.bedL2 1.7750e-03 0.7304 0.9549 0.9152 0.5619 0.6303 0.8508 0.8720 0.8916 0.8705 0.8686 0.8594 0.8449 0.6236 0.6475 0.8526 0.8700 0.8706 0.8514 0.8649 0.8673 0.8634 0.8680 0.8767 0.8789 0.8676 0.8823 0.8722 0.8616 0.8872 0.8913 0.8995 0.4816 0.5513 0.7969 UTR_3_UCSC.extend.500.bedL2 -2.3486e-05 0.7513 0.9631 0.9345 0.5756 0.6411 0.8715 0.8951 0.9174 0.8944 0.8904 0.8819 0.8690 0.6525 0.6754 0.8808 0.8980 0.8965 0.8776 0.8900 0.8924 0.8917 0.8946 0.9021 0.9024 0.8906 0.9136 0.9057 0.8934 0.9176 0.9192 0.9222 0.4782 0.5516 0.8109 UTR_5_UCSC.bedL2 -1.1529e-02 0.7309 0.8611 0.8490 0.5304 0.5740 0.8808 0.8933 0.8967 0.8712 0.8698 0.8631 0.8369 0.5558 0.5591 0.8780 0.8842 0.8555 0.8341 0.8365 0.8410 0.8337 0.8396 0.8909 0.8738 0.8586 0.9023 0.8886 0.8766 0.9085 0.9107 0.9115 0.4378 0.5077 0.7912 UTR_5_UCSC.extend.500.bedL2 -4.2646e-03 0.7735 0.9047 0.9068 0.5798 0.6408 0.8791 0.9002 0.9340 0.9095 0.9137 0.9046 0.8780 0.6250 0.6386 0.9240 0.9358 0.9098 0.8798 0.8879 0.8914 0.8922 0.8957 0.9226 0.9109 0.9008 0.9489 0.9371 0.9229 0.9404 0.9448 0.9446 0.4880 0.5579 0.8717 WeakEnhancer_Hoffman.bedL2 4.2676e-02 0.7354 0.8333 0.8328 0.6056 0.6765 0.8180 0.8421 0.9023 0.8715 0.8864 0.8838 0.8536 0.6410 0.6596 0.8604 0.8851 0.8889 0.8685 0.8906 0.8912 0.8942 0.8977 0.9148 0.8940 0.8733 0.8935 0.8982 0.8973 0.9029 0.9084 0.9114 0.5133 0.5745 0.7444 WeakEnhancer_Hoffman.extend.500.bedL2 4.9335e-02 0.7896 0.8618 0.8584 0.6303 0.7126 0.8669 0.8904 0.9410 0.9149 0.9246 0.9222 0.8954 0.6386 0.6621 0.9016 0.9249 0.9221 0.9042 0.9218 0.9235 0.9245 0.9294 0.9494 0.9306 0.9133 0.9311 0.9346 0.9362 0.9364 0.9431 0.9483 0.5540 0.6155 0.7926 PromoterFlanking_Hoffman.extend.500.bedL2 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 0.0035 0.0008 0.0018 0.1339 0.1352 0.0236 0.0234 0.0333 0.0594 0.0937 0.1323 -0.0033 -0.0019 0.0018 -2.3486e-05 -0.0115 -0.0043 0.0427 0.0493 baseL2 0.7614 0.7797 0.7802 0.9185 0.9453 0.6980 0.7029 0.8392 0.8858 0.8673 0.9627 0.7695 0.7770 0.7304 7.5132e-01 0.7309 0.7735 0.7354 0.7896 Coding_UCSC.bedL2 0.8538 0.9084 0.9074 0.5047 0.5484 0.8464 0.8502 0.9285 0.9178 0.7554 0.6438 0.9114 0.9111 0.9549 9.6312e-01 0.8611 0.9047 0.8333 0.8618 Coding_UCSC.extend.500.bedL2 0.8351 0.8961 0.8959 0.5192 0.5602 0.8594 0.8633 0.9288 0.9213 0.7740 0.6559 0.9090 0.9100 0.9152 9.3449e-01 0.8490 0.9068 0.8328 0.8584 Conserved_LindbladToh.bedL2 0.5793 0.5820 0.5834 0.6350 0.6669 0.5358 0.5385 0.6287 0.6674 0.7020 0.7372 0.5785 0.5827 0.5619 5.7561e-01 0.5304 0.5798 0.6056 0.6303 Conserved_LindbladToh.extend.500.bedL2 0.6351 0.6372 0.6393 0.7454 0.7765 0.6364 0.6388 0.7114 0.7639 0.8199 0.8566 0.6363 0.6447 0.6303 6.4112e-01 0.5740 0.6408 0.6765 0.7126 CTCF_Hoffman.bedL2 0.7887 0.8557 0.8541 0.6474 0.6915 0.8153 0.8210 0.9307 0.9392 0.7607 0.7209 0.8578 0.8663 0.8508 8.7152e-01 0.8808 0.8791 0.8180 0.8669 CTCF_Hoffman.extend.500.bedL2 0.8183 0.8824 0.8807 0.6669 0.7107 0.8387 0.8443 0.9526 0.9605 0.7822 0.7449 0.8865 0.8942 0.8720 8.9515e-01 0.8933 0.9002 0.8421 0.8904 DGF_ENCODE.bedL2 0.8919 0.9341 0.9335 0.6476 0.6960 0.8795 0.8840 0.9846 0.9913 0.8378 0.7733 0.9380 0.9427 0.8916 9.1736e-01 0.8967 0.9340 0.9023 0.9410 DGF_ENCODE.extend.500.bedL2 0.8661 0.9074 0.9073 0.7229 0.7668 0.8568 0.8615 0.9713 0.9900 0.8546 0.8231 0.9105 0.9173 0.8705 8.9440e-01 0.8712 0.9095 0.8715 0.9149 DHS_peaks_Trynka.bedL2 0.8868 0.9163 0.9165 0.6622 0.7140 0.8556 0.8595 0.9641 0.9806 0.8557 0.8011 0.9103 0.9170 0.8686 8.9041e-01 0.8698 0.9137 0.8864 0.9246 DHS_Trynka.bedL2 0.8714 0.9052 0.9051 0.6826 0.7327 0.8514 0.8555 0.9618 0.9809 0.8571 0.8125 0.9023 0.9088 0.8594 8.8192e-01 0.8631 0.9046 0.8838 0.9222 DHS_Trynka.extend.500.bedL2 0.8347 0.8748 0.8751 0.7504 0.7926 0.8365 0.8410 0.9503 0.9770 0.8621 0.8475 0.8805 0.8876 0.8449 8.6903e-01 0.8369 0.8780 0.8536 0.8954 Enhancer_Andersson.bedL2 0.5621 0.6213 0.6231 0.4700 0.4746 0.8286 0.8297 0.7631 0.7349 0.4650 0.4454 0.7312 0.7407 0.6236 6.5253e-01 0.5558 0.6250 0.6410 0.6386 Enhancer_Andersson.extend.500.bedL2 0.5895 0.6418 0.6446 0.4995 0.5051 0.8506 0.8513 0.7815 0.7572 0.4999 0.4846 0.7522 0.7615 0.6475 6.7540e-01 0.5591 0.6386 0.6596 0.6621 Enhancer_Hoffman.bedL2 0.9019 0.9348 0.9345 0.5231 0.5723 0.9009 0.9039 0.9605 0.9441 0.7416 0.6566 0.9456 0.9555 0.8526 8.8083e-01 0.8780 0.9240 0.8604 0.9016 Enhancer_Hoffman.extend.500.bedL2 0.9204 0.9495 0.9494 0.5350 0.5855 0.9022 0.9055 0.9720 0.9591 0.7718 0.6802 0.9591 0.9680 0.8700 8.9803e-01 0.8842 0.9358 0.8851 0.9249 FetalDHS_Trynka.bedL2 0.8869 0.9188 0.9193 0.6400 0.6871 0.8881 0.8916 0.9706 0.9773 0.8196 0.7653 0.9303 0.9364 0.8706 8.9655e-01 0.8555 0.9098 0.8889 0.9221 FetalDHS_Trynka.extend.500.bedL2 0.8320 0.8776 0.8780 0.6989 0.7395 0.8767 0.8808 0.9601 0.9761 0.8259 0.7939 0.8968 0.9045 0.8514 8.7761e-01 0.8341 0.8798 0.8685 0.9042 H3K27ac_Hnisz.bedL2 0.8396 0.8877 0.8880 0.5741 0.6180 0.9324 0.9355 0.9628 0.9627 0.7939 0.7010 0.9182 0.9248 0.8649 8.9002e-01 0.8365 0.8879 0.8906 0.9218 H3K27ac_Hnisz.extend.500.bedL2 0.8429 0.8908 0.8911 0.5932 0.6371 0.9249 0.9283 0.9658 0.9683 0.8034 0.7168 0.9191 0.9258 0.8673 8.9244e-01 0.8410 0.8914 0.8912 0.9235 H3K27ac_PGC2.bedL2 0.8570 0.8972 0.8976 0.5889 0.6331 0.9305 0.9337 0.9650 0.9648 0.8077 0.7239 0.9312 0.9371 0.8634 8.9172e-01 0.8337 0.8922 0.8942 0.9245 H3K27ac_PGC2.extend.500.bedL2 0.8610 0.8998 0.9002 0.6005 0.6463 0.9216 0.9249 0.9660 0.9698 0.8241 0.7403 0.9271 0.9333 0.8680 8.9462e-01 0.8396 0.8957 0.8977 0.9294 H3K4me1_peaks_Trynka.bedL2 0.8713 0.9138 0.9129 0.5733 0.6277 0.8788 0.8830 0.9643 0.9715 0.8431 0.7368 0.9168 0.9221 0.8767 9.0209e-01 0.8909 0.9226 0.9148 0.9494 H3K4me1_Trynka.bedL2 0.8541 0.9004 0.8999 0.6286 0.6780 0.8859 0.8902 0.9690 0.9808 0.8470 0.7667 0.9124 0.9190 0.8789 9.0243e-01 0.8738 0.9109 0.8940 0.9306 H3K4me1_Trynka.extend.500.bedL2 0.8522 0.8933 0.8932 0.6915 0.7389 0.8595 0.8641 0.9616 0.9816 0.8663 0.8156 0.8999 0.9071 0.8676 8.9060e-01 0.8586 0.9008 0.8733 0.9133 H3K4me3_peaks_Trynka.bedL2 0.9313 0.9603 0.9597 0.6205 0.6696 0.8690 0.8735 0.9729 0.9698 0.8170 0.7537 0.9617 0.9646 0.8823 9.1355e-01 0.9023 0.9489 0.8935 0.9311 H3K4me3_Trynka.bedL2 0.9102 0.9459 0.9453 0.6443 0.6909 0.8646 0.8695 0.9709 0.9713 0.8266 0.7708 0.9548 0.9570 0.8722 9.0568e-01 0.8886 0.9371 0.8982 0.9346 H3K4me3_Trynka.extend.500.bedL2 0.8953 0.9298 0.9292 0.6856 0.7315 0.8499 0.8549 0.9646 0.9741 0.8503 0.8088 0.9339 0.9370 0.8616 8.9337e-01 0.8766 0.9229 0.8973 0.9362 H3K9ac_peaks_Trynka.bedL2 0.8902 0.9367 0.9350 0.5104 0.5626 0.8700 0.8744 0.9561 0.9476 0.7953 0.6751 0.9413 0.9420 0.8872 9.1757e-01 0.9085 0.9404 0.9029 0.9364 H3K9ac_Trynka.bedL2 0.9016 0.9438 0.9423 0.5250 0.5789 0.8707 0.8750 0.9613 0.9563 0.8072 0.6927 0.9439 0.9455 0.8913 9.1921e-01 0.9107 0.9448 0.9084 0.9431 H3K9ac_Trynka.extend.500.bedL2 0.9017 0.9403 0.9391 0.5391 0.5948 0.8703 0.8745 0.9626 0.9632 0.8311 0.7151 0.9341 0.9379 0.8995 9.2222e-01 0.9115 0.9446 0.9114 0.9483 Intron_UCSC.bedL2 0.4644 0.4600 0.4623 0.5230 0.5636 0.4391 0.4408 0.5151 0.5734 0.7338 0.6980 0.4357 0.4430 0.4816 4.7820e-01 0.4378 0.4880 0.5133 0.5540 Intron_UCSC.extend.500.bedL2 0.5258 0.5301 0.5320 0.5536 0.5958 0.5071 0.5092 0.5875 0.6411 0.7693 0.7272 0.5100 0.5170 0.5513 5.5160e-01 0.5077 0.5579 0.5745 0.6155 PromoterFlanking_Hoffman.bedL2 0.9774 0.9200 0.9222 0.4572 0.5177 0.7124 0.7144 0.8286 0.8249 0.7447 0.6578 0.8700 0.8768 0.7969 8.1089e-01 0.7912 0.8717 0.7444 0.7926 PromoterFlanking_Hoffman.extend.500.bedL2 1.0000 0.9675 0.9688 0.5117 0.5695 0.7808 0.7839 0.9045 0.8977 0.7687 0.6862 0.9333 0.9388 0.8635 8.8389e-01 0.8559 0.9271 0.8106 0.8563 Promoter_UCSC.bedL2 0.9675 1.0000 0.9997 0.5338 0.5877 0.8230 0.8274 0.9481 0.9355 0.7612 0.6791 0.9646 0.9679 0.8985 9.2631e-01 0.9162 0.9714 0.8433 0.8820 Promoter_UCSC.extend.500.bedL2 0.9688 0.9997 1.0000 0.5346 0.5883 0.8241 0.8285 0.9477 0.9353 0.7616 0.6797 0.9645 0.9681 0.8982 9.2561e-01 0.9125 0.9699 0.8426 0.8812 Repressed_Hoffman.bedL2 0.5117 0.5338 0.5346 1.0000 0.9929 0.4664 0.4713 0.6137 0.6737 0.6465 0.8874 0.5314 0.5375 0.4849 5.0566e-01 0.4958 0.5249 0.4892 0.5357 Repressed_Hoffman.extend.500.bedL2 0.5695 0.5877 0.5883 0.9929 1.0000 0.5015 0.5065 0.6590 0.7199 0.7017 0.9218 0.5754 0.5822 0.5341 5.5418e-01 0.5520 0.5807 0.5399 0.5909 SuperEnhancer_Hnisz.bedL2 0.7808 0.8230 0.8241 0.4664 0.5015 1.0000 0.9998 0.9051 0.8823 0.6730 0.5776 0.8810 0.8875 0.8215 8.4417e-01 0.7590 0.8173 0.8116 0.8388 SuperEnhancer_Hnisz.extend.500.bedL2 0.7839 0.8274 0.8285 0.4713 0.5065 0.9998 1.0000 0.9092 0.8865 0.6764 0.5815 0.8852 0.8916 0.8244 8.4789e-01 0.7649 0.8223 0.8147 0.8423 TFBS_ENCODE.bedL2 0.9045 0.9481 0.9477 0.6137 0.6590 0.9051 0.9092 1.0000 0.9914 0.7893 0.7243 0.9676 0.9712 0.9062 9.3506e-01 0.8927 0.9392 0.8831 0.9203 TFBS_ENCODE.extend.500.bedL2 0.8977 0.9355 0.9353 0.6737 0.7199 0.8823 0.8865 0.9914 1.0000 0.8363 0.7883 0.9429 0.9484 0.8993 9.2412e-01 0.8861 0.9299 0.8853 0.9272 Transcribed_Hoffman.bedL2 0.7687 0.7612 0.7616 0.6465 0.7017 0.6730 0.6764 0.7893 0.8363 1.0000 0.9018 0.7293 0.7360 0.7485 7.5404e-01 0.7220 0.7679 0.7579 0.8147 Transcribed_Hoffman.extend.500.bedL2 0.6862 0.6791 0.6797 0.8874 0.9218 0.5776 0.5815 0.7243 0.7883 0.9018 1.0000 0.6507 0.6575 0.6378 6.4959e-01 0.6301 0.6742 0.6537 0.7136 TSS_Hoffman.bedL2 0.9333 0.9646 0.9645 0.5314 0.5754 0.8810 0.8852 0.9676 0.9429 0.7293 0.6507 1.0000 0.9967 0.8828 9.2052e-01 0.8729 0.9385 0.8510 0.8832 TSS_Hoffman.extend.500.bedL2 0.9388 0.9679 0.9681 0.5375 0.5822 0.8875 0.8916 0.9712 0.9484 0.7360 0.6575 0.9967 1.0000 0.8852 9.2041e-01 0.8784 0.9443 0.8547 0.8870 UTR_3_UCSC.bedL2 0.8635 0.8985 0.8982 0.4849 0.5341 0.8215 0.8244 0.9062 0.8993 0.7485 0.6378 0.8828 0.8852 1.0000 9.8058e-01 0.8642 0.8951 0.7948 0.8333 UTR_3_UCSC.extend.500.bedL2 0.8839 0.9263 0.9256 0.5057 0.5542 0.8442 0.8479 0.9351 0.9241 0.7540 0.6496 0.9205 0.9204 0.9806 1.0000e+00 0.8821 0.9179 0.8222 0.8604 UTR_5_UCSC.bedL2 0.8559 0.9162 0.9125 0.4958 0.5520 0.7590 0.7649 0.8927 0.8861 0.7220 0.6301 0.8729 0.8784 0.8642 8.8206e-01 1.0000 0.9635 0.7980 0.8375 UTR_5_UCSC.extend.500.bedL2 0.9271 0.9714 0.9699 0.5249 0.5807 0.8173 0.8223 0.9392 0.9299 0.7679 0.6742 0.9385 0.9443 0.8951 9.1786e-01 0.9635 1.0000 0.8390 0.8752 WeakEnhancer_Hoffman.bedL2 0.8106 0.8433 0.8426 0.4892 0.5399 0.8116 0.8147 0.8831 0.8853 0.7579 0.6537 0.8510 0.8547 0.7948 8.2217e-01 0.7980 0.8390 1.0000 0.9669 WeakEnhancer_Hoffman.extend.500.bedL2 0.8563 0.8820 0.8812 0.5357 0.5909 0.8388 0.8423 0.9203 0.9272 0.8147 0.7136 0.8832 0.8870 0.8333 8.6035e-01 0.8375 0.8752 0.9669 1.0000 LD Score Matrix Condition Number 1407.1901 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 0.4936 0.2261 0.1366 0.0130 0.0197 0.0638 0.0544 0.0510 0.0519 0.0430 -0.0087 -0.0162 0.0325 0.0423 0.0571 0.0458 0.0670 0.0661 0.0744 0.0724 0.0522 0.0750 0.0653 0.0844 0.0895 0.0700 0.0860 0.1011 0.0928 -0.0660 0.0619 0.0105 0.0260 0.1429 0.1382 -0.0791 Coding_UCSC.extend.500.bed NaN 0.4936 1.0000 0.1289 0.2985 0.0144 0.0268 0.0768 0.0875 0.0683 0.0703 0.0735 -0.0128 -0.0228 0.0524 0.0674 0.0802 0.0739 0.1135 0.1121 0.1246 0.1227 0.0783 0.1309 0.1258 0.1187 0.1476 0.1214 0.1257 0.1712 0.1693 0.1687 0.2443 0.0200 0.0584 0.2707 0.2594 -0.1524 Conserved_LindbladToh.bed NaN 0.2261 0.1289 1.0000 0.2404 0.0076 0.0074 0.0880 0.0622 0.1314 0.1352 0.0866 0.0226 0.0165 0.0405 0.0395 0.1456 0.1033 0.0447 0.0440 0.0609 0.0551 0.0736 0.0904 0.0726 0.0633 0.0816 0.0643 0.0578 0.0847 0.0720 -0.0131 0.0305 0.0108 0.0201 0.0505 0.0479 -0.0344 Conserved_LindbladToh.extend.500.bed NaN 0.1366 0.2985 0.2404 1.0000 0.0374 0.0386 0.1158 0.1810 0.1674 0.2005 0.2497 0.0340 0.0537 0.1108 0.1244 0.1921 0.2630 0.1718 0.1736 0.1937 0.1897 0.1766 0.2493 0.2408 0.1139 0.1609 0.1550 0.1251 0.1959 0.2023 0.1314 0.1552 0.0280 0.0580 0.1042 0.1007 -0.1085 CTCF_Hoffman.bed NaN 0.0130 0.0144 0.0076 0.0374 1.0000 0.5636 0.1067 0.1072 0.1130 0.1222 0.0998 0.0091 0.0143 0.0327 0.0520 0.1131 0.1112 0.0397 0.0423 0.0403 0.0414 0.0711 0.0721 0.0642 0.0388 0.0524 0.0601 0.0545 0.0770 0.0877 -0.0036 -0.0012 -0.0050 0.0172 0.0076 0.0104 -0.1402 CTCF_Hoffman.extend.500.bed NaN 0.0197 0.0268 0.0074 0.0386 0.5636 1.0000 0.0780 0.1512 0.0837 0.0929 0.1429 0.0183 0.0315 0.0511 0.0814 0.0888 0.1456 0.0724 0.0774 0.0736 0.0753 0.0817 0.0958 0.1042 0.0482 0.0695 0.0919 0.0690 0.1068 0.1334 -0.0027 0.0008 0.0089 0.0391 0.0232 0.0250 -0.1195 DGF_ENCODE.bed NaN 0.0638 0.0768 0.0880 0.1158 0.1067 0.0780 1.0000 0.3694 0.5237 0.5057 0.2717 0.0968 0.0897 0.2107 0.2036 0.3629 0.2362 0.2177 0.2100 0.2434 0.2267 0.2981 0.2968 0.2252 0.2011 0.2588 0.2236 0.1708 0.2525 0.2379 0.0374 0.0532 0.0602 0.1038 0.1192 0.1188 -0.1946 DGF_ENCODE.extend.500.bed NaN 0.0544 0.0875 0.0622 0.1810 0.1072 0.1512 0.3694 1.0000 0.2700 0.3349 0.5709 0.0542 0.1071 0.1922 0.2580 0.2290 0.3893 0.3580 0.3621 0.3599 0.3623 0.3131 0.4698 0.4648 0.1585 0.2702 0.3258 0.1572 0.2814 0.3402 0.0834 0.0947 0.0718 0.1373 0.1230 0.1289 -0.2669 DHS_peaks_Trynka.bed NaN 0.0510 0.0683 0.1314 0.1674 0.1130 0.0837 0.5237 0.2700 1.0000 0.7755 0.3605 0.1067 0.0995 0.2273 0.2096 0.6550 0.3762 0.2020 0.1938 0.2397 0.2158 0.3144 0.3049 0.2273 0.2337 0.2773 0.2300 0.2066 0.2791 0.2487 0.0353 0.0500 0.0488 0.1000 0.1088 0.1012 -0.1661 DHS_Trynka.bed NaN 0.0519 0.0703 0.1352 0.2005 0.1222 0.0929 0.5057 0.3349 0.7755 1.0000 0.4556 0.1042 0.1162 0.2595 0.2434 0.6804 0.4391 0.2393 0.2299 0.2833 0.2559 0.3613 0.3695 0.2782 0.2477 0.3083 0.2653 0.2243 0.3126 0.2839 0.0428 0.0577 0.0516 0.1032 0.1100 0.1028 -0.1947 DHS_Trynka.extend.500.bed NaN 0.0430 0.0735 0.0866 0.2497 0.0998 0.1429 0.2717 0.5709 0.3605 0.4556 1.0000 0.0547 0.1116 0.2016 0.2647 0.3100 0.6362 0.3259 0.3324 0.3503 0.3426 0.3228 0.4897 0.4841 0.1518 0.2457 0.3045 0.1562 0.2770 0.3335 0.0830 0.0927 0.0539 0.1156 0.0997 0.0957 -0.2240 Enhancer_Andersson.bed NaN -0.0087 -0.0128 0.0226 0.0340 0.0091 0.0183 0.0968 0.0542 0.1067 0.1042 0.0547 1.0000 0.4654 0.1119 0.0994 0.1269 0.0785 0.0697 0.0661 0.0855 0.0747 0.0753 0.0660 0.0487 0.0854 0.0987 0.0779 0.0585 0.0893 0.0766 0.0030 0.0015 0.0134 0.0329 0.0138 0.0171 -0.0493 Enhancer_Andersson.extend.500.bed NaN -0.0162 -0.0228 0.0165 0.0537 0.0143 0.0315 0.0897 0.1071 0.0995 0.1162 0.1116 0.4654 1.0000 0.1865 0.1903 0.1233 0.1496 0.1381 0.1320 0.1666 0.1485 0.1280 0.1309 0.0990 0.1159 0.1652 0.1460 0.1014 0.1533 0.1439 0.0061 0.0034 0.0232 0.0539 0.0202 0.0255 -0.0869 Enhancer_Hoffman.bed NaN 0.0325 0.0524 0.0405 0.1108 0.0327 0.0511 0.2107 0.1922 0.2273 0.2595 0.2016 0.1119 0.1865 1.0000 0.6695 0.2351 0.2435 0.2385 0.2259 0.3224 0.2814 0.2732 0.2374 0.1714 0.2446 0.3132 0.2700 0.2338 0.3255 0.2851 0.0351 0.0461 0.0536 0.1482 0.1411 0.1406 -0.2021 Enhancer_Hoffman.extend.500.bed NaN 0.0423 0.0674 0.0395 0.1244 0.0520 0.0814 0.2036 0.2580 0.2096 0.2434 0.2647 0.0994 0.1903 0.6695 1.0000 0.2244 0.2973 0.3257 0.3198 0.4382 0.4002 0.2859 0.3147 0.2506 0.2318 0.3498 0.3608 0.2266 0.3701 0.3848 0.0486 0.0622 0.1064 0.2421 0.2018 0.1997 -0.2809 FetalDHS_Trynka.bed NaN 0.0571 0.0802 0.1456 0.1921 0.1131 0.0888 0.3629 0.2290 0.6550 0.6804 0.3100 0.1269 0.1233 0.2351 0.2244 1.0000 0.4873 0.2063 0.1967 0.2457 0.2189 0.3065 0.2914 0.2144 0.2739 0.3094 0.2515 0.2413 0.3100 0.2686 0.0325 0.0507 0.0424 0.1106 0.1326 0.1216 -0.1489 FetalDHS_Trynka.extend.500.bed NaN 0.0458 0.0739 0.1033 0.2630 0.1112 0.1456 0.2362 0.3893 0.3762 0.4391 0.6362 0.0785 0.1496 0.2435 0.2973 0.4873 1.0000 0.3218 0.3217 0.3579 0.3380 0.3418 0.4496 0.3950 0.2041 0.3027 0.3403 0.2043 0.3355 0.3689 0.0676 0.0793 0.0588 0.1342 0.1316 0.1230 -0.1990 H3K27ac_Hnisz.bed NaN 0.0670 0.1135 0.0447 0.1718 0.0397 0.0724 0.2177 0.3580 0.2020 0.2393 0.3259 0.0697 0.1381 0.2385 0.3257 0.2063 0.3218 1.0000 0.9380 0.5579 0.5925 0.3246 0.4860 0.4591 0.1769 0.3028 0.3681 0.1910 0.3491 0.4334 0.1550 0.1667 0.0749 0.1407 0.1431 0.1552 -0.3011 H3K27ac_Hnisz.extend.500.bed NaN 0.0661 0.1121 0.0440 0.1736 0.0423 0.0774 0.2100 0.3621 0.1938 0.2299 0.3324 0.0661 0.1320 0.2259 0.3198 0.1967 0.3217 0.9380 1.0000 0.5657 0.6107 0.3148 0.4872 0.4828 0.1672 0.2910 0.3671 0.1817 0.3362 0.4331 0.1539 0.1652 0.0733 0.1433 0.1401 0.1524 -0.3002 H3K27ac_PGC2.bed NaN 0.0744 0.1246 0.0609 0.1937 0.0403 0.0736 0.2434 0.3599 0.2397 0.2833 0.3503 0.0855 0.1666 0.3224 0.4382 0.2457 0.3579 0.5579 0.5657 1.0000 0.8535 0.3662 0.5106 0.4378 0.2363 0.4028 0.4650 0.2462 0.4477 0.5222 0.1429 0.1583 0.1034 0.1961 0.1993 0.2057 -0.3048 H3K27ac_PGC2.extend.500.bed NaN 0.0724 0.1227 0.0551 0.1897 0.0414 0.0753 0.2267 0.3623 0.2158 0.2559 0.3426 0.0747 0.1485 0.2814 0.4002 0.2189 0.3380 0.5925 0.6107 0.8535 1.0000 0.3449 0.5156 0.4722 0.2074 0.3632 0.4399 0.2195 0.4078 0.5042 0.1581 0.1722 0.0983 0.1869 0.1928 0.2026 -0.3112 H3K4me1_peaks_Trynka.bed NaN 0.0522 0.0783 0.0736 0.1766 0.0711 0.0817 0.2981 0.3131 0.3144 0.3613 0.3228 0.0753 0.1280 0.2732 0.2859 0.3065 0.3418 0.3246 0.3148 0.3662 0.3449 1.0000 0.5255 0.3679 0.2852 0.3819 0.3402 0.2905 0.4018 0.3734 0.1114 0.1227 0.1175 0.1740 0.1392 0.1412 -0.2462 H3K4me1_Trynka.bed NaN 0.0750 0.1309 0.0904 0.2493 0.0721 0.0958 0.2968 0.4698 0.3049 0.3695 0.4897 0.0660 0.1309 0.2374 0.3147 0.2914 0.4496 0.4860 0.4872 0.5106 0.5156 0.5255 1.0000 0.6936 0.2062 0.3549 0.4296 0.2131 0.3916 0.4789 0.1747 0.1895 0.0951 0.1691 0.1514 0.1589 -0.3219 H3K4me1_Trynka.extend.500.bed NaN 0.0653 0.1258 0.0726 0.2408 0.0642 0.1042 0.2252 0.4648 0.2273 0.2782 0.4841 0.0487 0.0990 0.1714 0.2506 0.2144 0.3950 0.4591 0.4828 0.4378 0.4722 0.3679 0.6936 1.0000 0.1432 0.2549 0.3465 0.1523 0.2854 0.3986 0.1923 0.2040 0.0696 0.1379 0.1308 0.1381 -0.2938 H3K4me3_peaks_Trynka.bed NaN 0.0844 0.1187 0.0633 0.1139 0.0388 0.0482 0.2011 0.1585 0.2337 0.2477 0.1518 0.0854 0.1159 0.2446 0.2318 0.2739 0.2041 0.1769 0.1672 0.2363 0.2074 0.2852 0.2062 0.1432 1.0000 0.5298 0.3611 0.4026 0.3832 0.2905 0.0447 0.0660 0.0995 0.1718 0.1979 0.1927 -0.1457 H3K4me3_Trynka.bed NaN 0.0895 0.1476 0.0816 0.1609 0.0524 0.0695 0.2588 0.2702 0.2773 0.3083 0.2457 0.0987 0.1652 0.3132 0.3498 0.3094 0.3027 0.3028 0.2910 0.4028 0.3632 0.3819 0.3549 0.2549 0.5298 1.0000 0.6746 0.3506 0.5621 0.4904 0.0835 0.1081 0.1813 0.2894 0.2842 0.2877 -0.2373 H3K4me3_Trynka.extend.500.bed NaN 0.0700 0.1214 0.0643 0.1550 0.0601 0.0919 0.2236 0.3258 0.2300 0.2653 0.3045 0.0779 0.1460 0.2700 0.3608 0.2515 0.3403 0.3681 0.3671 0.4650 0.4399 0.3402 0.4296 0.3465 0.3611 0.6746 1.0000 0.2644 0.4848 0.5590 0.0916 0.1101 0.1353 0.2592 0.2350 0.2424 -0.2558 H3K9ac_peaks_Trynka.bed NaN 0.0860 0.1257 0.0578 0.1251 0.0545 0.0690 0.1708 0.1572 0.2066 0.2243 0.1562 0.0585 0.1014 0.2338 0.2266 0.2413 0.2043 0.1910 0.1817 0.2462 0.2195 0.2905 0.2131 0.1523 0.4026 0.3506 0.2644 1.0000 0.5273 0.3687 0.0615 0.0814 0.0815 0.1484 0.1790 0.1763 -0.1450 H3K9ac_Trynka.bed NaN 0.1011 0.1712 0.0847 0.1959 0.0770 0.1068 0.2525 0.2814 0.2791 0.3126 0.2770 0.0893 0.1533 0.3255 0.3701 0.3100 0.3355 0.3491 0.3362 0.4477 0.4078 0.4018 0.3916 0.2854 0.3832 0.5621 0.4848 0.5273 1.0000 0.6944 0.1039 0.1288 0.1552 0.2574 0.2727 0.2738 -0.2464 H3K9ac_Trynka.extend.500.bed NaN 0.0928 0.1693 0.0720 0.2023 0.0877 0.1334 0.2379 0.3402 0.2487 0.2839 0.3335 0.0766 0.1439 0.2851 0.3848 0.2686 0.3689 0.4334 0.4331 0.5222 0.5042 0.3734 0.4789 0.3986 0.2905 0.4904 0.5590 0.3687 0.6944 1.0000 0.1355 0.1561 0.1331 0.2567 0.2445 0.2514 -0.2898 Intron_UCSC.bed NaN -0.0660 0.1687 -0.0131 0.1314 -0.0036 -0.0027 0.0374 0.0834 0.0353 0.0428 0.0830 0.0030 0.0061 0.0351 0.0486 0.0325 0.0676 0.1550 0.1539 0.1429 0.1581 0.1114 0.1747 0.1923 0.0447 0.0835 0.0916 0.0615 0.1039 0.1355 1.0000 0.9771 0.0316 0.0313 0.0646 0.0736 -0.2311 Intron_UCSC.extend.500.bed NaN 0.0619 0.2443 0.0305 0.1552 -0.0012 0.0008 0.0532 0.0947 0.0500 0.0577 0.0927 0.0015 0.0034 0.0461 0.0622 0.0507 0.0793 0.1667 0.1652 0.1583 0.1722 0.1227 0.1895 0.2040 0.0660 0.1081 0.1101 0.0814 0.1288 0.1561 0.9771 1.0000 0.0349 0.0423 0.1063 0.1127 -0.2442 PromoterFlanking_Hoffman.bed NaN 0.0105 0.0200 0.0108 0.0280 -0.0050 0.0089 0.0602 0.0718 0.0488 0.0516 0.0539 0.0134 0.0232 0.0536 0.1064 0.0424 0.0588 0.0749 0.0733 0.1034 0.0983 0.1175 0.0951 0.0696 0.0995 0.1813 0.1353 0.0815 0.1552 0.1331 0.0316 0.0349 1.0000 0.4914 0.1390 0.1419 -0.0875 PromoterFlanking_Hoffman.extend.500.bed NaN 0.0260 0.0584 0.0201 0.0580 0.0172 0.0391 0.1038 0.1373 0.1000 0.1032 0.1156 0.0329 0.0539 0.1482 0.2421 0.1106 0.1342 0.1407 0.1433 0.1961 0.1869 0.1740 0.1691 0.1379 0.1718 0.2894 0.2592 0.1484 0.2574 0.2567 0.0313 0.0423 0.4914 1.0000 0.2621 0.2635 -0.1501 Promoter_UCSC.bed NaN 0.1429 0.2707 0.0505 0.1042 0.0076 0.0232 0.1192 0.1230 0.1088 0.1100 0.0997 0.0138 0.0202 0.1411 0.2018 0.1326 0.1316 0.1431 0.1401 0.1993 0.1928 0.1392 0.1514 0.1308 0.1979 0.2842 0.2350 0.1790 0.2727 0.2445 0.0646 0.1063 0.1390 0.2621 1.0000 0.9010 -0.1325 Promoter_UCSC.extend.500.bed NaN 0.1382 0.2594 0.0479 0.1007 0.0104 0.0250 0.1188 0.1289 0.1012 0.1028 0.0957 0.0171 0.0255 0.1406 0.1997 0.1216 0.1230 0.1552 0.1524 0.2057 0.2026 0.1412 0.1589 0.1381 0.1927 0.2877 0.2424 0.1763 0.2738 0.2514 0.0736 0.1127 0.1419 0.2635 0.9010 1.0000 -0.1396 Repressed_Hoffman.bed NaN -0.0791 -0.1524 -0.0344 -0.1085 -0.1402 -0.1195 -0.1946 -0.2669 -0.1661 -0.1947 -0.2240 -0.0493 -0.0869 -0.2021 -0.2809 -0.1489 -0.1990 -0.3011 -0.3002 -0.3048 -0.3112 -0.2462 -0.3219 -0.2938 -0.1457 -0.2373 -0.2558 -0.1450 -0.2464 -0.2898 -0.2311 -0.2442 -0.0875 -0.1501 -0.1325 -0.1396 1.0000 Repressed_Hoffman.extend.500.bed NaN -0.1244 -0.2437 -0.0455 -0.1534 -0.0587 -0.0827 -0.2106 -0.2896 -0.1778 -0.2055 -0.2437 -0.0682 -0.1217 -0.3172 -0.4042 -0.1767 -0.2382 -0.3961 -0.3910 -0.4203 -0.4213 -0.2901 -0.3828 -0.3505 -0.1948 -0.3135 -0.3306 -0.2051 -0.3407 -0.3922 -0.3311 -0.3510 -0.1128 -0.1941 -0.2017 -0.2103 0.5779 SuperEnhancer_Hnisz.bed NaN 0.0593 0.1041 0.0296 0.1256 0.0235 0.0490 0.1656 0.2366 0.1258 0.1454 0.1955 0.0804 0.1511 0.2211 0.2847 0.1364 0.2051 0.5683 0.5330 0.4258 0.4292 0.2441 0.3345 0.2949 0.1579 0.2560 0.2814 0.1714 0.2948 0.3343 0.1553 0.1659 0.0549 0.1048 0.1385 0.1499 -0.2366 SuperEnhancer_Hnisz.extend.500.bed NaN 0.0596 0.1044 0.0292 0.1245 0.0243 0.0509 0.1649 0.2374 0.1246 0.1440 0.1956 0.0798 0.1500 0.2190 0.2853 0.1349 0.2051 0.5672 0.5395 0.4291 0.4341 0.2435 0.3353 0.2982 0.1573 0.2557 0.2828 0.1704 0.2947 0.3360 0.1542 0.1649 0.0560 0.1067 0.1405 0.1526 -0.2382 TFBS_ENCODE.bed NaN 0.0814 0.1179 0.0784 0.1358 0.2138 0.1615 0.3776 0.2974 0.3713 0.4231 0.2832 0.1131 0.1464 0.3398 0.3378 0.3449 0.2917 0.2524 0.2438 0.3036 0.2763 0.2937 0.2950 0.2229 0.2653 0.3437 0.3005 0.2257 0.3187 0.2932 0.0282 0.0489 0.0754 0.1571 0.1933 0.1910 -0.2465 TFBS_ENCODE.extend.500.bed NaN 0.0602 0.0944 0.0568 0.1563 0.1631 0.2503 0.2509 0.4305 0.2488 0.3002 0.4258 0.0711 0.1398 0.2721 0.3607 0.2328 0.3673 0.3337 0.3343 0.3748 0.3589 0.2921 0.3801 0.3439 0.1912 0.3090 0.3534 0.1827 0.3103 0.3457 0.0513 0.0648 0.0843 0.1731 0.1595 0.1621 -0.2754 Transcribed_Hoffman.bed NaN 0.0643 0.1386 0.0041 0.0427 -0.0305 -0.0148 0.0217 0.0578 -0.0111 -0.0108 0.0260 -0.0114 -0.0198 -0.0094 0.0015 -0.0269 -0.0046 0.1119 0.1140 0.0786 0.0982 0.0607 0.1077 0.1210 -0.0045 0.0209 0.0432 0.0136 0.0357 0.0793 0.3198 0.3228 -0.0005 -0.0139 -0.0114 -0.0035 -0.6168 Transcribed_Hoffman.extend.500.bed NaN 0.0029 0.0205 -0.0129 -0.0115 -0.0272 -0.0359 -0.0461 -0.0407 -0.0653 -0.0704 -0.0478 -0.0285 -0.0485 -0.0785 -0.0846 -0.0796 -0.0750 -0.0268 -0.0249 -0.0448 -0.0316 -0.0419 -0.0364 -0.0144 -0.0722 -0.0782 -0.0595 -0.0569 -0.0753 -0.0532 0.1805 0.1736 -0.0212 -0.0558 -0.0918 -0.0875 -0.2021 TSS_Hoffman.bed NaN 0.1227 0.1982 0.0599 0.1072 0.0204 0.0336 0.1979 0.1347 0.2017 0.2027 0.1299 0.0884 0.1093 0.1790 0.2565 0.2448 0.1842 0.1672 0.1576 0.2363 0.2032 0.1921 0.1643 0.1196 0.3273 0.3423 0.2422 0.2987 0.3457 0.2591 0.0294 0.0676 0.0949 0.2509 0.3968 0.3767 -0.1391 TSS_Hoffman.extend.500.bed NaN 0.1044 0.1759 0.0478 0.1083 0.0333 0.0596 0.1835 0.1753 0.1813 0.1879 0.1622 0.0823 0.1328 0.2784 0.3795 0.2199 0.2191 0.2137 0.2053 0.3023 0.2666 0.2252 0.2124 0.1594 0.2989 0.4021 0.3155 0.2773 0.3908 0.3314 0.0389 0.0710 0.1978 0.3793 0.4185 0.4072 -0.1865 UTR_3_UCSC.bed NaN 0.5892 0.3218 0.0722 0.0852 0.0097 0.0168 0.0390 0.0417 0.0241 0.0243 0.0293 -0.0064 -0.0135 0.0210 0.0291 0.0239 0.0307 0.0613 0.0605 0.0631 0.0637 0.0390 0.0616 0.0581 0.0373 0.0520 0.0462 0.0441 0.0666 0.0690 -0.0256 0.0251 0.0115 0.0295 0.0983 0.0998 -0.0667 UTR_3_UCSC.extend.500.bed NaN 0.4509 0.4723 0.0760 0.1389 0.0113 0.0208 0.0608 0.0651 0.0432 0.0439 0.0488 -0.0082 -0.0142 0.0453 0.0595 0.0477 0.0508 0.0892 0.0892 0.0980 0.0966 0.0635 0.0932 0.0878 0.0721 0.1012 0.0867 0.0789 0.1176 0.1163 0.0272 0.0787 0.0248 0.0529 0.2096 0.2075 -0.1015 UTR_5_UCSC.bed NaN 0.3169 0.1877 0.0731 0.0597 0.0018 0.0029 0.0594 0.0473 0.0656 0.0657 0.0426 -0.0041 -0.0082 0.0492 0.0610 0.0819 0.0576 0.0538 0.0513 0.0669 0.0609 0.0495 0.0588 0.0483 0.1015 0.1004 0.0763 0.0912 0.1073 0.0871 -0.0081 0.0581 0.0150 0.0470 0.2193 0.2032 -0.0534 UTR_5_UCSC.extend.500.bed NaN 0.2026 0.4475 0.0716 0.1478 0.0065 0.0153 0.0937 0.0859 0.1029 0.1057 0.0798 -0.0085 -0.0104 0.0917 0.1153 0.1265 0.1030 0.0947 0.0906 0.1278 0.1175 0.0901 0.1086 0.0947 0.1680 0.1845 0.1419 0.1557 0.1925 0.1628 0.0840 0.1434 0.0481 0.1175 0.4353 0.4031 -0.1027 WeakEnhancer_Hoffman.bed NaN 0.0057 0.0061 0.0257 0.0556 0.0244 0.0425 0.1654 0.1193 0.1707 0.1877 0.1241 0.0660 0.0738 0.0956 0.1467 0.1542 0.1300 0.1108 0.1067 0.1392 0.1288 0.1939 0.1463 0.1051 0.1228 0.1577 0.1399 0.1165 0.1530 0.1449 0.0172 0.0194 0.0174 0.0655 0.0181 0.0206 -0.1277 WeakEnhancer_Hoffman.extend.500.bed NaN 0.0080 0.0122 0.0281 0.0909 0.0548 0.0877 0.1561 0.2344 0.1648 0.1969 0.2397 0.0606 0.1170 0.1982 0.2947 0.1610 0.2359 0.2191 0.2176 0.2580 0.2515 0.2460 0.2667 0.2174 0.1316 0.2177 0.2526 0.1369 0.2270 0.2664 0.0379 0.0406 0.0568 0.1353 0.0464 0.0487 -0.2196 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 -0.1244 0.0593 0.0596 0.0814 0.0602 0.0643 0.0029 0.1227 0.1044 0.5892 0.4509 0.3169 0.2026 0.0057 0.0080 Coding_UCSC.extend.500.bed -0.2437 0.1041 0.1044 0.1179 0.0944 0.1386 0.0205 0.1982 0.1759 0.3218 0.4723 0.1877 0.4475 0.0061 0.0122 Conserved_LindbladToh.bed -0.0455 0.0296 0.0292 0.0784 0.0568 0.0041 -0.0129 0.0599 0.0478 0.0722 0.0760 0.0731 0.0716 0.0257 0.0281 Conserved_LindbladToh.extend.500.bed -0.1534 0.1256 0.1245 0.1358 0.1563 0.0427 -0.0115 0.1072 0.1083 0.0852 0.1389 0.0597 0.1478 0.0556 0.0909 CTCF_Hoffman.bed -0.0587 0.0235 0.0243 0.2138 0.1631 -0.0305 -0.0272 0.0204 0.0333 0.0097 0.0113 0.0018 0.0065 0.0244 0.0548 CTCF_Hoffman.extend.500.bed -0.0827 0.0490 0.0509 0.1615 0.2503 -0.0148 -0.0359 0.0336 0.0596 0.0168 0.0208 0.0029 0.0153 0.0425 0.0877 DGF_ENCODE.bed -0.2106 0.1656 0.1649 0.3776 0.2509 0.0217 -0.0461 0.1979 0.1835 0.0390 0.0608 0.0594 0.0937 0.1654 0.1561 DGF_ENCODE.extend.500.bed -0.2896 0.2366 0.2374 0.2974 0.4305 0.0578 -0.0407 0.1347 0.1753 0.0417 0.0651 0.0473 0.0859 0.1193 0.2344 DHS_peaks_Trynka.bed -0.1778 0.1258 0.1246 0.3713 0.2488 -0.0111 -0.0653 0.2017 0.1813 0.0241 0.0432 0.0656 0.1029 0.1707 0.1648 DHS_Trynka.bed -0.2055 0.1454 0.1440 0.4231 0.3002 -0.0108 -0.0704 0.2027 0.1879 0.0243 0.0439 0.0657 0.1057 0.1877 0.1969 DHS_Trynka.extend.500.bed -0.2437 0.1955 0.1956 0.2832 0.4258 0.0260 -0.0478 0.1299 0.1622 0.0293 0.0488 0.0426 0.0798 0.1241 0.2397 Enhancer_Andersson.bed -0.0682 0.0804 0.0798 0.1131 0.0711 -0.0114 -0.0285 0.0884 0.0823 -0.0064 -0.0082 -0.0041 -0.0085 0.0660 0.0606 Enhancer_Andersson.extend.500.bed -0.1217 0.1511 0.1500 0.1464 0.1398 -0.0198 -0.0485 0.1093 0.1328 -0.0135 -0.0142 -0.0082 -0.0104 0.0738 0.1170 Enhancer_Hoffman.bed -0.3172 0.2211 0.2190 0.3398 0.2721 -0.0094 -0.0785 0.1790 0.2784 0.0210 0.0453 0.0492 0.0917 0.0956 0.1982 Enhancer_Hoffman.extend.500.bed -0.4042 0.2847 0.2853 0.3378 0.3607 0.0015 -0.0846 0.2565 0.3795 0.0291 0.0595 0.0610 0.1153 0.1467 0.2947 FetalDHS_Trynka.bed -0.1767 0.1364 0.1349 0.3449 0.2328 -0.0269 -0.0796 0.2448 0.2199 0.0239 0.0477 0.0819 0.1265 0.1542 0.1610 FetalDHS_Trynka.extend.500.bed -0.2382 0.2051 0.2051 0.2917 0.3673 -0.0046 -0.0750 0.1842 0.2191 0.0307 0.0508 0.0576 0.1030 0.1300 0.2359 H3K27ac_Hnisz.bed -0.3961 0.5683 0.5672 0.2524 0.3337 0.1119 -0.0268 0.1672 0.2137 0.0613 0.0892 0.0538 0.0947 0.1108 0.2191 H3K27ac_Hnisz.extend.500.bed -0.3910 0.5330 0.5395 0.2438 0.3343 0.1140 -0.0249 0.1576 0.2053 0.0605 0.0892 0.0513 0.0906 0.1067 0.2176 H3K27ac_PGC2.bed -0.4203 0.4258 0.4291 0.3036 0.3748 0.0786 -0.0448 0.2363 0.3023 0.0631 0.0980 0.0669 0.1278 0.1392 0.2580 H3K27ac_PGC2.extend.500.bed -0.4213 0.4292 0.4341 0.2763 0.3589 0.0982 -0.0316 0.2032 0.2666 0.0637 0.0966 0.0609 0.1175 0.1288 0.2515 H3K4me1_peaks_Trynka.bed -0.2901 0.2441 0.2435 0.2937 0.2921 0.0607 -0.0419 0.1921 0.2252 0.0390 0.0635 0.0495 0.0901 0.1939 0.2460 H3K4me1_Trynka.bed -0.3828 0.3345 0.3353 0.2950 0.3801 0.1077 -0.0364 0.1643 0.2124 0.0616 0.0932 0.0588 0.1086 0.1463 0.2667 H3K4me1_Trynka.extend.500.bed -0.3505 0.2949 0.2982 0.2229 0.3439 0.1210 -0.0144 0.1196 0.1594 0.0581 0.0878 0.0483 0.0947 0.1051 0.2174 H3K4me3_peaks_Trynka.bed -0.1948 0.1579 0.1573 0.2653 0.1912 -0.0045 -0.0722 0.3273 0.2989 0.0373 0.0721 0.1015 0.1680 0.1228 0.1316 H3K4me3_Trynka.bed -0.3135 0.2560 0.2557 0.3437 0.3090 0.0209 -0.0782 0.3423 0.4021 0.0520 0.1012 0.1004 0.1845 0.1577 0.2177 H3K4me3_Trynka.extend.500.bed -0.3306 0.2814 0.2828 0.3005 0.3534 0.0432 -0.0595 0.2422 0.3155 0.0462 0.0867 0.0763 0.1419 0.1399 0.2526 H3K9ac_peaks_Trynka.bed -0.2051 0.1714 0.1704 0.2257 0.1827 0.0136 -0.0569 0.2987 0.2773 0.0441 0.0789 0.0912 0.1557 0.1165 0.1369 H3K9ac_Trynka.bed -0.3407 0.2948 0.2947 0.3187 0.3103 0.0357 -0.0753 0.3457 0.3908 0.0666 0.1176 0.1073 0.1925 0.1530 0.2270 H3K9ac_Trynka.extend.500.bed -0.3922 0.3343 0.3360 0.2932 0.3457 0.0793 -0.0532 0.2591 0.3314 0.0690 0.1163 0.0871 0.1628 0.1449 0.2664 Intron_UCSC.bed -0.3311 0.1553 0.1542 0.0282 0.0513 0.3198 0.1805 0.0294 0.0389 -0.0256 0.0272 -0.0081 0.0840 0.0172 0.0379 Intron_UCSC.extend.500.bed -0.3510 0.1659 0.1649 0.0489 0.0648 0.3228 0.1736 0.0676 0.0710 0.0251 0.0787 0.0581 0.1434 0.0194 0.0406 PromoterFlanking_Hoffman.bed -0.1128 0.0549 0.0560 0.0754 0.0843 -0.0005 -0.0212 0.0949 0.1978 0.0115 0.0248 0.0150 0.0481 0.0174 0.0568 PromoterFlanking_Hoffman.extend.500.bed -0.1941 0.1048 0.1067 0.1571 0.1731 -0.0139 -0.0558 0.2509 0.3793 0.0295 0.0529 0.0470 0.1175 0.0655 0.1353 Promoter_UCSC.bed -0.2017 0.1385 0.1405 0.1933 0.1595 -0.0114 -0.0918 0.3968 0.4185 0.0983 0.2096 0.2193 0.4353 0.0181 0.0464 Promoter_UCSC.extend.500.bed -0.2103 0.1499 0.1526 0.1910 0.1621 -0.0035 -0.0875 0.3767 0.4072 0.0998 0.2075 0.2032 0.4031 0.0206 0.0487 Repressed_Hoffman.bed 0.5779 -0.2366 -0.2382 -0.2465 -0.2754 -0.6168 -0.2021 -0.1391 -0.1865 -0.0667 -0.1015 -0.0534 -0.1027 -0.1277 -0.2196 Repressed_Hoffman.extend.500.bed 1.0000 -0.3389 -0.3409 -0.2934 -0.3198 -0.4279 -0.1196 -0.2362 -0.2966 -0.1073 -0.1610 -0.0828 -0.1594 -0.1446 -0.2477 SuperEnhancer_Hnisz.bed -0.3389 1.0000 0.9881 0.2093 0.2407 0.1033 -0.0075 0.1897 0.2280 0.0532 0.0820 0.0511 0.0915 0.0835 0.1690 SuperEnhancer_Hnisz.extend.500.bed -0.3409 0.9881 1.0000 0.2087 0.2420 0.1049 -0.0069 0.1883 0.2279 0.0539 0.0827 0.0514 0.0916 0.0835 0.1697 TFBS_ENCODE.bed -0.2934 0.2093 0.2087 1.0000 0.5480 -0.0027 -0.0764 0.3216 0.3262 0.0584 0.0993 0.0810 0.1434 0.1816 0.2114 TFBS_ENCODE.extend.500.bed -0.3198 0.2407 0.2420 0.5480 1.0000 0.0234 -0.0591 0.1987 0.2593 0.0525 0.0832 0.0542 0.1015 0.1421 0.2711 Transcribed_Hoffman.bed -0.4279 0.1033 0.1049 -0.0027 0.0234 1.0000 0.4465 -0.0515 -0.0391 0.0678 0.0882 0.0065 0.0214 -0.0058 0.0026 Transcribed_Hoffman.extend.500.bed -0.1196 -0.0075 -0.0069 -0.0764 -0.0591 0.4465 1.0000 -0.1183 -0.1092 0.0191 0.0142 -0.0303 -0.0482 -0.0338 -0.0458 TSS_Hoffman.bed -0.2362 0.1897 0.1883 0.3216 0.1987 -0.0515 -0.1183 1.0000 0.7352 0.0650 0.1383 0.1707 0.3008 0.0407 0.0644 TSS_Hoffman.extend.500.bed -0.2966 0.2280 0.2279 0.3262 0.2593 -0.0391 -0.1092 0.7352 1.0000 0.0668 0.1353 0.1389 0.2632 0.0595 0.1159 UTR_3_UCSC.bed -0.1073 0.0532 0.0539 0.0584 0.0525 0.0678 0.0191 0.0650 0.0668 1.0000 0.6474 0.1117 0.0779 0.0041 0.0077 UTR_3_UCSC.extend.500.bed -0.1610 0.0820 0.0827 0.0993 0.0832 0.0882 0.0142 0.1383 0.1353 0.6474 1.0000 0.1066 0.1542 0.0059 0.0116 UTR_5_UCSC.bed -0.0828 0.0511 0.0514 0.0810 0.0542 0.0065 -0.0303 0.1707 0.1389 0.1117 0.1066 1.0000 0.4729 0.0095 0.0110 UTR_5_UCSC.extend.500.bed -0.1594 0.0915 0.0916 0.1434 0.1015 0.0214 -0.0482 0.3008 0.2632 0.0779 0.1542 0.4729 1.0000 0.0159 0.0284 WeakEnhancer_Hoffman.bed -0.1446 0.0835 0.0835 0.1816 0.1421 -0.0058 -0.0338 0.0407 0.0595 0.0041 0.0059 0.0095 0.0159 1.0000 0.4684 WeakEnhancer_Hoffman.extend.500.bed -0.2477 0.1690 0.1697 0.2114 0.2711 0.0026 -0.0458 0.0644 0.1159 0.0077 0.0116 0.0110 0.0284 0.4684 1.0000 Annotation Matrix Column Sums base 664016.0 Coding_UCSC.bed 10425.0 Coding_UCSC.extend.500.bed 40796.0 Conserved_LindbladToh.bed 17189.0 Conserved_LindbladToh.extend.500.bed 209162.0 CTCF_Hoffman.bed 15300.0 CTCF_Hoffman.extend.500.bed 45898.0 DGF_ENCODE.bed 95437.0 DGF_ENCODE.extend.500.bed 366291.0 DHS_peaks_Trynka.bed 76201.0 DHS_Trynka.bed 113932.0 DHS_Trynka.extend.500.bed 331621.0 Enhancer_Andersson.bed 3129.0 Enhancer_Andersson.extend.500.bed 14207.0 Enhancer_Hoffman.bed 30906.0 Enhancer_Hoffman.extend.500.bed 65220.0 FetalDHS_Trynka.bed 58103.0 FetalDHS_Trynka.extend.500.bed 191010.0 H3K27ac_Hnisz.bed 265468.0 H3K27ac_Hnisz.extend.500.bed 286108.0 H3K27ac_PGC2.bed 185763.0 H3K27ac_PGC2.extend.500.bed 230937.0 H3K4me1_peaks_Trynka.bed 114140.0 H3K4me1_Trynka.bed 281951.0 H3K4me1_Trynka.extend.500.bed 401959.0 H3K4me3_peaks_Trynka.bed 29270.0 H3K4me3_Trynka.bed 92035.0 H3K4me3_Trynka.extend.500.bed 173452.0 H3K9ac_peaks_Trynka.bed 24802.0 H3K9ac_Trynka.bed 80311.0 H3K9ac_Trynka.extend.500.bed 147418.0 Intron_UCSC.bed 242021.0 Intron_UCSC.extend.500.bed 249183.0 PromoterFlanking_Hoffman.bed 6025.0 PromoterFlanking_Hoffman.extend.500.bed 24260.0 Promoter_UCSC.bed 32768.0 Promoter_UCSC.extend.500.bed 39909.0 Repressed_Hoffman.bed 302499.0 Repressed_Hoffman.extend.500.bed 474575.0 SuperEnhancer_Hnisz.bed 117547.0 SuperEnhancer_Hnisz.extend.500.bed 119889.0 TFBS_ENCODE.bed 96439.0 TFBS_ENCODE.extend.500.bed 239939.0 Transcribed_Hoffman.bed 209656.0 Transcribed_Hoffman.extend.500.bed 463684.0 TSS_Hoffman.bed 15008.0 TSS_Hoffman.extend.500.bed 27241.0 UTR_3_UCSC.bed 8024.0 UTR_3_UCSC.extend.500.bed 18828.0 UTR_5_UCSC.bed 4246.0 UTR_5_UCSC.extend.500.bed 18575.0 WeakEnhancer_Hoffman.bed 12692.0 WeakEnhancer_Hoffman.extend.500.bed 54162.0 Summary of Annotation Matrix Row Sums count 664016.0000 mean 11.2040 std 6.9404 min 1.0000 25% 6.0000 50% 9.0000 75% 15.0000 max 43.0000 Analysis finished at Tue Oct 17 18:50:15 2017 Total time elapsed: 2.0h:8.0m:59.35s