LDL direct (quantile) - Multiweight Comparison
wesleycrouse
2022-02-4
Last updated: 2022-02-07
Checks: 6 1
Knit directory: ctwas_applied/
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| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | f7f8c5c | wesleycrouse | 2022-02-07 | multitissue |
| html | f7f8c5c | wesleycrouse | 2022-02-07 | multitissue |
| html | 54518c1 | wesleycrouse | 2022-02-07 | multitissue results |
| Rmd | c064f70 | wesleycrouse | 2022-02-07 | mt analysis |
| Rmd | 909c4c2 | wesleycrouse | 2022-02-07 | fixing formatting |
| html | 909c4c2 | wesleycrouse | 2022-02-07 | fixing formatting |
| Rmd | 97114de | wesleycrouse | 2022-02-07 | adjusting multitissue tables |
| html | 97114de | wesleycrouse | 2022-02-07 | adjusting multitissue tables |
| html | a94cebd | wesleycrouse | 2022-02-07 | updating multitissue report |
| Rmd | 6320f78 | wesleycrouse | 2022-02-07 | adjusting plots |
| Rmd | c5af636 | wesleycrouse | 2022-02-05 | multitissue analysis |
| html | c5af636 | wesleycrouse | 2022-02-05 | multitissue analysis |
| Rmd | c8ff55d | wesleycrouse | 2022-02-05 | multitissue analysis |
| Rmd | d56b027 | wesleycrouse | 2022-02-04 | multiweight analysis bystanders |
| html | d56b027 | wesleycrouse | 2022-02-04 | multiweight analysis bystanders |
| Rmd | fe1399c | wesleycrouse | 2022-02-04 | multiweight analysis |
| html | fe1399c | wesleycrouse | 2022-02-04 | multiweight analysis |
Weight QC
TO-DO: add enhanced QC reporting (total number of weights, why each variant was missing for all genes)
qclist_all <- list()
qc_files <- paste0(results_dir, "/", list.files(results_dir, pattern="exprqc.Rd"))
for (i in 1:length(qc_files)){
load(qc_files[i])
chr <- unlist(strsplit(rev(unlist(strsplit(qc_files[i], "_")))[1], "[.]"))[1]
qclist_all[[chr]] <- cbind(do.call(rbind, lapply(qclist,unlist)), as.numeric(substring(chr,4)))
}
qclist_all <- data.frame(do.call(rbind, qclist_all))
colnames(qclist_all)[ncol(qclist_all)] <- "chr"
rm(qclist, wgtlist, z_gene_chr)
#number of imputed weights
nrow(qclist_all)[1] 36672#number of imputed weights by chromosome
table(qclist_all$chr)
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15
3602 2565 2134 1406 1703 2078 1830 1351 1372 1455 2198 2111 694 1211 1216
16 17 18 19 20 21 22
1723 2262 556 2825 1056 402 922 #proportion of imputed weights without missing variants
mean(qclist_all$nmiss==0)[1] 0.7937391Load ctwas results
Check convergence of parameters
library(ggplot2)
library(cowplot)
********************************************************Note: As of version 1.0.0, cowplot does not change the default ggplot2 theme anymore. To recover the previous behavior, execute:
theme_set(theme_cowplot())********************************************************load(paste0(results_dir, "/", analysis_id, "_ctwas.s2.susieIrssres.Rd"))
df <- data.frame(niter = rep(1:ncol(group_prior_rec), 2),
value = c(group_prior_rec[1,], group_prior_rec[2,]),
group = rep(c("Gene", "SNP"), each = ncol(group_prior_rec)))
df$group <- as.factor(df$group)
df$value[df$group=="SNP"] <- df$value[df$group=="SNP"]*thin #adjust parameter to account for thin argument
p_pi <- ggplot(df, aes(x=niter, y=value, group=group)) +
geom_line(aes(color=group)) +
geom_point(aes(color=group)) +
xlab("Iteration") + ylab(bquote(pi)) +
ggtitle("Prior mean") +
theme_cowplot()
df <- data.frame(niter = rep(1:ncol(group_prior_var_rec), 2),
value = c(group_prior_var_rec[1,], group_prior_var_rec[2,]),
group = rep(c("Gene", "SNP"), each = ncol(group_prior_var_rec)))
df$group <- as.factor(df$group)
p_sigma2 <- ggplot(df, aes(x=niter, y=value, group=group)) +
geom_line(aes(color=group)) +
geom_point(aes(color=group)) +
xlab("Iteration") + ylab(bquote(sigma^2)) +
ggtitle("Prior variance") +
theme_cowplot()
plot_grid(p_pi, p_sigma2)
| Version | Author | Date |
|---|---|---|
| fe1399c | wesleycrouse | 2022-02-04 |
#estimated group prior
estimated_group_prior <- group_prior_rec[,ncol(group_prior_rec)]
names(estimated_group_prior) <- c("gene", "snp")
estimated_group_prior["snp"] <- estimated_group_prior["snp"]*thin #adjust parameter to account for thin argument
print(estimated_group_prior) gene snp
0.0032079483 0.0001296749 #estimated group prior variance
estimated_group_prior_var <- group_prior_var_rec[,ncol(group_prior_var_rec)]
names(estimated_group_prior_var) <- c("gene", "snp")
print(estimated_group_prior_var) gene snp
75.60611 12.10745 #report sample size
print(sample_size)[1] 343621#report group size
group_size <- c(nrow(ctwas_gene_res), n_snps)
print(group_size)[1] 36672 8696600#estimated group PVE
estimated_group_pve <- estimated_group_prior_var*estimated_group_prior*group_size/sample_size #check PVE calculation
names(estimated_group_pve) <- c("gene", "snp")
print(estimated_group_pve) gene snp
0.02588446 0.03973549 # #compare sum(PIP*mu2/sample_size) with above PVE calculation
# c(sum(ctwas_gene_res$PVE),sum(ctwas_snp_res$PVE))Genes with highest PIPs
#distribution of PIPs
hist(ctwas_gene_res$susie_pip, xlim=c(0,1), main="Distribution of Gene PIPs")
| Version | Author | Date |
|---|---|---|
| fe1399c | wesleycrouse | 2022-02-04 |
#genes with PIP>0.8 or 20 highest PIPs
head(ctwas_gene_res[order(-ctwas_gene_res$susie_pip),report_cols], max(sum(ctwas_gene_res$susie_pip>0.8), 20)) genename region_tag susie_pip mu2 PVE z
33807 PSRC1 1_67 1.0000000 1702.17127 4.953630e-03 -41.687336
75 KMT2E 7_65 1.0000000 13998.55412 4.073835e-02 -3.002337
41380 HPR 16_38 1.0000000 209.60492 6.099887e-04 -17.240252
2199 FCGRT 19_34 0.9999838 1877.12212 5.462680e-03 -4.165895
33093 INSIG2 2_70 0.9992436 63.02871 1.832863e-04 -9.364196
42059 RP4-781K5.7 1_121 0.9983130 206.36933 5.995593e-04 -15.108415
21178 TIMD4 5_92 0.9982251 186.70849 5.423915e-04 -13.882363
14998 NPC1L1 7_32 0.9899879 105.58870 3.042059e-04 11.631021
7045 ZDHHC7 16_49 0.9867427 30.18453 8.667796e-05 -4.891663
5923 ABCA8 17_39 0.9740176 33.46087 9.484715e-05 5.086840
9036 PCSK9 1_34 0.9711200 117.91379 3.332405e-04 17.210869
5600 FAM117B 2_120 0.9709620 48.18951 1.361680e-04 7.877231
38762 GAS6 13_62 0.9608404 73.90681 2.066598e-04 -8.923688
34916 CNIH4 1_114 0.9604176 49.22040 1.375706e-04 6.721857
35363 FADS1 11_34 0.9515589 163.71821 4.533702e-04 12.825883
30969 PLTP 20_28 0.9464851 61.97362 1.707029e-04 -5.732491
15895 GSK3B 3_74 0.9458415 49.85493 1.372293e-04 6.835676
37903 TNKS 8_12 0.9418412 75.73568 2.075862e-04 11.026034
36412 INHBB 2_70 0.9375115 75.61638 2.063065e-04 -8.518936
35465 CSNK1G3 5_75 0.9138945 85.85551 2.283413e-04 9.116291
31464 SP4 7_19 0.9110936 103.78215 2.751731e-04 10.693191
36329 USP1 1_39 0.8921715 260.22840 6.756524e-04 16.258211
41162 CYP2A6 19_28 0.8920487 32.52842 8.444460e-05 5.407028
7623 PKN3 9_66 0.8482181 51.56835 1.272949e-04 -6.885356
40029 TRIM39 6_26 0.8322238 83.95336 2.033286e-04 8.848422
4395 POR 7_48 0.8232941 39.26440 9.407500e-05 6.026895
38237 FUT2 19_33 0.8182381 71.95788 1.713477e-04 -11.927107
tissue2 num_eqtl
33807 L 1
75 AS 1
41380 L 2
2199 AS 2
33093 L 3
42059 L 1
21178 AVO 1
14998 AVO 1
7045 AS 3
5923 AS 2
9036 AS 1
5600 AS 2
38762 L 1
34916 L 2
35363 L 2
30969 L 1
15895 AVO 1
37903 L 2
36412 L 1
35465 L 1
31464 L 1
36329 L 1
41162 L 1
7623 AS 2
40029 L 3
4395 AS 2
38237 L 1Genes with largest effect sizes
#plot PIP vs effect size
plot(ctwas_gene_res$susie_pip, ctwas_gene_res$mu2, xlab="PIP", ylab="mu^2", main="Gene PIPs vs Effect Size")
| Version | Author | Date |
|---|---|---|
| fe1399c | wesleycrouse | 2022-02-04 |
#genes with 20 largest effect sizes
head(ctwas_gene_res[order(-ctwas_gene_res$mu2),report_cols],20) genename region_tag susie_pip mu2 PVE
75 KMT2E 7_65 1.000000e+00 13998.5541 4.073835e-02
19869 SRPK2 7_65 0.000000e+00 11839.4922 0.000000e+00
5123 SRPK2 7_65 0.000000e+00 9766.0429 0.000000e+00
6042 RPS11 19_34 3.313946e-01 2606.7959 2.514043e-03
34761 RPS11 19_34 3.313946e-01 2606.7959 2.514043e-03
20784 RPS11 19_34 3.372197e-01 2606.7876 2.558226e-03
20785 RPL13A 19_34 5.835882e-06 2347.4111 3.986722e-08
1412 FLT3LG 19_34 4.806107e-06 2251.4082 3.148966e-08
30599 FLT3LG 19_34 4.806107e-06 2251.4082 3.148966e-08
19305 NECTIN2 19_32 0.000000e+00 2076.1669 0.000000e+00
16911 FCGRT 19_34 1.714892e-05 2067.3783 1.031756e-07
2199 FCGRT 19_34 9.999838e-01 1877.1221 5.462680e-03
33934 SRPK2 7_65 0.000000e+00 1793.0632 0.000000e+00
33807 PSRC1 1_67 1.000000e+00 1702.1713 4.953630e-03
4571 APOE 19_32 0.000000e+00 1400.1283 0.000000e+00
34808 PSMA5 1_67 2.266790e-03 1235.3404 8.149261e-06
19307 TOMM40 19_32 0.000000e+00 1171.5281 0.000000e+00
40736 RP11-325F22.2 7_65 0.000000e+00 1032.0428 0.000000e+00
34765 RCN3 19_34 5.944426e-06 852.0808 1.474046e-08
31303 FCGRT 19_34 6.088128e-06 773.3642 1.370213e-08
z tissue2 num_eqtl
75 -3.0023371 AS 1
19869 -2.6189650 AVO 1
5123 -2.5902427 AS 2
6042 -2.4990920 AS 1
34761 -2.4990920 L 1
20784 -2.4969800 AVO 2
20785 2.7235073 AVO 1
1412 2.4043507 AS 1
30599 2.4043507 L 1
19305 -35.7740463 AVO 1
16911 -3.4789010 AVO 2
2199 -4.1658948 AS 2
33934 -1.4622459 L 1
33807 -41.6873361 L 1
4571 37.8075498 AS 2
34808 -35.4138115 L 2
19307 -14.0286334 AVO 2
40736 0.9704489 L 2
34765 2.7570527 L 1
31303 2.2790412 L 3Genes with highest PVE
#genes with 20 highest pve
head(ctwas_gene_res[order(-ctwas_gene_res$PVE),report_cols],20) genename region_tag susie_pip mu2 PVE z
75 KMT2E 7_65 1.0000000 13998.55412 0.0407383545 -3.002337
2199 FCGRT 19_34 0.9999838 1877.12212 0.0054626804 -4.165895
33807 PSRC1 1_67 1.0000000 1702.17127 0.0049536299 -41.687336
20784 RPS11 19_34 0.3372197 2606.78763 0.0025582255 -2.496980
6042 RPS11 19_34 0.3313946 2606.79590 0.0025140431 -2.499092
34761 RPS11 19_34 0.3313946 2606.79590 0.0025140431 -2.499092
20296 ABCG5 2_27 0.5000201 490.79292 0.0007141774 -20.293982
34935 ABCG8 2_27 0.5000201 490.79292 0.0007141774 -20.293982
36329 USP1 1_39 0.8921715 260.22840 0.0006756524 16.258211
41380 HPR 16_38 1.0000000 209.60492 0.0006099887 -17.240252
42059 RP4-781K5.7 1_121 0.9983130 206.36933 0.0005995593 -15.108415
21178 TIMD4 5_92 0.9982251 186.70849 0.0005423915 -13.882363
35363 FADS1 11_34 0.9515589 163.71821 0.0004533702 12.825883
9036 PCSK9 1_34 0.9711200 117.91379 0.0003332405 17.210869
14998 NPC1L1 7_32 0.9899879 105.58870 0.0003042059 11.631021
31464 SP4 7_19 0.9110936 103.78215 0.0002751731 10.693191
35465 CSNK1G3 5_75 0.9138945 85.85551 0.0002283413 9.116291
16011 CETP 16_31 0.5626131 139.04698 0.0002276626 13.379190
37903 TNKS 8_12 0.9418412 75.73568 0.0002075862 11.026034
38762 GAS6 13_62 0.9608404 73.90681 0.0002066598 -8.923688
tissue2 num_eqtl
75 AS 1
2199 AS 2
33807 L 1
20784 AVO 2
6042 AS 1
34761 L 1
20296 AVO 1
34935 L 1
36329 L 1
41380 L 2
42059 L 1
21178 AVO 1
35363 L 2
9036 AS 1
14998 AVO 1
31464 L 1
35465 L 1
16011 AVO 1
37903 L 2
38762 L 1Genes with largest z scores
#genes with 20 largest z scores
head(ctwas_gene_res[order(-abs(ctwas_gene_res$z)),report_cols],20) genename region_tag susie_pip mu2 PVE z
33807 PSRC1 1_67 1.000000e+00 1702.1713 4.953630e-03 -41.68734
4571 APOE 19_32 0.000000e+00 1400.1283 0.000000e+00 37.80755
19305 NECTIN2 19_32 0.000000e+00 2076.1669 0.000000e+00 -35.77405
34808 PSMA5 1_67 2.266790e-03 1235.3404 8.149261e-06 -35.41381
12880 AC067959.1 2_13 3.330003e-12 416.3859 4.035162e-15 -25.52145
3883 POLK 5_45 8.237004e-03 432.0646 1.035710e-05 23.99504
17824 COL4A3BP 5_45 8.237004e-03 432.0646 1.035710e-05 -23.99504
4991 PSRC1 1_67 4.833631e-03 522.9709 7.356501e-06 -22.96812
19733 PSRC1 1_67 5.989882e-03 487.5771 8.499274e-06 -22.09651
20296 ABCG5 2_27 5.000201e-01 490.7929 7.141774e-04 -20.29398
34935 ABCG8 2_27 5.000201e-01 490.7929 7.141774e-04 -20.29398
36342 ATXN7L2 1_67 3.324093e-03 374.6835 3.624584e-06 -19.24274
15095 SARS 1_67 4.924054e-03 326.4925 4.678604e-06 -17.77828
32813 POLK 5_45 1.120223e-03 223.5340 7.287328e-07 17.51576
18636 POLK 5_45 1.120223e-03 223.5340 7.287328e-07 17.51576
23454 GATAD2A 19_15 1.906611e-03 319.5102 1.772830e-06 -17.29842
17072 ATP13A1 19_15 3.172000e-02 292.3597 2.698802e-05 -17.27149
41380 HPR 16_38 1.000000e+00 209.6049 6.099887e-04 -17.24025
9036 PCSK9 1_34 9.711200e-01 117.9138 3.332405e-04 17.21087
36329 USP1 1_39 8.921715e-01 260.2284 6.756524e-04 16.25821
tissue2 num_eqtl
33807 L 1
4571 AS 2
19305 AVO 1
34808 L 2
12880 AS 1
3883 AS 1
17824 AVO 1
4991 AS 2
19733 AVO 2
20296 AVO 1
34935 L 1
36342 L 2
15095 AVO 2
32813 L 1
18636 AVO 1
23454 AVO 1
17072 AVO 1
41380 L 2
9036 AS 1
36329 L 1Comparing z scores and PIPs
#set nominal signifiance threshold for z scores
alpha <- 0.05
#bonferroni adjusted threshold for z scores
sig_thresh <- qnorm(1-(alpha/nrow(ctwas_gene_res)/2), lower=T)
#Q-Q plot for z scores
obs_z <- ctwas_gene_res$z[order(ctwas_gene_res$z)]
exp_z <- qnorm((1:nrow(ctwas_gene_res))/nrow(ctwas_gene_res))
plot(exp_z, obs_z, xlab="Expected z", ylab="Observed z", main="Gene z score Q-Q plot")
abline(a=0,b=1)
| Version | Author | Date |
|---|---|---|
| fe1399c | wesleycrouse | 2022-02-04 |
#plot z score vs PIP
plot(abs(ctwas_gene_res$z), ctwas_gene_res$susie_pip, xlab="abs(z)", ylab="PIP")
abline(v=sig_thresh, col="red", lty=2)
| Version | Author | Date |
|---|---|---|
| fe1399c | wesleycrouse | 2022-02-04 |
#proportion of significant z scores
mean(abs(ctwas_gene_res$z) > sig_thresh)[1] 0.01576134#genes with most significant z scores
head(ctwas_gene_res[order(-abs(ctwas_gene_res$z)),report_cols],20) genename region_tag susie_pip mu2 PVE z
33807 PSRC1 1_67 1.000000e+00 1702.1713 4.953630e-03 -41.68734
4571 APOE 19_32 0.000000e+00 1400.1283 0.000000e+00 37.80755
19305 NECTIN2 19_32 0.000000e+00 2076.1669 0.000000e+00 -35.77405
34808 PSMA5 1_67 2.266790e-03 1235.3404 8.149261e-06 -35.41381
12880 AC067959.1 2_13 3.330003e-12 416.3859 4.035162e-15 -25.52145
3883 POLK 5_45 8.237004e-03 432.0646 1.035710e-05 23.99504
17824 COL4A3BP 5_45 8.237004e-03 432.0646 1.035710e-05 -23.99504
4991 PSRC1 1_67 4.833631e-03 522.9709 7.356501e-06 -22.96812
19733 PSRC1 1_67 5.989882e-03 487.5771 8.499274e-06 -22.09651
20296 ABCG5 2_27 5.000201e-01 490.7929 7.141774e-04 -20.29398
34935 ABCG8 2_27 5.000201e-01 490.7929 7.141774e-04 -20.29398
36342 ATXN7L2 1_67 3.324093e-03 374.6835 3.624584e-06 -19.24274
15095 SARS 1_67 4.924054e-03 326.4925 4.678604e-06 -17.77828
32813 POLK 5_45 1.120223e-03 223.5340 7.287328e-07 17.51576
18636 POLK 5_45 1.120223e-03 223.5340 7.287328e-07 17.51576
23454 GATAD2A 19_15 1.906611e-03 319.5102 1.772830e-06 -17.29842
17072 ATP13A1 19_15 3.172000e-02 292.3597 2.698802e-05 -17.27149
41380 HPR 16_38 1.000000e+00 209.6049 6.099887e-04 -17.24025
9036 PCSK9 1_34 9.711200e-01 117.9138 3.332405e-04 17.21087
36329 USP1 1_39 8.921715e-01 260.2284 6.756524e-04 16.25821
tissue2 num_eqtl
33807 L 1
4571 AS 2
19305 AVO 1
34808 L 2
12880 AS 1
3883 AS 1
17824 AVO 1
4991 AS 2
19733 AVO 2
20296 AVO 1
34935 L 1
36342 L 2
15095 AVO 2
32813 L 1
18636 AVO 1
23454 AVO 1
17072 AVO 1
41380 L 2
9036 AS 1
36329 L 1SNPs with highest PIPs
#snps with PIP>0.8 or 20 highest PIPs
head(ctwas_snp_res[order(-ctwas_snp_res$susie_pip),report_cols_snps],
max(sum(ctwas_snp_res$susie_pip>0.8), 20)) id region_tag susie_pip mu2 PVE
70110 rs1042034 2_13 1.0000000 240.54210 7.000215e-04
70116 rs934197 2_13 1.0000000 414.69200 1.206830e-03
323754 rs115740542 6_20 1.0000000 164.47103 4.786408e-04
365770 rs12208357 6_103 1.0000000 248.21260 7.223441e-04
786321 rs73013176 19_9 1.0000000 243.42836 7.084211e-04
795822 rs62117204 19_32 1.0000000 826.08163 2.404049e-03
795840 rs111794050 19_32 1.0000000 776.53832 2.259869e-03
795873 rs814573 19_32 1.0000000 2249.71490 6.547082e-03
795875 rs113345881 19_32 1.0000000 787.06502 2.290503e-03
795878 rs12721109 19_32 1.0000000 1365.05406 3.972557e-03
848781 rs11591147 1_34 1.0000000 1227.56402 3.572436e-03
960864 rs763798411 7_65 1.0000000 12367.27532 3.599103e-02
989405 rs964184 11_71 1.0000000 247.59374 7.205431e-04
1089588 rs374141296 19_34 1.0000000 2346.51179 6.828779e-03
788516 rs3794991 19_15 1.0000000 442.63809 1.288158e-03
71846 rs780093 2_16 1.0000000 135.57870 3.945588e-04
1063664 rs77542162 17_39 1.0000000 223.00180 6.489760e-04
806150 rs34507316 20_13 1.0000000 82.98968 2.415152e-04
70061 rs11679386 2_12 1.0000000 137.81198 4.010581e-04
70196 rs1848922 2_13 1.0000000 232.85301 6.776449e-04
70119 rs548145 2_13 1.0000000 670.63953 1.951684e-03
500648 rs115478735 9_70 1.0000000 311.29426 9.059233e-04
1096030 rs1800961 20_28 1.0000000 72.93759 2.122617e-04
795536 rs73036721 19_30 1.0000000 59.56665 1.733499e-04
1063669 rs740516 17_39 1.0000000 110.01470 3.201629e-04
440077 rs4738679 8_45 1.0000000 109.95956 3.200024e-04
1070450 rs148356565 19_10 1.0000000 97.06408 2.824742e-04
77911 rs72800939 2_28 1.0000000 56.59368 1.646980e-04
786359 rs137992968 19_9 1.0000000 115.78106 3.369441e-04
584652 rs4937122 11_77 0.9999999 77.82497 2.264849e-04
8152 rs79598313 1_18 0.9999996 47.44507 1.380738e-04
459738 rs13252684 8_83 0.9999993 234.47290 6.823586e-04
55139 rs2807848 1_112 0.9999993 59.24090 1.724017e-04
438682 rs140753685 8_42 0.9999986 56.11813 1.633138e-04
795581 rs62115478 19_30 0.9999968 186.17828 5.418111e-04
365954 rs56393506 6_104 0.9999837 122.45350 3.563563e-04
1070044 rs379309 19_10 0.9999797 68.33432 1.988613e-04
347207 rs9496567 6_67 0.9999610 39.25513 1.142352e-04
323733 rs72834643 6_20 0.9999162 41.71042 1.213748e-04
320025 rs11376017 6_13 0.9998937 66.41847 1.932694e-04
806149 rs6075251 20_13 0.9998728 55.97057 1.628639e-04
788547 rs113619686 19_15 0.9998349 58.13406 1.691528e-04
365918 rs117733303 6_104 0.9996600 95.00311 2.763824e-04
1070429 rs36022659 19_10 0.9994083 140.55623 4.088023e-04
786350 rs1569372 19_9 0.9993991 284.73202 8.281244e-04
539002 rs17875416 10_71 0.9993057 38.36688 1.115771e-04
324487 rs454182 6_22 0.9990191 35.75586 1.039540e-04
786342 rs147985405 19_9 0.9987061 2313.65283 6.724441e-03
605784 rs7397189 12_36 0.9981251 34.29447 9.961606e-05
788156 rs2302209 19_14 0.9979258 43.31221 1.257850e-04
786345 rs3745677 19_9 0.9979047 92.33607 2.681518e-04
281864 rs7701166 5_45 0.9975294 34.12237 9.905699e-05
428409 rs1495743 8_21 0.9974639 41.27580 1.198155e-04
401250 rs3197597 7_61 0.9971725 33.58636 9.746609e-05
728943 rs4396539 16_37 0.9966267 31.80562 9.224794e-05
811103 rs76981217 20_24 0.9952283 35.54369 1.029451e-04
440045 rs56386732 8_45 0.9949856 34.67761 1.004122e-04
622368 rs653178 12_67 0.9932373 96.57642 2.791544e-04
138561 rs709149 3_9 0.9865147 36.46142 1.046785e-04
281805 rs10062361 5_45 0.9848374 206.88555 5.929458e-04
324924 rs3130253 6_23 0.9840355 28.69242 8.216716e-05
811054 rs6029132 20_24 0.9813262 39.60341 1.131009e-04
145571 rs9834932 3_24 0.9811424 66.99135 1.912807e-04
459727 rs79658059 8_83 0.9737093 277.39032 7.860333e-04
811107 rs73124945 20_24 0.9734642 32.35602 9.166328e-05
625656 rs11057830 12_76 0.9723259 26.07531 7.378389e-05
966296 rs11789603 9_53 0.9717697 41.03137 1.160379e-04
245219 rs114756490 4_100 0.9694874 26.18499 7.387796e-05
590807 rs11048034 12_9 0.9639123 35.93415 1.008011e-04
566122 rs6591179 11_36 0.9611317 26.30211 7.356881e-05
222490 rs1458038 4_54 0.9606069 52.71351 1.473628e-04
610150 rs148481241 12_45 0.9602115 27.73181 7.749351e-05
475654 rs1556516 9_16 0.9590304 74.11035 2.068386e-04
385581 rs141379002 7_33 0.9551166 25.87410 7.191873e-05
819108 rs62219001 21_2 0.9546787 26.32492 7.313825e-05
324895 rs28986304 6_23 0.9537643 43.64124 1.211319e-04
323572 rs75080831 6_19 0.9499841 57.74200 1.596351e-04
625322 rs1169300 12_74 0.9489434 68.47533 1.891014e-04
467790 rs7024888 9_3 0.9366679 26.60670 7.252654e-05
620461 rs1196760 12_63 0.9348083 26.06258 7.090230e-05
743972 rs117859452 17_17 0.9300719 27.04368 7.319859e-05
70113 rs78610189 2_13 0.9160533 59.74278 1.592672e-04
844303 rs16828576 1_16 0.9146393 29.51917 7.857319e-05
365764 rs9456502 6_103 0.9145233 33.29970 8.862483e-05
799605 rs34003091 19_39 0.9140153 104.49924 2.779629e-04
1070315 rs146898772 19_10 0.9114401 67.80876 1.798598e-04
349943 rs12199109 6_73 0.9102903 25.33001 6.710202e-05
505598 rs10905277 10_8 0.8981022 28.04806 7.330759e-05
538713 rs12244851 10_70 0.8909058 36.97274 9.585920e-05
195902 rs36205397 4_4 0.8897429 38.88447 1.006841e-04
194115 rs5855544 3_121 0.8887421 24.73996 6.398748e-05
801795 rs74273659 20_5 0.8821358 24.93200 6.400486e-05
826349 rs2835302 21_17 0.8787156 25.71124 6.574938e-05
578762 rs201912654 11_59 0.8725758 40.19315 1.020647e-04
814606 rs10641149 20_32 0.8707040 27.62579 7.000121e-05
1038554 rs763665 16_38 0.8689156 143.85211 3.637593e-04
483640 rs11144506 9_35 0.8524604 27.20392 6.748791e-05
424086 rs117037226 8_11 0.8516797 24.59290 6.095459e-05
838437 rs145678077 22_17 0.8512588 25.08540 6.214454e-05
356146 rs9321207 6_87 0.8485376 30.95346 7.643647e-05
69913 rs6531234 2_12 0.8480597 42.33078 1.044727e-04
634543 rs1012130 13_11 0.8454370 39.53084 9.726076e-05
198127 rs2002574 4_10 0.8437106 25.54200 6.271461e-05
811072 rs6102034 20_24 0.8435126 97.66159 2.397374e-04
584655 rs74612335 11_77 0.8406931 76.12518 1.862456e-04
281828 rs3843482 5_45 0.8404078 404.27928 9.887622e-04
806130 rs78348000 20_13 0.8230044 30.40694 7.282745e-05
532892 rs10882161 10_59 0.8181886 29.96586 7.135107e-05
634535 rs1799955 13_11 0.8155364 70.66816 1.677210e-04
39866 rs1795240 1_84 0.8096449 26.53086 6.251240e-05
827486 rs149577713 21_19 0.8002516 29.38951 6.844460e-05
z
70110 -16.573036
70116 -33.060888
323754 12.532321
365770 -12.282337
786321 16.232742
795822 44.672230
795840 33.599649
795873 -55.537887
795875 34.318568
795878 46.325818
848781 39.164934
960864 -3.272149
989405 16.661098
1089588 2.412211
788516 21.492060
71846 14.142603
1063664 -16.625724
806150 6.814661
70061 -11.909428
70196 -25.412292
70119 -33.086010
500648 -19.011790
1096030 8.896957
795536 7.787947
1063669 11.279140
440077 11.699924
1070450 10.875418
77911 7.845728
786359 10.752566
584652 -12.147947
8152 -7.024638
459738 -11.964411
55139 7.882775
438682 -7.799241
795581 14.326186
365954 -14.088321
1070044 8.426981
347207 6.340216
323733 6.048695
320025 8.507919
806149 2.329832
788547 -0.593903
365918 -10.097959
1070429 9.873513
786350 -10.005506
539002 6.266313
324487 -4.779053
786342 48.935175
605784 5.770964
788156 -6.636049
786345 -9.335807
281864 2.484790
428409 6.515969
401250 5.045242
728943 5.232860
811103 -7.692477
440045 7.012272
622368 -11.050062
138561 6.781974
281805 -20.320600
324924 -5.641451
811054 6.762459
145571 8.481579
459727 16.022043
811107 7.775426
625656 -4.929635
966296 -6.244548
245219 -4.988910
590807 -6.133690
566122 -4.893333
222490 7.417851
610150 -5.095452
475654 8.992146
385581 -4.896981
819108 4.948445
324895 -7.382502
323572 7.906709
625322 -8.685477
467790 5.055827
620461 4.866700
743972 3.851670
70113 8.385467
844303 4.742894
365764 -5.963991
799605 10.423688
1070315 -3.660667
349943 -4.857045
505598 -5.125802
538713 4.883085
195902 -6.159378
194115 4.593724
801795 -4.646762
826349 4.653743
578762 6.305597
814606 -5.075761
1038554 11.285714
483640 -5.042667
424086 -4.192202
838437 4.868601
356146 -5.401634
69913 7.170830
634543 2.781022
198127 4.558284
811072 11.189979
584655 -11.904831
281828 -25.034352
806130 -5.220624
532892 5.475649
634535 6.693636
39866 4.846186
827486 -3.316824SNPs with largest effect sizes
#plot PIP vs effect size
#plot(ctwas_snp_res$susie_pip, ctwas_snp_res$mu2, xlab="PIP", ylab="mu^2", main="SNP PIPs vs Effect Size")
#SNPs with 50 largest effect sizes
head(ctwas_snp_res[order(-ctwas_snp_res$mu2),report_cols_snps],50) id region_tag susie_pip mu2 PVE z
960864 rs763798411 7_65 1 12367.28 0.03599103 -3.272149
960871 rs11974928 7_65 0 12265.53 0.00000000 2.990735
960872 rs11971732 7_65 0 12265.52 0.00000000 2.988562
960866 rs3735377 7_65 0 12264.13 0.00000000 2.995951
960860 rs6972229 7_65 0 12263.71 0.00000000 2.996821
960911 rs2891761 7_65 0 12262.40 0.00000000 3.002337
960916 rs2216107 7_65 0 12261.78 0.00000000 3.021637
960922 rs10224526 7_65 0 12258.78 0.00000000 3.018868
960925 rs10261472 7_65 0 12257.79 0.00000000 3.017862
960926 rs10261573 7_65 0 12257.79 0.00000000 3.017862
960920 rs10245676 7_65 0 12256.72 0.00000000 3.021510
960957 rs4997569 7_65 0 12252.04 0.00000000 2.984117
961016 rs999895 7_65 0 12248.62 0.00000000 3.002311
961029 rs10245589 7_65 0 12245.48 0.00000000 3.002855
961020 rs10953465 7_65 0 12244.65 0.00000000 3.030979
961021 rs10953466 7_65 0 12244.65 0.00000000 3.030979
961001 rs12671368 7_65 0 12243.04 0.00000000 3.018873
960883 rs10249746 7_65 0 12242.06 0.00000000 2.868935
961018 rs9641341 7_65 0 12241.86 0.00000000 2.993064
961040 rs75009137 7_65 0 12241.16 0.00000000 3.031967
960898 rs7811349 7_65 0 12240.58 0.00000000 2.864515
961015 rs35743088 7_65 0 12239.90 0.00000000 3.024534
960882 rs10274607 7_65 0 12238.99 0.00000000 2.866958
961047 rs12667625 7_65 0 12238.92 0.00000000 2.984632
960886 rs10264718 7_65 0 12234.58 0.00000000 2.893087
960877 rs34558707 7_65 0 12227.27 0.00000000 2.945741
960908 rs13230660 7_65 0 12222.36 0.00000000 2.947963
960934 rs740297 7_65 0 12215.88 0.00000000 2.882051
960946 rs740300 7_65 0 12212.43 0.00000000 2.889505
960943 rs10268866 7_65 0 12212.38 0.00000000 2.883722
960965 rs875567 7_65 0 12212.37 0.00000000 2.892227
960948 rs7800233 7_65 0 12212.03 0.00000000 2.875187
960962 rs10244764 7_65 0 12211.29 0.00000000 2.857298
960868 rs3173872 7_65 0 12210.90 0.00000000 2.907651
960845 rs4730065 7_65 0 12210.88 0.00000000 2.929688
960865 rs10276583 7_65 0 12210.84 0.00000000 2.905211
960997 rs6952534 7_65 0 12210.84 0.00000000 2.888424
960862 rs10280009 7_65 0 12210.41 0.00000000 2.906217
961043 rs3213676 7_65 0 12210.38 0.00000000 2.897531
961044 rs12540007 7_65 0 12210.32 0.00000000 2.892914
960955 rs4730067 7_65 0 12209.76 0.00000000 2.876746
960974 rs12534140 7_65 0 12207.35 0.00000000 2.877833
960917 rs67739707 7_65 0 12204.68 0.00000000 2.935367
961017 rs9641340 7_65 0 12203.77 0.00000000 2.944052
960996 rs7785197 7_65 0 12203.54 0.00000000 2.852332
961033 rs12705299 7_65 0 12203.52 0.00000000 2.867150
961025 rs2240455 7_65 0 12202.70 0.00000000 2.872817
960921 rs12532062 7_65 0 12202.69 0.00000000 2.933786
960896 rs916704 7_65 0 12201.77 0.00000000 2.814957
961049 rs2240457 7_65 0 12201.02 0.00000000 2.865948SNPs with highest PVE
#SNPs with 50 highest pve
head(ctwas_snp_res[order(-ctwas_snp_res$PVE),report_cols_snps],50) id region_tag susie_pip mu2 PVE
960864 rs763798411 7_65 1.0000000 12367.27532 0.0359910347
1089588 rs374141296 19_34 1.0000000 2346.51179 0.0068287788
786342 rs147985405 19_9 0.9987061 2313.65283 0.0067244409
795873 rs814573 19_32 1.0000000 2249.71490 0.0065470821
795878 rs12721109 19_32 1.0000000 1365.05406 0.0039725572
848781 rs11591147 1_34 1.0000000 1227.56402 0.0035724360
795822 rs62117204 19_32 1.0000000 826.08163 0.0024040487
795875 rs113345881 19_32 1.0000000 787.06502 0.0022905033
795840 rs111794050 19_32 1.0000000 776.53832 0.0022598686
70119 rs548145 2_13 1.0000000 670.63953 0.0019516838
788516 rs3794991 19_15 1.0000000 442.63809 0.0012881578
70116 rs934197 2_13 1.0000000 414.69200 0.0012068296
281828 rs3843482 5_45 0.8404078 404.27928 0.0009887622
500648 rs115478735 9_70 1.0000000 311.29426 0.0009059233
786350 rs1569372 19_9 0.9993991 284.73202 0.0008281244
459727 rs79658059 8_83 0.9737093 277.39032 0.0007860333
365770 rs12208357 6_103 1.0000000 248.21260 0.0007223441
989405 rs964184 11_71 1.0000000 247.59374 0.0007205431
786321 rs73013176 19_9 1.0000000 243.42836 0.0007084211
70110 rs1042034 2_13 1.0000000 240.54210 0.0007000215
459738 rs13252684 8_83 0.9999993 234.47290 0.0006823586
70196 rs1848922 2_13 1.0000000 232.85301 0.0006776449
1063664 rs77542162 17_39 1.0000000 223.00180 0.0006489760
281805 rs10062361 5_45 0.9848374 206.88555 0.0005929458
795581 rs62115478 19_30 0.9999968 186.17828 0.0005418111
323754 rs115740542 6_20 1.0000000 164.47103 0.0004786408
365784 rs3818678 6_103 0.7657041 201.68397 0.0004494203
1070429 rs36022659 19_10 0.9994083 140.55623 0.0004088023
70061 rs11679386 2_12 1.0000000 137.81198 0.0004010581
71846 rs780093 2_16 1.0000000 135.57870 0.0003945588
848858 rs472495 1_34 0.6686367 199.73544 0.0003886562
1038554 rs763665 16_38 0.8689156 143.85211 0.0003637593
365954 rs56393506 6_104 0.9999837 122.45350 0.0003563563
1038561 rs77303550 16_38 0.7141167 166.67043 0.0003463762
786359 rs137992968 19_9 1.0000000 115.78106 0.0003369441
1063669 rs740516 17_39 1.0000000 110.01470 0.0003201629
440077 rs4738679 8_45 1.0000000 109.95956 0.0003200024
459726 rs2980875 8_83 0.5360680 185.23969 0.0002889843
365961 rs374071816 6_104 0.5739387 172.41438 0.0002879780
1070450 rs148356565 19_10 1.0000000 97.06408 0.0002824742
622368 rs653178 12_67 0.9932373 96.57642 0.0002791544
799605 rs34003091 19_39 0.9140153 104.49924 0.0002779629
365918 rs117733303 6_104 0.9996600 95.00311 0.0002763824
786345 rs3745677 19_9 0.9979047 92.33607 0.0002681518
811248 rs11086801 20_25 0.7878277 108.53554 0.0002488419
806150 rs34507316 20_13 1.0000000 82.98968 0.0002415152
811072 rs6102034 20_24 0.8435126 97.66159 0.0002397374
584652 rs4937122 11_77 0.9999999 77.82497 0.0002264849
365966 rs4252185 6_104 0.4260623 171.84274 0.0002130711
1096030 rs1800961 20_28 1.0000000 72.93759 0.0002122617
z
960864 -3.272149
1089588 2.412211
786342 48.935175
795873 -55.537887
795878 46.325818
848781 39.164934
795822 44.672230
795875 34.318568
795840 33.599649
70119 -33.086010
788516 21.492060
70116 -33.060888
281828 -25.034352
500648 -19.011790
786350 -10.005506
459727 16.022043
365770 -12.282337
989405 16.661098
786321 16.232742
70110 -16.573036
459738 -11.964411
70196 -25.412292
1063664 -16.625724
281805 -20.320600
795581 14.326186
323754 12.532321
365784 9.947776
1070429 9.873513
70061 -11.909428
71846 14.142603
848858 -17.066111
1038554 11.285714
365954 -14.088321
1038561 13.732910
786359 10.752566
1063669 11.279140
440077 11.699924
459726 22.102229
365961 -16.254119
1070450 10.875418
622368 -11.050062
799605 10.423688
365918 -10.097959
786345 -9.335807
811248 -10.975177
806150 6.814661
811072 11.189979
584652 -12.147947
365966 -15.878388
1096030 8.896957SNPs with largest z scores
#histogram of (abs) SNP z scores
hist(abs(ctwas_snp_res$z))
| Version | Author | Date |
|---|---|---|
| fe1399c | wesleycrouse | 2022-02-04 |
#SNPs with 50 largest z scores
head(ctwas_snp_res[order(-abs(ctwas_snp_res$z)),report_cols_snps],50) id region_tag susie_pip mu2 PVE
795873 rs814573 19_32 1.000000e+00 2249.7149 6.547082e-03
786342 rs147985405 19_9 9.987061e-01 2313.6528 6.724441e-03
786337 rs73015020 19_9 7.653700e-04 2301.1539 5.125513e-06
786335 rs138175288 19_9 3.557818e-04 2299.3835 2.380759e-06
786336 rs138294113 19_9 8.519934e-05 2295.5337 5.691677e-07
786338 rs77140532 19_9 5.142618e-05 2295.8808 3.436006e-07
786339 rs112552009 19_9 2.587636e-05 2292.1008 1.726065e-07
786340 rs10412048 19_9 1.029427e-05 2292.5757 6.868149e-08
786334 rs55997232 19_9 1.910183e-09 2272.3749 1.263209e-11
795878 rs12721109 19_32 1.000000e+00 1365.0541 3.972557e-03
795822 rs62117204 19_32 1.000000e+00 826.0816 2.404049e-03
795809 rs1551891 19_32 0.000000e+00 497.8597 0.000000e+00
860704 rs12740374 1_67 2.928965e-04 1499.9296 1.278514e-06
860700 rs7528419 1_67 2.938457e-04 1495.7756 1.279105e-06
860711 rs646776 1_67 2.656349e-04 1494.9250 1.155646e-06
860710 rs629301 1_67 2.539280e-04 1491.3220 1.102053e-06
860722 rs583104 1_67 2.678686e-04 1449.3255 1.129817e-06
860725 rs4970836 1_67 2.650132e-04 1446.4120 1.115526e-06
860727 rs1277930 1_67 2.685120e-04 1441.5064 1.126421e-06
860728 rs599839 1_67 2.735680e-04 1440.4609 1.146798e-06
786343 rs17248769 19_9 2.947961e-08 1741.6288 1.494162e-10
786344 rs2228671 19_9 2.115363e-08 1730.5441 1.065339e-10
860708 rs3832016 1_67 2.251806e-04 1402.5996 9.191472e-07
860705 rs660240 1_67 2.250115e-04 1395.2176 9.136229e-07
860723 rs602633 1_67 2.368111e-04 1372.8890 9.461451e-07
848781 rs11591147 1_34 1.000000e+00 1227.5640 3.572436e-03
786333 rs9305020 19_9 2.708944e-14 1324.0139 1.043789e-16
795869 rs405509 19_32 0.000000e+00 975.4814 0.000000e+00
860691 rs4970834 1_67 4.005988e-04 1035.9488 1.207726e-06
795875 rs113345881 19_32 1.000000e+00 787.0650 2.290503e-03
795793 rs62120566 19_32 0.000000e+00 1343.7498 0.000000e+00
795840 rs111794050 19_32 1.000000e+00 776.5383 2.259869e-03
70119 rs548145 2_13 1.000000e+00 670.6395 1.951684e-03
795846 rs4802238 19_32 0.000000e+00 980.0352 0.000000e+00
70116 rs934197 2_13 1.000000e+00 414.6920 1.206830e-03
795787 rs188099946 19_32 0.000000e+00 1287.9730 0.000000e+00
795857 rs2972559 19_32 0.000000e+00 1313.9066 0.000000e+00
795781 rs201314191 19_32 0.000000e+00 1194.0926 0.000000e+00
860712 rs3902354 1_67 2.456991e-04 883.6202 6.318144e-07
860701 rs11102967 1_67 2.462897e-04 879.9360 6.306925e-07
860726 rs4970837 1_67 2.698311e-04 875.9374 6.878369e-07
795848 rs56394238 19_32 0.000000e+00 974.2640 0.000000e+00
795825 rs2965169 19_32 0.000000e+00 357.2284 0.000000e+00
795849 rs3021439 19_32 0.000000e+00 866.3682 0.000000e+00
860696 rs611917 1_67 2.398963e-04 829.8038 5.793210e-07
70146 rs12997242 2_13 1.860223e-11 381.5607 2.065613e-14
795856 rs12162222 19_32 0.000000e+00 1124.6918 0.000000e+00
70120 rs478588 2_13 6.702183e-11 618.4093 1.206181e-13
795786 rs62119327 19_32 0.000000e+00 1051.2130 0.000000e+00
70121 rs56350433 2_13 2.756906e-12 350.6889 2.813612e-15
z
795873 -55.53789
786342 48.93517
786337 48.79563
786335 48.78069
786336 48.75193
786338 48.73799
786339 48.70516
786340 48.70123
786334 48.52431
795878 46.32582
795822 44.67223
795809 42.26680
860704 41.79347
860700 41.73691
860711 -41.73340
860710 -41.68734
860722 -41.08710
860725 -41.04550
860727 -40.97599
860728 -40.95899
786343 40.84249
786344 40.70262
860708 -40.39598
860705 -40.28958
860723 -39.95641
848781 39.16493
786333 34.84073
795869 34.63979
860691 34.62492
795875 34.31857
795793 33.73539
795840 33.59965
70119 -33.08601
795846 -33.07569
70116 -33.06089
795787 33.04407
795857 -32.28660
795781 32.06858
860712 -32.00383
860701 -31.93893
860726 -31.85593
795848 -31.55187
795825 31.38057
795849 -31.04506
860696 30.97527
70146 -30.81528
795856 -30.49671
70120 -30.48811
795786 30.41868
70121 -30.23229Genes (all tissues) with highest PIPs
#distribution of combined PIPs
hist(ctwas_gene_res_combined$susie_pip, xlim=c(0,1), main="Distribution of Gene PIPs")
#genes with combined PIP>0.8 or 20 highest PIPs
ctwas_gene_res_combined[1:max(sum(ctwas_gene_res_combined$susie_pip>0.8), 20),] genename geneid susie_pip pip_AS pip_AVO
6099 DNAJC13 ENSG00000138246.15 1.3836987 6.732514e-01 3.283204e-01
7680 ZDHHC7 ENSG00000153786.12 1.0349623 9.867427e-01 3.324153e-03
5454 PSRC1 ENSG00000134222.16 1.0108235 4.833631e-03 5.989882e-03
11576 GAS6 ENSG00000183087.14 1.0052448 2.516839e-03 4.188752e-02
6764 CNIH4 ENSG00000143771.11 1.0039074 2.531730e-03 4.095808e-02
15112 HPR ENSG00000261701.6 1.0021159 1.044664e-03 1.071241e-03
7008 TIMD4 ENSG00000145850.8 1.0002526 2.027456e-03 9.982251e-01
6606 RPS11 ENSG00000142534.6 1.0000088 3.313946e-01 3.372197e-01
2375 FCGRT ENSG00000104870.12 1.0000070 9.999838e-01 1.714892e-05
85 KMT2E ENSG00000005483.20 1.0000000 1.000000e+00 0.000000e+00
4568 INSIG2 ENSG00000125629.14 0.9999572 3.043836e-04 4.092085e-04
16039 RP4-781K5.7 ENSG00000282097.1 0.9983130 NA NA
4051 C10orf88 ENSG00000119965.12 0.9964796 3.940392e-01 4.539757e-01
293 NPC1L1 ENSG00000015520.14 0.9962796 3.145870e-03 9.899879e-01
2454 PRKD2 ENSG00000105287.12 0.9925462 3.259741e-04 5.586906e-01
7595 PELO ENSG00000152684.10 0.9899910 3.999301e-01 3.999301e-01
8571 ACP6 ENSG00000162836.11 0.9864822 3.328396e-01 2.805128e-01
1393 CETP ENSG00000087237.10 0.9859223 4.221364e-01 5.626131e-01
8294 PKN3 ENSG00000160447.6 0.9798638 8.482181e-01 NA
6477 ABCA8 ENSG00000141338.13 0.9740442 9.740176e-01 2.666157e-05
6128 FAM117B ENSG00000138439.11 0.9727794 9.709620e-01 1.817421e-03
9815 PCSK9 ENSG00000169174.10 0.9711217 9.711200e-01 1.672828e-06
1980 PLTP ENSG00000100979.14 0.9549102 2.634229e-03 5.790837e-03
7314 FADS1 ENSG00000149485.18 0.9536311 NA 2.072242e-03
1265 GSK3B ENSG00000082701.14 0.9493057 NA 9.458415e-01
10456 TNKS ENSG00000173273.15 0.9418412 NA NA
8626 INHBB ENSG00000163083.5 0.9386082 5.483509e-04 5.483509e-04
3988 KDSR ENSG00000119537.15 0.9322612 1.339970e-01 6.021218e-02
10151 KCNK3 ENSG00000171303.6 0.9305265 1.941196e-01 7.364068e-01
1385 SRRT ENSG00000087087.18 0.9301546 2.692158e-01 3.052108e-01
7446 CSNK1G3 ENSG00000151292.17 0.9195686 2.536341e-03 3.137772e-03
1090 TPD52 ENSG00000076554.15 0.9155847 1.388664e-01 7.740073e-01
2571 SP4 ENSG00000105866.13 0.9144241 2.002857e-03 1.327587e-03
6136 PARP9 ENSG00000138496.16 0.9103159 2.318735e-01 6.751858e-01
8516 USP1 ENSG00000162607.12 0.8957908 3.619317e-03 NA
14762 CYP2A6 ENSG00000255974.7 0.8939820 1.933317e-03 NA
2502 PLPPR2 ENSG00000105520.10 0.8461931 5.533410e-01 2.894205e-01
3962 CCDC92 ENSG00000119242.8 0.8400285 7.583935e-01 7.064595e-02
4375 ACVR1C ENSG00000123612.15 0.8386720 1.423560e-01 2.950636e-03
11150 SPTY2D1 ENSG00000179119.14 0.8342001 4.153465e-01 3.507181e-03
13159 TRIM39 ENSG00000204599.14 0.8322238 5.023876e-09 5.061620e-09
3948 CCND2 ENSG00000118971.7 0.8310056 3.264341e-01 2.522857e-01
4779 POR ENSG00000127948.15 0.8284313 8.232941e-01 3.014633e-03
10890 FUT2 ENSG00000176920.11 0.8182381 NA NA
7810 TTC39B ENSG00000155158.20 0.8124633 5.730017e-03 1.077235e-02
6791 ABCG8 ENSG00000143921.6 0.8077148 NA 3.076947e-01
pip_L prop_AS prop_AVO prop_L nmissing
6099 3.821270e-01 4.865592e-01 2.372774e-01 2.761634e-01 0
7680 4.489546e-02 9.534093e-01 3.211859e-03 4.337884e-02 0
5454 1.000000e+00 4.781874e-03 5.925745e-03 9.892924e-01 0
11576 9.608404e-01 2.503707e-03 4.166898e-02 9.558273e-01 0
6764 9.604176e-01 2.521876e-03 4.079867e-02 9.566795e-01 0
15112 1.000000e+00 1.042459e-03 1.068979e-03 9.978886e-01 0
7008 NA 2.026944e-03 9.979731e-01 0.000000e+00 1
6606 3.313946e-01 3.313917e-01 3.372167e-01 3.313917e-01 0
2375 6.088128e-06 9.999768e-01 1.714880e-05 6.088085e-06 0
85 NA 1.000000e+00 0.000000e+00 0.000000e+00 1
4568 9.992436e-01 3.043966e-04 4.092261e-04 9.992864e-01 0
16039 9.983130e-01 0.000000e+00 0.000000e+00 1.000000e+00 2
4051 1.484647e-01 3.954313e-01 4.555795e-01 1.489892e-01 0
293 3.145870e-03 3.157617e-03 9.936848e-01 3.157617e-03 0
2454 4.335297e-01 3.284221e-04 5.628862e-01 4.367854e-01 0
7595 1.901308e-01 4.039735e-01 4.039735e-01 1.920531e-01 0
8571 3.731298e-01 3.374005e-01 2.843567e-01 3.782428e-01 0
1393 1.172784e-03 4.281640e-01 5.706465e-01 1.189530e-03 0
8294 1.316457e-01 8.656489e-01 0.000000e+00 1.343511e-01 1
6477 NA 9.999726e-01 2.737204e-05 0.000000e+00 1
6128 NA 9.981317e-01 1.868276e-03 0.000000e+00 1
9815 NA 9.999983e-01 1.722573e-06 0.000000e+00 1
1980 9.464851e-01 2.758615e-03 6.064274e-03 9.911771e-01 0
7314 9.515589e-01 0.000000e+00 2.173002e-03 9.978270e-01 1
1265 3.464179e-03 0.000000e+00 9.963508e-01 3.649171e-03 1
10456 9.418412e-01 0.000000e+00 0.000000e+00 1.000000e+00 2
8626 9.375115e-01 5.842171e-04 5.842171e-04 9.988316e-01 0
3988 7.380520e-01 1.437333e-01 6.458724e-02 7.916794e-01 0
10151 NA 2.086127e-01 7.913873e-01 0.000000e+00 1
1385 3.557280e-01 2.894313e-01 3.281291e-01 3.824397e-01 0
7446 9.138945e-01 2.758186e-03 3.412221e-03 9.938296e-01 0
1090 2.710937e-03 1.516697e-01 8.453694e-01 2.960881e-03 0
2571 9.110936e-01 2.190293e-03 1.451828e-03 9.963579e-01 0
6136 3.256597e-03 2.547176e-01 7.417050e-01 3.577436e-03 0
8516 8.921715e-01 4.040360e-03 0.000000e+00 9.959596e-01 1
14762 8.920487e-01 2.162590e-03 0.000000e+00 9.978374e-01 1
2502 3.431568e-03 6.539181e-01 3.420266e-01 4.055302e-03 0
3962 1.098906e-02 9.028188e-01 8.409946e-02 1.308177e-02 0
4375 6.933653e-01 1.697398e-01 3.518224e-03 8.267420e-01 0
11150 4.153465e-01 4.978979e-01 4.204244e-03 4.978979e-01 0
13159 8.322238e-01 6.036689e-09 6.082042e-09 1.000000e+00 0
3948 2.522857e-01 3.928182e-01 3.035909e-01 3.035909e-01 0
4779 2.122618e-03 9.937988e-01 3.638966e-03 2.562214e-03 0
10890 8.182381e-01 0.000000e+00 0.000000e+00 1.000000e+00 2
7810 7.959610e-01 7.052646e-03 1.325887e-02 9.796885e-01 0
6791 5.000201e-01 0.000000e+00 3.809447e-01 6.190553e-01 1
region_tag
6099 3_82
7680 16_49
5454 1_67
11576 13_62
6764 1_114
15112 16_38
7008 5_92
6606 19_34
2375 19_34
85 7_65
4568 2_70
16039 1_121
4051 10_77
293 7_32
2454 19_33
7595 5_31
8571 1_73
1393 16_31
8294 9_66
6477 17_39
6128 2_120
9815 1_34
1980 20_28
7314 11_34
1265 3_74
10456 8_12
8626 2_70
3988 18_35
10151 2_16
1385 7_62
7446 5_75
1090 8_57
2571 7_19
6136 3_76
8516 1_39
14762 19_28
2502 19_10
3962 12_75
4375 2_94
11150 11_13
13159 6_26
3948 12_4
4779 7_48
10890 19_33
7810 9_13
6791 2_27Gene set enrichment for genes (all tissues) with combined PIP>0.8
#GO enrichment analysis
library(enrichR)Welcome to enrichR
Checking connection ... Enrichr ... Connection is Live!
FlyEnrichr ... Connection is available!
WormEnrichr ... Connection is available!
YeastEnrichr ... Connection is available!
FishEnrichr ... Connection is available!dbs <- c("GO_Biological_Process_2021", "GO_Cellular_Component_2021", "GO_Molecular_Function_2021")
genes <- ctwas_gene_res_combined$genename[ctwas_gene_res_combined$susie_pip>0.8]
#number of genes for gene set enrichment
length(genes)[1] 46if (length(genes)>0){
GO_enrichment <- enrichr(genes, dbs)
for (db in dbs){
print(db)
df <- GO_enrichment[[db]]
print(plotEnrich(GO_enrichment[[db]]))
df <- df[df$Adjusted.P.value<0.05,c("Term", "Overlap", "Adjusted.P.value", "Genes")]
print(df)
}
#DisGeNET enrichment
# devtools::install_bitbucket("ibi_group/disgenet2r")
library(disgenet2r)
disgenet_api_key <- get_disgenet_api_key(
email = "wesleycrouse@gmail.com",
password = "uchicago1" )
Sys.setenv(DISGENET_API_KEY= disgenet_api_key)
res_enrich <-disease_enrichment(entities=genes, vocabulary = "HGNC",
database = "CURATED" )
df <- res_enrich@qresult[1:10, c("Description", "FDR", "Ratio", "BgRatio")]
print(df)
#WebGestalt enrichment
library(WebGestaltR)
background <- ctwas_gene_res$genename
#listGeneSet()
databases <- c("pathway_KEGG", "disease_GLAD4U", "disease_OMIM")
enrichResult <- WebGestaltR(enrichMethod="ORA", organism="hsapiens",
interestGene=genes, referenceGene=background,
enrichDatabase=databases, interestGeneType="genesymbol",
referenceGeneType="genesymbol", isOutput=F)
print(enrichResult[,c("description", "size", "overlap", "FDR", "database", "userId")])
}Uploading data to Enrichr... Done.
Querying GO_Biological_Process_2021... Done.
Querying GO_Cellular_Component_2021... Done.
Querying GO_Molecular_Function_2021... Done.
Parsing results... Done.
[1] "GO_Biological_Process_2021"
| Version | Author | Date |
|---|---|---|
| fe1399c | wesleycrouse | 2022-02-04 |
Term
1 sterol transport (GO:0015918)
2 regulation of cholesterol efflux (GO:0010874)
3 peptidyl-serine phosphorylation (GO:0018105)
4 peptidyl-serine modification (GO:0018209)
5 lipid transport (GO:0006869)
6 cholesterol transport (GO:0030301)
7 cellular response to insulin stimulus (GO:0032869)
8 cholesterol homeostasis (GO:0042632)
9 sterol homeostasis (GO:0055092)
10 regulation of cholesterol transport (GO:0032374)
11 positive regulation of cholesterol transport (GO:0032376)
12 cellular protein modification process (GO:0006464)
13 protein phosphorylation (GO:0006468)
14 intestinal cholesterol absorption (GO:0030299)
15 cellular response to sterol depletion (GO:0071501)
16 protein poly-ADP-ribosylation (GO:0070212)
17 organic substance transport (GO:0071702)
18 intestinal lipid absorption (GO:0098856)
19 peptidyl-threonine phosphorylation (GO:0018107)
20 cellular response to nutrient levels (GO:0031669)
21 peptidyl-threonine modification (GO:0018210)
22 positive regulation of protein export from nucleus (GO:0046827)
23 sphingolipid biosynthetic process (GO:0030148)
24 positive regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045737)
25 phospholipid metabolic process (GO:0006644)
26 cholesterol metabolic process (GO:0008203)
27 high-density lipoprotein particle remodeling (GO:0034375)
28 activin receptor signaling pathway (GO:0032924)
29 response to insulin (GO:0032868)
30 positive regulation of cyclin-dependent protein kinase activity (GO:1904031)
31 positive regulation of cholesterol efflux (GO:0010875)
32 regulation of protein export from nucleus (GO:0046825)
33 cholesterol efflux (GO:0033344)
34 positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)
35 cellular response to peptide hormone stimulus (GO:0071375)
36 regulation of DNA biosynthetic process (GO:2000278)
37 protein ADP-ribosylation (GO:0006471)
38 phosphorylation (GO:0016310)
39 secondary alcohol biosynthetic process (GO:1902653)
40 positive regulation of cell cycle G1/S phase transition (GO:1902808)
41 cholesterol biosynthetic process (GO:0006695)
42 positive regulation of cytokine-mediated signaling pathway (GO:0001961)
Overlap Adjusted.P.value
1 4/21 9.611793e-05
2 4/33 3.220317e-04
3 6/156 3.330474e-04
4 6/169 3.978591e-04
5 5/109 6.360410e-04
6 4/51 6.360410e-04
7 5/129 1.104152e-03
8 4/71 1.685189e-03
9 4/72 1.685189e-03
10 3/25 1.706066e-03
11 3/33 3.632079e-03
12 10/1025 5.075447e-03
13 7/496 6.650930e-03
14 2/9 8.297956e-03
15 2/9 8.297956e-03
16 2/10 9.709935e-03
17 4/136 1.053363e-02
18 2/11 1.053363e-02
19 3/60 1.262805e-02
20 3/66 1.581562e-02
21 3/67 1.581562e-02
22 2/15 1.635725e-02
23 3/74 1.919511e-02
24 2/17 1.919511e-02
25 3/76 1.919511e-02
26 3/77 1.919511e-02
27 2/18 1.933588e-02
28 2/19 2.080840e-02
29 3/84 2.154752e-02
30 2/20 2.154752e-02
31 2/23 2.678114e-02
32 2/23 2.678114e-02
33 2/24 2.828905e-02
34 2/26 3.223720e-02
35 3/106 3.589707e-02
36 2/29 3.684447e-02
37 2/29 3.684447e-02
38 5/400 3.873461e-02
39 2/34 4.794830e-02
40 2/35 4.830295e-02
41 2/35 4.830295e-02
42 2/36 4.985372e-02
Genes
1 ABCG8;CETP;NPC1L1;ABCA8
2 CETP;ABCA8;PLTP;TTC39B
3 GSK3B;CSNK1G3;PKN3;TNKS;PRKD2;GAS6
4 GSK3B;CSNK1G3;PKN3;TNKS;PRKD2;GAS6
5 CETP;ABCG8;NPC1L1;ABCA8;PLTP
6 CETP;ABCG8;NPC1L1;ABCA8
7 GSK3B;INSIG2;PCSK9;ZDHHC7;INHBB
8 CETP;ABCG8;PCSK9;TTC39B
9 CETP;ABCG8;PCSK9;TTC39B
10 CETP;ABCA8;TTC39B
11 CETP;ABCA8;PLTP
12 GSK3B;CSNK1G3;ACVR1C;PKN3;TNKS;PCSK9;PRKD2;FUT2;PARP9;GAS6
13 GSK3B;CSNK1G3;ACVR1C;PKN3;TNKS;PRKD2;GAS6
14 ABCG8;NPC1L1
15 INSIG2;NPC1L1
16 TNKS;PARP9
17 CETP;ABCG8;ABCA8;PLTP
18 ABCG8;NPC1L1
19 GSK3B;TNKS;PRKD2
20 PCSK9;INHBB;FADS1
21 GSK3B;TNKS;PRKD2
22 GSK3B;GAS6
23 PRKD2;KDSR;ABCA8
24 CCND2;PSRC1
25 PLPPR2;ACP6;FADS1
26 CETP;INSIG2;NPC1L1
27 CETP;PLTP
28 ACVR1C;INHBB
29 INSIG2;PCSK9;INHBB
30 CCND2;PSRC1
31 ABCA8;PLTP
32 GSK3B;GAS6
33 ABCG8;ABCA8
34 KMT2E;CCND2
35 INSIG2;PCSK9;INHBB
36 TNKS;PRKD2
37 TNKS;PARP9
38 GSK3B;ACVR1C;PKN3;PRKD2;GAS6
39 INSIG2;NPC1L1
40 KMT2E;CCND2
41 INSIG2;NPC1L1
42 PARP9;GAS6
[1] "GO_Cellular_Component_2021"
| Version | Author | Date |
|---|---|---|
| fe1399c | wesleycrouse | 2022-02-04 |
Term Overlap Adjusted.P.value
1 high-density lipoprotein particle (GO:0034364) 3/19 0.0006236096
Genes
1 CETP;HPR;PLTP
[1] "GO_Molecular_Function_2021" Term Overlap
1 cholesterol transfer activity (GO:0120020) 3/18
2 sterol transfer activity (GO:0120015) 3/19
3 low-density lipoprotein particle binding (GO:0030169) 2/17
4 protein serine/threonine kinase activity (GO:0004674) 5/344
5 lipoprotein particle binding (GO:0071813) 2/24
6 NAD+ ADP-ribosyltransferase activity (GO:0003950) 2/26
Adjusted.P.value Genes
1 0.0006666171 ABCG8;CETP;PLTP
2 0.0006666171 ABCG8;CETP;PLTP
3 0.0284582089 PCSK9;PLTP
4 0.0335585311 GSK3B;CSNK1G3;ACVR1C;PKN3;PRKD2
5 0.0335585311 PCSK9;PLTP
6 0.0335585311 TNKS;PARP9CSNK1G3 gene(s) from the input list not found in DisGeNET CURATEDFAM117B gene(s) from the input list not found in DisGeNET CURATEDSPTY2D1 gene(s) from the input list not found in DisGeNET CURATEDTTC39B gene(s) from the input list not found in DisGeNET CURATEDPKN3 gene(s) from the input list not found in DisGeNET CURATEDPSRC1 gene(s) from the input list not found in DisGeNET CURATEDC10orf88 gene(s) from the input list not found in DisGeNET CURATEDTRIM39 gene(s) from the input list not found in DisGeNET CURATEDNPC1L1 gene(s) from the input list not found in DisGeNET CURATEDPARP9 gene(s) from the input list not found in DisGeNET CURATEDRP4-781K5.7 gene(s) from the input list not found in DisGeNET CURATEDTNKS gene(s) from the input list not found in DisGeNET CURATEDUSP1 gene(s) from the input list not found in DisGeNET CURATEDHPR gene(s) from the input list not found in DisGeNET CURATEDFCGRT gene(s) from the input list not found in DisGeNET CURATEDCNIH4 gene(s) from the input list not found in DisGeNET CURATEDRPS11 gene(s) from the input list not found in DisGeNET CURATEDPELO gene(s) from the input list not found in DisGeNET CURATEDACP6 gene(s) from the input list not found in DisGeNET CURATED Description FDR Ratio BgRatio
49 Hypercholesterolemia, Familial 0.003739835 3/27 18/9703
48 Hypercholesterolemia 0.020142067 3/27 39/9703
13 Blood Platelet Disorders 0.029644269 2/27 16/9703
40 Cardiomegaly 0.029644269 3/27 82/9703
54 Hypertriglyceridemia 0.029644269 2/27 15/9703
77 Opisthorchiasis 0.029644269 1/27 1/9703
106 Caliciviridae Infections 0.029644269 1/27 1/9703
112 Infections, Calicivirus 0.029644269 1/27 1/9703
123 Dyslipidemias 0.029644269 2/27 24/9703
133 Opisthorchis felineus Infection 0.029644269 1/27 1/9703******************************************
* *
* Welcome to WebGestaltR ! *
* *
******************************************
| Version | Author | Date |
|---|---|---|
| fe1399c | wesleycrouse | 2022-02-04 |
Loading the functional categories...
Loading the ID list...
Loading the reference list...
Performing the enrichment analysis...
description size overlap FDR
1 Dyslipidaemia 115 10 8.413963e-09
2 Coronary Artery Disease 225 12 8.413963e-09
3 Coronary Disease 252 12 2.125101e-08
4 Myocardial Ischemia 259 10 7.149474e-06
5 Arteriosclerosis 253 9 6.959030e-05
6 Heart Diseases 348 10 7.744305e-05
7 Hyperlipidemias 89 6 1.847206e-04
8 Hypercholesterolemia 92 6 1.968495e-04
9 Arterial Occlusive Diseases 255 8 5.427222e-04
10 Insulin Resistance 187 7 7.226607e-04
11 Cholesterol metabolism 45 4 3.615059e-03
12 familial hypercholesterolemia 62 4 1.189672e-02
13 Cardiovascular Diseases 415 8 1.299467e-02
14 Hypertriglyceridemia 66 4 1.304496e-02
15 Hyperinsulinism 141 5 1.687787e-02
16 Hyperlipidemia, Familial Combined 28 3 1.687787e-02
17 Hyperlipoproteinemias 28 3 1.687787e-02
18 Vascular Diseases 342 7 1.862634e-02
19 Hyperlipoproteinemia Type II 30 3 1.862634e-02
20 Obesity 265 6 3.250065e-02
21 Hedgehog signaling pathway 42 3 4.631059e-02
database
1 disease_GLAD4U
2 disease_GLAD4U
3 disease_GLAD4U
4 disease_GLAD4U
5 disease_GLAD4U
6 disease_GLAD4U
7 disease_GLAD4U
8 disease_GLAD4U
9 disease_GLAD4U
10 disease_GLAD4U
11 pathway_KEGG
12 disease_GLAD4U
13 disease_GLAD4U
14 disease_GLAD4U
15 disease_GLAD4U
16 disease_GLAD4U
17 disease_GLAD4U
18 disease_GLAD4U
19 disease_GLAD4U
20 disease_GLAD4U
21 pathway_KEGG
userId
1 PSRC1;TIMD4;INSIG2;NPC1L1;CETP;PCSK9;PLTP;FADS1;TTC39B;ABCG8
2 PSRC1;INSIG2;NPC1L1;CETP;PCSK9;PLTP;FADS1;CCDC92;SPTY2D1;FUT2;TTC39B;ABCG8
3 PSRC1;TIMD4;INSIG2;NPC1L1;CETP;PCSK9;PLTP;FADS1;CCDC92;FUT2;TTC39B;ABCG8
4 PSRC1;INSIG2;NPC1L1;CETP;PCSK9;PLTP;FADS1;CCDC92;TTC39B;ABCG8
5 PSRC1;HPR;NPC1L1;CETP;PCSK9;PLTP;FADS1;TTC39B;ABCG8
6 PSRC1;NPC1L1;CETP;PCSK9;PLTP;FADS1;KCNK3;CCDC92;TTC39B;ABCG8
7 TIMD4;NPC1L1;CETP;PCSK9;PLTP;ABCG8
8 INSIG2;NPC1L1;CETP;PCSK9;PLTP;ABCG8
9 PSRC1;NPC1L1;CETP;PCSK9;PLTP;FADS1;TTC39B;ABCG8
10 INSIG2;CETP;PCSK9;PLTP;FADS1;CCDC92;ABCG8
11 CETP;PCSK9;PLTP;ABCG8
12 NPC1L1;CETP;PCSK9;ABCG8
13 PSRC1;GAS6;CETP;PCSK9;PLTP;FADS1;TTC39B;ABCG8
14 TIMD4;CETP;PCSK9;PLTP
15 INSIG2;CETP;PCSK9;PLTP;FADS1
16 NPC1L1;CETP;PCSK9
17 NPC1L1;CETP;PCSK9
18 PSRC1;GAS6;NPC1L1;CETP;PCSK9;PLTP;ABCG8
19 NPC1L1;CETP;PCSK9
20 INSIG2;CETP;PCSK9;PLTP;FADS1;TTC39B
21 GSK3B;CSNK1G3;CCND2Sensitivity, specificity and precision for silver standard genes
library("readxl")
known_annotations <- read_xlsx("data/summary_known_genes_annotations.xlsx", sheet="LDL")New names:
* `` -> ...4
* `` -> ...5known_annotations <- unique(known_annotations$`Gene Symbol`)
unrelated_genes <- ctwas_gene_res$genename[!(ctwas_gene_res$genename %in% known_annotations)]
#number of genes in known annotations
print(length(known_annotations))[1] 69#number of genes in known annotations with imputed expression
print(sum(known_annotations %in% ctwas_gene_res$genename))[1] 62#assign ctwas, TWAS, and bystander genes
ctwas_genes <- ctwas_gene_res_combined$genename[ctwas_gene_res_combined$susie_pip>0.8]
twas_genes <- unique(ctwas_gene_res$genename[abs(ctwas_gene_res$z)>sig_thresh])
novel_genes <- ctwas_genes[!(ctwas_genes %in% twas_genes)]
#significance threshold for TWAS
print(sig_thresh)[1] 4.830276#number of ctwas genes
length(ctwas_genes)[1] 46#number of TWAS genes
length(twas_genes)[1] 342#show novel genes (ctwas genes with not in TWAS genes)
ctwas_gene_res[ctwas_gene_res$genename %in% novel_genes,report_cols] genename region_tag susie_pip mu2 PVE z
7879 ACP6 1_73 3.328396e-01 26.136586 2.531653e-05 4.613976
22610 ACP6 1_73 2.805128e-01 25.687081 2.096948e-05 4.575774
36368 ACP6 1_73 3.731298e-01 26.755920 2.905361e-05 4.648193
9348 KCNK3 2_16 1.941196e-01 25.280581 1.428160e-05 -4.772296
24047 KCNK3 2_16 7.364068e-01 27.954230 5.990812e-05 -4.821789
4022 ACVR1C 2_94 1.423560e-01 53.864110 2.231493e-05 -4.185879
18767 ACVR1C 2_94 2.950636e-03 10.807042 9.279889e-08 1.018242
32934 ACVR1C 2_94 6.933653e-01 29.298383 5.911886e-05 -4.737778
1003 TPD52 8_57 1.388664e-01 21.095924 8.525427e-06 -4.121885
15735 TPD52 8_57 7.740073e-01 25.401738 5.721749e-05 -4.557712
30242 TPD52 8_57 2.710937e-03 9.338858 7.367726e-08 -1.614904
7167 TTC39B 9_13 5.730017e-03 12.095243 2.016930e-07 -2.573867
21910 TTC39B 9_13 1.077235e-02 13.765422 4.315392e-07 -2.942254
35763 TTC39B 9_13 7.959610e-01 25.552152 5.918880e-05 -4.287139
3633 CCND2 12_4 3.264341e-01 24.040090 2.283768e-05 -4.128258
18377 CCND2 12_4 2.522857e-01 23.137619 1.698759e-05 -4.065830
32584 CCND2 12_4 2.522857e-01 23.137619 1.698759e-05 -4.065830
3674 KDSR 18_35 1.339970e-01 21.704742 8.463892e-06 -4.119957
18413 KDSR 18_35 6.021218e-02 19.864719 3.480864e-06 -3.912562
32619 KDSR 18_35 7.380520e-01 25.775701 5.536276e-05 -4.526287
75 KMT2E 7_65 1.000000e+00 13998.554118 4.073835e-02 -3.002337
14809 KMT2E 7_65 0.000000e+00 440.494923 0.000000e+00 1.548766
2313 PLPPR2 19_10 5.533410e-01 32.979373 5.310746e-05 3.965665
17027 PLPPR2 19_10 2.894205e-01 31.525202 2.655263e-05 3.866630
31412 PLPPR2 19_10 3.431568e-03 23.680802 2.364881e-07 3.457770
6042 RPS11 19_34 3.313946e-01 2606.795903 2.514043e-03 -2.499092
2199 FCGRT 19_34 9.999838e-01 1877.122123 5.462680e-03 -4.165895
20784 RPS11 19_34 3.372197e-01 2606.787632 2.558226e-03 -2.496980
16911 FCGRT 19_34 1.714892e-05 2067.378319 1.031756e-07 -3.478901
34761 RPS11 19_34 3.313946e-01 2606.795903 2.514043e-03 -2.499092
31303 FCGRT 19_34 6.088128e-06 773.364167 1.370213e-08 2.279041
tissue2 num_eqtl
7879 AS 4
22610 AVO 4
36368 L 2
9348 AS 1
24047 AVO 1
4022 AS 1
18767 AVO 1
32934 L 2
1003 AS 2
15735 AVO 2
30242 L 1
7167 AS 1
21910 AVO 2
35763 L 3
3633 AS 2
18377 AVO 1
32584 L 1
3674 AS 2
18413 AVO 3
32619 L 1
75 AS 1
14809 AVO 1
2313 AS 1
17027 AVO 1
31412 L 1
6042 AS 1
2199 AS 2
20784 AVO 2
16911 AVO 2
34761 L 1
31303 L 3#sensitivity / recall
sensitivity <- rep(NA,2)
names(sensitivity) <- c("ctwas", "TWAS")
sensitivity["ctwas"] <- sum(ctwas_genes %in% known_annotations)/length(known_annotations)
sensitivity["TWAS"] <- sum(twas_genes %in% known_annotations)/length(known_annotations)
sensitivity ctwas TWAS
0.1014493 0.3623188 #specificity
specificity <- rep(NA,2)
names(specificity) <- c("ctwas", "TWAS")
specificity["ctwas"] <- sum(!(unrelated_genes %in% ctwas_genes))/length(unrelated_genes)
specificity["TWAS"] <- sum(!(unrelated_genes %in% twas_genes))/length(unrelated_genes)
specificity ctwas TWAS
0.9971536 0.9784881 #precision / PPV
precision <- rep(NA,2)
names(precision) <- c("ctwas", "TWAS")
precision["ctwas"] <- sum(ctwas_genes %in% known_annotations)/length(ctwas_genes)
precision["TWAS"] <- sum(twas_genes %in% known_annotations)/length(twas_genes)
precision ctwas TWAS
0.15217391 0.07309942 #ROC curves
pip_range <- (0:1000)/1000
sensitivity <- rep(NA, length(pip_range))
specificity <- rep(NA, length(pip_range))
for (index in 1:length(pip_range)){
pip <- pip_range[index]
ctwas_genes <- ctwas_gene_res_combined$genename[ctwas_gene_res_combined$susie_pip>=pip]
sensitivity[index] <- sum(ctwas_genes %in% known_annotations)/length(known_annotations)
specificity[index] <- sum(!(unrelated_genes %in% ctwas_genes))/length(unrelated_genes)
}
plot(1-specificity, sensitivity, type="l", xlim=c(0,1), ylim=c(0,1))
sig_thresh_range <- seq(from=0, to=max(abs(ctwas_gene_res$z)), length.out=length(pip_range))
for (index in 1:length(sig_thresh_range)){
sig_thresh_plot <- sig_thresh_range[index]
twas_genes <- unique(ctwas_gene_res$genename[abs(ctwas_gene_res$z)>=sig_thresh_plot])
sensitivity[index] <- sum(twas_genes %in% known_annotations)/length(known_annotations)
specificity[index] <- sum(!(unrelated_genes %in% twas_genes))/length(unrelated_genes)
}
lines(1-specificity, sensitivity, xlim=c(0,1), ylim=c(0,1), col="red", lty=2)
Sensitivity, specificity and precision for silver standard genes (all tissues) - bystanders only
This section first uses imputed silver standard genes to identify bystander genes within 1Mb. The bystander gene list is then subset to only genes with imputed expression in this analysis. Then, the ctwas and TWAS gene lists from this analysis are subset to only genes that are in the (subset) silver standard and bystander genes. These gene lists are then used to compute sensitivity, specificity and precision for ctwas and TWAS.
# library(biomaRt)
# library(GenomicRanges)
#
# ensembl <- useEnsembl(biomart="ENSEMBL_MART_ENSEMBL", dataset="hsapiens_gene_ensembl")
# G_list <- getBM(filters= "chromosome_name", attributes= c("hgnc_symbol","chromosome_name","start_position","end_position","gene_biotype"), values=1:22, mart=ensembl)
# G_list <- G_list[G_list$hgnc_symbol!="",]
# G_list <- G_list[G_list$gene_biotype %in% c("protein_coding","lncRNA"),]
# G_list$start <- G_list$start_position
# G_list$end <- G_list$end_position
# G_list_granges <- makeGRangesFromDataFrame(G_list, keep.extra.columns=T)
#
# #remove genes without imputed expression from gene lists
# known_annotations <- known_annotations[known_annotations %in% ctwas_gene_res_combined$genename]
#
# known_annotations_positions <- G_list[G_list$hgnc_symbol %in% known_annotations,]
# half_window <- 1000000
# known_annotations_positions$start <- known_annotations_positions$start_position - half_window
# known_annotations_positions$end <- known_annotations_positions$end_position + half_window
# known_annotations_positions$start[known_annotations_positions$start<1] <- 1
# known_annotations_granges <- makeGRangesFromDataFrame(known_annotations_positions, keep.extra.columns=T)
#
# bystanders <- findOverlaps(known_annotations_granges,G_list_granges)
# bystanders <- unique(subjectHits(bystanders))
# bystanders <- G_list$hgnc_symbol[bystanders]
# bystanders <- unique(bystanders[!(bystanders %in% known_annotations)])
# unrelated_genes <- bystanders
#
# #save gene lists
# save(known_annotations, file=paste0(results_dir, "/known_annotations.Rd"))
# save(unrelated_genes, file=paste0(results_dir, "/bystanders.Rd"))
load(paste0(results_dir, "/known_annotations.Rd"))
load(paste0(results_dir, "/bystanders.Rd"))
#remove genes without imputed expression from bystander list
unrelated_genes <- unrelated_genes[unrelated_genes %in% ctwas_gene_res$genename]
#number of genes in known annotations (with imputed expression)
print(length(known_annotations))[1] 62#number of bystander genes (with imputed expression)
print(length(unrelated_genes))[1] 1067#subset results to genes in known annotations or bystanders
ctwas_gene_res_combined_subset <- ctwas_gene_res_combined[ctwas_gene_res_combined$genename %in% c(known_annotations, unrelated_genes),]
ctwas_gene_res_subset <- ctwas_gene_res[ctwas_gene_res$genename %in% c(known_annotations, unrelated_genes),]
#assign ctwas and TWAS genes
ctwas_genes <- ctwas_gene_res_combined_subset$genename[ctwas_gene_res_combined_subset$susie_pip>0.8]
twas_genes <- unique(ctwas_gene_res_subset$genename[abs(ctwas_gene_res_subset$z)>sig_thresh])
#significance threshold for TWAS
print(sig_thresh)[1] 4.830276#number of ctwas genes (in known annotations or bystanders)
length(ctwas_genes)[1] 10#number of TWAS genes (in known annotations or bystanders)
length(twas_genes)[1] 91#sensitivity / recall
sensitivity <- rep(NA,2)
names(sensitivity) <- c("ctwas", "TWAS")
sensitivity["ctwas"] <- sum(ctwas_genes %in% known_annotations)/length(known_annotations)
sensitivity["TWAS"] <- sum(twas_genes %in% known_annotations)/length(known_annotations)
sensitivity ctwas TWAS
0.1129032 0.4032258 #specificity / (1 - False Positive Rate)
specificity <- rep(NA,2)
names(specificity) <- c("ctwas", "TWAS")
specificity["ctwas"] <- sum(!(unrelated_genes %in% ctwas_genes))/length(unrelated_genes)
specificity["TWAS"] <- sum(!(unrelated_genes %in% twas_genes))/length(unrelated_genes)
specificity ctwas TWAS
0.9971884 0.9381443 #precision / PPV / (1 - False Discovery Rate)
precision <- rep(NA,2)
names(precision) <- c("ctwas", "TWAS")
precision["ctwas"] <- sum(ctwas_genes %in% known_annotations)/length(ctwas_genes)
precision["TWAS"] <- sum(twas_genes %in% known_annotations)/length(twas_genes)
precision ctwas TWAS
0.7000000 0.2747253 #store sensitivity and specificity calculations for plots
sensitivity_plot <- sensitivity
specificity_plot <- specificity
#precision / PPV by PIP bin
pip_range <- c(0.2, 0.4, 0.6, 0.8, 2)
precision_range <- rep(NA, length(pip_range))
for (i in 1:length(pip_range)){
pip_upper <- pip_range[i]
if (i==1){
pip_lower <- 0
} else {
pip_lower <- pip_range[i-1]
}
#assign ctwas genes in PIP bin
ctwas_genes <- ctwas_gene_res_combined_subset$genename[ctwas_gene_res_combined_subset$susie_pip>=pip_lower & ctwas_gene_res_combined_subset$susie_pip<pip_upper]
precision_range[i] <- sum(ctwas_genes %in% known_annotations)/length(ctwas_genes)
}
names(precision_range) <- paste(c(0, pip_range[-length(pip_range)]), pip_range,sep=" - ")
barplot(precision_range, ylim=c(0,1), main="Precision by PIP Range", xlab="PIP Range", ylab="Precision")
abline(h=0.2, lty=2)
abline(h=0.4, lty=2)
abline(h=0.6, lty=2)
abline(h=0.8, lty=2)
barplot(precision_range, add=T, col="darkgrey")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
#precision / PPV by PIP threshold
pip_range <- c(0.5, 0.8, 2)
precision_range <- rep(NA, length(pip_range))
number_detected <- rep(NA, length(pip_range))
for (i in 1:length(pip_range)){
pip_upper <- pip_range[i]
if (i==1){
pip_lower <- 0
} else {
pip_lower <- pip_range[i-1]
}
#assign ctwas genes using PIP threshold
ctwas_genes <- ctwas_gene_res_combined_subset$genename[ctwas_gene_res_combined_subset$susie_pip>=pip_lower]
number_detected[i] <- length(ctwas_genes)
precision_range[i] <- sum(ctwas_genes %in% known_annotations)/length(ctwas_genes)
}
names(precision_range) <- paste0(">= ", c(0, pip_range[-length(pip_range)]))
precision_range <- precision_range*100
precision_range <- c(precision_range, precision["TWAS"]*100)
names(precision_range)[4] <- "TWAS Bonferroni"
number_detected <- c(number_detected, length(twas_genes))
barplot(precision_range, ylim=c(0,100), main="Precision for Distinguishing Silver Standard and Bystander Genes", xlab="PIP Threshold for Detection", ylab="% of Detected Genes in Silver Standard")
abline(h=20, lty=2)
abline(h=40, lty=2)
abline(h=60, lty=2)
abline(h=80, lty=2)
xx <- barplot(precision_range, add=T, col=c(rep("darkgrey",3), "white"))
text(x = xx, y = rep(0, length(number_detected)), label = paste0(number_detected, " detected"), pos = 3, cex=0.8)
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
#text(x = xx, y = precision_range, label = paste0(round(precision_range,1), "%"), pos = 3, cex=0.8, offset = 1.5)
#false discovery rate by PIP threshold
barplot(100-precision_range, ylim=c(0,100), main="False Discovery Rate for Distinguishing Silver Standard and Bystander Genes", xlab="PIP Threshold for Detection", ylab="% Bystanders in Detected Genes")
abline(h=20, lty=2)
abline(h=40, lty=2)
abline(h=60, lty=2)
abline(h=80, lty=2)
xx <- barplot(100-precision_range, add=T, col=c(rep("darkgrey",3), "white"))
text(x = xx, y = rep(0, length(number_detected)), label = paste0(number_detected, " detected"), pos = 3, cex=0.8)
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
#text(x = xx, y = precision_range, label = paste0(round(precision_range,1), "%"), pos = 3, cex=0.8, offset = 1.5)
#ROC curves
pip_range <- (0:1000)/1000
sensitivity <- rep(NA, length(pip_range))
specificity <- rep(NA, length(pip_range))
for (index in 1:length(pip_range)){
pip <- pip_range[index]
ctwas_genes <- ctwas_gene_res_combined_subset$genename[ctwas_gene_res_combined_subset$susie_pip>=pip]
sensitivity[index] <- sum(ctwas_genes %in% known_annotations)/length(known_annotations)
specificity[index] <- sum(!(unrelated_genes %in% ctwas_genes))/length(unrelated_genes)
}
plot(1-specificity, sensitivity, type="l", xlim=c(0,1), ylim=c(0,1), main="", xlab="1 - Specificity", ylab="Sensitivity")
title(expression("ROC Curve for cTWAS (black) and TWAS (" * phantom("red") * ")"))
title(expression(phantom("ROC Curve for cTWAS (black) and TWAS (") * "red" * phantom(")")), col.main="red")
sig_thresh_range <- seq(from=0, to=max(abs(ctwas_gene_res_subset$z)), length.out=length(pip_range))
for (index in 1:length(sig_thresh_range)){
sig_thresh_plot <- sig_thresh_range[index]
twas_genes <- unique(ctwas_gene_res_subset$genename[abs(ctwas_gene_res_subset$z)>=sig_thresh_plot])
sensitivity[index] <- sum(twas_genes %in% known_annotations)/length(known_annotations)
specificity[index] <- sum(!(unrelated_genes %in% twas_genes))/length(unrelated_genes)
}
lines(1-specificity, sensitivity, xlim=c(0,1), ylim=c(0,1), col="red", lty=1)
abline(a=0,b=1,lty=3)
#add previously computed points from the analysis
ctwas_genes <- ctwas_gene_res_combined_subset$genename[ctwas_gene_res_combined_subset$susie_pip>0.8]
twas_genes <- unique(ctwas_gene_res_subset$genename[abs(ctwas_gene_res_subset$z)>sig_thresh])
points(1-specificity_plot["ctwas"], sensitivity_plot["ctwas"], pch=21, bg="black")
points(1-specificity_plot["TWAS"], sensitivity_plot["TWAS"], pch=21, bg="red")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
Locus Plots - 1_67
library(ctwas)
Attaching package: 'ctwas'The following object is masked _by_ '.GlobalEnv':
z_snplocus_plot <- function(region_tag, rerun_ctwas = F, plot_eqtl = T, label="cTWAS"){
region_tag1 <- unlist(strsplit(region_tag, "_"))[1]
region_tag2 <- unlist(strsplit(region_tag, "_"))[2]
a <- ctwas_res[ctwas_res$region_tag==region_tag,]
regionlist <- readRDS(paste0(results_dir, "/", analysis_id, "_ctwas.regionlist.RDS"))
region <- regionlist[[as.numeric(region_tag1)]][[region_tag2]]
R_snp_info <- do.call(rbind, lapply(region$regRDS, function(x){data.table::fread(paste0(tools::file_path_sans_ext(x), ".Rvar"))}))
if (isTRUE(rerun_ctwas)){
ld_exprfs <- paste0(results_dir, "/", analysis_id, "_expr_chr", 1:22, ".expr.gz")
temp_reg <- data.frame("chr" = paste0("chr",region_tag1), "start" = region$start, "stop" = region$stop)
write.table(temp_reg,
#file= paste0(results_dir, "/", analysis_id, "_ctwas.temp.reg.txt") ,
file= "temp_reg.txt",
row.names=F, col.names=T, sep="\t", quote = F)
load(paste0(results_dir, "/", analysis_id, "_expr_z_snp.Rd"))
z_gene_temp <- z_gene[z_gene$id %in% a$id[a$type=="gene"],]
z_snp_temp <- z_snp[z_snp$id %in% R_snp_info$id,]
ctwas_rss(z_gene_temp, z_snp_temp, ld_exprfs, ld_pgenfs = NULL,
ld_R_dir = dirname(region$regRDS)[1],
ld_regions_custom = "temp_reg.txt", thin = 1,
outputdir = ".", outname = "temp", ncore = 1, ncore.rerun = 1, prob_single = 0,
group_prior = estimated_group_prior, group_prior_var = estimated_group_prior_var,
estimate_group_prior = F, estimate_group_prior_var = F)
a <- data.table::fread("temp.susieIrss.txt", header = T)
rownames(z_snp_temp) <- z_snp_temp$id
z_snp_temp <- z_snp_temp[a$id[a$type=="SNP"],]
z_gene_temp <- z_gene_temp[a$id[a$type=="gene"],]
a$z <- NA
a$z[a$type=="SNP"] <- z_snp_temp$z
a$z[a$type=="gene"] <- z_gene_temp$z
}
a$ifcausal <- 0
focus <- a$id[a$type=="gene"][which.max(abs(a$z[a$type=="gene"]))]
a$ifcausal <- as.numeric(a$id==focus)
a$PVALUE <- (-log(2) - pnorm(abs(a$z), lower.tail=F, log.p=T))/log(10)
# R_gene <- readRDS(region$R_g_file)
# R_snp_gene <- readRDS(region$R_sg_file)
# R_snp <- as.matrix(Matrix::bdiag(lapply(region$regRDS, readRDS)))
#
# rownames(R_gene) <- region$gid
# colnames(R_gene) <- region$gid
# rownames(R_snp_gene) <- R_snp_info$id
# colnames(R_snp_gene) <- region$gid
# rownames(R_snp) <- R_snp_info$id
# colnames(R_snp) <- R_snp_info$id
a$r2max <- 0
# a$r2max[a$type=="gene"] <- R_gene[focus,a$id[a$type=="gene"]]
# a$r2max[a$type=="SNP"] <- R_snp_gene[a$id[a$type=="SNP"],focus]
r2cut <- 0.4
colorsall <- c("#7fc97f", "#beaed4", "#fdc086")
layout(matrix(1:2, ncol = 1), widths = 1, heights = c(1.5,1.5), respect = FALSE)
par(mar = c(0, 4.1, 4.1, 2.1))
plot(a$pos[a$type=="SNP"], a$PVALUE[a$type == "SNP"], pch = 19, xlab=paste0("Chromosome ", region_tag1, " Position"),frame.plot=FALSE, col = "white", ylim= c(-0.1,1.1), ylab = "cTWAS PIP", xaxt = 'n')
grid()
points(a$pos[a$type=="SNP"], a$susie_pip[a$type == "SNP"], pch = 21, xlab="Genomic position", bg = colorsall[1])
points(a$pos[a$type=="SNP" & a$r2max > r2cut], a$susie_pip[a$type == "SNP" & a$r2max >r2cut], pch = 21, bg = "purple")
points(a$pos[a$type=="SNP" & a$ifcausal == 1], a$susie_pip[a$type == "SNP" & a$ifcausal == 1], pch = 21, bg = "salmon")
points(a$pos[a$type=="gene"], a$susie_pip[a$type == "gene"], pch = 22, bg = colorsall[1], cex = 2)
points(a$pos[a$type=="gene" & a$r2max > r2cut], a$susie_pip[a$type == "gene" & a$r2max > r2cut], pch = 22, bg = "purple", cex = 2)
points(a$pos[a$type=="gene" & a$ifcausal == 1], a$susie_pip[a$type == "gene" & a$ifcausal == 1], pch = 22, bg = "salmon", cex = 2)
if (isTRUE(plot_eqtl)){
for (cgene in a[a$type=="gene" & a$ifcausal == 1, ]$id){
load(paste0(results_dir, "/",analysis_id, "_expr_chr", region_tag1, ".exprqc.Rd"))
eqtls <- rownames(wgtlist[[cgene]])
points(a[a$id %in% eqtls,]$pos, rep( -0.15, nrow(a[a$id %in% eqtls,])), pch = "|", col = "salmon", cex = 1.5)
}
}
legend(min(a$pos), y= 1.1 ,c("Gene", "SNP"), pch = c(22,21), title="Shape Legend", bty ='n', cex=0.6, title.adj = 0)
legend(min(a$pos), y= 0.7 ,c("Lead TWAS Gene", "R2 > 0.4", "R2 <= 0.4"), pch = 19, col = c("salmon", "purple", colorsall[1]), title="Color Legend", bty ='n', cex=0.6, title.adj = 0)
if (label=="cTWAS"){
text(a$pos[a$id==focus], a$susie_pip[a$id==focus], labels=ctwas_gene_res$genename[ctwas_gene_res$id==focus], pos=3, cex=0.6)
}
par(mar = c(4.1, 4.1, 0.5, 2.1))
plot(a$pos[a$type=="SNP"], a$PVALUE[a$type == "SNP"], pch = 21, xlab=paste0("Chromosome ", region_tag1, " Position"), frame.plot=FALSE, bg = colorsall[1], ylab = "TWAS -log10(p value)", panel.first = grid(), ylim =c(0, max(a$PVALUE)*1.2))
points(a$pos[a$type=="SNP" & a$r2max > r2cut], a$PVALUE[a$type == "SNP" & a$r2max > r2cut], pch = 21, bg = "purple")
points(a$pos[a$type=="SNP" & a$ifcausal == 1], a$PVALUE[a$type == "SNP" & a$ifcausal == 1], pch = 21, bg = "salmon")
points(a$pos[a$type=="gene"], a$PVALUE[a$type == "gene"], pch = 22, bg = colorsall[1], cex = 2)
points(a$pos[a$type=="gene" & a$r2max > r2cut], a$PVALUE[a$type == "gene" & a$r2max > r2cut], pch = 22, bg = "purple", cex = 2)
points(a$pos[a$type=="gene" & a$ifcausal == 1], a$PVALUE[a$type == "gene" & a$ifcausal == 1], pch = 22, bg = "salmon", cex = 2)
abline(h=-log10(alpha/nrow(ctwas_gene_res)), col ="red", lty = 2)
if (label=="TWAS"){
text(a$pos[a$id==focus], a$PVALUE[a$id==focus], labels=ctwas_gene_res$genename[ctwas_gene_res$id==focus], pos=3, cex=0.6)
}
}
locus_plot("1_67", label="TWAS")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
Locus Plots - 5_45 - Thin
locus_plot("5_45", label="TWAS")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
Locus Plots - 8_12
locus_plot4 <- function(region_tag, rerun_ctwas = F, plot_eqtl = T, label="cTWAS"){
region_tag1 <- unlist(strsplit(region_tag, "_"))[1]
region_tag2 <- unlist(strsplit(region_tag, "_"))[2]
a <- ctwas_res[ctwas_res$region_tag==region_tag,]
regionlist <- readRDS(paste0(results_dir, "/", analysis_id, "_ctwas.regionlist.RDS"))
region <- regionlist[[as.numeric(region_tag1)]][[region_tag2]]
R_snp_info <- do.call(rbind, lapply(region$regRDS, function(x){data.table::fread(paste0(tools::file_path_sans_ext(x), ".Rvar"))}))
if (isTRUE(rerun_ctwas)){
ld_exprfs <- paste0(results_dir, "/", analysis_id, "_expr_chr", 1:22, ".expr.gz")
temp_reg <- data.frame("chr" = paste0("chr",region_tag1), "start" = region$start, "stop" = region$stop)
write.table(temp_reg,
#file= paste0(results_dir, "/", analysis_id, "_ctwas.temp.reg.txt") ,
file= "temp_reg.txt",
row.names=F, col.names=T, sep="\t", quote = F)
load(paste0(results_dir, "/", analysis_id, "_expr_z_snp.Rd"))
z_gene_temp <- z_gene[z_gene$id %in% a$id[a$type=="gene"],]
z_snp_temp <- z_snp[z_snp$id %in% R_snp_info$id,]
ctwas_rss(z_gene_temp, z_snp_temp, ld_exprfs, ld_pgenfs = NULL,
ld_R_dir = dirname(region$regRDS)[1],
ld_regions_custom = "temp_reg.txt", thin = 1,
outputdir = ".", outname = "temp", ncore = 1, ncore.rerun = 1, prob_single = 0,
group_prior = estimated_group_prior, group_prior_var = estimated_group_prior_var,
estimate_group_prior = F, estimate_group_prior_var = F)
a <- data.table::fread("temp.susieIrss.txt", header = T)
rownames(z_snp_temp) <- z_snp_temp$id
z_snp_temp <- z_snp_temp[a$id[a$type=="SNP"],]
z_gene_temp <- z_gene_temp[a$id[a$type=="gene"],]
a$z <- NA
a$z[a$type=="SNP"] <- z_snp_temp$z
a$z[a$type=="gene"] <- z_gene_temp$z
}
a$ifcausal <- 0
focus <- a$id[a$type=="gene"][which.max(abs(a$z[a$type=="gene"]))]
a$ifcausal <- as.numeric(a$id==focus)
a$PVALUE <- (-log(2) - pnorm(abs(a$z), lower.tail=F, log.p=T))/log(10)
# R_gene <- readRDS(region$R_g_file)
# R_snp_gene <- readRDS(region$R_sg_file)
# R_snp <- as.matrix(Matrix::bdiag(lapply(region$regRDS, readRDS)))
#
# rownames(R_gene) <- region$gid
# colnames(R_gene) <- region$gid
# rownames(R_snp_gene) <- R_snp_info$id
# colnames(R_snp_gene) <- region$gid
# rownames(R_snp) <- R_snp_info$id
# colnames(R_snp) <- R_snp_info$id
a$r2max <- 0
# a$r2max[a$type=="gene"] <- R_gene[focus,a$id[a$type=="gene"]]
# a$r2max[a$type=="SNP"] <- R_snp_gene[a$id[a$type=="SNP"],focus]
r2cut <- 0.4
colorsall <- c("#7fc97f", "#beaed4", "#fdc086")
layout(matrix(1:2, ncol = 1), widths = 1, heights = c(1.5,1.5), respect = FALSE)
par(mar = c(0, 4.1, 4.1, 2.1))
plot(a$pos[a$type=="SNP"], a$PVALUE[a$type == "SNP"], pch = 19, xlab=paste0("Chromosome ", region_tag1, " Position"),frame.plot=FALSE, col = "white", ylim= c(-0.1,1.1), ylab = "cTWAS PIP", xaxt = 'n')
grid()
points(a$pos[a$type=="SNP"], a$susie_pip[a$type == "SNP"], pch = 21, xlab="Genomic position", bg = colorsall[1])
points(a$pos[a$type=="SNP" & a$r2max > r2cut], a$susie_pip[a$type == "SNP" & a$r2max >r2cut], pch = 21, bg = "purple")
points(a$pos[a$type=="SNP" & a$ifcausal == 1], a$susie_pip[a$type == "SNP" & a$ifcausal == 1], pch = 21, bg = "salmon")
points(a$pos[a$type=="gene"], a$susie_pip[a$type == "gene"], pch = 22, bg = colorsall[1], cex = 2)
points(a$pos[a$type=="gene" & a$r2max > r2cut], a$susie_pip[a$type == "gene" & a$r2max > r2cut], pch = 22, bg = "purple", cex = 2)
points(a$pos[a$type=="gene" & a$ifcausal == 1], a$susie_pip[a$type == "gene" & a$ifcausal == 1], pch = 22, bg = "salmon", cex = 2)
if (isTRUE(plot_eqtl)){
for (cgene in a[a$type=="gene" & a$ifcausal == 1, ]$id){
load(paste0(results_dir, "/",analysis_id, "_expr_chr", region_tag1, ".exprqc.Rd"))
eqtls <- rownames(wgtlist[[cgene]])
points(a[a$id %in% eqtls,]$pos, rep( -0.15, nrow(a[a$id %in% eqtls,])), pch = "|", col = "salmon", cex = 1.5)
}
}
#legend(min(a$pos), y= 1.1 ,c("Gene", "SNP"), pch = c(22,21), title="Shape Legend", bty ='n', cex=0.6, title.adj = 0)
#legend(min(a$pos), y= 0.7 ,c("Lead TWAS Gene", "R2 > 0.4", "R2 <= 0.4"), pch = 19, col = c("salmon", "purple", colorsall[1]), title="Color Legend", bty ='n', cex=0.6, title.adj = 0)
legend(max(a$pos)-0.2*(max(a$pos)-min(a$pos)), y= 1.1 ,c("Gene", "SNP"), pch = c(22,21), title="Shape Legend", bty ='n', cex=0.6, title.adj = 0)
legend(max(a$pos)-0.2*(max(a$pos)-min(a$pos)), y= 0.7 ,c("Lead TWAS Gene", "R2 > 0.4", "R2 <= 0.4"), pch = 19, col = c("salmon", "purple", colorsall[1]), title="Color Legend", bty ='n', cex=0.6, title.adj = 0)
if (label=="cTWAS"){
text(a$pos[a$id==focus], a$susie_pip[a$id==focus], labels=ctwas_gene_res$genename[ctwas_gene_res$id==focus], pos=3, cex=0.6)
}
par(mar = c(4.1, 4.1, 0.5, 2.1))
plot(a$pos[a$type=="SNP"], a$PVALUE[a$type == "SNP"], pch = 21, xlab=paste0("Chromosome ", region_tag1, " Position"), frame.plot=FALSE, bg = colorsall[1], ylab = "TWAS -log10(p value)", panel.first = grid(), ylim =c(0, max(a$PVALUE)*1.2))
points(a$pos[a$type=="SNP" & a$r2max > r2cut], a$PVALUE[a$type == "SNP" & a$r2max > r2cut], pch = 21, bg = "purple")
points(a$pos[a$type=="SNP" & a$ifcausal == 1], a$PVALUE[a$type == "SNP" & a$ifcausal == 1], pch = 21, bg = "salmon")
points(a$pos[a$type=="gene"], a$PVALUE[a$type == "gene"], pch = 22, bg = colorsall[1], cex = 2)
points(a$pos[a$type=="gene" & a$r2max > r2cut], a$PVALUE[a$type == "gene" & a$r2max > r2cut], pch = 22, bg = "purple", cex = 2)
points(a$pos[a$type=="gene" & a$ifcausal == 1], a$PVALUE[a$type == "gene" & a$ifcausal == 1], pch = 22, bg = "salmon", cex = 2)
abline(h=-log10(alpha/nrow(ctwas_gene_res)), col ="red", lty = 2)
if (label=="TWAS"){
text(a$pos[a$id==focus], a$PVALUE[a$id==focus], labels=ctwas_gene_res$genename[ctwas_gene_res$id==focus], pos=3, cex=0.6)
}
}
locus_plot4("8_12", label="cTWAS")
| Version | Author | Date |
|---|---|---|
| 909c4c2 | wesleycrouse | 2022-02-07 |
locus_plot5 <- function(region_tag, rerun_ctwas = F, plot_eqtl = T, label="cTWAS", focus){
region_tag1 <- unlist(strsplit(region_tag, "_"))[1]
region_tag2 <- unlist(strsplit(region_tag, "_"))[2]
a <- ctwas_res[ctwas_res$region_tag==region_tag,]
regionlist <- readRDS(paste0(results_dir, "/", analysis_id, "_ctwas.regionlist.RDS"))
region <- regionlist[[as.numeric(region_tag1)]][[region_tag2]]
R_snp_info <- do.call(rbind, lapply(region$regRDS, function(x){data.table::fread(paste0(tools::file_path_sans_ext(x), ".Rvar"))}))
if (isTRUE(rerun_ctwas)){
ld_exprfs <- paste0(results_dir, "/", analysis_id, "_expr_chr", 1:22, ".expr.gz")
temp_reg <- data.frame("chr" = paste0("chr",region_tag1), "start" = region$start, "stop" = region$stop)
write.table(temp_reg,
#file= paste0(results_dir, "/", analysis_id, "_ctwas.temp.reg.txt") ,
file= "temp_reg.txt",
row.names=F, col.names=T, sep="\t", quote = F)
load(paste0(results_dir, "/", analysis_id, "_expr_z_snp.Rd"))
z_gene_temp <- z_gene[z_gene$id %in% a$id[a$type=="gene"],]
z_snp_temp <- z_snp[z_snp$id %in% R_snp_info$id,]
ctwas_rss(z_gene_temp, z_snp_temp, ld_exprfs, ld_pgenfs = NULL,
ld_R_dir = dirname(region$regRDS)[1],
ld_regions_custom = "temp_reg.txt", thin = 1,
outputdir = ".", outname = "temp", ncore = 1, ncore.rerun = 1, prob_single = 0,
group_prior = estimated_group_prior, group_prior_var = estimated_group_prior_var,
estimate_group_prior = F, estimate_group_prior_var = F)
a <- data.table::fread("temp.susieIrss.txt", header = T)
rownames(z_snp_temp) <- z_snp_temp$id
z_snp_temp <- z_snp_temp[a$id[a$type=="SNP"],]
z_gene_temp <- z_gene_temp[a$id[a$type=="gene"],]
a$z <- NA
a$z[a$type=="SNP"] <- z_snp_temp$z
a$z[a$type=="gene"] <- z_gene_temp$z
}
a$ifcausal <- 0
focus <- a$id[which(a$genename==focus)]
a$ifcausal <- as.numeric(a$id==focus)
a$PVALUE <- (-log(2) - pnorm(abs(a$z), lower.tail=F, log.p=T))/log(10)
# R_gene <- readRDS(region$R_g_file)
# R_snp_gene <- readRDS(region$R_sg_file)
# R_snp <- as.matrix(Matrix::bdiag(lapply(region$regRDS, readRDS)))
#
# rownames(R_gene) <- region$gid
# colnames(R_gene) <- region$gid
# rownames(R_snp_gene) <- R_snp_info$id
# colnames(R_snp_gene) <- region$gid
# rownames(R_snp) <- R_snp_info$id
# colnames(R_snp) <- R_snp_info$id
a$r2max <- 0
# a$r2max[a$type=="gene"] <- R_gene[focus,a$id[a$type=="gene"]]
# a$r2max[a$type=="SNP"] <- R_snp_gene[a$id[a$type=="SNP"],focus]
r2cut <- 0.4
colorsall <- c("#7fc97f", "#beaed4", "#fdc086")
layout(matrix(1:2, ncol = 1), widths = 1, heights = c(1.5,1.5), respect = FALSE)
par(mar = c(0, 4.1, 4.1, 2.1))
plot(a$pos[a$type=="SNP"], a$PVALUE[a$type == "SNP"], pch = 19, xlab=paste0("Chromosome ", region_tag1, " Position"),frame.plot=FALSE, col = "white", ylim= c(-0.1,1.1), ylab = "cTWAS PIP", xaxt = 'n')
grid()
points(a$pos[a$type=="SNP"], a$susie_pip[a$type == "SNP"], pch = 21, xlab="Genomic position", bg = colorsall[1])
points(a$pos[a$type=="SNP" & a$r2max > r2cut], a$susie_pip[a$type == "SNP" & a$r2max >r2cut], pch = 21, bg = "purple")
points(a$pos[a$type=="SNP" & a$ifcausal == 1], a$susie_pip[a$type == "SNP" & a$ifcausal == 1], pch = 21, bg = "salmon")
points(a$pos[a$type=="gene"], a$susie_pip[a$type == "gene"], pch = 22, bg = colorsall[1], cex = 2)
points(a$pos[a$type=="gene" & a$r2max > r2cut], a$susie_pip[a$type == "gene" & a$r2max > r2cut], pch = 22, bg = "purple", cex = 2)
points(a$pos[a$type=="gene" & a$ifcausal == 1], a$susie_pip[a$type == "gene" & a$ifcausal == 1], pch = 22, bg = "salmon", cex = 2)
if (isTRUE(plot_eqtl)){
for (cgene in a[a$type=="gene" & a$ifcausal == 1, ]$id){
load(paste0(results_dir, "/",analysis_id, "_expr_chr", region_tag1, ".exprqc.Rd"))
eqtls <- rownames(wgtlist[[cgene]])
points(a[a$id %in% eqtls,]$pos, rep( -0.15, nrow(a[a$id %in% eqtls,])), pch = "|", col = "salmon", cex = 1.5)
}
}
legend(max(a$pos)-0.2*(max(a$pos)-min(a$pos)), y= 1.1 ,c("Gene", "SNP"), pch = c(22,21), title="Shape Legend", bty ='n', cex=0.6, title.adj = 0)
legend(max(a$pos)-0.2*(max(a$pos)-min(a$pos)), y= 0.7 ,c("Focal Gene", "R2 > 0.4", "R2 <= 0.4"), pch = 19, col = c("salmon", "purple", colorsall[1]), title="Color Legend", bty ='n', cex=0.6, title.adj = 0)
if (label=="cTWAS"){
text(a$pos[a$id==focus], a$susie_pip[a$id==focus], labels=ctwas_gene_res$genename[ctwas_gene_res$id==focus], pos=3, cex=0.6)
}
par(mar = c(4.1, 4.1, 0.5, 2.1))
plot(a$pos[a$type=="SNP"], a$PVALUE[a$type == "SNP"], pch = 21, xlab=paste0("Chromosome ", region_tag1, " Position"), frame.plot=FALSE, bg = colorsall[1], ylab = "TWAS -log10(p value)", panel.first = grid(), ylim =c(0, max(a$PVALUE)*1.2))
points(a$pos[a$type=="SNP" & a$r2max > r2cut], a$PVALUE[a$type == "SNP" & a$r2max > r2cut], pch = 21, bg = "purple")
points(a$pos[a$type=="SNP" & a$ifcausal == 1], a$PVALUE[a$type == "SNP" & a$ifcausal == 1], pch = 21, bg = "salmon")
points(a$pos[a$type=="gene"], a$PVALUE[a$type == "gene"], pch = 22, bg = colorsall[1], cex = 2)
points(a$pos[a$type=="gene" & a$r2max > r2cut], a$PVALUE[a$type == "gene" & a$r2max > r2cut], pch = 22, bg = "purple", cex = 2)
points(a$pos[a$type=="gene" & a$ifcausal == 1], a$PVALUE[a$type == "gene" & a$ifcausal == 1], pch = 22, bg = "salmon", cex = 2)
abline(h=-log10(alpha/nrow(ctwas_gene_res)), col ="red", lty = 2)
if (label=="TWAS"){
text(a$pos[a$id==focus], a$PVALUE[a$id==focus], labels=ctwas_gene_res$genename[ctwas_gene_res$id==focus], pos=3, cex=0.6)
}
}
locus_plot5("19_33", focus="PRKD2")Warning in a$id == focus: longer object length is not a multiple of shorter
object length
Warning in a$id == focus: longer object length is not a multiple of shorter
object length
Warning in a$id == focus: longer object length is not a multiple of shorter
object length
Locus Plots - Exploring known annotations
This section produces locus plots for all silver standard genes with known annotations. The highlighted gene at each region is the silver standard gene. Note that if no genes in a region have PIP>0.8, then only the result using thinned SNPs is displayed.
locus_plot3 <- function(region_tag, rerun_ctwas = F, plot_eqtl = T, label="cTWAS", focus){
region_tag1 <- unlist(strsplit(region_tag, "_"))[1]
region_tag2 <- unlist(strsplit(region_tag, "_"))[2]
a <- ctwas_res[ctwas_res$region_tag==region_tag,]
regionlist <- readRDS(paste0(results_dir, "/", analysis_id, "_ctwas.regionlist.RDS"))
region <- regionlist[[as.numeric(region_tag1)]][[region_tag2]]
R_snp_info <- do.call(rbind, lapply(region$regRDS, function(x){data.table::fread(paste0(tools::file_path_sans_ext(x), ".Rvar"))}))
if (isTRUE(rerun_ctwas)){
ld_exprfs <- paste0(results_dir, "/", analysis_id, "_expr_chr", 1:22, ".expr.gz")
temp_reg <- data.frame("chr" = paste0("chr",region_tag1), "start" = region$start, "stop" = region$stop)
write.table(temp_reg,
#file= paste0(results_dir, "/", analysis_id, "_ctwas.temp.reg.txt") ,
file= "temp_reg.txt",
row.names=F, col.names=T, sep="\t", quote = F)
load(paste0(results_dir, "/", analysis_id, "_expr_z_snp.Rd"))
z_gene_temp <- z_gene[z_gene$id %in% a$id[a$type=="gene"],]
z_snp_temp <- z_snp[z_snp$id %in% R_snp_info$id,]
ctwas_rss(z_gene_temp, z_snp_temp, ld_exprfs, ld_pgenfs = NULL,
ld_R_dir = dirname(region$regRDS)[1],
ld_regions_custom = "temp_reg.txt", thin = 1,
outputdir = ".", outname = "temp", ncore = 1, ncore.rerun = 1, prob_single = 0,
group_prior = estimated_group_prior, group_prior_var = estimated_group_prior_var,
estimate_group_prior = F, estimate_group_prior_var = F)
a <- data.table::fread("temp.susieIrss.txt", header = T)
rownames(z_snp_temp) <- z_snp_temp$id
z_snp_temp <- z_snp_temp[a$id[a$type=="SNP"],]
z_gene_temp <- z_gene_temp[a$id[a$type=="gene"],]
a$z <- NA
a$z[a$type=="SNP"] <- z_snp_temp$z
a$z[a$type=="gene"] <- z_gene_temp$z
}
a$ifcausal <- 0
focus <- a$id[which(a$genename==focus)]
a$ifcausal <- as.numeric(a$id==focus)
a$PVALUE <- (-log(2) - pnorm(abs(a$z), lower.tail=F, log.p=T))/log(10)
# R_gene <- readRDS(region$R_g_file)
# R_snp_gene <- readRDS(region$R_sg_file)
# R_snp <- as.matrix(Matrix::bdiag(lapply(region$regRDS, readRDS)))
#
# rownames(R_gene) <- region$gid
# colnames(R_gene) <- region$gid
# rownames(R_snp_gene) <- R_snp_info$id
# colnames(R_snp_gene) <- region$gid
# rownames(R_snp) <- R_snp_info$id
# colnames(R_snp) <- R_snp_info$id
a$r2max <- 0
# a$r2max[a$type=="gene"] <- R_gene[focus,a$id[a$type=="gene"]]
# a$r2max[a$type=="SNP"] <- R_snp_gene[a$id[a$type=="SNP"],focus]
r2cut <- 0.4
colorsall <- c("#7fc97f", "#beaed4", "#fdc086")
layout(matrix(1:2, ncol = 1), widths = 1, heights = c(1.5,1.5), respect = FALSE)
par(mar = c(0, 4.1, 4.1, 2.1))
plot(a$pos[a$type=="SNP"], a$PVALUE[a$type == "SNP"], pch = 19, xlab=paste0("Chromosome ", region_tag1, " Position"),frame.plot=FALSE, col = "white", ylim= c(-0.1,1.1), ylab = "cTWAS PIP", xaxt = 'n')
grid()
points(a$pos[a$type=="SNP"], a$susie_pip[a$type == "SNP"], pch = 21, xlab="Genomic position", bg = colorsall[1])
points(a$pos[a$type=="SNP" & a$r2max > r2cut], a$susie_pip[a$type == "SNP" & a$r2max >r2cut], pch = 21, bg = "purple")
points(a$pos[a$type=="SNP" & a$ifcausal == 1], a$susie_pip[a$type == "SNP" & a$ifcausal == 1], pch = 21, bg = "salmon")
points(a$pos[a$type=="gene"], a$susie_pip[a$type == "gene"], pch = 22, bg = colorsall[1], cex = 2)
points(a$pos[a$type=="gene" & a$r2max > r2cut], a$susie_pip[a$type == "gene" & a$r2max > r2cut], pch = 22, bg = "purple", cex = 2)
points(a$pos[a$type=="gene" & a$ifcausal == 1], a$susie_pip[a$type == "gene" & a$ifcausal == 1], pch = 22, bg = "salmon", cex = 2)
if (isTRUE(plot_eqtl)){
for (cgene in a[a$type=="gene" & a$ifcausal == 1, ]$id){
load(paste0(results_dir, "/",analysis_id, "_expr_chr", region_tag1, ".exprqc.Rd"))
eqtls <- rownames(wgtlist[[cgene]])
points(a[a$id %in% eqtls,]$pos, rep( -0.15, nrow(a[a$id %in% eqtls,])), pch = "|", col = "salmon", cex = 1.5)
}
}
legend(min(a$pos), y= 1.1 ,c("Gene", "SNP"), pch = c(22,21), title="Shape Legend", bty ='n', cex=0.6, title.adj = 0)
legend(min(a$pos), y= 0.7 ,c("Lead TWAS Gene", "R2 > 0.4", "R2 <= 0.4"), pch = 19, col = c("salmon", "purple", colorsall[1]), title="Color Legend", bty ='n', cex=0.6, title.adj = 0)
if (label=="cTWAS"){
text(a$pos[a$id==focus], a$susie_pip[a$id==focus], labels=ctwas_gene_res$genename[ctwas_gene_res$id==focus], pos=3, cex=0.6)
}
par(mar = c(4.1, 4.1, 0.5, 2.1))
plot(a$pos[a$type=="SNP"], a$PVALUE[a$type == "SNP"], pch = 21, xlab=paste0("Chromosome ", region_tag1, " Position"), frame.plot=FALSE, bg = colorsall[1], ylab = "TWAS -log10(p value)", panel.first = grid(), ylim =c(0, max(a$PVALUE)*1.2))
points(a$pos[a$type=="SNP" & a$r2max > r2cut], a$PVALUE[a$type == "SNP" & a$r2max > r2cut], pch = 21, bg = "purple")
points(a$pos[a$type=="SNP" & a$ifcausal == 1], a$PVALUE[a$type == "SNP" & a$ifcausal == 1], pch = 21, bg = "salmon")
points(a$pos[a$type=="gene"], a$PVALUE[a$type == "gene"], pch = 22, bg = colorsall[1], cex = 2)
points(a$pos[a$type=="gene" & a$r2max > r2cut], a$PVALUE[a$type == "gene" & a$r2max > r2cut], pch = 22, bg = "purple", cex = 2)
points(a$pos[a$type=="gene" & a$ifcausal == 1], a$PVALUE[a$type == "gene" & a$ifcausal == 1], pch = 22, bg = "salmon", cex = 2)
abline(h=-log10(alpha/nrow(ctwas_gene_res)), col ="red", lty = 2)
if (label=="TWAS"){
text(a$pos[a$id==focus], a$PVALUE[a$id==focus], labels=ctwas_gene_res$genename[ctwas_gene_res$id==focus], pos=3, cex=0.6)
}
}load(paste0(results_dir, "/known_annotations.Rd"))
load(paste0(results_dir, "/bystanders.Rd"))
# for (i in 1:length(known_annotations)){
# focus <- known_annotations[i]
# region_tag <- ctwas_res$region_tag[which(ctwas_res$genename==focus)]
#
# locus_plot3(region_tag, focus=focus)
# mtext(text=region_tag)
#
# print(focus)
# print(region_tag)
# print(ctwas_gene_res[ctwas_gene_res$region_tag==region_tag,report_cols,])
# }
#run APOE locus again using full SNPs
# focus <- "APOE"
# region_tag <- ctwas_res$region_tag[which(ctwas_res$genename==focus)]
#
# locus_plot(region_tag, label="TWAS", rerun_ctwas = T)
#
# mtext(text=region_tag)
#
# print(focus)
# print(region_tag)
# print(ctwas_gene_res[ctwas_gene_res$region_tag==region_tag,report_cols,])Genes with many eQTL
#distribution of number of eQTL for all imputed genes (after dropping ambiguous variants)
table(ctwas_gene_res$num_eqtl)
1 2 3 4 5 6 7 8
21471 11769 2739 542 119 22 5 5 #all genes with 4+ eQTL
ctwas_gene_res[ctwas_gene_res$num_eqtl>3,] chrom id pos type
18145 1 ENSG00000116237.15|Adipose_Visceral_Omentum 6222890 gene
540 1 ENSG00000054523.17|Adipose_Subcutaneous 10210344 gene
3427 1 ENSG00000116663.10|Adipose_Subcutaneous 11663463 gene
12643 1 ENSG00000226029.1|Adipose_Subcutaneous 16458366 gene
4362 1 ENSG00000127463.13|Adipose_Subcutaneous 19227605 gene
521 1 ENSG00000053371.12|Adipose_Subcutaneous 19310497 gene
9138 1 ENSG00000169914.5|Adipose_Subcutaneous 19878843 gene
23845 1 ENSG00000169914.5|Adipose_Visceral_Omentum 19882290 gene
7459 1 ENSG00000158825.5|Adipose_Subcutaneous 20588679 gene
22197 1 ENSG00000158825.5|Adipose_Visceral_Omentum 20588925 gene
1421 1 ENSG00000090686.15|Adipose_Subcutaneous 21782050 gene
16137 1 ENSG00000090686.15|Adipose_Visceral_Omentum 21782050 gene
26725 1 ENSG00000204138.12|Adipose_Visceral_Omentum 28349072 gene
10125 1 ENSG00000177868.11|Adipose_Subcutaneous 42805362 gene
26497 1 ENSG00000198198.15|Adipose_Visceral_Omentum 43384246 gene
3556 1 ENSG00000117834.12|Adipose_Subcutaneous 48212526 gene
18301 1 ENSG00000117834.12|Adipose_Visceral_Omentum 48212526 gene
7782 1 ENSG00000162383.11|Adipose_Subcutaneous 53085621 gene
7796 1 ENSG00000162437.14|Adipose_Subcutaneous 64734373 gene
3449 1 ENSG00000116783.14|Adipose_Subcutaneous 74215526 gene
14321 1 ENSG00000272864.1|Adipose_Subcutaneous 74701793 gene
3452 1 ENSG00000116791.13|Adipose_Subcutaneous 74702349 gene
18194 1 ENSG00000116791.13|Adipose_Visceral_Omentum 74701793 gene
18232 1 ENSG00000117133.10|Adipose_Visceral_Omentum 84383981 gene
5522 1 ENSG00000137944.17|Adipose_Subcutaneous 88979282 gene
7116 1 ENSG00000154511.11|Adipose_Subcutaneous 92934792 gene
9301 1 ENSG00000170989.8|Adipose_Subcutaneous 101154806 gene
21981 1 ENSG00000156171.14|Adipose_Visceral_Omentum 111139496 gene
27490 1 ENSG00000231246.1|Adipose_Visceral_Omentum 112176665 gene
11807 1 ENSG00000198162.12|Adipose_Subcutaneous 117367233 gene
7879 1 ENSG00000162836.11|Adipose_Subcutaneous 147646379 gene
19480 1 ENSG00000131778.18|Adipose_Visceral_Omentum 147239128 gene
22610 1 ENSG00000162836.11|Adipose_Visceral_Omentum 147647471 gene
11756 1 ENSG00000197915.5|Adipose_Subcutaneous 152219919 gene
11240 1 ENSG00000188004.9|Adipose_Subcutaneous 159838179 gene
20838 1 ENSG00000143149.12|Adipose_Visceral_Omentum 165652366 gene
6101 1 ENSG00000143162.7|Adipose_Subcutaneous 167544347 gene
3535 1 ENSG00000117533.14|Adipose_Subcutaneous 171741914 gene
12590 1 ENSG00000224687.1|Adipose_Subcutaneous 178093586 gene
12555 1 ENSG00000223396.2|Adipose_Subcutaneous 201474507 gene
4884 1 ENSG00000133059.16|Adipose_Subcutaneous 205210869 gene
6911 1 ENSG00000152104.11|Adipose_Subcutaneous 214371230 gene
27865 1 ENSG00000243709.1|Adipose_Visceral_Omentum 225909765 gene
6195 1 ENSG00000143653.9|Adipose_Subcutaneous 246720005 gene
13729 1 ENSG00000259865.1|Adipose_Subcutaneous 247179932 gene
20946 1 ENSG00000143653.9|Adipose_Visceral_Omentum 246720005 gene
13065 1 ENSG00000238243.3|Adipose_Subcutaneous 247638887 gene
3339 2 ENSG00000115705.20|Adipose_Subcutaneous 1095735 gene
18384 2 ENSG00000119185.12|Adipose_Visceral_Omentum 9408522 gene
11076 2 ENSG00000186453.12|Adipose_Subcutaneous 24119662 gene
15938 2 ENSG00000084676.15|Adipose_Visceral_Omentum 24488675 gene
12939 2 ENSG00000234690.6|Adipose_Subcutaneous 47336895 gene
27607 2 ENSG00000234690.6|Adipose_Visceral_Omentum 47336895 gene
7881 2 ENSG00000162869.15|Adipose_Subcutaneous 48428760 gene
5540 2 ENSG00000138039.14|Adipose_Subcutaneous 48685277 gene
20289 2 ENSG00000138039.14|Adipose_Visceral_Omentum 48735152 gene
18117 2 ENSG00000116031.8|Adipose_Visceral_Omentum 70833920 gene
18833 2 ENSG00000124356.15|Adipose_Visceral_Omentum 73828835 gene
6244 2 ENSG00000144026.11|Adipose_Subcutaneous 95142476 gene
20994 2 ENSG00000144026.11|Adipose_Visceral_Omentum 95171674 gene
3642 2 ENSG00000119147.9|Adipose_Subcutaneous 106024112 gene
3333 2 ENSG00000115652.14|Adipose_Subcutaneous 106194127 gene
18108 2 ENSG00000115947.13|Adipose_Visceral_Omentum 148018368 gene
863 2 ENSG00000071967.11|Adipose_Subcutaneous 171522308 gene
4455 2 ENSG00000128652.11|Adipose_Subcutaneous 176136417 gene
5596 2 ENSG00000138400.12|Adipose_Subcutaneous 206765180 gene
20336 2 ENSG00000138363.14|Adipose_Visceral_Omentum 215075224 gene
24771 2 ENSG00000177483.11|Adipose_Visceral_Omentum 237779632 gene
6293 2 ENSG00000144488.14|Adipose_Subcutaneous 238099977 gene
8927 2 ENSG00000168427.8|Adipose_Subcutaneous 238127296 gene
12043 2 ENSG00000204104.11|Adipose_Subcutaneous 238316563 gene
10005 2 ENSG00000176720.4|Adipose_Subcutaneous 241550210 gene
10430 2 ENSG00000180902.17|Adipose_Subcutaneous 241734689 gene
12958 2 ENSG00000235151.1|Adipose_Subcutaneous 241816853 gene
23640 2 ENSG00000168397.16|Adipose_Visceral_Omentum 241634894 gene
25125 2 ENSG00000180902.17|Adipose_Visceral_Omentum 241737769 gene
6289 3 ENSG00000144455.13|Adipose_Subcutaneous 4368850 gene
21040 3 ENSG00000144455.13|Adipose_Visceral_Omentum 4368850 gene
22785 3 ENSG00000163702.18|Adipose_Visceral_Omentum 9915771 gene
7134 3 ENSG00000154743.17|Adipose_Subcutaneous 12431546 gene
23580 3 ENSG00000168026.18|Adipose_Visceral_Omentum 39106300 gene
22814 3 ENSG00000163820.14|Adipose_Visceral_Omentum 45921260 gene
39244 3 ENSG00000188086.13|Liver 46740510 gene
3157 3 ENSG00000113812.13|Adipose_Subcutaneous 53858803 gene
10381 3 ENSG00000180376.16|Adipose_Subcutaneous 56545510 gene
38526 3 ENSG00000180376.16|Liver 56557027 gene
9498 3 ENSG00000172340.14|Adipose_Subcutaneous 67365898 gene
24904 3 ENSG00000178700.7|Adipose_Visceral_Omentum 94060750 gene
9028 3 ENSG00000169087.10|Adipose_Subcutaneous 122792659 gene
11415 3 ENSG00000189366.9|Adipose_Subcutaneous 125925826 gene
3202 3 ENSG00000114544.16|Adipose_Subcutaneous 126082224 gene
8085 3 ENSG00000163864.15|Adipose_Subcutaneous 139674109 gene
25972 3 ENSG00000188313.12|Adipose_Visceral_Omentum 146532105 gene
6960 3 ENSG00000152580.8|Adipose_Subcutaneous 151457865 gene
13112 3 ENSG00000240875.5|Adipose_Subcutaneous 156751124 gene
27780 3 ENSG00000240875.5|Adipose_Visceral_Omentum 156751124 gene
10026 3 ENSG00000176945.16|Adipose_Subcutaneous 195719309 gene
3645 3 ENSG00000119227.7|Adipose_Subcutaneous 196947388 gene
18386 3 ENSG00000119227.7|Adipose_Visceral_Omentum 196935912 gene
10958 4 ENSG00000185619.18|Adipose_Subcutaneous 706823 gene
4357 4 ENSG00000127415.12|Adipose_Subcutaneous 971932 gene
8107 4 ENSG00000163945.15|Adipose_Subcutaneous 1347151 gene
19092 4 ENSG00000127415.12|Adipose_Visceral_Omentum 945299 gene
9729 4 ENSG00000174137.12|Adipose_Subcutaneous 1676701 gene
26949 4 ENSG00000206113.10|Adipose_Visceral_Omentum 2416718 gene
19538 4 ENSG00000132406.11|Adipose_Visceral_Omentum 4247307 gene
13412 4 ENSG00000251580.1|Adipose_Subcutaneous 6673694 gene
9279 4 ENSG00000170846.16|Adipose_Subcutaneous 6673665 gene
13415 4 ENSG00000251615.3|Adipose_Subcutaneous 8355960 gene
10163 4 ENSG00000178163.7|Adipose_Subcutaneous 10456862 gene
2737 4 ENSG00000109689.15|Adipose_Subcutaneous 26826816 gene
18838 4 ENSG00000124406.16|Adipose_Visceral_Omentum 42648749 gene
11860 4 ENSG00000198515.13|Adipose_Subcutaneous 47955024 gene
26542 4 ENSG00000198515.13|Adipose_Visceral_Omentum 47948298 gene
4408 4 ENSG00000128039.10|Adipose_Subcutaneous 55346203 gene
277 4 ENSG00000018189.12|Adipose_Subcutaneous 70704417 gene
15009 4 ENSG00000018189.12|Adipose_Visceral_Omentum 70701678 gene
5643 4 ENSG00000138744.14|Adipose_Subcutaneous 75918159 gene
20392 4 ENSG00000138744.14|Adipose_Visceral_Omentum 75936156 gene
34403 4 ENSG00000138744.14|Liver 75919602 gene
11814 4 ENSG00000198189.10|Adipose_Subcutaneous 87298285 gene
26496 4 ENSG00000198189.10|Adipose_Visceral_Omentum 87337331 gene
14305 4 ENSG00000272777.1|Adipose_Subcutaneous 99067562 gene
24275 4 ENSG00000172955.17|Adipose_Visceral_Omentum 99213357 gene
5654 4 ENSG00000138777.19|Adipose_Subcutaneous 105472284 gene
20404 4 ENSG00000138777.19|Adipose_Visceral_Omentum 105426268 gene
20408 4 ENSG00000138792.9|Adipose_Visceral_Omentum 110367523 gene
28723 4 ENSG00000269893.6|Adipose_Visceral_Omentum 118278629 gene
36624 4 ENSG00000164111.14|Liver 121685788 gene
21516 4 ENSG00000150627.15|Adipose_Visceral_Omentum 176065833 gene
2744 4 ENSG00000109771.15|Adipose_Subcutaneous 185383595 gene
6397 4 ENSG00000145476.15|Adipose_Subcutaneous 186191240 gene
8216 4 ENSG00000164344.15|Adipose_Subcutaneous 186191475 gene
13385 4 ENSG00000250829.2|Adipose_Subcutaneous 186890499 gene
14237 4 ENSG00000272218.1|Adipose_Subcutaneous 186839668 gene
21143 4 ENSG00000145476.15|Adipose_Visceral_Omentum 186191475 gene
8219 5 ENSG00000164366.3|Adipose_Subcutaneous 188803 gene
15458 5 ENSG00000066230.10|Adipose_Visceral_Omentum 434990 gene
13411 5 ENSG00000251532.1|Adipose_Subcutaneous 1515420 gene
13370 5 ENSG00000250490.1|Adipose_Subcutaneous 6308511 gene
13383 5 ENSG00000250786.1|Adipose_Subcutaneous 9541581 gene
28041 5 ENSG00000250786.1|Adipose_Visceral_Omentum 9541581 gene
8188 5 ENSG00000164237.8|Adipose_Subcutaneous 10281437 gene
3079 5 ENSG00000112977.15|Adipose_Subcutaneous 10675380 gene
17845 5 ENSG00000113360.16|Adipose_Visceral_Omentum 31526264 gene
7191 5 ENSG00000155542.11|Adipose_Subcutaneous 56909530 gene
21934 5 ENSG00000155542.11|Adipose_Visceral_Omentum 56909472 gene
11737 5 ENSG00000197822.10|Adipose_Subcutaneous 69279407 gene
9006 5 ENSG00000168938.5|Adipose_Subcutaneous 122859139 gene
8307 5 ENSG00000164904.17|Adipose_Subcutaneous 126543217 gene
23031 5 ENSG00000164904.17|Adipose_Visceral_Omentum 126537717 gene
12336 5 ENSG00000213347.10|Adipose_Subcutaneous 177313243 gene
9863 5 ENSG00000175309.14|Adipose_Subcutaneous 178231895 gene
10183 5 ENSG00000178338.10|Adipose_Subcutaneous 178836120 gene
26826 5 ENSG00000204677.10|Adipose_Visceral_Omentum 178004394 gene
14272 6 ENSG00000272463.1|Adipose_Subcutaneous 710558 gene
28878 6 ENSG00000272279.1|Adipose_Visceral_Omentum 1528446 gene
6445 6 ENSG00000145949.9|Adipose_Subcutaneous 2677719 gene
13215 6 ENSG00000244041.7|Adipose_Subcutaneous 2981538 gene
5426 6 ENSG00000137275.13|Adipose_Subcutaneous 3064015 gene
27466 6 ENSG00000230438.6|Adipose_Visceral_Omentum 2863329 gene
7012 6 ENSG00000153157.12|Adipose_Subcutaneous 10829086 gene
6446 6 ENSG00000145979.17|Adipose_Subcutaneous 13267390 gene
21196 6 ENSG00000145979.17|Adipose_Visceral_Omentum 13295270 gene
2948 6 ENSG00000111801.15|Adipose_Subcutaneous 26391163 gene
11608 6 ENSG00000197062.11|Adipose_Subcutaneous 28259100 gene
12068 6 ENSG00000204256.12|Adipose_Subcutaneous 32968664 gene
11916 6 ENSG00000198755.10|Adipose_Subcutaneous 35461005 gene
16262 6 ENSG00000096433.10|Adipose_Visceral_Omentum 33599327 gene
26597 6 ENSG00000198755.10|Adipose_Visceral_Omentum 35468418 gene
17717 6 ENSG00000112130.16|Adipose_Visceral_Omentum 37353428 gene
450 6 ENSG00000044090.8|Adipose_Subcutaneous 43045924 gene
11465 6 ENSG00000196284.15|Adipose_Subcutaneous 45377511 gene
26151 6 ENSG00000196284.15|Adipose_Visceral_Omentum 45377620 gene
7023 6 ENSG00000153291.15|Adipose_Subcutaneous 46630562 gene
19873 6 ENSG00000135297.15|Adipose_Visceral_Omentum 73453764 gene
9518 6 ENSG00000172469.15|Adipose_Subcutaneous 95541495 gene
24306 6 ENSG00000173214.5|Adipose_Visceral_Omentum 111256558 gene
26040 6 ENSG00000188820.12|Adipose_Visceral_Omentum 116460362 gene
9531 6 ENSG00000172594.12|Adipose_Subcutaneous 122788734 gene
3599 6 ENSG00000118507.15|Adipose_Subcutaneous 131135842 gene
29298 6 ENSG00000279968.1|Adipose_Visceral_Omentum 138773501 gene
27586 6 ENSG00000234147.1|Adipose_Visceral_Omentum 140688240 gene
3902 6 ENSG00000122335.13|Adipose_Subcutaneous 158151578 gene
14208 6 ENSG00000272047.1|Adipose_Subcutaneous 158167424 gene
2988 6 ENSG00000112110.9|Adipose_Subcutaneous 159789152 gene
13165 7 ENSG00000242611.2|Adipose_Subcutaneous 58458 gene
27467 7 ENSG00000230487.7|Adipose_Visceral_Omentum 1562574 gene
3937 7 ENSG00000122674.11|Adipose_Subcutaneous 5887685 gene
18686 7 ENSG00000122674.11|Adipose_Visceral_Omentum 5887685 gene
18672 7 ENSG00000122512.14|Adipose_Visceral_Omentum 6009342 gene
32859 7 ENSG00000122674.11|Liver 5882180 gene
17159 7 ENSG00000106392.10|Adipose_Visceral_Omentum 7122680 gene
14257 7 ENSG00000272361.2|Adipose_Subcutaneous 16584790 gene
840 7 ENSG00000070882.12|Adipose_Subcutaneous 24860542 gene
17134 7 ENSG00000106125.14|Adipose_Visceral_Omentum 30761823 gene
11457 7 ENSG00000196247.11|Adipose_Subcutaneous 64665395 gene
11782 7 ENSG00000198039.11|Adipose_Subcutaneous 64869717 gene
13122 7 ENSG00000241258.6|Adipose_Subcutaneous 66095787 gene
26465 7 ENSG00000198039.11|Adipose_Visceral_Omentum 64863974 gene
27022 7 ENSG00000213462.4|Adipose_Visceral_Omentum 65006275 gene
39415 7 ENSG00000196247.11|Liver 64665954 gene
8358 7 ENSG00000165171.10|Adipose_Subcutaneous 73842285 gene
4394 7 ENSG00000127947.15|Adipose_Subcutaneous 77503532 gene
19127 7 ENSG00000127947.15|Adipose_Visceral_Omentum 77532312 gene
74 7 ENSG00000005471.15|Adipose_Subcutaneous 87472091 gene
2363 7 ENSG00000105793.15|Adipose_Subcutaneous 90334836 gene
17090 7 ENSG00000105854.12|Adipose_Visceral_Omentum 95433958 gene
828 7 ENSG00000070669.16|Adipose_Subcutaneous 97873010 gene
8671 7 ENSG00000166997.7|Adipose_Subcutaneous 100086039 gene
12216 7 ENSG00000205307.11|Adipose_Subcutaneous 100478874 gene
23954 7 ENSG00000170615.14|Adipose_Visceral_Omentum 103421569 gene
5125 7 ENSG00000135269.17|Adipose_Subcutaneous 116210408 gene
4452 7 ENSG00000128617.2|Adipose_Subcutaneous 128771566 gene
7190 7 ENSG00000155530.2|Adipose_Subcutaneous 134043283 gene
21 7 ENSG00000002933.7|Adipose_Subcutaneous 150777235 gene
2461 7 ENSG00000106565.17|Adipose_Subcutaneous 150788995 gene
11166 7 ENSG00000187260.15|Adipose_Subcutaneous 151404454 gene
13842 7 ENSG00000261455.1|Adipose_Subcutaneous 152420372 gene
25862 7 ENSG00000187260.15|Adipose_Visceral_Omentum 151394339 gene
28479 7 ENSG00000261455.1|Adipose_Visceral_Omentum 152463544 gene
19064 7 ENSG00000126870.15|Adipose_Visceral_Omentum 158856009 gene
16889 8 ENSG00000104728.15|Adipose_Visceral_Omentum 1824475 gene
15130 8 ENSG00000036448.9|Adipose_Visceral_Omentum 2044443 gene
13463 8 ENSG00000253958.1|Adipose_Subcutaneous 8667057 gene
28912 8 ENSG00000272505.1|Adipose_Visceral_Omentum 10421949 gene
2120 8 ENSG00000104213.12|Adipose_Subcutaneous 17575683 gene
11633 8 ENSG00000197217.12|Adipose_Subcutaneous 23359473 gene
9737 8 ENSG00000174226.8|Adipose_Subcutaneous 100646399 gene
21766 8 ENSG00000153317.14|Adipose_Visceral_Omentum 130442939 gene
9305 8 ENSG00000171045.14|Adipose_Subcutaneous 142307501 gene
258 8 ENSG00000014164.6|Adipose_Subcutaneous 143534573 gene
6574 8 ENSG00000147813.15|Adipose_Subcutaneous 143578019 gene
21312 8 ENSG00000147813.15|Adipose_Visceral_Omentum 143578019 gene
15602 8 ENSG00000071894.16|Adipose_Visceral_Omentum 144385464 gene
2505 9 ENSG00000107099.15|Adipose_Subcutaneous 205428 gene
9626 9 ENSG00000173253.15|Adipose_Subcutaneous 1045596 gene
17227 9 ENSG00000107099.15|Adipose_Visceral_Omentum 205428 gene
29323 9 ENSG00000281769.1|Adipose_Visceral_Omentum 1044481 gene
31583 9 ENSG00000107099.15|Liver 211762 gene
6576 9 ENSG00000147853.16|Adipose_Subcutaneous 4718165 gene
21314 9 ENSG00000147853.16|Adipose_Visceral_Omentum 4720017 gene
3749 9 ENSG00000120217.13|Adipose_Subcutaneous 5452560 gene
26387 9 ENSG00000197646.7|Adipose_Visceral_Omentum 5500129 gene
8332 9 ENSG00000164989.16|Adipose_Subcutaneous 15531752 gene
26055 9 ENSG00000188921.13|Adipose_Visceral_Omentum 21019896 gene
12586 9 ENSG00000224549.1|Adipose_Subcutaneous 22767062 gene
5390 9 ENSG00000137074.18|Adipose_Subcutaneous 33024919 gene
13808 9 ENSG00000260947.1|Adipose_Subcutaneous 33612306 gene
8329 9 ENSG00000164978.17|Adipose_Subcutaneous 34151465 gene
2485 9 ENSG00000106733.20|Adipose_Subcutaneous 75087456 gene
17205 9 ENSG00000106733.20|Adipose_Visceral_Omentum 75064122 gene
27643 9 ENSG00000235641.4|Adipose_Visceral_Omentum 91159887 gene
2490 9 ENSG00000106789.12|Adipose_Subcutaneous 98122860 gene
5359 9 ENSG00000136870.10|Adipose_Subcutaneous 101399660 gene
18409 9 ENSG00000119509.12|Adipose_Visceral_Omentum 100097520 gene
2486 9 ENSG00000106771.12|Adipose_Subcutaneous 109112805 gene
9627 9 ENSG00000173258.12|Adipose_Subcutaneous 111524995 gene
24312 9 ENSG00000173258.12|Adipose_Visceral_Omentum 111525084 gene
17216 9 ENSG00000106853.18|Adipose_Visceral_Omentum 111461149 gene
3664 9 ENSG00000119431.9|Adipose_Subcutaneous 113343432 gene
18403 9 ENSG00000119431.9|Adipose_Visceral_Omentum 113137846 gene
34136 9 ENSG00000136866.13|Liver 113056669 gene
1524 9 ENSG00000095397.13|Adipose_Subcutaneous 114424432 gene
21342 9 ENSG00000148288.11|Adipose_Visceral_Omentum 133156531 gene
24531 9 ENSG00000175164.13|Adipose_Visceral_Omentum 133252254 gene
4619 9 ENSG00000130560.8|Adipose_Subcutaneous 135926392 gene
7616 9 ENSG00000160360.12|Adipose_Subcutaneous 136327342 gene
2577 10 ENSG00000107959.15|Adipose_Subcutaneous 3148307 gene
12883 10 ENSG00000233117.2|Adipose_Subcutaneous 4211392 gene
5031 10 ENSG00000134463.14|Adipose_Subcutaneous 11742089 gene
27294 10 ENSG00000225383.7|Adipose_Visceral_Omentum 10794743 gene
33845 10 ENSG00000134463.14|Liver 11740178 gene
6948 10 ENSG00000152465.17|Adipose_Subcutaneous 15170861 gene
12157 10 ENSG00000204740.10|Adipose_Subcutaneous 19490064 gene
9876 10 ENSG00000175395.15|Adipose_Subcutaneous 37974942 gene
26235 10 ENSG00000196693.14|Adipose_Visceral_Omentum 42638488 gene
4930 10 ENSG00000133661.15|Adipose_Subcutaneous 79970366 gene
3905 10 ENSG00000122375.11|Adipose_Subcutaneous 86653675 gene
10862 10 ENSG00000184923.12|Adipose_Subcutaneous 87206818 gene
12445 10 ENSG00000214562.14|Adipose_Subcutaneous 87220987 gene
18657 10 ENSG00000122375.11|Adipose_Visceral_Omentum 86611799 gene
27281 10 ENSG00000224914.3|Adipose_Visceral_Omentum 87222627 gene
11898 10 ENSG00000198682.12|Adipose_Subcutaneous 87660153 gene
6650 10 ENSG00000148690.11|Adipose_Subcutaneous 93699055 gene
21383 10 ENSG00000148690.11|Adipose_Visceral_Omentum 93696291 gene
7173 10 ENSG00000155265.10|Adipose_Subcutaneous 97822001 gene
2558 10 ENSG00000107819.13|Adipose_Subcutaneous 101032154 gene
8536 10 ENSG00000166275.15|Adipose_Subcutaneous 102853979 gene
18477 10 ENSG00000120008.15|Adipose_Visceral_Omentum 120850879 gene
2543 10 ENSG00000107672.14|Adipose_Subcutaneous 121974763 gene
5563 10 ENSG00000138152.8|Adipose_Subcutaneous 122252762 gene
17300 10 ENSG00000107902.13|Adipose_Visceral_Omentum 124462247 gene
23923 10 ENSG00000170430.9|Adipose_Visceral_Omentum 129467281 gene
6866 10 ENSG00000151640.12|Adipose_Subcutaneous 132186469 gene
9420 10 ENSG00000171813.13|Adipose_Subcutaneous 132365124 gene
25981 10 ENSG00000188385.11|Adipose_Visceral_Omentum 132105155 gene
21604 10 ENSG00000151640.12|Adipose_Visceral_Omentum 132186469 gene
6009 11 ENSG00000142102.15|Adipose_Subcutaneous 288845 gene
10901 11 ENSG00000185201.16|Adipose_Subcutaneous 306862 gene
14141 11 ENSG00000270972.1|Adipose_Subcutaneous 330061 gene
13526 11 ENSG00000255284.1|Adipose_Subcutaneous 728487 gene
12411 11 ENSG00000214063.10|Adipose_Subcutaneous 842775 gene
20753 11 ENSG00000142102.15|Adipose_Visceral_Omentum 288845 gene
25603 11 ENSG00000185201.16|Adipose_Visceral_Omentum 306862 gene
28190 11 ENSG00000255328.1|Adipose_Visceral_Omentum 326718 gene
28777 11 ENSG00000270972.1|Adipose_Visceral_Omentum 324170 gene
24727 11 ENSG00000177042.14|Adipose_Visceral_Omentum 688091 gene
39003 11 ENSG00000185522.8|Liver 559466 gene
2823 11 ENSG00000110665.11|Adipose_Subcutaneous 2295490 gene
17547 11 ENSG00000110628.13|Adipose_Visceral_Omentum 2899534 gene
3829 11 ENSG00000121236.20|Adipose_Subcutaneous 5580472 gene
18582 11 ENSG00000121236.20|Adipose_Visceral_Omentum 5590335 gene
24000 11 ENSG00000170955.9|Adipose_Visceral_Omentum 6320135 gene
23276 11 ENSG00000166405.14|Adipose_Visceral_Omentum 8166592 gene
4945 11 ENSG00000133816.13|Adipose_Subcutaneous 12054282 gene
2808 11 ENSG00000110427.14|Adipose_Subcutaneous 33378145 gene
3857 11 ENSG00000121691.4|Adipose_Subcutaneous 34434584 gene
6670 11 ENSG00000149089.12|Adipose_Subcutaneous 34916054 gene
18610 11 ENSG00000121691.4|Adipose_Visceral_Omentum 34438684 gene
21409 11 ENSG00000149089.12|Adipose_Visceral_Omentum 34915273 gene
6834 11 ENSG00000151348.13|Adipose_Subcutaneous 44066439 gene
21573 11 ENSG00000151348.13|Adipose_Visceral_Omentum 44066439 gene
7775 11 ENSG00000162341.16|Adipose_Subcutaneous 69030673 gene
22513 11 ENSG00000162341.16|Adipose_Visceral_Omentum 69004604 gene
9895 11 ENSG00000175581.13|Adipose_Subcutaneous 73786901 gene
7439 11 ENSG00000158555.14|Adipose_Subcutaneous 75504376 gene
13261 11 ENSG00000246067.7|Adipose_Subcutaneous 83072772 gene
4035 11 ENSG00000123892.11|Adipose_Subcutaneous 88175178 gene
2794 11 ENSG00000110218.8|Adipose_Subcutaneous 94128854 gene
6690 11 ENSG00000149289.10|Adipose_Subcutaneous 110092976 gene
5482 11 ENSG00000137713.15|Adipose_Subcutaneous 111764842 gene
20234 11 ENSG00000137713.15|Adipose_Visceral_Omentum 111765903 gene
6691 11 ENSG00000149292.16|Adipose_Subcutaneous 113289048 gene
21429 11 ENSG00000149292.16|Adipose_Visceral_Omentum 113289048 gene
10385 11 ENSG00000180425.11|Adipose_Subcutaneous 114399882 gene
2774 11 ENSG00000110060.8|Adipose_Subcutaneous 125898452 gene
13536 11 ENSG00000255455.2|Adipose_Subcutaneous 130866376 gene
3771 11 ENSG00000120451.10|Adipose_Subcutaneous 130909773 gene
2866 12 ENSG00000111186.12|Adipose_Subcutaneous 1507541 gene
4562 12 ENSG00000130038.9|Adipose_Subcutaneous 3744539 gene
2871 12 ENSG00000111224.13|Adipose_Subcutaneous 3803806 gene
13577 12 ENSG00000256433.2|Adipose_Subcutaneous 6384185 gene
13765 12 ENSG00000260423.1|Adipose_Subcutaneous 9313517 gene
28410 12 ENSG00000260423.1|Adipose_Visceral_Omentum 9319927 gene
15537 12 ENSG00000069493.14|Adipose_Visceral_Omentum 9664279 gene
27514 12 ENSG00000231887.6|Adipose_Visceral_Omentum 10937478 gene
13543 12 ENSG00000255621.1|Adipose_Subcutaneous 13000839 gene
162 12 ENSG00000008394.12|Adipose_Subcutaneous 16242555 gene
474 12 ENSG00000048540.14|Adipose_Subcutaneous 16368510 gene
14774 12 ENSG00000004700.15|Adipose_Visceral_Omentum 21494403 gene
14514 12 ENSG00000275764.1|Adipose_Subcutaneous 27036619 gene
29152 12 ENSG00000275764.1|Adipose_Visceral_Omentum 27036797 gene
2846 12 ENSG00000110888.17|Adipose_Subcutaneous 30737069 gene
12982 12 ENSG00000235884.3|Adipose_Subcutaneous 30762606 gene
21563 12 ENSG00000151233.10|Adipose_Visceral_Omentum 42126028 gene
19915 12 ENSG00000135502.17|Adipose_Visceral_Omentum 57610139 gene
4351 12 ENSG00000127337.6|Adipose_Subcutaneous 69358729 gene
19087 12 ENSG00000127337.6|Adipose_Visceral_Omentum 69358729 gene
4348 12 ENSG00000127328.21|Adipose_Subcutaneous 69698495 gene
5243 12 ENSG00000136014.11|Adipose_Subcutaneous 95546940 gene
12178 12 ENSG00000204954.9|Adipose_Subcutaneous 103957554 gene
5718 12 ENSG00000139372.14|Adipose_Subcutaneous 103957554 gene
20001 12 ENSG00000136051.13|Adipose_Visceral_Omentum 105084034 gene
14626 12 ENSG00000278266.1|Adipose_Subcutaneous 127113737 gene
10970 12 ENSG00000185684.12|Adipose_Subcutaneous 132083996 gene
10897 12 ENSG00000185163.9|Adipose_Subcutaneous 132118203 gene
10866 12 ENSG00000184967.6|Adipose_Subcutaneous 132083372 gene
13585 12 ENSG00000256576.2|Adipose_Subcutaneous 132189573 gene
10413 13 ENSG00000180776.15|Adipose_Subcutaneous 21459023 gene
15099 13 ENSG00000032742.17|Adipose_Visceral_Omentum 20519749 gene
25108 13 ENSG00000180776.15|Adipose_Visceral_Omentum 21458983 gene
1963 13 ENSG00000102683.7|Adipose_Subcutaneous 23157008 gene
20479 13 ENSG00000139505.11|Adipose_Visceral_Omentum 25285678 gene
10316 13 ENSG00000179630.10|Adipose_Subcutaneous 43873996 gene
5268 13 ENSG00000136161.12|Adipose_Subcutaneous 48532925 gene
5256 13 ENSG00000136111.12|Adipose_Subcutaneous 75311388 gene
18909 13 ENSG00000125257.13|Adipose_Visceral_Omentum 95301151 gene
16681 13 ENSG00000102595.19|Adipose_Visceral_Omentum 96029375 gene
4166 13 ENSG00000125246.15|Adipose_Subcutaneous 99606547 gene
18906 13 ENSG00000125246.15|Adipose_Visceral_Omentum 99606547 gene
10909 14 ENSG00000185271.7|Adipose_Subcutaneous 20365494 gene
16190 14 ENSG00000092200.12|Adipose_Visceral_Omentum 21272924 gene
7334 14 ENSG00000157326.18|Adipose_Subcutaneous 23953662 gene
7340 14 ENSG00000157379.13|Adipose_Subcutaneous 24291558 gene
22081 14 ENSG00000157379.13|Adipose_Visceral_Omentum 24291558 gene
4318 14 ENSG00000126790.11|Adipose_Subcutaneous 59444736 gene
25183 14 ENSG00000181619.11|Adipose_Visceral_Omentum 59444736 gene
33192 14 ENSG00000126790.11|Liver 59473099 gene
5780 14 ENSG00000139998.14|Adipose_Subcutaneous 64972366 gene
20530 14 ENSG00000139998.14|Adipose_Visceral_Omentum 64972366 gene
3677 14 ENSG00000119599.16|Adipose_Subcutaneous 72915777 gene
10796 14 ENSG00000184227.7|Adipose_Subcutaneous 73528024 gene
3688 14 ENSG00000119673.14|Adipose_Subcutaneous 73563190 gene
5786 14 ENSG00000140043.11|Adipose_Subcutaneous 73844725 gene
20536 14 ENSG00000140043.11|Adipose_Visceral_Omentum 73832334 gene
180 14 ENSG00000009830.11|Adipose_Subcutaneous 77318589 gene
639 14 ENSG00000063761.15|Adipose_Subcutaneous 77800264 gene
14908 14 ENSG00000009830.11|Adipose_Visceral_Omentum 77317924 gene
546 14 ENSG00000054983.16|Adipose_Subcutaneous 87948531 gene
265 14 ENSG00000015133.18|Adipose_Subcutaneous 91324116 gene
23187 14 ENSG00000165934.12|Adipose_Visceral_Omentum 92121369 gene
13650 14 ENSG00000258572.1|Adipose_Subcutaneous 95515367 gene
41233 14 ENSG00000258572.1|Liver 95515864 gene
10872 14 ENSG00000184990.12|Adipose_Subcutaneous 104747641 gene
16306 14 ENSG00000099814.15|Adipose_Visceral_Omentum 104846598 gene
10533 15 ENSG00000182117.5|Adipose_Subcutaneous 34254250 gene
12482 15 ENSG00000215252.11|Adipose_Subcutaneous 34377560 gene
4466 15 ENSG00000128829.11|Adipose_Subcutaneous 39933819 gene
12768 15 ENSG00000229474.6|Adipose_Subcutaneous 44705554 gene
5612 15 ENSG00000138600.9|Adipose_Subcutaneous 50733462 gene
28222 15 ENSG00000256061.7|Adipose_Visceral_Omentum 55419003 gene
5503 15 ENSG00000137819.13|Adipose_Subcutaneous 69291095 gene
2094 15 ENSG00000103811.15|Adipose_Subcutaneous 78937302 gene
16812 15 ENSG00000103811.15|Adipose_Visceral_Omentum 78936890 gene
10526 15 ENSG00000182054.9|Adipose_Subcutaneous 90102033 gene
25226 15 ENSG00000182054.9|Adipose_Visceral_Omentum 90102033 gene
5833 15 ENSG00000140470.13|Adipose_Subcutaneous 100047379 gene
23708 15 ENSG00000168904.14|Adipose_Visceral_Omentum 99251231 gene
28345 15 ENSG00000259363.5|Adipose_Visceral_Omentum 99791048 gene
2021 16 ENSG00000103148.15|Adipose_Subcutaneous 89636 gene
1798 16 ENSG00000100726.14|Adipose_Subcutaneous 1472291 gene
18135 16 ENSG00000116176.6|Adipose_Visceral_Omentum 1223025 gene
26379 16 ENSG00000197599.12|Adipose_Visceral_Omentum 1436461 gene
20638 16 ENSG00000140988.15|Adipose_Visceral_Omentum 1964282 gene
15330 16 ENSG00000059122.16|Adipose_Visceral_Omentum 2911846 gene
27054 16 ENSG00000213853.9|Adipose_Visceral_Omentum 10521110 gene
2061 16 ENSG00000103381.11|Adipose_Subcutaneous 12803575 gene
10689 16 ENSG00000183426.16|Adipose_Subcutaneous 14873824 gene
10749 16 ENSG00000183793.13|Adipose_Subcutaneous 15036083 gene
25446 16 ENSG00000183793.13|Adipose_Visceral_Omentum 14889311 gene
10704 16 ENSG00000183549.10|Adipose_Subcutaneous 20409166 gene
38804 16 ENSG00000183549.10|Liver 20409006 gene
21486 16 ENSG00000149922.10|Adipose_Visceral_Omentum 30091070 gene
13817 16 ENSG00000261079.1|Adipose_Subcutaneous 74350208 gene
10827 16 ENSG00000184517.11|Adipose_Subcutaneous 75144532 gene
691 16 ENSG00000065457.10|Adipose_Subcutaneous 75617776 gene
15432 16 ENSG00000065457.10|Adipose_Visceral_Omentum 75617776 gene
2018 16 ENSG00000103111.14|Adipose_Subcutaneous 77190635 gene
13826 16 ENSG00000261175.5|Adipose_Subcutaneous 86638764 gene
7450 16 ENSG00000158717.10|Adipose_Subcutaneous 88700532 gene
4697 16 ENSG00000131165.14|Adipose_Subcutaneous 89628212 gene
25 16 ENSG00000003249.13|Adipose_Subcutaneous 89958562 gene
20641 16 ENSG00000140995.16|Adipose_Visceral_Omentum 89928005 gene
14757 16 ENSG00000003249.13|Adipose_Visceral_Omentum 90020025 gene
34631 16 ENSG00000140995.16|Liver 89919436 gene
10449 17 ENSG00000181031.15|Adipose_Subcutaneous 216884 gene
20658 17 ENSG00000141252.19|Adipose_Visceral_Omentum 535410 gene
19535 17 ENSG00000132383.11|Adipose_Visceral_Omentum 1829845 gene
11665 17 ENSG00000197417.7|Adipose_Subcutaneous 3608661 gene
26346 17 ENSG00000197417.7|Adipose_Visceral_Omentum 3608661 gene
37198 17 ENSG00000167723.14|Liver 3557863 gene
10622 17 ENSG00000182853.11|Adipose_Subcutaneous 4769728 gene
2621 17 ENSG00000108509.20|Adipose_Subcutaneous 4942750 gene
4499 17 ENSG00000129204.16|Adipose_Subcutaneous 5029546 gene
19236 17 ENSG00000129204.16|Adipose_Visceral_Omentum 5077692 gene
2690 17 ENSG00000109063.14|Adipose_Subcutaneous 10657024 gene
14850 17 ENSG00000006744.18|Adipose_Visceral_Omentum 12992612 gene
27504 17 ENSG00000231595.1|Adipose_Visceral_Omentum 14193507 gene
4325 17 ENSG00000126858.16|Adipose_Subcutaneous 32105418 gene
4768 17 ENSG00000132141.13|Adipose_Subcutaneous 34935404 gene
8617 17 ENSG00000166750.9|Adipose_Subcutaneous 35243449 gene
9543 17 ENSG00000172716.16|Adipose_Subcutaneous 35294108 gene
19509 17 ENSG00000132141.13|Adipose_Visceral_Omentum 34935404 gene
29246 17 ENSG00000278053.4|Adipose_Visceral_Omentum 37621240 gene
2598 17 ENSG00000108349.16|Adipose_Subcutaneous 40141200 gene
29239 17 ENSG00000277791.4|Adipose_Visceral_Omentum 38751868 gene
28564 17 ENSG00000264968.1|Adipose_Visceral_Omentum 39919884 gene
17335 17 ENSG00000108349.16|Adipose_Visceral_Omentum 40116287 gene
9689 17 ENSG00000173801.16|Adipose_Subcutaneous 41778026 gene
7716 17 ENSG00000161653.10|Adipose_Subcutaneous 43961022 gene
10233 17 ENSG00000178852.15|Adipose_Subcutaneous 47297628 gene
24924 17 ENSG00000178852.15|Adipose_Visceral_Omentum 47297429 gene
38413 17 ENSG00000178852.15|Liver 47322830 gene
5919 17 ENSG00000141295.13|Adipose_Subcutaneous 47838029 gene
20052 17 ENSG00000136449.13|Adipose_Visceral_Omentum 50508193 gene
8529 17 ENSG00000166260.10|Adipose_Subcutaneous 54942351 gene
13895 17 ENSG00000263004.1|Adipose_Subcutaneous 57078726 gene
28528 17 ENSG00000263004.1|Adipose_Visceral_Omentum 57078438 gene
13973 17 ENSG00000266714.6|Adipose_Subcutaneous 75590244 gene
28603 17 ENSG00000266714.6|Adipose_Visceral_Omentum 75590244 gene
10585 17 ENSG00000182534.13|Adipose_Subcutaneous 76678775 gene
8828 17 ENSG00000167889.12|Adipose_Subcutaneous 76870349 gene
25285 17 ENSG00000182534.13|Adipose_Visceral_Omentum 76681074 gene
23551 17 ENSG00000167895.14|Adipose_Visceral_Omentum 78130526 gene
38702 17 ENSG00000182534.13|Liver 76686803 gene
5952 17 ENSG00000141519.14|Adipose_Subcutaneous 80036451 gene
37956 17 ENSG00000173818.16|Liver 80415678 gene
13891 17 ENSG00000262877.4|Adipose_Subcutaneous 81389871 gene
10599 17 ENSG00000182612.10|Adipose_Subcutaneous 81636805 gene
28525 17 ENSG00000262877.4|Adipose_Visceral_Omentum 81389871 gene
25296 17 ENSG00000182612.10|Adipose_Visceral_Omentum 81636259 gene
5970 17 ENSG00000141580.15|Adipose_Subcutaneous 82610870 gene
1936 18 ENSG00000101577.9|Adipose_Subcutaneous 2994799 gene
16656 18 ENSG00000101577.9|Adipose_Visceral_Omentum 2963481 gene
13913 18 ENSG00000263753.6|Adipose_Subcutaneous 5237163 gene
5932 18 ENSG00000141401.11|Adipose_Subcutaneous 11939159 gene
977 18 ENSG00000075643.5|Adipose_Subcutaneous 36187019 gene
15714 18 ENSG00000075643.5|Adipose_Visceral_Omentum 36187019 gene
20690 18 ENSG00000141469.16|Adipose_Visceral_Omentum 45723869 gene
8705 18 ENSG00000167216.16|Adipose_Subcutaneous 46917629 gene
4909 18 ENSG00000133313.14|Adipose_Subcutaneous 74495925 gene
28552 18 ENSG00000264247.1|Adipose_Visceral_Omentum 74592401 gene
8598 18 ENSG00000166573.5|Adipose_Subcutaneous 77241685 gene
23313 18 ENSG00000166573.5|Adipose_Visceral_Omentum 77250127 gene
2316 19 ENSG00000105556.11|Adipose_Subcutaneous 289498 gene
4553 19 ENSG00000129946.10|Adipose_Subcutaneous 417714 gene
20740 19 ENSG00000141934.9|Adipose_Visceral_Omentum 285330 gene
25361 19 ENSG00000183186.7|Adipose_Visceral_Omentum 331904 gene
19286 19 ENSG00000129946.10|Adipose_Visceral_Omentum 419407 gene
25198 19 ENSG00000181781.9|Adipose_Visceral_Omentum 429404 gene
11723 19 ENSG00000197766.7|Adipose_Subcutaneous 859368 gene
684 19 ENSG00000065268.10|Adipose_Subcutaneous 982793 gene
1593 19 ENSG00000099817.11|Adipose_Subcutaneous 1088640 gene
4580 19 ENSG00000130270.16|Adipose_Subcutaneous 1807137 gene
12702 19 ENSG00000227500.9|Adipose_Subcutaneous 1905406 gene
24543 19 ENSG00000175221.14|Adipose_Visceral_Omentum 863601 gene
15423 19 ENSG00000065268.10|Adipose_Visceral_Omentum 982793 gene
16307 19 ENSG00000099817.11|Adipose_Visceral_Omentum 1086315 gene
4220 19 ENSG00000125734.15|Adipose_Subcutaneous 6731755 gene
10448 19 ENSG00000181029.8|Adipose_Subcutaneous 7682243 gene
13217 19 ENSG00000244165.1|Adipose_Subcutaneous 10111179 gene
13989 19 ENSG00000267100.1|Adipose_Subcutaneous 10653111 gene
19249 19 ENSG00000129354.11|Adipose_Visceral_Omentum 10577400 gene
8736 19 ENSG00000167461.11|Adipose_Subcutaneous 16040922 gene
25738 19 ENSG00000186204.14|Adipose_Visceral_Omentum 15671348 gene
10335 19 ENSG00000179913.10|Adipose_Subcutaneous 17780011 gene
2327 19 ENSG00000105639.18|Adipose_Subcutaneous 17826295 gene
659 19 ENSG00000064607.16|Adipose_Subcutaneous 18981625 gene
2345 19 ENSG00000105699.16|Adipose_Subcutaneous 35248017 gene
7697 19 ENSG00000161281.10|Adipose_Subcutaneous 36149867 gene
12926 19 ENSG00000234465.10|Adipose_Subcutaneous 43569117 gene
17076 19 ENSG00000105755.7|Adipose_Visceral_Omentum 43524879 gene
27596 19 ENSG00000234465.10|Adipose_Visceral_Omentum 43577136 gene
3560 19 ENSG00000117877.10|Adipose_Subcutaneous 45404602 gene
38653 19 ENSG00000182013.17|Liver 46471505 gene
2308 19 ENSG00000105501.12|Adipose_Subcutaneous 51621059 gene
13483 19 ENSG00000254415.3|Adipose_Subcutaneous 51548567 gene
17003 19 ENSG00000105383.14|Adipose_Visceral_Omentum 51214320 gene
17024 19 ENSG00000105501.12|Adipose_Visceral_Omentum 51610285 gene
8806 19 ENSG00000167766.18|Adipose_Subcutaneous 52615913 gene
9296 19 ENSG00000170949.17|Adipose_Subcutaneous 53080949 gene
9297 19 ENSG00000170954.11|Adipose_Subcutaneous 53087254 gene
11996 19 ENSG00000203326.11|Adipose_Subcutaneous 53365182 gene
11497 19 ENSG00000196417.12|Adipose_Subcutaneous 53372867 gene
7612 19 ENSG00000160336.14|Adipose_Subcutaneous 53429981 gene
23527 19 ENSG00000167766.18|Adipose_Visceral_Omentum 52615913 gene
26090 19 ENSG00000189190.9|Adipose_Visceral_Omentum 52775408 gene
23998 19 ENSG00000170949.17|Adipose_Visceral_Omentum 53078878 gene
23999 19 ENSG00000170954.11|Adipose_Visceral_Omentum 53087254 gene
22346 19 ENSG00000160336.14|Adipose_Visceral_Omentum 53431544 gene
302 19 ENSG00000022556.15|Adipose_Subcutaneous 54955709 gene
23987 19 ENSG00000170889.13|Adipose_Visceral_Omentum 54199820 gene
15035 19 ENSG00000022556.15|Adipose_Visceral_Omentum 54952230 gene
4747 19 ENSG00000131845.14|Adipose_Subcutaneous 57351684 gene
1189 19 ENSG00000083828.15|Adipose_Subcutaneous 57740129 gene
11850 19 ENSG00000198466.11|Adipose_Subcutaneous 57761718 gene
16959 19 ENSG00000105136.20|Adipose_Visceral_Omentum 57487500 gene
20775 19 ENSG00000142396.10|Adipose_Visceral_Omentum 58305163 gene
11510 20 ENSG00000196476.11|Adipose_Subcutaneous 276391 gene
4255 20 ENSG00000125895.5|Adipose_Subcutaneous 1171679 gene
1344 20 ENSG00000088882.7|Adipose_Subcutaneous 2763521 gene
26492 20 ENSG00000198171.12|Adipose_Visceral_Omentum 3195426 gene
16598 20 ENSG00000101224.17|Adipose_Visceral_Omentum 3777779 gene
4254 20 ENSG00000125885.13|Adipose_Subcutaneous 5950827 gene
11696 20 ENSG00000197586.12|Adipose_Subcutaneous 25195465 gene
6729 20 ENSG00000149599.15|Adipose_Subcutaneous 31870423 gene
13751 20 ENSG00000260257.2|Adipose_Subcutaneous 32854832 gene
24533 20 ENSG00000175170.14|Adipose_Visceral_Omentum 25865211 gene
11675 20 ENSG00000197496.5|Adipose_Subcutaneous 46705549 gene
12581 20 ENSG00000224397.5|Adipose_Subcutaneous 50267397 gene
16025 20 ENSG00000087495.16|Adipose_Visceral_Omentum 59577330 gene
6740 20 ENSG00000149679.11|Adipose_Subcutaneous 62392095 gene
1869 20 ENSG00000101190.12|Adipose_Subcutaneous 62846860 gene
4200 20 ENSG00000125534.9|Adipose_Subcutaneous 63520461 gene
15345 20 ENSG00000060491.16|Adipose_Visceral_Omentum 62787722 gene
16202 20 ENSG00000092758.15|Adipose_Visceral_Omentum 62817114 gene
16588 20 ENSG00000101190.12|Adipose_Visceral_Omentum 62846860 gene
40458 20 ENSG00000225978.3|Liver 63102057 gene
16581 20 ENSG00000101161.7|Adipose_Visceral_Omentum 63979203 gene
7479 21 ENSG00000159110.19|Adipose_Subcutaneous 33229937 gene
6012 21 ENSG00000142166.12|Adipose_Subcutaneous 33300656 gene
22216 21 ENSG00000159110.19|Adipose_Visceral_Omentum 33229937 gene
27486 21 ENSG00000231106.2|Adipose_Visceral_Omentum 36005333 gene
10932 21 ENSG00000185437.13|Adipose_Subcutaneous 39446004 gene
10696 21 ENSG00000183486.12|Adipose_Subcutaneous 41266758 gene
7355 21 ENSG00000157617.16|Adipose_Subcutaneous 41887791 gene
25256 21 ENSG00000182240.15|Adipose_Visceral_Omentum 41167887 gene
20741 21 ENSG00000141956.13|Adipose_Visceral_Omentum 41794590 gene
7580 21 ENSG00000160200.17|Adipose_Subcutaneous 42972160 gene
22315 21 ENSG00000160200.17|Adipose_Visceral_Omentum 42950409 gene
6015 21 ENSG00000142178.7|Adipose_Subcutaneous 43629777 gene
10847 21 ENSG00000184787.18|Adipose_Subcutaneous 44775644 gene
14416 21 ENSG00000273796.1|Adipose_Subcutaneous 45359863 gene
10570 21 ENSG00000182362.13|Adipose_Subcutaneous 46272884 gene
25271 21 ENSG00000182362.13|Adipose_Visceral_Omentum 46257739 gene
14366 22 ENSG00000273203.1|Adipose_Subcutaneous 17013110 gene
1639 22 ENSG00000100056.11|Adipose_Subcutaneous 19144548 gene
10823 22 ENSG00000184470.20|Adipose_Subcutaneous 19876115 gene
25692 22 ENSG00000185838.13|Adipose_Visceral_Omentum 19852673 gene
16322 22 ENSG00000099940.11|Adipose_Visceral_Omentum 20856819 gene
1612 22 ENSG00000099956.18|Adipose_Subcutaneous 23775338 gene
28939 22 ENSG00000272733.1|Adipose_Visceral_Omentum 23583592 gene
26097 22 ENSG00000189269.12|Adipose_Visceral_Omentum 23632630 gene
16335 22 ENSG00000099994.10|Adipose_Visceral_Omentum 24179365 gene
16401 22 ENSG00000100263.13|Adipose_Visceral_Omentum 29177609 gene
10920 22 ENSG00000185339.8|Adipose_Subcutaneous 30606651 gene
1635 22 ENSG00000100036.12|Adipose_Subcutaneous 30631127 gene
25624 22 ENSG00000185339.8|Adipose_Visceral_Omentum 30598854 gene
1667 22 ENSG00000100191.5|Adipose_Subcutaneous 32274318 gene
1708 22 ENSG00000100316.15|Adipose_Subcutaneous 39319603 gene
11989 22 ENSG00000198951.11|Adipose_Subcutaneous 42047904 gene
1669 22 ENSG00000100197.20|Adipose_Subcutaneous 42121632 gene
16457 22 ENSG00000100418.7|Adipose_Visceral_Omentum 41620695 gene
11408 22 ENSG00000189306.10|Adipose_Subcutaneous 42510050 gene
10705 22 ENSG00000183569.17|Adipose_Subcutaneous 42571264 gene
26101 22 ENSG00000189306.10|Adipose_Visceral_Omentum 42490805 gene
13130 22 ENSG00000241484.9|Adipose_Subcutaneous 44727745 gene
12659 22 ENSG00000226328.6|Adipose_Subcutaneous 45105543 gene
1497 22 ENSG00000093000.18|Adipose_Subcutaneous 45102024 gene
1729 22 ENSG00000100376.11|Adipose_Subcutaneous 45272131 gene
27339 22 ENSG00000226328.6|Adipose_Visceral_Omentum 45131964 gene
169 22 ENSG00000008735.13|Adipose_Subcutaneous 50595411 gene
1701 22 ENSG00000100299.17|Adipose_Subcutaneous 50604850 gene
14897 22 ENSG00000008735.13|Adipose_Visceral_Omentum 50593164 gene
30850 22 ENSG00000100299.17|Liver 50625049 gene
10806 1 ENSG00000184313.19|Adipose_Subcutaneous 54566589 gene
13102 1 ENSG00000240563.1|Adipose_Subcutaneous 62194418 gene
27770 1 ENSG00000240563.1|Adipose_Visceral_Omentum 62194851 gene
3878 1 ENSG00000121940.15|Adipose_Subcutaneous 108930191 gene
6084 1 ENSG00000143028.8|Adipose_Subcutaneous 109465030 gene
8972 1 ENSG00000168765.16|Adipose_Subcutaneous 109612653 gene
4984 1 ENSG00000134184.12|Adipose_Subcutaneous 109226267 gene
12337 1 ENSG00000213366.12|Adipose_Subcutaneous 109657738 gene
4987 1 ENSG00000134202.10|Adipose_Subcutaneous 109704237 gene
4986 1 ENSG00000134201.10|Adipose_Subcutaneous 109710593 gene
23686 1 ENSG00000168765.16|Adipose_Visceral_Omentum 109636098 gene
19728 1 ENSG00000134184.12|Adipose_Visceral_Omentum 109571336 gene
19730 1 ENSG00000134201.10|Adipose_Visceral_Omentum 109709124 gene
33804 1 ENSG00000134201.10|Liver 109704237 gene
18309 2 ENSG00000118004.17|Adipose_Visceral_Omentum 3594750 gene
4205 2 ENSG00000125633.10|Adipose_Subcutaneous 118013438 gene
4203 2 ENSG00000125629.14|Adipose_Subcutaneous 118088243 gene
20357 3 ENSG00000138495.6|Adipose_Visceral_Omentum 119653997 gene
5430 6 ENSG00000137312.14|Adipose_Subcutaneous 30718130 gene
26821 6 ENSG00000204632.11|Adipose_Visceral_Omentum 29826724 gene
12376 6 ENSG00000213780.10|Adipose_Subcutaneous 30902222 gene
12123 6 ENSG00000204536.13|Adipose_Subcutaneous 31150242 gene
12122 6 ENSG00000204531.17|Adipose_Subcutaneous 31113082 gene
12277 6 ENSG00000206344.7|Adipose_Subcutaneous 31172291 gene
12121 6 ENSG00000204525.16|Adipose_Subcutaneous 31262189 gene
14238 6 ENSG00000272221.1|Adipose_Subcutaneous 31393306 gene
12119 6 ENSG00000204516.9|Adipose_Subcutaneous 31493994 gene
26799 6 ENSG00000204531.17|Adipose_Visceral_Omentum 31174520 gene
26798 6 ENSG00000204525.16|Adipose_Visceral_Omentum 31239091 gene
26794 6 ENSG00000204516.9|Adipose_Visceral_Omentum 31494468 gene
12077 6 ENSG00000204301.6|Adipose_Subcutaneous 32205480 gene
27901 6 ENSG00000244731.7|Adipose_Visceral_Omentum 31973120 gene
26753 6 ENSG00000204301.6|Adipose_Visceral_Omentum 32210996 gene
40588 6 ENSG00000231852.6|Liver 32037872 gene
38461 6 ENSG00000179344.16|Liver 32668036 gene
2472 7 ENSG00000106628.10|Adipose_Subcutaneous 44114687 gene
2417 7 ENSG00000106178.6|Adipose_Subcutaneous 75823266 gene
11287 7 ENSG00000188372.14|Adipose_Subcutaneous 76397141 gene
5352 9 ENSG00000136856.17|Adipose_Subcutaneous 127348293 gene
23362 11 ENSG00000166900.15|Adipose_Visceral_Omentum 59754175 gene
10048 11 ENSG00000177103.13|Adipose_Subcutaneous 117806324 gene
5757 12 ENSG00000139714.12|Adipose_Subcutaneous 121672174 gene
3647 12 ENSG00000119242.8|Adipose_Subcutaneous 123959862 gene
23689 12 ENSG00000168778.11|Adipose_Visceral_Omentum 123656482 gene
14576 13 ENSG00000277159.1|Adipose_Subcutaneous 112604083 gene
4278 13 ENSG00000126217.20|Adipose_Subcutaneous 112894196 gene
7037 13 ENSG00000153531.13|Adipose_Subcutaneous 113448962 gene
21502 13 ENSG00000150403.17|Adipose_Visceral_Omentum 113476508 gene
33163 13 ENSG00000126231.13|Liver 113146308 gene
8490 15 ENSG00000166035.10|Adipose_Subcutaneous 58407738 gene
9557 16 ENSG00000172775.16|Adipose_Subcutaneous 57171173 gene
5882 16 ENSG00000140943.16|Adipose_Subcutaneous 84070873 gene
21816 16 ENSG00000154099.17|Adipose_Visceral_Omentum 84144311 gene
20635 16 ENSG00000140955.10|Adipose_Visceral_Omentum 84184959 gene
29281 17 ENSG00000278740.1|Adipose_Visceral_Omentum 68142356 gene
23427 17 ENSG00000167280.16|Adipose_Visceral_Omentum 79075173 gene
10447 19 ENSG00000181027.10|Adipose_Subcutaneous 46745328 gene
2307 19 ENSG00000105499.13|Adipose_Subcutaneous 48101216 gene
2302 19 ENSG00000105479.15|Adipose_Subcutaneous 48319272 gene
17023 19 ENSG00000105499.13|Adipose_Visceral_Omentum 48107142 gene
17014 19 ENSG00000105443.13|Adipose_Visceral_Omentum 48447623 gene
2186 19 ENSG00000104805.15|Adipose_Subcutaneous 48899921 gene
4615 19 ENSG00000130529.15|Adipose_Subcutaneous 49158325 gene
7712 19 ENSG00000161618.9|Adipose_Subcutaneous 49453017 gene
6728 20 ENSG00000149596.6|Adipose_Subcutaneous 44111668 gene
4056 20 ENSG00000124145.6|Adipose_Subcutaneous 45319581 gene
4084 20 ENSG00000124257.6|Adipose_Subcutaneous 45891103 gene
region_tag1 region_tag2 cs_index susie_pip mu2 region_tag
18145 1 6 0 1.979384e-03 5.152397 1_6
540 1 7 0 2.496563e-03 6.755327 1_7
3427 1 9 0 1.115650e-02 16.683060 1_9
12643 1 11 0 2.737602e-03 5.171594 1_11
4362 1 13 0 5.828301e-03 11.085788 1_13
521 1 13 0 1.486784e-02 20.263206 1_13
9138 1 13 0 5.805951e-03 11.064933 1_13
23845 1 13 0 5.361857e-03 10.276977 1_13
7459 1 14 0 2.932054e-03 6.719681 1_14
22197 1 14 0 2.677982e-03 5.824112 1_14
1421 1 15 0 3.059359e-03 5.662176 1_15
16137 1 15 0 2.896006e-03 5.119965 1_15
26725 1 19 0 2.218618e-03 5.695683 1_19
10125 1 27 0 2.718324e-02 26.669568 1_27
26497 1 27 0 7.745623e-03 14.201074 1_27
3556 1 30 0 2.363408e-03 4.952137 1_30
18301 1 30 0 2.362539e-03 4.948504 1_30
7782 1 33 0 4.193323e-03 5.683006 1_33
7796 1 41 0 6.780416e-02 36.432258 1_41
3449 1 47 0 3.555535e-03 5.408484 1_47
14321 1 47 0 1.477089e-02 19.508582 1_47
3452 1 47 0 2.672019e-02 25.406749 1_47
18194 1 47 0 1.529067e-02 19.851978 1_47
18232 1 52 0 2.940821e-03 6.354943 1_52
5522 1 54 0 3.121401e-03 6.169242 1_54
7116 1 56 0 1.870437e-03 10.297568 1_56
9301 1 62 0 3.072311e-03 7.614859 1_62
21981 1 70 0 3.092828e-03 14.667942 1_70
27490 1 70 0 1.740178e-03 8.986676 1_70
11807 1 72 0 3.924054e-03 6.105156 1_72
7879 1 73 1 3.328396e-01 26.136586 1_73
19480 1 73 0 1.973826e-03 5.129152 1_73
22610 1 73 1 2.805128e-01 25.687081 1_73
11756 1 74 0 3.445453e-03 5.540960 1_74
11240 1 79 0 1.356140e-03 7.705472 1_79
20838 1 81 0 7.618867e-03 15.686254 1_81
6101 1 82 0 3.712120e-03 8.203824 1_82
3535 1 84 0 6.428427e-03 14.677644 1_84
12590 1 87 0 5.388461e-03 15.650782 1_87
12555 1 101 0 3.706526e-03 6.995267 1_101
4884 1 104 0 2.669674e-03 6.498197 1_104
6911 1 109 0 2.851599e-03 8.032389 1_109
27865 1 115 0 4.867884e-03 9.392753 1_115
6195 1 131 0 3.600464e-02 37.922455 1_131
13729 1 131 0 1.393620e-03 5.691462 1_131
20946 1 131 0 3.521335e-02 37.700158 1_131
13065 1 131 0 1.296741e-03 4.979983 1_131
3339 2 1 0 3.705316e-03 4.935118 2_1
18384 2 6 0 3.589783e-03 6.055005 2_6
11076 2 14 0 1.884274e-03 5.998850 2_14
15938 2 15 0 4.815222e-03 9.500446 2_15
12939 2 30 0 2.217807e-03 5.044806 2_30
27607 2 30 0 2.723076e-03 7.072447 2_30
7881 2 31 0 7.038553e-03 13.961794 2_31
5540 2 31 0 2.928908e-03 5.292556 2_31
20289 2 31 0 5.474797e-03 11.476021 2_31
18117 2 48 0 5.815419e-03 22.175628 2_48
18833 2 48 0 1.951137e-03 11.381882 2_48
6244 2 57 0 4.607054e-03 5.357776 2_57
20994 2 57 0 4.459594e-03 5.036128 2_57
3642 2 63 0 2.627040e-03 4.935413 2_63
3333 2 63 0 1.426559e-02 21.680728 2_63
18108 2 88 0 3.399920e-03 4.939028 2_88
863 2 104 0 4.937198e-03 8.401733 2_104
4455 2 107 0 2.539273e-03 5.004896 2_107
5596 2 122 0 3.571058e-03 5.287341 2_122
20336 2 127 0 6.672162e-03 11.781585 2_127
24771 2 140 0 3.281346e-03 5.420925 2_140
6293 2 141 0 5.365736e-03 11.851507 2_141
8927 2 141 0 5.057693e-03 11.266773 2_141
12043 2 141 0 3.329663e-03 7.134105 2_141
10005 2 144 0 2.545490e-03 7.961856 2_144
10430 2 144 0 2.318623e-03 6.926344 2_144
12958 2 144 0 1.965985e-03 5.132186 2_144
23640 2 144 0 3.940794e-03 11.856674 2_144
25125 2 144 0 3.014373e-03 9.790706 2_144
6289 3 4 0 2.817943e-03 9.278224 3_4
21040 3 4 0 2.709602e-03 8.890859 3_4
22785 3 8 0 3.667511e-03 5.149578 3_8
7134 3 9 0 9.612350e-04 5.735160 3_9
23580 3 28 0 5.364174e-03 9.063271 3_28
22814 3 32 0 7.148491e-03 12.392029 3_32
39244 3 33 0 2.495370e-03 5.914035 3_33
3157 3 36 0 2.177686e-03 4.960485 3_36
10381 3 39 0 4.601178e-03 10.115595 3_39
38526 3 39 0 3.192418e-03 6.502400 3_39
9498 3 45 0 2.470020e-03 5.305984 3_45
24904 3 59 0 3.924688e-03 6.412393 3_59
9028 3 76 0 1.677596e-03 5.597803 3_76
11415 3 78 0 1.438575e-02 23.276120 3_78
3202 3 78 0 3.694815e-03 9.818478 3_78
8085 3 85 0 3.459584e-03 4.946039 3_85
25972 3 90 0 2.908353e-03 5.061468 3_90
6960 3 93 0 3.656347e-03 8.555827 3_93
13112 3 97 0 2.542937e-03 5.236651 3_97
27780 3 97 0 2.475622e-03 4.971600 3_97
10026 3 121 0 2.420562e-03 6.193483 3_121
3645 3 121 0 4.986819e-03 13.274395 3_121
18386 3 121 0 7.056315e-03 16.674858 3_121
10958 4 2 0 2.584131e-03 5.088328 4_2
4357 4 2 0 4.701533e-03 11.003578 4_2
8107 4 2 0 3.133317e-03 6.992376 4_2
19092 4 2 0 4.667767e-03 10.932308 4_2
9729 4 3 0 3.039175e-03 7.016181 4_3
26949 4 3 0 2.815092e-03 6.259417 4_3
19538 4 5 0 2.986686e-03 6.663551 4_5
13412 4 8 0 7.249719e-03 19.640363 4_8
9279 4 8 0 3.835207e-03 13.380916 4_8
13415 4 10 0 3.489796e-03 10.689437 4_10
10163 4 12 0 2.213907e-03 5.771403 4_12
2737 4 22 0 3.149046e-03 8.482194 4_22
18838 4 34 0 2.187219e-02 25.459875 4_34
11860 4 37 0 9.031745e-03 18.733161 4_37
26542 4 37 0 4.146209e-03 11.029901 4_37
4408 4 40 0 5.427997e-03 11.474036 4_40
277 4 49 0 3.199951e-03 6.639957 4_49
15009 4 49 0 3.145691e-03 6.470963 4_49
5643 4 51 0 3.282906e-03 5.357651 4_51
20392 4 51 0 3.274302e-03 5.331718 4_51
34403 4 51 0 3.502570e-03 5.997745 4_51
11814 4 59 0 3.388070e-03 7.640078 4_59
26496 4 59 0 3.337865e-03 7.852817 4_59
14305 4 66 0 1.946990e-03 5.410987 4_66
24275 4 66 0 4.377365e-03 13.548738 4_66
5654 4 69 0 3.560295e-03 5.373931 4_69
20404 4 69 0 3.405710e-03 4.935213 4_69
20408 4 72 0 3.832173e-03 14.671164 4_72
28723 4 76 0 3.526161e-03 6.135930 4_76
36624 4 78 0 7.449817e-03 13.729305 4_78
21516 4 114 0 3.469319e-03 5.265711 4_114
2744 4 119 0 3.076863e-03 5.678228 4_119
6397 4 120 0 6.254944e-03 11.924855 4_120
8216 4 120 0 3.856424e-03 7.142162 4_120
13385 4 120 0 3.207612e-03 5.321505 4_120
14237 4 120 0 3.102231e-03 4.991396 4_120
21143 4 120 0 7.132829e-03 13.224554 4_120
8219 5 1 0 3.839802e-03 10.983239 5_1
15458 5 1 0 8.705033e-03 16.942743 5_1
13411 5 2 0 3.666675e-03 7.872464 5_2
13370 5 6 0 2.817287e-03 4.975470 5_6
13383 5 8 0 2.546656e-03 4.942597 5_8
28041 5 8 0 4.702084e-03 11.003329 5_8
8188 5 9 0 3.968492e-03 8.065745 5_9
3079 5 9 0 1.151651e-02 18.610608 5_9
17845 5 22 0 3.869955e-03 6.314191 5_22
7191 5 33 0 3.172465e-03 9.233049 5_33
21934 5 33 0 3.494193e-03 10.135411 5_33
11737 5 42 0 5.742640e-03 11.777374 5_42
9006 5 74 0 3.914383e-03 5.962845 5_74
8307 5 77 0 2.688499e-03 4.968991 5_77
23031 5 77 0 3.372669e-03 7.209348 5_77
12336 5 106 0 3.849733e-03 5.203630 5_106
9863 5 107 0 3.267132e-03 6.257622 5_107
10183 5 107 0 5.027797e-03 10.519018 5_107
26826 5 107 0 5.098761e-03 10.657625 5_107
14272 6 1 0 2.481154e-03 4.975192 6_1
28878 6 2 0 4.933539e-03 13.776082 6_2
6445 6 3 0 3.021212e-03 6.201721 6_3
13215 6 3 0 2.729425e-03 5.198156 6_3
5426 6 3 0 2.720316e-03 5.165127 6_3
27466 6 3 0 2.800692e-03 5.452827 6_3
7012 6 10 0 2.476425e-03 5.280450 6_10
6446 6 12 0 2.707793e-03 5.356820 6_12
21196 6 12 0 2.610395e-03 4.994895 6_12
2948 6 20 0 9.589645e-04 8.590095 6_20
11608 6 22 0 3.566310e-04 6.060927 6_22
12068 6 27 0 2.022847e-03 9.934557 6_27
11916 6 28 0 6.702747e-04 6.023403 6_28
16262 6 28 0 1.342855e-03 14.617025 6_28
26597 6 28 0 6.571898e-04 5.892339 6_28
17717 6 29 0 1.949141e-03 5.166137 6_29
450 6 33 0 5.031740e-03 9.026093 6_33
11465 6 34 0 3.884610e-03 7.503248 6_34
26151 6 34 0 3.200807e-03 5.589616 6_34
7023 6 35 0 4.640412e-03 8.146305 6_35
19873 6 51 0 6.472491e-03 8.081703 6_51
9518 6 65 0 3.171433e-03 5.008534 6_65
24306 6 74 0 3.209307e-03 5.167307 6_74
26040 6 77 0 2.509869e-03 5.332382 6_77
9531 6 82 0 3.475280e-03 5.063114 6_82
3599 6 87 0 2.630606e-03 7.177615 6_87
29298 6 92 0 2.291373e-03 6.332943 6_92
27586 6 93 0 9.055263e-03 16.629993 6_93
3902 6 103 0 8.850195e-05 5.007429 6_103
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23999 19 37 0 9.056662e-04 7.201374 19_37
22346 19 37 0 9.022697e-04 7.164277 19_37
302 19 37 0 9.393677e-04 7.562097 19_37
23987 19 37 0 7.522153e-04 5.368519 19_37
15035 19 37 0 1.096213e-03 9.086661 19_37
4747 19 39 0 3.773609e-03 9.871133 19_39
1189 19 39 0 4.094111e-03 12.013226 19_39
11850 19 39 0 2.507398e-03 5.530192 19_39
16959 19 39 0 2.634324e-03 5.926738 19_39
20775 19 39 0 7.879171e-03 16.819015 19_39
11510 20 1 0 4.994437e-03 13.411691 20_1
4255 20 2 0 4.191876e-03 5.649603 20_2
1344 20 4 0 1.823655e-03 5.292130 20_4
26492 20 4 0 1.854764e-03 5.459203 20_4
16598 20 4 0 1.990174e-03 6.155167 20_4
4254 20 5 0 2.000425e-03 5.830003 20_5
11696 20 18 0 1.986533e-03 8.858633 20_18
6729 20 19 0 2.308349e-03 7.573057 20_19
13751 20 19 0 3.451762e-03 9.776633 20_19
24533 20 19 0 2.448511e-03 9.918664 20_19
11675 20 29 0 4.052747e-03 6.403460 20_29
12581 20 31 0 8.787756e-04 5.881072 20_31
16025 20 34 0 9.046714e-03 13.673537 20_34
6740 20 37 0 4.744323e-03 12.896281 20_37
1869 20 37 0 2.120393e-03 4.937566 20_37
4200 20 37 0 2.235034e-03 5.457694 20_37
15345 20 37 0 3.162688e-03 8.887694 20_37
16202 20 37 0 2.142581e-03 5.040393 20_37
16588 20 37 0 2.502312e-03 6.573603 20_37
40458 20 37 0 2.953235e-03 8.210612 20_37
16581 20 38 0 2.364398e-03 9.610334 20_38
7479 21 14 0 2.074957e-03 5.112417 21_14
6012 21 14 0 4.791262e-02 36.280404 21_14
22216 21 14 0 2.040817e-03 4.948542 21_14
27486 21 17 0 4.819541e-03 12.879840 21_17
10932 21 19 0 1.219133e-03 11.915016 21_19
10696 21 23 0 1.427353e-03 10.564639 21_23
7355 21 23 0 2.829401e-03 17.323293 21_23
25256 21 23 0 8.101470e-04 4.972521 21_23
20741 21 23 0 4.708805e-03 22.357905 21_23
7580 21 23 0 1.866838e-03 13.215581 21_23
22315 21 23 0 1.342406e-03 9.958732 21_23
6015 21 23 0 8.226772e-04 5.124050 21_23
10847 21 23 0 8.285629e-04 5.194430 21_23
14416 21 23 0 8.762622e-04 5.747038 21_23
10570 21 24 0 2.764828e-02 29.361408 21_24
25271 21 24 0 6.056470e-03 14.288850 21_24
14366 22 2 0 3.692834e-03 7.749166 22_2
1639 22 4 0 9.735777e-03 26.080546 22_4
10823 22 4 0 3.100068e-02 37.675783 22_4
25692 22 4 0 1.480407e-03 7.523869 22_4
16322 22 4 0 1.524268e-03 7.957073 22_4
1612 22 7 0 5.806021e-03 18.827060 22_7
28939 22 7 0 2.456327e-03 10.323803 22_7
26097 22 7 0 1.903012e-03 7.802638 22_7
16335 22 7 0 1.427197e-03 4.961057 22_7
16401 22 10 0 6.749948e-03 19.523416 22_10
10920 22 10 0 3.040051e-03 11.636204 22_10
1635 22 10 0 3.357164e-03 12.616745 22_10
25624 22 10 0 1.077235e-02 24.152872 22_10
1667 22 12 0 4.189826e-03 6.198327 22_12
1708 22 16 0 2.804823e-03 6.313979 22_16
11989 22 17 0 2.604813e-03 6.016567 22_17
1669 22 17 0 2.388565e-03 5.093098 22_17
16457 22 17 0 2.548829e-03 5.955941 22_17
11408 22 18 0 2.376467e-03 5.786774 22_18
10705 22 18 0 3.219171e-03 8.785575 22_18
26101 22 18 0 2.190273e-03 4.980798 22_18
13130 22 20 0 3.715895e-03 7.411757 22_20
12659 22 20 0 3.768307e-03 7.550198 22_20
1497 22 20 0 1.750054e-02 22.760472 22_20
1729 22 20 0 1.645615e-02 22.148957 22_20
27339 22 20 0 4.048252e-03 8.258548 22_20
169 22 24 0 4.032848e-03 6.930810 22_24
1701 22 24 0 3.375117e-03 5.284391 22_24
14897 22 24 0 4.431354e-03 7.774242 22_24
30850 22 24 0 3.523102e-03 5.553423 22_24
10806 1 34 0 5.295764e-14 57.738605 1_34
13102 1 39 0 3.315261e-03 10.003195 1_39
27770 1 39 0 3.911481e-03 13.235447 1_39
3878 1 67 0 2.369908e-03 9.869559 1_67
6084 1 67 0 2.889627e-03 97.641844 1_67
8972 1 67 0 2.358493e-03 5.497826 1_67
4984 1 67 0 1.545643e-02 57.298912 1_67
12337 1 67 0 4.725592e-03 30.770630 1_67
4987 1 67 0 2.751215e-03 7.732472 1_67
4986 1 67 0 2.365617e-03 9.490311 1_67
23686 1 67 0 4.274884e-03 13.836249 1_67
19728 1 67 0 1.095306e-01 87.219078 1_67
19730 1 67 0 2.519376e-03 8.442318 1_67
33804 1 67 0 3.753844e-03 13.607058 1_67
18309 2 2 0 2.687461e-03 6.115116 2_2
4205 2 70 0 8.144892e-04 12.672162 2_70
4203 2 70 0 3.043836e-04 7.976593 2_70
20357 3 74 0 4.737147e-03 8.567573 3_74
5430 6 26 0 4.158685e-07 48.074005 6_26
26821 6 26 0 3.201168e-08 57.343431 6_26
12376 6 26 0 3.286132e-09 5.099941 6_26
12123 6 26 0 2.140771e-08 16.300510 6_26
12122 6 26 0 3.405255e-09 13.368394 6_26
12277 6 26 0 3.299915e-09 9.612337 6_26
12121 6 26 0 3.528759e-09 6.190611 6_26
14238 6 26 0 1.014370e-08 29.649746 6_26
12119 6 26 0 1.248518e-06 31.821594 6_26
26799 6 26 0 3.362748e-09 11.882450 6_26
26798 6 26 0 1.389603e-08 16.271633 6_26
26794 6 26 0 7.973266e-07 31.236740 6_26
12077 6 26 0 1.339578e-08 25.649785 6_26
27901 6 26 0 2.290815e-06 94.979929 6_26
26753 6 26 0 1.784659e-08 28.058057 6_26
40588 6 26 0 1.959301e-08 31.296840 6_26
38461 6 26 0 2.030202e-08 43.579419 6_26
2472 7 32 0 5.295365e-03 16.553696 7_32
2417 7 48 0 1.985660e-02 26.280838 7_48
11287 7 48 0 3.251212e-03 8.480955 7_48
5352 9 66 0 6.410641e-03 16.418171 9_66
23362 11 34 0 5.268659e-03 16.338190 11_34
10048 11 71 0 4.945115e-04 8.078237 11_71
5757 12 75 0 9.930034e-04 4.950973 12_75
3647 12 75 0 7.583935e-01 31.837851 12_75
23689 12 75 0 1.263032e-03 7.435156 12_75
14576 13 62 0 1.184603e-03 5.141047 13_62
4278 13 62 0 2.623635e-02 34.109417 13_62
7037 13 62 0 3.792673e-03 16.021853 13_62
21502 13 62 0 1.375007e-03 6.541970 13_62
33163 13 62 0 4.222571e-03 14.362404 13_62
8490 15 27 0 1.081822e-03 14.949422 15_27
9557 16 31 0 9.864480e-04 7.250083 16_31
5882 16 48 0 2.678682e-03 5.500975 16_48
21816 16 48 0 3.359534e-03 7.686066 16_48
20635 16 48 0 2.529183e-03 5.041782 16_48
29281 17 39 0 4.210955e-04 18.142001 17_39
23427 17 44 0 3.147351e-03 8.499971 17_44
10447 19 33 0 4.288666e-03 25.283704 19_33
2307 19 33 0 6.402774e-04 12.148931 19_33
2302 19 33 0 1.622981e-03 16.801562 19_33
17023 19 33 0 8.323421e-04 15.090253 19_33
17014 19 33 0 6.498374e-03 30.549207 19_33
2186 19 34 0 1.122602e-05 10.153474 19_34
4615 19 34 0 1.469728e-05 20.818757 19_34
7712 19 34 0 1.457861e-04 25.310549 19_34
6728 20 28 0 7.326170e-04 5.042545 20_28
4056 20 28 0 8.199441e-04 7.021100 20_28
4084 20 28 0 1.109454e-03 43.278387 20_28
PVE genename gene_type z
18145 2.967972e-08 ICMT protein_coding 0.239144685
540 4.908052e-08 KIF1B protein_coding -0.420023025
3427 5.416565e-07 FBXO6 protein_coding -1.572219800
12643 4.120169e-08 LINC01772 lincRNA -0.398779133
4362 1.880307e-07 EMC1 protein_coding 1.088366518
521 8.767512e-07 AKR7A2 protein_coding 1.952591686
9138 1.869573e-07 OTUD3 protein_coding -1.172063931
23845 1.603618e-07 OTUD3 protein_coding -1.094008105
7459 5.733779e-08 CDA protein_coding 0.585809577
22197 4.538973e-08 CDA protein_coding 0.405761587
1421 5.041202e-08 USP48 protein_coding 0.398466350
16137 4.315059e-08 USP48 protein_coding -0.217152439
26725 3.677466e-08 PHACTR4 protein_coding 0.294620308
10125 2.109781e-06 SVBP protein_coding -2.392855228
26497 3.201090e-07 SZT2 protein_coding 1.464634867
3556 3.406055e-08 SLC5A9 protein_coding 0.063362895
18301 3.402305e-08 SLC5A9 protein_coding 0.056753496
7782 6.935163e-08 SLC1A7 protein_coding -0.504506046
7796 7.188905e-06 RAVER2 protein_coding 3.020571751
3449 5.596298e-08 TNNI3K protein_coding -0.474773503
14321 8.385957e-07 RP11-17E13.2 lincRNA -1.942794637
3452 1.975645e-06 CRYZ protein_coding -2.282589321
18194 8.833860e-07 CRYZ protein_coding -1.958906198
18232 5.438768e-08 RPF1 protein_coding 0.564309243
5522 5.604045e-08 KYAT3 protein_coding 1.036122617
7116 5.605291e-08 FAM69A protein_coding 2.551431698
9301 6.808437e-08 S1PR1 protein_coding -0.748495522
21981 1.320217e-07 DRAM2 protein_coding 1.464788307
27490 4.551065e-08 RP5-965F6.2 lincRNA 1.039156130
11807 6.971916e-08 MAN1A2 protein_coding -0.552900612
7879 2.531653e-05 ACP6 protein_coding 4.613975854
19480 2.946285e-08 CHD1L protein_coding -0.013537587
22610 2.096948e-05 ACP6 protein_coding 4.575774147
11756 5.555864e-08 HRNR protein_coding 0.388616850
11240 3.041054e-08 C1orf204 protein_coding 0.762346726
20838 3.478003e-07 ALDH9A1 protein_coding 1.618495941
6101 8.862550e-08 CREG1 protein_coding -0.853956131
3535 2.745879e-07 VAMP4 protein_coding -2.021000926
12590 2.454263e-07 RASAL2-AS1 lincRNA 1.577768381
12555 7.545563e-08 RP11-134G8.5 lincRNA -0.771680303
4884 5.048605e-08 DSTYK protein_coding -0.819870882
6911 6.665819e-08 PTPN14 protein_coding 0.657855506
27865 1.330618e-07 LEFTY1 protein_coding 0.980249648
6195 3.973518e-06 SCCPDH protein_coding -3.048942646
13729 2.308280e-08 RP11-488L18.10 lincRNA -0.373514274
20946 3.863411e-06 SCCPDH protein_coding -3.051731146
13065 1.879323e-08 OR2W3 protein_coding -0.065549661
3339 5.321611e-08 TPO protein_coding 0.008096188
18384 6.325618e-08 ITGB1BP1 protein_coding -0.466556830
11076 3.289519e-08 FAM228A protein_coding 0.940387821
15938 1.331314e-07 NCOA1 protein_coding 1.253723345
12939 3.256031e-08 AC073283.4 lincRNA -0.112657370
27607 5.604666e-08 AC073283.4 lincRNA 0.701371180
7881 2.859861e-07 PPP1R21 protein_coding -1.214145067
5540 4.511194e-08 LHCGR protein_coding 0.382961327
20289 1.828435e-07 LHCGR protein_coding -1.049014964
18117 3.752989e-07 CD207 protein_coding 2.245251077
18833 6.462822e-08 STAMBP protein_coding 1.184792673
6244 7.183369e-08 ZNF514 protein_coding -0.291985227
20994 6.536004e-08 ZNF514 protein_coding -0.183915250
3642 3.773205e-08 C2orf40 protein_coding 0.071374113
3333 9.000856e-07 UXS1 protein_coding 1.974871040
18108 4.886867e-08 ORC4 protein_coding -0.268481599
863 1.207174e-07 CYBRD1 protein_coding 0.923509271
4455 3.698492e-08 HOXD3 protein_coding 0.002308690
5596 5.494834e-08 MDH1B protein_coding 0.304853191
20336 2.287655e-07 ATIC protein_coding 1.074729753
24771 5.176614e-08 RBM44 protein_coding 0.313029824
6293 1.850645e-07 ESPNL protein_coding -1.417367242
8927 1.658335e-07 KLHL30 protein_coding -1.242112550
12043 6.912898e-08 TRAF3IP1 protein_coding -0.865308184
10005 5.898017e-08 BOK protein_coding 0.928550024
10430 4.673633e-08 D2HGDH protein_coding 0.739406811
12958 2.936317e-08 AC114730.2 lincRNA -0.030084372
23640 1.359775e-07 ATG4B protein_coding -1.186439596
25125 8.588776e-08 D2HGDH protein_coding 1.202319549
6289 7.608821e-08 SUMF1 protein_coding -0.959777571
21040 7.010831e-08 SUMF1 protein_coding -0.916191923
22785 5.496211e-08 IL17RC protein_coding -0.135788207
7134 1.604337e-08 TSEN2 protein_coding 1.165007194
23580 1.414843e-07 TTC21A protein_coding -0.933682830
22814 2.577966e-07 FYCO1 protein_coding 1.396861466
39244 4.294763e-08 PRSS45 protein_coding 0.447931944
3157 3.143690e-08 ACTR8 protein_coding -0.104181026
10381 1.354505e-07 CCDC66 protein_coding -1.319878876
38526 6.041068e-08 CCDC66 protein_coding -0.926996196
9498 3.814053e-08 SUCLG2 protein_coding 0.222588098
24904 7.323954e-08 DHFR2 protein_coding -0.878655449
9028 2.732909e-08 HSPBAP1 protein_coding 0.319028943
11415 9.744586e-07 ALG1L protein_coding 2.174161853
3202 1.055740e-07 SLC41A3 protein_coding 1.320648871
8085 4.979683e-08 NMNAT3 protein_coding -0.058455493
25972 4.283946e-08 PLSCR1 protein_coding -0.155091489
6960 9.103947e-08 IGSF10 protein_coding -0.884441643
13112 3.875338e-08 LINC00886 lincRNA 0.334099160
27780 3.581796e-08 LINC00886 lincRNA -0.096236069
10026 4.362861e-08 MUC20 protein_coding -0.548228111
3645 1.926454e-07 PIGZ protein_coding 1.385192240
18386 3.424210e-07 PIGZ protein_coding 1.662657598
10958 3.826572e-08 PCGF3 protein_coding -0.260635278
4357 1.505545e-07 IDUA protein_coding -1.261859716
8107 6.376017e-08 UVSSA protein_coding -0.861322805
19092 1.485051e-07 IDUA protein_coding -1.188709110
9729 6.205500e-08 FAM53A protein_coding 0.669441330
26949 5.127985e-08 CFAP99 protein_coding 0.774030455
19538 5.791828e-08 TMEM128 protein_coding -0.659975489
13412 4.143726e-07 RP11-539L10.3 lincRNA -1.834959651
9279 1.493465e-07 AC093323.3 lincRNA -1.392536686
13415 1.085613e-07 RP11-774O3.3 lincRNA 0.974762445
10163 3.718443e-08 ZNF518B protein_coding 0.571070739
2737 7.773337e-08 STIM2 protein_coding 0.916001158
18838 1.620574e-06 ATP8A1 protein_coding 2.309092222
11860 4.923830e-07 CNGA1 protein_coding -1.923053579
26542 1.330893e-07 CNGA1 protein_coding -1.333808900
4408 1.812492e-07 SRD5A3 protein_coding -1.170589307
277 6.183423e-08 RUFY3 protein_coding 0.567301477
15009 5.923867e-08 RUFY3 protein_coding -0.737462087
5643 5.118623e-08 NAAA protein_coding -0.203875610
20392 5.080498e-08 NAAA protein_coding -0.229631492
34403 6.113573e-08 NAAA protein_coding -0.451297692
11814 7.533044e-08 HSD17B11 protein_coding 0.829426820
26496 7.628069e-08 HSD17B11 protein_coding 1.075066787
14305 3.065918e-08 RP11-571L19.8 lincRNA -0.311361835
24275 1.725965e-07 ADH6 protein_coding 1.598605753
5654 5.567988e-08 PPA2 protein_coding -0.255177151
20404 4.891407e-08 PPA2 protein_coding 0.043086030
20408 1.636176e-07 ENPEP protein_coding 1.435692664
28723 6.296553e-08 SNHG8 lincRNA 0.658638510
36624 2.976559e-07 ANXA5 protein_coding -1.376170724
21516 5.316448e-08 WDR17 protein_coding 0.290467583
2744 5.084418e-08 LRP2BP protein_coding 0.401078316
6397 2.170685e-07 CYP4V2 protein_coding -1.282357327
8216 8.015577e-08 KLKB1 protein_coding 0.752919864
13385 4.967485e-08 RP11-11N5.1 lincRNA 0.317906005
14237 4.506262e-08 RP11-11N5.3 lincRNA 0.126423375
21143 2.745132e-07 CYP4V2 protein_coding -1.387383534
8219 1.227325e-07 CCDC127 protein_coding -1.286290946
15458 4.292146e-07 SLC9A3 protein_coding 0.946593837
13411 8.400466e-08 CTD-2245E15.3 lincRNA 0.760792106
13370 4.079298e-08 LINC02145 lincRNA -0.085938722
13383 3.663074e-08 SNHG18 lincRNA 0.081069368
28041 1.505687e-07 SNHG18 lincRNA 1.212463904
8188 9.315159e-08 CMBL protein_coding 0.833093909
3079 6.237372e-07 DAP protein_coding -1.836357379
17845 7.111217e-08 DROSHA protein_coding -0.521791171
7191 8.524368e-08 SETD9 protein_coding -0.882862786
21934 1.030644e-07 SETD9 protein_coding -0.970483811
11737 1.968250e-07 OCLN protein_coding -1.211458994
9006 6.792618e-08 PPIC protein_coding -0.564727535
8307 3.887751e-08 ALDH7A1 protein_coding -0.027854047
23031 7.076035e-08 ALDH7A1 protein_coding -0.793178062
12336 5.829850e-08 MXD3 protein_coding -0.276558915
9863 5.949718e-08 PHYKPL protein_coding -0.582546796
10183 1.539123e-07 ZNF354B protein_coding -1.086779855
26826 1.581413e-07 FAM153C protein_coding 1.178689690
14272 3.592393e-08 RP11-532F6.3 lincRNA 0.175732225
28878 1.977901e-07 RP11-157J24.2 lincRNA 1.359903156
6445 5.452726e-08 MYLK4 protein_coding 0.509598061
13215 4.128962e-08 LINC01011 lincRNA -0.245955915
5426 4.089034e-08 RIPK1 protein_coding -0.267420987
27466 4.444340e-08 SERPINB9P1 lincRNA -0.414074883
7012 3.805541e-08 SYCP2L protein_coding -0.442810060
6446 4.221267e-08 TBC1D7 protein_coding 0.296434275
21196 3.794486e-08 TBC1D7 protein_coding 0.145104761
2948 2.397291e-08 BTN3A3 protein_coding 0.015487617
11608 6.290403e-09 ZSCAN26 protein_coding 0.229080872
12068 5.848331e-08 BRD2 protein_coding 1.894966403
11916 1.174938e-08 RPL10A protein_coding 0.898562553
16262 5.712267e-08 ITPR3 protein_coding 2.095859177
26597 1.126935e-08 RPL10A protein_coding 0.987148584
17717 2.930417e-08 RNF8 protein_coding -0.056127228
450 1.321717e-07 CUL7 protein_coding 0.747906425
11465 8.482367e-08 SUPT3H protein_coding -0.904083359
26151 5.206691e-08 SUPT3H protein_coding -0.466531871
7023 1.100114e-07 SLC25A27 protein_coding 0.889313319
19873 1.522280e-07 MTO1 protein_coding -0.811943223
9518 4.622601e-08 MANEA protein_coding 0.065091049
24306 4.826094e-08 MFSD4B protein_coding 0.075285235
26040 3.894867e-08 FAM26F protein_coding 0.098915159
9531 5.120683e-08 SMPDL3A protein_coding -0.142989824
3599 5.494855e-08 AKAP7 protein_coding -0.616835011
29298 4.223006e-08 GVQW2 protein_coding -0.675874110
27586 4.382414e-07 RP3-460G2.2 lincRNA -2.083261370
3902 1.289698e-09 SERAC1 protein_coding 0.021599445
14208 1.338430e-09 GTF2H5 protein_coding 0.146671647
2988 1.035352e-08 MRPL18 protein_coding -2.249761834
13165 3.651743e-08 AC093627.8 lincRNA 0.292277061
27467 4.359373e-08 PSMG3-AS1 lincRNA -0.378043038
3937 5.593252e-07 CCZ1 protein_coding 1.926156679
18686 3.768270e-07 CCZ1 protein_coding 1.877189259
18672 3.195628e-08 PMS2 protein_coding -0.828150796
32859 2.423323e-07 CCZ1 protein_coding 1.622849813
17159 3.087499e-08 C1GALT1 protein_coding 0.775296789
14257 1.537978e-07 GS1-166A23.2 lincRNA -0.926818846
840 5.320393e-08 OSBPL3 protein_coding 0.218366418
17134 3.276243e-08 MINDY4 protein_coding 0.408950258
11457 4.443069e-08 ZNF107 protein_coding -0.694440454
11782 4.291959e-08 ZNF273 protein_coding 0.689406338
13122 9.246577e-08 CRCP protein_coding 1.236269262
26465 6.145846e-08 ZNF273 protein_coding 0.932837385
27022 2.717417e-08 ERV3-1 protein_coding -0.373897169
39415 3.697452e-08 ZNF107 protein_coding -0.522027198
8358 1.223646e-06 WBSCR27 protein_coding -2.596799408
4394 4.914921e-08 PTPN12 protein_coding -0.068707659
19127 4.978849e-08 PTPN12 protein_coding -0.038378002
74 1.419271e-06 ABCB4 protein_coding 1.847895928
2363 3.801501e-08 GTPBP10 protein_coding 0.103843671
17090 1.846997e-07 PON2 protein_coding 1.448827764
828 2.111281e-07 ASNS protein_coding 1.769924731
8671 2.870161e-08 CNPY4 protein_coding -0.020060388
12216 1.709630e-08 SAP25 protein_coding 0.068927392
23954 3.492946e-07 SLC26A5 protein_coding 1.508557268
5125 6.636331e-08 TES protein_coding -0.519405918
4452 1.696138e-07 OPN1SW protein_coding 1.024844827
7190 8.796447e-08 LRGUK protein_coding 0.889078139
21 3.064600e-07 TMEM176A protein_coding -1.826630114
2461 2.574465e-07 TMEM176B protein_coding -1.669675814
11166 5.521321e-06 WDR86 protein_coding -2.895133691
13842 2.486528e-08 LINC01003 lincRNA -0.425451886
25862 2.201294e-06 WDR86 protein_coding -2.566485090
28479 1.312262e-07 LINC01003 lincRNA -1.380897369
19064 9.597640e-08 WDR60 protein_coding 0.848191987
16889 5.889741e-07 ARHGEF10 protein_coding -1.594940294
15130 1.684274e-06 MYOM2 protein_coding 2.106259521
13463 3.384912e-08 CLDN23 protein_coding 1.625196493
28912 2.779832e-08 RP11-981G7.6 lincRNA 0.496074335
2120 7.519818e-07 PDGFRL protein_coding 1.866632709
11633 2.996510e-07 ENTPD4 protein_coding 1.932973905
9737 4.514387e-08 SNX31 protein_coding 0.009455059
21766 1.042505e-07 ASAP1 protein_coding -1.008582806
9305 1.282856e-07 TSNARE1 protein_coding 1.012418419
258 4.872813e-08 ZC3H3 protein_coding -0.615685951
6574 4.342390e-08 NAPRT protein_coding 0.438990829
21312 3.761216e-08 NAPRT protein_coding -0.065510418
15602 6.867929e-08 CPSF1 protein_coding 1.042879990
2505 1.350185e-08 DOCK8 protein_coding -0.050483179
9626 2.228467e-08 DMRT2 protein_coding 0.641670575
17227 1.453343e-08 DOCK8 protein_coding -0.193605648
29323 9.878029e-08 LINC01230 lincRNA 1.402975415
31583 2.864909e-08 DOCK8 protein_coding -0.794918991
6576 6.014324e-08 AK3 protein_coding -0.848931759
21314 3.491537e-08 AK3 protein_coding -0.464397963
3749 4.313212e-08 CD274 protein_coding -0.470739120
26387 1.168519e-06 PDCD1LG2 protein_coding -2.351398647
8332 3.707769e-08 CCDC171 protein_coding -0.157121597
26055 3.025223e-08 HACD4 protein_coding 0.074719218
12586 1.869503e-07 RP11-370B11.3 lincRNA 1.203288096
5390 1.127372e-07 APTX protein_coding -0.671241425
13808 1.128618e-07 RP11-384P7.7 lincRNA 0.923319969
8329 6.340525e-08 NUDT2 protein_coding 0.550071297
2485 3.937354e-08 NMRK1 protein_coding 0.645405159
17205 5.586441e-08 NMRK1 protein_coding 0.853549813
27643 4.044418e-08 LINC00484 lincRNA -0.170387331
2490 4.566210e-08 CORO2A protein_coding 0.290834207
5359 6.391282e-08 ZNF189 protein_coding 0.670394596
18409 4.629823e-08 INVS protein_coding 0.632036904
2486 1.412766e-08 TMEM245 protein_coding 0.242908835
9627 1.435065e-08 ZNF483 protein_coding -0.328936474
24312 1.462825e-08 ZNF483 protein_coding -0.364811268
17216 1.809948e-07 PTGR1 protein_coding -1.700695890
3664 4.520748e-08 HDHD3 protein_coding 0.189012099
18403 5.466742e-08 HDHD3 protein_coding 0.402546370
34136 1.517826e-07 ZFP37 protein_coding -1.164997405
1524 2.460825e-06 WHRN protein_coding 2.752308321
21342 6.913211e-08 GBGT1 protein_coding -2.413254976
24531 4.965246e-07 ABO protein_coding 0.639587447
4619 2.998712e-08 UBAC1 protein_coding 0.030488086
7616 3.304845e-08 GPSM1 protein_coding -0.505102970
2577 1.262896e-07 PITRM1 protein_coding -1.007937847
12883 4.059761e-08 LINC00702 lincRNA -0.082658134
5031 1.255067e-07 ECHDC3 protein_coding 1.393594958
27294 2.474178e-07 SFTA1P lincRNA -1.429991597
33845 6.250866e-06 ECHDC3 protein_coding 3.249898228
6948 1.985471e-08 NMT2 protein_coding -0.515306167
12157 3.295987e-08 MALRD1 protein_coding 0.026142064
9876 8.131948e-08 ZNF25 protein_coding 0.333750519
26235 6.161645e-08 ZNF33B protein_coding -0.641925370
4930 9.849574e-08 SFTPD protein_coding -0.818569148
3905 1.270327e-07 OPN4 protein_coding -1.102800039
10862 6.057233e-08 NUTM2A protein_coding 1.246248487
12445 6.726926e-08 NUTM2D protein_coding 1.215417899
18657 3.540765e-08 OPN4 protein_coding -0.329898324
27281 4.223367e-08 LINC00863 lincRNA 0.692414314
11898 2.751539e-06 PAPSS2 protein_coding -2.916812770
6650 1.501195e-06 FRA10AC1 protein_coding -2.261837100
21383 3.714826e-07 FRA10AC1 protein_coding -1.704127033
7173 9.397156e-07 GOLGA7B protein_coding -1.895166814
2558 5.140109e-07 SFXN3 protein_coding 1.830707947
8536 8.046146e-08 BORCS7 protein_coding 1.464598160
18477 5.404475e-08 WDR11 protein_coding -0.574108824
2543 1.956448e-05 NSMCE4A protein_coding 3.456734448
5563 4.328126e-08 BTBD16 protein_coding -0.181379950
17300 7.796385e-07 LHPP protein_coding -1.656889258
23923 3.257175e-07 MGMT protein_coding 1.456353246
6866 4.911516e-08 DPYSL4 protein_coding 0.304520368
9420 4.452020e-08 PWWP2B protein_coding 0.066112686
25981 3.038818e-07 JAKMIP3 protein_coding -1.424493009
21604 1.266244e-07 DPYSL4 protein_coding 0.956079039
6009 7.757693e-08 PGGHG protein_coding 0.675771275
10901 5.403437e-08 IFITM2 protein_coding -0.410119901
14141 8.775754e-08 RP11-326C3.15 lincRNA 0.748207679
13526 3.528568e-07 AP006621.5 lincRNA -2.255614909
12411 9.461016e-08 TSPAN4 protein_coding 0.941077857
20753 8.705527e-08 PGGHG protein_coding 0.740129838
25603 4.924165e-08 IFITM2 protein_coding -0.304246631
28190 2.505237e-07 RP11-326C3.12 lincRNA 1.278558639
28777 9.116107e-08 RP11-326C3.15 lincRNA 0.766010701
24727 9.138998e-07 TMEM80 protein_coding -2.213518488
39003 5.660567e-08 LMNTD2 protein_coding 0.633373152
2823 2.082910e-08 C11orf21 protein_coding -0.550613719
17547 7.792088e-07 SLC22A18 protein_coding -2.349874861
3829 2.960646e-07 TRIM6 protein_coding -2.456361327
18582 5.459380e-07 TRIM6 protein_coding -2.610089369
24000 7.263294e-08 PRKCDBP protein_coding -0.645576187
23276 6.941729e-08 RIC3 protein_coding -0.704758819
4945 6.347299e-08 MICAL2 protein_coding 0.504432935
2808 4.820211e-08 KIAA1549L protein_coding -0.335820831
3857 5.485244e-08 CAT protein_coding -0.409668221
6670 5.895231e-08 APIP protein_coding -0.618278593
18610 4.491466e-08 CAT protein_coding -0.056206937
21409 4.573430e-08 APIP protein_coding -0.220451675
6834 3.210964e-07 EXT2 protein_coding -1.459667131
21573 3.994602e-07 EXT2 protein_coding -1.538426249
7775 8.572369e-08 TPCN2 protein_coding -1.237753184
22513 2.754983e-08 TPCN2 protein_coding -0.589873148
9895 1.728613e-07 MRPL48 protein_coding 1.190168138
7439 1.479624e-07 GDPD5 protein_coding -1.147220793
13261 9.175786e-08 RAB30-AS1 lincRNA 0.929715236
4035 1.515514e-07 RAB38 protein_coding 1.073954861
2794 1.664414e-07 PANX1 protein_coding 1.243733119
6690 3.643876e-08 ZC3H12C protein_coding -0.176249865
5482 1.448114e-06 PPP2R1B protein_coding 2.737449710
20234 1.316428e-06 PPP2R1B protein_coding 2.671305810
6691 3.018955e-07 TTC12 protein_coding -1.696940513
21429 8.993503e-08 TTC12 protein_coding -1.281967993
10385 1.780464e-07 C11orf71 protein_coding 1.293467398
2774 3.212576e-08 PUS3 protein_coding -0.580011271
13536 4.508391e-08 RP11-890B15.3 lincRNA 0.501667838
3771 4.079670e-08 SNX19 protein_coding 0.419111598
2866 8.812031e-08 WNT5B protein_coding -1.012958275
4562 2.187599e-07 CRACR2A protein_coding 1.547976694
2871 6.477542e-06 PARP11 protein_coding -3.090457641
13577 6.259140e-07 RP1-102E24.8 lincRNA 1.794614984
13765 6.275308e-08 RP13-735L24.1 lincRNA 0.161045988
28410 6.536138e-08 RP13-735L24.1 lincRNA 0.977355015
15537 5.188691e-08 CLEC2D protein_coding -1.136014247
27514 9.272410e-08 PRH1 protein_coding -0.796918793
13543 5.937264e-08 RP11-377D9.3 lincRNA -0.583178672
162 9.434844e-08 MGST1 protein_coding -0.837298544
474 1.088762e-07 LMO3 protein_coding 0.957135074
14774 3.728000e-07 RECQL protein_coding -1.616823710
14514 5.766035e-07 RP11-582E3.6 lincRNA 2.303870106
29152 1.419394e-07 RP11-582E3.6 lincRNA 1.511070786
2846 6.351940e-08 CAPRIN2 protein_coding 0.001507103
12982 3.499916e-07 LINC00941 lincRNA 1.284727799
21563 6.029579e-08 GXYLT1 protein_coding 0.047537814
19915 1.681947e-07 SLC26A10 protein_coding 0.849894960
4351 6.768499e-08 YEATS4 protein_coding 0.575990296
19087 5.068337e-08 YEATS4 protein_coding 0.292813461
4348 3.826506e-08 RAB3IP protein_coding -0.077277878
5243 5.524082e-08 USP44 protein_coding -0.506369197
12178 1.740677e-07 C12orf73 protein_coding -1.553859140
5718 3.639049e-08 TDG protein_coding -0.288433659
20001 5.696999e-08 WASHC4 protein_coding 1.711143009
14626 4.866269e-08 RP11-575F12.3 lincRNA -0.186786558
10970 3.412824e-08 EP400NL protein_coding 0.240202648
10897 5.810108e-08 DDX51 protein_coding -0.618143356
10866 5.692110e-08 NOC4L protein_coding 0.594594702
13585 4.528827e-08 RP13-977J11.2 lincRNA 0.518461113
10413 1.007747e-07 ZDHHC20 protein_coding -0.772215132
15099 2.088554e-07 IFT88 protein_coding -1.320702746
25108 4.860503e-08 ZDHHC20 protein_coding -0.026066309
1963 4.068875e-08 SGCG protein_coding 0.109019768
20479 6.533094e-08 MTMR6 protein_coding -0.545262192
10316 4.302798e-08 LACC1 protein_coding 0.037531417
5268 1.939843e-07 RCBTB2 protein_coding -1.270569149
5256 4.086163e-08 TBC1D4 protein_coding 0.810943103
18909 1.527216e-07 ABCC4 protein_coding -1.562968030
16681 2.297935e-07 UGGT2 protein_coding -1.395661682
4166 2.154437e-07 CLYBL protein_coding 1.176324978
18906 1.972563e-07 CLYBL protein_coding 1.111062754
10909 9.954713e-08 KLHL33 protein_coding 1.078266890
16190 2.005185e-07 RPGRIP1 protein_coding 1.428320630
7334 3.939391e-08 DHRS4 protein_coding 0.259683625
7340 1.825959e-07 DHRS1 protein_coding -2.143355013
22081 5.047746e-08 DHRS1 protein_coding -1.179572819
4318 6.289251e-08 L3HYPDH protein_coding 0.288050382
25183 5.405724e-08 GPR135 protein_coding -0.211046741
33192 5.429462e-08 L3HYPDH protein_coding -0.252546011
5780 3.912666e-08 RAB15 protein_coding 0.006329755
20530 4.220279e-08 RAB15 protein_coding 0.213541435
3677 1.938437e-08 DCAF4 protein_coding 1.480577350
10796 1.107677e-08 ACOT1 protein_coding 0.658176457
3688 1.431515e-08 ACOT2 protein_coding -1.206396425
5786 8.828428e-09 PTGR2 protein_coding -0.916339410
20536 9.857093e-09 PTGR2 protein_coding -1.585361682
180 5.726066e-08 POMT2 protein_coding 0.463089864
639 7.643309e-08 ADCK1 protein_coding -0.780906896
14908 4.719890e-08 POMT2 protein_coding -0.098550017
546 7.468735e-08 GALC protein_coding 0.821531163
265 2.734869e-08 CCDC88C protein_coding 0.123727401
23187 5.240712e-08 CPSF2 protein_coding -0.905280276
13650 1.502484e-07 RP11-1070N10.3 lincRNA 1.203939178
41233 3.556186e-08 RP11-1070N10.3 lincRNA 0.253582337
10872 9.017155e-08 SIVA1 protein_coding 0.860653750
16306 4.673970e-08 CEP170B protein_coding 0.528447319
10533 6.965997e-08 NOP10 protein_coding -0.909657931
12482 5.199827e-08 GOLGA8B protein_coding 0.420913375
4466 4.914668e-08 EIF2AK4 protein_coding 0.010835172
12768 5.649423e-08 PATL2 protein_coding -0.380215578
5612 4.496500e-08 SPPL2A protein_coding 0.081266251
28222 3.700381e-07 DYX1C1 protein_coding 1.497711229
5503 8.085413e-08 PAQR5 protein_coding 0.904598585
2094 8.814694e-06 CTSH protein_coding 3.428984562
16812 2.267219e-05 CTSH protein_coding 3.805848958
10526 4.675170e-08 IDH2 protein_coding 0.773158504
25226 4.929267e-08 IDH2 protein_coding 0.762462177
5833 7.758039e-07 ADAMTS17 protein_coding -2.063478773
23708 8.788480e-08 LRRC28 protein_coding 1.081247068
28345 6.768300e-07 CTD-2054N24.2 lincRNA 2.151744960
2021 2.121190e-07 NPRL3 protein_coding 1.293802591
1798 6.925041e-08 TELO2 protein_coding 0.184463116
18135 6.755821e-07 TPSG1 protein_coding -1.635342318
26379 6.869882e-07 CCDC154 protein_coding -1.873544536
20638 5.526086e-07 RPS2 protein_coding 1.613396522
15330 4.990932e-07 FLYWCH1 protein_coding 1.716423261
27054 1.677982e-08 EMP2 protein_coding 0.380912456
2061 1.919711e-08 CPPED1 protein_coding 0.487653845
10689 2.267735e-07 NPIPA1 protein_coding -1.566346740
10749 2.600038e-07 NPIPA5 protein_coding 1.869812585
25446 2.396572e-07 NPIPA5 protein_coding 1.802570389
10704 5.910735e-08 ACSM5 protein_coding -0.525574950
38804 4.356343e-08 ACSM5 protein_coding -0.217297211
21486 6.427882e-08 TBX6 protein_coding -0.696231402
13817 4.324546e-08 RP11-252A24.3 lincRNA 0.202015770
10827 3.476380e-07 ZFP1 protein_coding 2.045831428
691 3.287097e-07 ADAT1 protein_coding -2.271438630
15432 2.064489e-07 ADAT1 protein_coding -1.981474936
2018 2.144559e-08 MON1B protein_coding 0.330838688
13826 2.696447e-08 LINC02188 lincRNA -0.211254377
7450 1.507122e-08 RNF166 protein_coding -0.042074860
4697 1.453425e-07 CHMP1A protein_coding -1.084918016
25 4.523641e-07 DBNDD1 protein_coding -1.819290996
20641 6.336469e-08 DEF8 protein_coding -0.726307806
14757 2.905164e-07 DBNDD1 protein_coding -1.670734361
34631 1.208150e-06 DEF8 protein_coding 1.978031897
10449 7.753779e-08 RPH3AL protein_coding -0.641162542
20658 5.714434e-08 VPS53 protein_coding -0.386720597
19535 3.600290e-08 RPA1 protein_coding 0.334139701
11665 2.589375e-08 SHPK protein_coding 0.361813715
26346 2.217343e-08 SHPK protein_coding -0.016931891
37198 5.399624e-08 TRPV3 protein_coding 0.893996099
10622 5.079913e-06 VMO1 protein_coding 3.133140328
2621 4.333996e-08 CAMTA2 protein_coding -0.115870824
4499 8.198435e-08 USP6 protein_coding -0.542041500
19236 1.416042e-07 USP6 protein_coding -0.919379237
2690 8.609073e-08 MYH3 protein_coding -0.937795880
14850 8.289718e-08 ELAC2 protein_coding 0.931374697
27504 6.942765e-08 AC005224.2 lincRNA 0.709256669
4325 5.073162e-08 RHOT1 protein_coding -0.381424711
4768 2.939974e-08 CCT6B protein_coding 0.169171156
8617 2.991026e-08 SLFN5 protein_coding -0.212653548
9543 2.796321e-08 SLFN11 protein_coding 0.013621326
19509 3.026776e-08 CCT6B protein_coding -0.260964610
29246 4.783256e-08 DDX52 protein_coding 0.766019748
2598 1.006761e-05 CASC3 protein_coding -3.317317897
29239 4.174491e-07 PSMB3 protein_coding 1.728079362
28564 6.909275e-08 RP11-387H17.4 lincRNA 1.459166709
17335 4.365346e-07 CASC3 protein_coding -2.041390933
9689 2.827206e-08 JUP protein_coding 0.493661739
7716 2.100958e-07 NAGS protein_coding 1.240308747
10233 9.913961e-07 EFCAB13 protein_coding 7.932542707
24924 7.922514e-07 EFCAB13 protein_coding 6.662986545
38413 6.507814e-07 EFCAB13 protein_coding 7.365900426
5919 2.590371e-06 SCRN2 protein_coding 3.003800245
20052 6.485425e-08 MYCBPAP protein_coding -0.409563521
8529 1.336216e-07 COX11 protein_coding -1.714290715
13895 4.542282e-08 RP11-166P13.3 lincRNA -0.327061836
28528 5.999406e-08 RP11-166P13.3 lincRNA -0.563114817
13973 2.416466e-07 MYO15B protein_coding 1.655225290
28603 1.023466e-07 MYO15B protein_coding 1.244338903
10585 4.687717e-08 MXRA7 protein_coding -0.148266235
8828 5.240186e-07 MGAT5B protein_coding 1.631808474
25285 5.025822e-08 MXRA7 protein_coding -0.267283730
23551 7.523520e-07 TMC8 protein_coding 1.771786281
38702 5.074761e-08 MXRA7 protein_coding -0.279861996
5952 9.259892e-07 CCDC40 protein_coding -1.858015176
37956 4.184307e-08 ENDOV protein_coding 0.068479567
13891 7.089873e-08 RP11-1055B8.4 lincRNA -0.125751437
10599 7.720461e-08 TSPAN10 protein_coding -0.338720883
28525 7.253335e-08 RP11-1055B8.4 lincRNA -0.173969168
25296 7.098225e-08 TSPAN10 protein_coding 0.147638286
5970 6.119881e-08 WDR45B protein_coding 0.650825359
1936 5.278265e-08 LPIN2 protein_coding 0.434124143
16656 4.591761e-08 LPIN2 protein_coding 0.015171877
13913 6.509646e-08 LINC00667 lincRNA -0.420138960
5932 6.081516e-08 IMPA2 protein_coding -0.859576537
977 7.934830e-08 MOCOS protein_coding 0.630254421
15714 4.603917e-08 MOCOS protein_coding -0.028543794
20690 5.256465e-08 SLC14A1 protein_coding -0.382518413
8705 8.847816e-08 KATNAL2 protein_coding -0.822022145
4909 7.362624e-08 CNDP2 protein_coding -0.724962181
28552 1.269278e-07 LINC00909 lincRNA -1.076113696
8598 4.333125e-08 GALR1 protein_coding 0.276804307
23313 4.328611e-08 GALR1 protein_coding 0.263973671
2316 4.273680e-08 MIER2 protein_coding 0.446946951
4553 3.695801e-08 SHC2 protein_coding -0.381734995
20740 1.300360e-06 PLPP2 protein_coding 2.297737756
25361 4.933754e-08 C2CD4C protein_coding 0.577424050
19286 3.403000e-08 SHC2 protein_coding 0.268252555
25198 7.638547e-08 ODF3L2 protein_coding 0.947387627
11723 2.566372e-08 CFD protein_coding -0.458322217
684 9.906136e-08 WDR18 protein_coding 1.358541653
1593 5.084314e-07 POLR2E protein_coding -1.958967915
4580 4.286864e-06 ATP8B3 protein_coding -2.743966686
12702 2.422442e-08 SCAMP4 protein_coding 0.386606929
24543 2.885142e-08 MED16 protein_coding 0.522826198
15423 1.816375e-07 WDR18 protein_coding 1.638177694
16307 6.512515e-08 POLR2E protein_coding -1.124884898
4220 4.525395e-08 GPR108 protein_coding 0.153885660
10448 1.846678e-06 TRAPPC5 protein_coding 2.208169538
13217 7.397335e-19 P2RY11 protein_coding -1.099360760
13989 3.275769e-14 ILF3-AS1 lincRNA -1.680045893
19249 9.498953e-17 AP1M2 protein_coding -7.109668271
8736 7.810460e-07 RAB8A protein_coding -2.225357558
25738 1.083540e-07 CYP4F12 protein_coding 3.321716525
10335 4.526194e-07 B3GNT3 protein_coding 2.066918160
2327 1.283088e-08 JAK3 protein_coding -0.270437783
659 1.012093e-07 SUGP2 protein_coding -4.759323306
2345 1.235252e-07 LSR protein_coding -0.999367319
7697 1.654359e-08 COX7A1 protein_coding -0.337571534
12926 3.195478e-08 PINLYP protein_coding 2.819929485
17076 2.897219e-08 ETHE1 protein_coding -0.551796361
27596 2.636047e-08 PINLYP protein_coding 2.242658299
3560 0.000000e+00 CD3EAP protein_coding 0.055655825
38653 0.000000e+00 PNMAL1 protein_coding -1.815411074
2308 1.793082e-05 SIGLEC5 protein_coding -3.600826625
13483 1.771700e-08 SIGLEC14 protein_coding -0.617235528
17003 2.741505e-08 CD33 protein_coding 0.903184962
17024 2.510066e-06 SIGLEC5 protein_coding -2.863069195
8806 1.065383e-08 ZNF83 protein_coding 0.100355638
9296 1.298780e-08 ZNF160 protein_coding 0.420306051
9297 3.245130e-08 ZNF415 protein_coding 1.020478511
11996 1.159320e-08 ZNF525 protein_coding 0.288254365
11497 1.070584e-08 ZNF765 protein_coding 0.152206591
7612 2.403910e-08 ZNF761 protein_coding -0.807165609
23527 1.046279e-08 ZNF83 protein_coding 0.049148046
26090 1.085202e-08 ZNF600 protein_coding -0.216318124
23998 1.215734e-08 ZNF160 protein_coding 0.355096023
23999 1.898033e-08 ZNF415 protein_coding 0.724698685
22346 1.881174e-08 ZNF761 protein_coding -0.661236584
302 2.067275e-08 NLRP2 protein_coding 0.730400034
23987 1.175214e-08 RPS9 protein_coding 0.305767082
15035 2.898810e-08 NLRP2 protein_coding 0.921151109
4747 1.084037e-07 ZNF304 protein_coding -1.089943431
1189 1.431329e-07 ZNF586 protein_coding -1.616124312
11850 4.035374e-08 ZNF587 protein_coding -0.220575054
16959 4.543654e-08 ZNF419 protein_coding 0.309550992
20775 3.856572e-07 ERVK3-1 protein_coding -1.443600914
11510 1.949352e-07 C20orf96 protein_coding 1.339014986
4255 6.892022e-08 TMEM74B protein_coding -0.407500940
1344 2.808624e-08 CPXM1 protein_coding 0.327553229
26492 2.946717e-08 DDRGK1 protein_coding -0.377146046
16598 3.564931e-08 CDC25B protein_coding -0.521605129
4254 3.393997e-08 MCM8 protein_coding 0.276397649
11696 5.121329e-08 ENTPD6 protein_coding -1.936991180
6729 5.087366e-08 DUSP15 protein_coding -1.122158603
13751 9.820882e-08 RP5-1085F17.3 lincRNA -1.259355687
24533 7.067659e-08 FAM182B protein_coding 2.060609438
11675 7.552393e-08 SLC2A10 protein_coding -0.619692208
12581 1.504024e-08 SMIM25 lincRNA -0.314600486
16025 3.599913e-07 PHACTR3 protein_coding -1.376464821
6740 1.780570e-07 CABLES2 protein_coding 1.324157184
1869 3.046840e-08 TCFL5 protein_coding -0.081184724
4200 3.549879e-08 PPDPF protein_coding -0.313736239
15345 8.180233e-08 OGFR protein_coding 0.890393579
16202 3.142839e-08 COL9A3 protein_coding -0.177046746
16588 4.787019e-08 TCFL5 protein_coding -0.666491808
40458 7.056573e-08 HAR1A lincRNA 0.850441078
16581 6.612709e-08 PRPF6 protein_coding -0.256064108
7479 3.087136e-08 IFNAR2 protein_coding 0.292538013
6012 5.058740e-06 IFNAR1 protein_coding -3.047194176
22216 2.939014e-08 IFNAR2 protein_coding 0.065139283
27486 1.806494e-07 LINC01436 lincRNA -1.716929101
10932 4.227329e-08 SH3BGR protein_coding -3.116571305
10696 4.388400e-08 MX2 protein_coding -1.092447263
7355 1.426413e-07 C2CD2 protein_coding -1.584302063
25256 1.172360e-08 BACE2 protein_coding -0.086184457
20741 3.063812e-07 PRDM15 protein_coding 1.845605576
7580 7.179813e-08 CBS protein_coding -1.321471322
22315 3.890525e-08 CBS protein_coding -1.034375367
6015 1.226770e-08 SIK1 protein_coding 0.243564545
10847 1.252517e-08 UBE2G2 protein_coding -0.224409046
14416 1.465542e-08 LL21NC02-21A1.1 lincRNA 0.422426912
10570 2.362465e-06 YBEY protein_coding 2.388955903
25271 2.518472e-07 YBEY protein_coding 1.548723312
14366 8.327892e-08 AC006946.16 lincRNA -0.784405312
1639 7.389373e-07 DGCR14 protein_coding 2.127548693
10823 3.399021e-06 TXNRD2 protein_coding 2.835183327
25692 3.241475e-08 GNB1L protein_coding 0.750831339
16322 3.529678e-08 SNAP29 protein_coding -0.812227510
1612 3.181130e-07 SMARCB1 protein_coding 1.728548932
28939 7.379829e-08 KB-208E9.1 lincRNA -1.050017235
26097 4.321190e-08 DRICH1 protein_coding -0.757990792
16335 2.060527e-08 SUSD2 protein_coding 0.037247412
16401 3.835099e-07 RHBDD3 protein_coding -1.775708338
10920 1.029467e-07 TCN2 protein_coding 1.249283592
1635 1.232651e-07 SLC35E4 protein_coding 1.402168297
25624 7.571810e-07 TCN2 protein_coding 2.218887771
1667 7.557720e-08 SLC5A4 protein_coding -0.509124597
1708 5.153815e-08 RPL3 protein_coding 0.568767399
11989 4.560848e-08 NAGA protein_coding -1.011002512
1669 3.540295e-08 CYP2D6 protein_coding 0.270522473
16457 4.417855e-08 DESI1 protein_coding -0.881176287
11408 4.002106e-08 RRP7A protein_coding -0.450122744
10705 8.230658e-08 SERHL2 protein_coding 0.879677859
26101 3.174808e-08 RRP7A protein_coding 0.069853538
13130 8.015026e-08 ARHGAP8 protein_coding -0.778879342
12659 8.279897e-08 NUP50-AS1 lincRNA -0.791556719
1497 1.159186e-06 NUP50 protein_coding -2.090819345
1729 1.060722e-06 FAM118A protein_coding -2.176490239
27339 9.729521e-08 NUP50-AS1 lincRNA -0.997417564
169 8.134224e-08 MAPK8IP2 protein_coding 0.657549635
1701 5.190438e-08 ARSA protein_coding 0.285684735
14897 1.002570e-07 MAPK8IP2 protein_coding 0.682702923
30850 5.693853e-08 ARSA protein_coding 0.080267905
10806 8.898467e-18 MROH7 protein_coding 3.976137988
13102 9.651098e-08 L1TD1 protein_coding -1.234862240
27770 1.506608e-07 L1TD1 protein_coding -1.877645078
3878 6.806904e-08 CLCC1 protein_coding -1.719746875
6084 8.211038e-07 SYPL2 protein_coding 9.792802919
8972 3.773513e-08 GSTM4 protein_coding -0.353118235
4984 2.577365e-06 GSTM1 protein_coding 6.501276770
12337 4.231681e-07 GSTM2 protein_coding 4.663321525
4987 6.191033e-08 GSTM3 protein_coding -1.014289761
4986 6.533490e-08 GSTM5 protein_coding 2.099156257
23686 1.721326e-07 GSTM4 protein_coding 2.225129196
19728 2.780144e-05 GSTM1 protein_coding 7.684479890
19730 6.189776e-08 GSTM5 protein_coding 1.588977718
33804 1.486486e-07 GSTM5 protein_coding 2.379822690
18309 4.782634e-08 COLEC11 protein_coding -0.761795669
4205 3.003699e-08 CCDC93 protein_coding -0.578522282
4203 7.065761e-09 INSIG2 protein_coding 1.427561022
20357 1.181123e-07 COX17 protein_coding 0.781068820
5430 5.818172e-11 FLOT1 protein_coding -3.971254534
26821 5.342105e-12 HLA-G protein_coding 6.487683174
12376 4.877199e-14 GTF2H4 protein_coding -0.174362404
12123 1.015528e-12 CCHCR1 protein_coding 2.931589024
12122 1.324796e-13 POU5F1 protein_coding -2.393737307
12277 9.231071e-14 HCG27 lincRNA 1.864693269
12121 6.357345e-14 HLA-C protein_coding 0.183194817
14238 8.752609e-13 XXbac-BPG181B23.7 lincRNA -4.476510146
12119 1.156211e-10 MICB protein_coding -3.059399101
26799 1.162842e-13 POU5F1 protein_coding -2.336746137
26798 6.580245e-13 HLA-C protein_coding 3.211563019
26794 7.248068e-11 MICB protein_coding -3.210015071
12077 9.999356e-13 NOTCH4 protein_coding 3.165455071
27901 6.332018e-10 C4A protein_coding 6.315587249
26753 1.457247e-12 NOTCH4 protein_coding 3.189773272
40588 1.784522e-12 CYP21A2 protein_coding 3.536034089
38461 2.574786e-12 HLA-DQB1 protein_coding 5.010663309
2472 2.551004e-07 POLD2 protein_coding 1.780745843
2417 1.518673e-06 CCL24 protein_coding 1.961790317
11287 8.024358e-08 ZP3 protein_coding -0.007520099
5352 3.062997e-07 SLC2A8 protein_coding 1.697087549
23362 2.505096e-07 STX3 protein_coding 2.406885497
10048 1.162554e-08 DSCAML1 protein_coding -0.950975759
5757 1.430743e-08 MORN3 protein_coding 0.002443962
3647 7.026817e-05 CCDC92 protein_coding -5.343007339
23689 2.732906e-08 TCTN2 protein_coding 0.849257897
14576 1.772330e-08 RP11-88E10.4 lincRNA -0.242539766
4278 2.604342e-06 MCF2L protein_coding -2.343386423
7037 1.768391e-07 ADPRHL1 protein_coding 1.293374116
21502 2.617785e-08 TMCO3 protein_coding 0.467509427
33163 1.764917e-07 PROZ protein_coding 2.483589346
8490 4.706527e-08 LIPC protein_coding 2.985257644
9557 2.081313e-08 FAM192A protein_coding 0.810277775
5882 4.288259e-08 MBTPS1 protein_coding -0.197883832
21816 7.514558e-08 DNAAF1 protein_coding -0.752210233
20635 3.710945e-08 ADAD2 protein_coding -0.292867678
29281 2.223239e-08 RP11-147L13.14 lincRNA 2.296279943
23427 7.785435e-08 ENGASE protein_coding -0.767007955
10447 3.155609e-07 FKRP protein_coding 4.425173545
2307 2.263740e-08 PLA2G4C protein_coding -1.382373754
2302 7.935668e-08 CCDC114 protein_coding -1.802143687
17023 3.655264e-08 PLA2G4C protein_coding -1.611126426
17014 5.777301e-07 CYTH2 protein_coding -2.454923719
2186 3.317116e-10 NUCB1 protein_coding -1.455312765
4615 8.904552e-10 TRPM4 protein_coding -2.034168341
7712 1.073836e-08 ALDH16A1 protein_coding -3.466783896
6728 1.075096e-08 JPH2 protein_coding -0.284296504
4056 1.675366e-08 SDC4 protein_coding -0.469609700
4084 1.397335e-07 NEURL2 protein_coding -5.148346881
tissue geneid tissue2 num_eqtl
18145 Adipose_Visceral_Omentum ENSG00000116237.15 AVO 4
540 Adipose_Subcutaneous ENSG00000054523.17 AS 4
3427 Adipose_Subcutaneous ENSG00000116663.10 AS 4
12643 Adipose_Subcutaneous ENSG00000226029.1 AS 4
4362 Adipose_Subcutaneous ENSG00000127463.13 AS 4
521 Adipose_Subcutaneous ENSG00000053371.12 AS 4
9138 Adipose_Subcutaneous ENSG00000169914.5 AS 4
23845 Adipose_Visceral_Omentum ENSG00000169914.5 AVO 4
7459 Adipose_Subcutaneous ENSG00000158825.5 AS 4
22197 Adipose_Visceral_Omentum ENSG00000158825.5 AVO 4
1421 Adipose_Subcutaneous ENSG00000090686.15 AS 4
16137 Adipose_Visceral_Omentum ENSG00000090686.15 AVO 4
26725 Adipose_Visceral_Omentum ENSG00000204138.12 AVO 4
10125 Adipose_Subcutaneous ENSG00000177868.11 AS 4
26497 Adipose_Visceral_Omentum ENSG00000198198.15 AVO 4
3556 Adipose_Subcutaneous ENSG00000117834.12 AS 4
18301 Adipose_Visceral_Omentum ENSG00000117834.12 AVO 4
7782 Adipose_Subcutaneous ENSG00000162383.11 AS 4
7796 Adipose_Subcutaneous ENSG00000162437.14 AS 4
3449 Adipose_Subcutaneous ENSG00000116783.14 AS 4
14321 Adipose_Subcutaneous ENSG00000272864.1 AS 4
3452 Adipose_Subcutaneous ENSG00000116791.13 AS 5
18194 Adipose_Visceral_Omentum ENSG00000116791.13 AVO 5
18232 Adipose_Visceral_Omentum ENSG00000117133.10 AVO 4
5522 Adipose_Subcutaneous ENSG00000137944.17 AS 4
7116 Adipose_Subcutaneous ENSG00000154511.11 AS 4
9301 Adipose_Subcutaneous ENSG00000170989.8 AS 5
21981 Adipose_Visceral_Omentum ENSG00000156171.14 AVO 4
27490 Adipose_Visceral_Omentum ENSG00000231246.1 AVO 4
11807 Adipose_Subcutaneous ENSG00000198162.12 AS 4
7879 Adipose_Subcutaneous ENSG00000162836.11 AS 4
19480 Adipose_Visceral_Omentum ENSG00000131778.18 AVO 4
22610 Adipose_Visceral_Omentum ENSG00000162836.11 AVO 4
11756 Adipose_Subcutaneous ENSG00000197915.5 AS 5
11240 Adipose_Subcutaneous ENSG00000188004.9 AS 4
20838 Adipose_Visceral_Omentum ENSG00000143149.12 AVO 5
6101 Adipose_Subcutaneous ENSG00000143162.7 AS 4
3535 Adipose_Subcutaneous ENSG00000117533.14 AS 4
12590 Adipose_Subcutaneous ENSG00000224687.1 AS 4
12555 Adipose_Subcutaneous ENSG00000223396.2 AS 4
4884 Adipose_Subcutaneous ENSG00000133059.16 AS 4
6911 Adipose_Subcutaneous ENSG00000152104.11 AS 4
27865 Adipose_Visceral_Omentum ENSG00000243709.1 AVO 4
6195 Adipose_Subcutaneous ENSG00000143653.9 AS 4
13729 Adipose_Subcutaneous ENSG00000259865.1 AS 5
20946 Adipose_Visceral_Omentum ENSG00000143653.9 AVO 4
13065 Adipose_Subcutaneous ENSG00000238243.3 AS 4
3339 Adipose_Subcutaneous ENSG00000115705.20 AS 5
18384 Adipose_Visceral_Omentum ENSG00000119185.12 AVO 4
11076 Adipose_Subcutaneous ENSG00000186453.12 AS 5
15938 Adipose_Visceral_Omentum ENSG00000084676.15 AVO 4
12939 Adipose_Subcutaneous ENSG00000234690.6 AS 4
27607 Adipose_Visceral_Omentum ENSG00000234690.6 AVO 4
7881 Adipose_Subcutaneous ENSG00000162869.15 AS 4
5540 Adipose_Subcutaneous ENSG00000138039.14 AS 4
20289 Adipose_Visceral_Omentum ENSG00000138039.14 AVO 4
18117 Adipose_Visceral_Omentum ENSG00000116031.8 AVO 4
18833 Adipose_Visceral_Omentum ENSG00000124356.15 AVO 4
6244 Adipose_Subcutaneous ENSG00000144026.11 AS 4
20994 Adipose_Visceral_Omentum ENSG00000144026.11 AVO 4
3642 Adipose_Subcutaneous ENSG00000119147.9 AS 4
3333 Adipose_Subcutaneous ENSG00000115652.14 AS 4
18108 Adipose_Visceral_Omentum ENSG00000115947.13 AVO 4
863 Adipose_Subcutaneous ENSG00000071967.11 AS 4
4455 Adipose_Subcutaneous ENSG00000128652.11 AS 4
5596 Adipose_Subcutaneous ENSG00000138400.12 AS 4
20336 Adipose_Visceral_Omentum ENSG00000138363.14 AVO 4
24771 Adipose_Visceral_Omentum ENSG00000177483.11 AVO 4
6293 Adipose_Subcutaneous ENSG00000144488.14 AS 4
8927 Adipose_Subcutaneous ENSG00000168427.8 AS 6
12043 Adipose_Subcutaneous ENSG00000204104.11 AS 5
10005 Adipose_Subcutaneous ENSG00000176720.4 AS 4
10430 Adipose_Subcutaneous ENSG00000180902.17 AS 4
12958 Adipose_Subcutaneous ENSG00000235151.1 AS 4
23640 Adipose_Visceral_Omentum ENSG00000168397.16 AVO 4
25125 Adipose_Visceral_Omentum ENSG00000180902.17 AVO 5
6289 Adipose_Subcutaneous ENSG00000144455.13 AS 4
21040 Adipose_Visceral_Omentum ENSG00000144455.13 AVO 4
22785 Adipose_Visceral_Omentum ENSG00000163702.18 AVO 4
7134 Adipose_Subcutaneous ENSG00000154743.17 AS 4
23580 Adipose_Visceral_Omentum ENSG00000168026.18 AVO 4
22814 Adipose_Visceral_Omentum ENSG00000163820.14 AVO 4
39244 Liver ENSG00000188086.13 L 4
3157 Adipose_Subcutaneous ENSG00000113812.13 AS 4
10381 Adipose_Subcutaneous ENSG00000180376.16 AS 4
38526 Liver ENSG00000180376.16 L 4
9498 Adipose_Subcutaneous ENSG00000172340.14 AS 4
24904 Adipose_Visceral_Omentum ENSG00000178700.7 AVO 4
9028 Adipose_Subcutaneous ENSG00000169087.10 AS 5
11415 Adipose_Subcutaneous ENSG00000189366.9 AS 5
3202 Adipose_Subcutaneous ENSG00000114544.16 AS 4
8085 Adipose_Subcutaneous ENSG00000163864.15 AS 4
25972 Adipose_Visceral_Omentum ENSG00000188313.12 AVO 4
6960 Adipose_Subcutaneous ENSG00000152580.8 AS 4
13112 Adipose_Subcutaneous ENSG00000240875.5 AS 4
27780 Adipose_Visceral_Omentum ENSG00000240875.5 AVO 5
10026 Adipose_Subcutaneous ENSG00000176945.16 AS 4
3645 Adipose_Subcutaneous ENSG00000119227.7 AS 4
18386 Adipose_Visceral_Omentum ENSG00000119227.7 AVO 4
10958 Adipose_Subcutaneous ENSG00000185619.18 AS 4
4357 Adipose_Subcutaneous ENSG00000127415.12 AS 4
8107 Adipose_Subcutaneous ENSG00000163945.15 AS 5
19092 Adipose_Visceral_Omentum ENSG00000127415.12 AVO 5
9729 Adipose_Subcutaneous ENSG00000174137.12 AS 4
26949 Adipose_Visceral_Omentum ENSG00000206113.10 AVO 4
19538 Adipose_Visceral_Omentum ENSG00000132406.11 AVO 4
13412 Adipose_Subcutaneous ENSG00000251580.1 AS 4
9279 Adipose_Subcutaneous ENSG00000170846.16 AS 5
13415 Adipose_Subcutaneous ENSG00000251615.3 AS 5
10163 Adipose_Subcutaneous ENSG00000178163.7 AS 4
2737 Adipose_Subcutaneous ENSG00000109689.15 AS 4
18838 Adipose_Visceral_Omentum ENSG00000124406.16 AVO 6
11860 Adipose_Subcutaneous ENSG00000198515.13 AS 4
26542 Adipose_Visceral_Omentum ENSG00000198515.13 AVO 4
4408 Adipose_Subcutaneous ENSG00000128039.10 AS 4
277 Adipose_Subcutaneous ENSG00000018189.12 AS 4
15009 Adipose_Visceral_Omentum ENSG00000018189.12 AVO 4
5643 Adipose_Subcutaneous ENSG00000138744.14 AS 4
20392 Adipose_Visceral_Omentum ENSG00000138744.14 AVO 4
34403 Liver ENSG00000138744.14 L 4
11814 Adipose_Subcutaneous ENSG00000198189.10 AS 5
26496 Adipose_Visceral_Omentum ENSG00000198189.10 AVO 4
14305 Adipose_Subcutaneous ENSG00000272777.1 AS 4
24275 Adipose_Visceral_Omentum ENSG00000172955.17 AVO 4
5654 Adipose_Subcutaneous ENSG00000138777.19 AS 4
20404 Adipose_Visceral_Omentum ENSG00000138777.19 AVO 4
20408 Adipose_Visceral_Omentum ENSG00000138792.9 AVO 4
28723 Adipose_Visceral_Omentum ENSG00000269893.6 AVO 4
36624 Liver ENSG00000164111.14 L 5
21516 Adipose_Visceral_Omentum ENSG00000150627.15 AVO 4
2744 Adipose_Subcutaneous ENSG00000109771.15 AS 4
6397 Adipose_Subcutaneous ENSG00000145476.15 AS 4
8216 Adipose_Subcutaneous ENSG00000164344.15 AS 5
13385 Adipose_Subcutaneous ENSG00000250829.2 AS 4
14237 Adipose_Subcutaneous ENSG00000272218.1 AS 4
21143 Adipose_Visceral_Omentum ENSG00000145476.15 AVO 5
8219 Adipose_Subcutaneous ENSG00000164366.3 AS 4
15458 Adipose_Visceral_Omentum ENSG00000066230.10 AVO 4
13411 Adipose_Subcutaneous ENSG00000251532.1 AS 4
13370 Adipose_Subcutaneous ENSG00000250490.1 AS 5
13383 Adipose_Subcutaneous ENSG00000250786.1 AS 5
28041 Adipose_Visceral_Omentum ENSG00000250786.1 AVO 6
8188 Adipose_Subcutaneous ENSG00000164237.8 AS 4
3079 Adipose_Subcutaneous ENSG00000112977.15 AS 5
17845 Adipose_Visceral_Omentum ENSG00000113360.16 AVO 4
7191 Adipose_Subcutaneous ENSG00000155542.11 AS 4
21934 Adipose_Visceral_Omentum ENSG00000155542.11 AVO 4
11737 Adipose_Subcutaneous ENSG00000197822.10 AS 4
9006 Adipose_Subcutaneous ENSG00000168938.5 AS 4
8307 Adipose_Subcutaneous ENSG00000164904.17 AS 4
23031 Adipose_Visceral_Omentum ENSG00000164904.17 AVO 4
12336 Adipose_Subcutaneous ENSG00000213347.10 AS 4
9863 Adipose_Subcutaneous ENSG00000175309.14 AS 7
10183 Adipose_Subcutaneous ENSG00000178338.10 AS 5
26826 Adipose_Visceral_Omentum ENSG00000204677.10 AVO 4
14272 Adipose_Subcutaneous ENSG00000272463.1 AS 4
28878 Adipose_Visceral_Omentum ENSG00000272279.1 AVO 4
6445 Adipose_Subcutaneous ENSG00000145949.9 AS 6
13215 Adipose_Subcutaneous ENSG00000244041.7 AS 4
5426 Adipose_Subcutaneous ENSG00000137275.13 AS 4
27466 Adipose_Visceral_Omentum ENSG00000230438.6 AVO 5
7012 Adipose_Subcutaneous ENSG00000153157.12 AS 4
6446 Adipose_Subcutaneous ENSG00000145979.17 AS 4
21196 Adipose_Visceral_Omentum ENSG00000145979.17 AVO 4
2948 Adipose_Subcutaneous ENSG00000111801.15 AS 5
11608 Adipose_Subcutaneous ENSG00000197062.11 AS 4
12068 Adipose_Subcutaneous ENSG00000204256.12 AS 4
11916 Adipose_Subcutaneous ENSG00000198755.10 AS 4
16262 Adipose_Visceral_Omentum ENSG00000096433.10 AVO 4
26597 Adipose_Visceral_Omentum ENSG00000198755.10 AVO 4
17717 Adipose_Visceral_Omentum ENSG00000112130.16 AVO 4
450 Adipose_Subcutaneous ENSG00000044090.8 AS 4
11465 Adipose_Subcutaneous ENSG00000196284.15 AS 4
26151 Adipose_Visceral_Omentum ENSG00000196284.15 AVO 4
7023 Adipose_Subcutaneous ENSG00000153291.15 AS 4
19873 Adipose_Visceral_Omentum ENSG00000135297.15 AVO 4
9518 Adipose_Subcutaneous ENSG00000172469.15 AS 4
24306 Adipose_Visceral_Omentum ENSG00000173214.5 AVO 4
26040 Adipose_Visceral_Omentum ENSG00000188820.12 AVO 4
9531 Adipose_Subcutaneous ENSG00000172594.12 AS 5
3599 Adipose_Subcutaneous ENSG00000118507.15 AS 4
29298 Adipose_Visceral_Omentum ENSG00000279968.1 AVO 4
27586 Adipose_Visceral_Omentum ENSG00000234147.1 AVO 5
3902 Adipose_Subcutaneous ENSG00000122335.13 AS 4
14208 Adipose_Subcutaneous ENSG00000272047.1 AS 4
2988 Adipose_Subcutaneous ENSG00000112110.9 AS 4
13165 Adipose_Subcutaneous ENSG00000242611.2 AS 5
27467 Adipose_Visceral_Omentum ENSG00000230487.7 AVO 4
3937 Adipose_Subcutaneous ENSG00000122674.11 AS 5
18686 Adipose_Visceral_Omentum ENSG00000122674.11 AVO 6
18672 Adipose_Visceral_Omentum ENSG00000122512.14 AVO 4
32859 Liver ENSG00000122674.11 L 5
17159 Adipose_Visceral_Omentum ENSG00000106392.10 AVO 4
14257 Adipose_Subcutaneous ENSG00000272361.2 AS 4
840 Adipose_Subcutaneous ENSG00000070882.12 AS 4
17134 Adipose_Visceral_Omentum ENSG00000106125.14 AVO 4
11457 Adipose_Subcutaneous ENSG00000196247.11 AS 5
11782 Adipose_Subcutaneous ENSG00000198039.11 AS 4
13122 Adipose_Subcutaneous ENSG00000241258.6 AS 4
26465 Adipose_Visceral_Omentum ENSG00000198039.11 AVO 4
27022 Adipose_Visceral_Omentum ENSG00000213462.4 AVO 4
39415 Liver ENSG00000196247.11 L 4
8358 Adipose_Subcutaneous ENSG00000165171.10 AS 4
4394 Adipose_Subcutaneous ENSG00000127947.15 AS 4
19127 Adipose_Visceral_Omentum ENSG00000127947.15 AVO 5
74 Adipose_Subcutaneous ENSG00000005471.15 AS 4
2363 Adipose_Subcutaneous ENSG00000105793.15 AS 4
17090 Adipose_Visceral_Omentum ENSG00000105854.12 AVO 4
828 Adipose_Subcutaneous ENSG00000070669.16 AS 4
8671 Adipose_Subcutaneous ENSG00000166997.7 AS 4
12216 Adipose_Subcutaneous ENSG00000205307.11 AS 4
23954 Adipose_Visceral_Omentum ENSG00000170615.14 AVO 4
5125 Adipose_Subcutaneous ENSG00000135269.17 AS 4
4452 Adipose_Subcutaneous ENSG00000128617.2 AS 4
7190 Adipose_Subcutaneous ENSG00000155530.2 AS 5
21 Adipose_Subcutaneous ENSG00000002933.7 AS 4
2461 Adipose_Subcutaneous ENSG00000106565.17 AS 4
11166 Adipose_Subcutaneous ENSG00000187260.15 AS 4
13842 Adipose_Subcutaneous ENSG00000261455.1 AS 6
25862 Adipose_Visceral_Omentum ENSG00000187260.15 AVO 5
28479 Adipose_Visceral_Omentum ENSG00000261455.1 AVO 5
19064 Adipose_Visceral_Omentum ENSG00000126870.15 AVO 4
16889 Adipose_Visceral_Omentum ENSG00000104728.15 AVO 4
15130 Adipose_Visceral_Omentum ENSG00000036448.9 AVO 4
13463 Adipose_Subcutaneous ENSG00000253958.1 AS 4
28912 Adipose_Visceral_Omentum ENSG00000272505.1 AVO 4
2120 Adipose_Subcutaneous ENSG00000104213.12 AS 4
11633 Adipose_Subcutaneous ENSG00000197217.12 AS 4
9737 Adipose_Subcutaneous ENSG00000174226.8 AS 5
21766 Adipose_Visceral_Omentum ENSG00000153317.14 AVO 4
9305 Adipose_Subcutaneous ENSG00000171045.14 AS 5
258 Adipose_Subcutaneous ENSG00000014164.6 AS 4
6574 Adipose_Subcutaneous ENSG00000147813.15 AS 5
21312 Adipose_Visceral_Omentum ENSG00000147813.15 AVO 5
15602 Adipose_Visceral_Omentum ENSG00000071894.16 AVO 4
2505 Adipose_Subcutaneous ENSG00000107099.15 AS 4
9626 Adipose_Subcutaneous ENSG00000173253.15 AS 5
17227 Adipose_Visceral_Omentum ENSG00000107099.15 AVO 5
29323 Adipose_Visceral_Omentum ENSG00000281769.1 AVO 4
31583 Liver ENSG00000107099.15 L 5
6576 Adipose_Subcutaneous ENSG00000147853.16 AS 7
21314 Adipose_Visceral_Omentum ENSG00000147853.16 AVO 6
3749 Adipose_Subcutaneous ENSG00000120217.13 AS 4
26387 Adipose_Visceral_Omentum ENSG00000197646.7 AVO 4
8332 Adipose_Subcutaneous ENSG00000164989.16 AS 4
26055 Adipose_Visceral_Omentum ENSG00000188921.13 AVO 4
12586 Adipose_Subcutaneous ENSG00000224549.1 AS 4
5390 Adipose_Subcutaneous ENSG00000137074.18 AS 4
13808 Adipose_Subcutaneous ENSG00000260947.1 AS 4
8329 Adipose_Subcutaneous ENSG00000164978.17 AS 4
2485 Adipose_Subcutaneous ENSG00000106733.20 AS 4
17205 Adipose_Visceral_Omentum ENSG00000106733.20 AVO 5
27643 Adipose_Visceral_Omentum ENSG00000235641.4 AVO 4
2490 Adipose_Subcutaneous ENSG00000106789.12 AS 4
5359 Adipose_Subcutaneous ENSG00000136870.10 AS 4
18409 Adipose_Visceral_Omentum ENSG00000119509.12 AVO 5
2486 Adipose_Subcutaneous ENSG00000106771.12 AS 4
9627 Adipose_Subcutaneous ENSG00000173258.12 AS 4
24312 Adipose_Visceral_Omentum ENSG00000173258.12 AVO 4
17216 Adipose_Visceral_Omentum ENSG00000106853.18 AVO 6
3664 Adipose_Subcutaneous ENSG00000119431.9 AS 7
18403 Adipose_Visceral_Omentum ENSG00000119431.9 AVO 6
34136 Liver ENSG00000136866.13 L 4
1524 Adipose_Subcutaneous ENSG00000095397.13 AS 4
21342 Adipose_Visceral_Omentum ENSG00000148288.11 AVO 4
24531 Adipose_Visceral_Omentum ENSG00000175164.13 AVO 4
4619 Adipose_Subcutaneous ENSG00000130560.8 AS 4
7616 Adipose_Subcutaneous ENSG00000160360.12 AS 4
2577 Adipose_Subcutaneous ENSG00000107959.15 AS 4
12883 Adipose_Subcutaneous ENSG00000233117.2 AS 4
5031 Adipose_Subcutaneous ENSG00000134463.14 AS 4
27294 Adipose_Visceral_Omentum ENSG00000225383.7 AVO 4
33845 Liver ENSG00000134463.14 L 5
6948 Adipose_Subcutaneous ENSG00000152465.17 AS 4
12157 Adipose_Subcutaneous ENSG00000204740.10 AS 4
9876 Adipose_Subcutaneous ENSG00000175395.15 AS 4
26235 Adipose_Visceral_Omentum ENSG00000196693.14 AVO 4
4930 Adipose_Subcutaneous ENSG00000133661.15 AS 5
3905 Adipose_Subcutaneous ENSG00000122375.11 AS 4
10862 Adipose_Subcutaneous ENSG00000184923.12 AS 4
12445 Adipose_Subcutaneous ENSG00000214562.14 AS 4
18657 Adipose_Visceral_Omentum ENSG00000122375.11 AVO 4
27281 Adipose_Visceral_Omentum ENSG00000224914.3 AVO 4
11898 Adipose_Subcutaneous ENSG00000198682.12 AS 4
6650 Adipose_Subcutaneous ENSG00000148690.11 AS 5
21383 Adipose_Visceral_Omentum ENSG00000148690.11 AVO 5
7173 Adipose_Subcutaneous ENSG00000155265.10 AS 4
2558 Adipose_Subcutaneous ENSG00000107819.13 AS 4
8536 Adipose_Subcutaneous ENSG00000166275.15 AS 4
18477 Adipose_Visceral_Omentum ENSG00000120008.15 AVO 4
2543 Adipose_Subcutaneous ENSG00000107672.14 AS 4
5563 Adipose_Subcutaneous ENSG00000138152.8 AS 6
17300 Adipose_Visceral_Omentum ENSG00000107902.13 AVO 5
23923 Adipose_Visceral_Omentum ENSG00000170430.9 AVO 4
6866 Adipose_Subcutaneous ENSG00000151640.12 AS 5
9420 Adipose_Subcutaneous ENSG00000171813.13 AS 4
25981 Adipose_Visceral_Omentum ENSG00000188385.11 AVO 4
21604 Adipose_Visceral_Omentum ENSG00000151640.12 AVO 4
6009 Adipose_Subcutaneous ENSG00000142102.15 AS 4
10901 Adipose_Subcutaneous ENSG00000185201.16 AS 6
14141 Adipose_Subcutaneous ENSG00000270972.1 AS 4
13526 Adipose_Subcutaneous ENSG00000255284.1 AS 4
12411 Adipose_Subcutaneous ENSG00000214063.10 AS 4
20753 Adipose_Visceral_Omentum ENSG00000142102.15 AVO 4
25603 Adipose_Visceral_Omentum ENSG00000185201.16 AVO 4
28190 Adipose_Visceral_Omentum ENSG00000255328.1 AVO 5
28777 Adipose_Visceral_Omentum ENSG00000270972.1 AVO 4
24727 Adipose_Visceral_Omentum ENSG00000177042.14 AVO 5
39003 Liver ENSG00000185522.8 L 4
2823 Adipose_Subcutaneous ENSG00000110665.11 AS 4
17547 Adipose_Visceral_Omentum ENSG00000110628.13 AVO 5
3829 Adipose_Subcutaneous ENSG00000121236.20 AS 4
18582 Adipose_Visceral_Omentum ENSG00000121236.20 AVO 4
24000 Adipose_Visceral_Omentum ENSG00000170955.9 AVO 4
23276 Adipose_Visceral_Omentum ENSG00000166405.14 AVO 4
4945 Adipose_Subcutaneous ENSG00000133816.13 AS 4
2808 Adipose_Subcutaneous ENSG00000110427.14 AS 4
3857 Adipose_Subcutaneous ENSG00000121691.4 AS 4
6670 Adipose_Subcutaneous ENSG00000149089.12 AS 4
18610 Adipose_Visceral_Omentum ENSG00000121691.4 AVO 4
21409 Adipose_Visceral_Omentum ENSG00000149089.12 AVO 4
6834 Adipose_Subcutaneous ENSG00000151348.13 AS 5
21573 Adipose_Visceral_Omentum ENSG00000151348.13 AVO 5
7775 Adipose_Subcutaneous ENSG00000162341.16 AS 4
22513 Adipose_Visceral_Omentum ENSG00000162341.16 AVO 4
9895 Adipose_Subcutaneous ENSG00000175581.13 AS 4
7439 Adipose_Subcutaneous ENSG00000158555.14 AS 4
13261 Adipose_Subcutaneous ENSG00000246067.7 AS 4
4035 Adipose_Subcutaneous ENSG00000123892.11 AS 4
2794 Adipose_Subcutaneous ENSG00000110218.8 AS 4
6690 Adipose_Subcutaneous ENSG00000149289.10 AS 4
5482 Adipose_Subcutaneous ENSG00000137713.15 AS 4
20234 Adipose_Visceral_Omentum ENSG00000137713.15 AVO 4
6691 Adipose_Subcutaneous ENSG00000149292.16 AS 4
21429 Adipose_Visceral_Omentum ENSG00000149292.16 AVO 4
10385 Adipose_Subcutaneous ENSG00000180425.11 AS 4
2774 Adipose_Subcutaneous ENSG00000110060.8 AS 4
13536 Adipose_Subcutaneous ENSG00000255455.2 AS 4
3771 Adipose_Subcutaneous ENSG00000120451.10 AS 4
2866 Adipose_Subcutaneous ENSG00000111186.12 AS 5
4562 Adipose_Subcutaneous ENSG00000130038.9 AS 4
2871 Adipose_Subcutaneous ENSG00000111224.13 AS 4
13577 Adipose_Subcutaneous ENSG00000256433.2 AS 5
13765 Adipose_Subcutaneous ENSG00000260423.1 AS 6
28410 Adipose_Visceral_Omentum ENSG00000260423.1 AVO 4
15537 Adipose_Visceral_Omentum ENSG00000069493.14 AVO 4
27514 Adipose_Visceral_Omentum ENSG00000231887.6 AVO 4
13543 Adipose_Subcutaneous ENSG00000255621.1 AS 4
162 Adipose_Subcutaneous ENSG00000008394.12 AS 4
474 Adipose_Subcutaneous ENSG00000048540.14 AS 4
14774 Adipose_Visceral_Omentum ENSG00000004700.15 AVO 4
14514 Adipose_Subcutaneous ENSG00000275764.1 AS 4
29152 Adipose_Visceral_Omentum ENSG00000275764.1 AVO 4
2846 Adipose_Subcutaneous ENSG00000110888.17 AS 4
12982 Adipose_Subcutaneous ENSG00000235884.3 AS 4
21563 Adipose_Visceral_Omentum ENSG00000151233.10 AVO 4
19915 Adipose_Visceral_Omentum ENSG00000135502.17 AVO 4
4351 Adipose_Subcutaneous ENSG00000127337.6 AS 4
19087 Adipose_Visceral_Omentum ENSG00000127337.6 AVO 4
4348 Adipose_Subcutaneous ENSG00000127328.21 AS 4
5243 Adipose_Subcutaneous ENSG00000136014.11 AS 4
12178 Adipose_Subcutaneous ENSG00000204954.9 AS 4
5718 Adipose_Subcutaneous ENSG00000139372.14 AS 4
20001 Adipose_Visceral_Omentum ENSG00000136051.13 AVO 4
14626 Adipose_Subcutaneous ENSG00000278266.1 AS 5
10970 Adipose_Subcutaneous ENSG00000185684.12 AS 5
10897 Adipose_Subcutaneous ENSG00000185163.9 AS 4
10866 Adipose_Subcutaneous ENSG00000184967.6 AS 4
13585 Adipose_Subcutaneous ENSG00000256576.2 AS 4
10413 Adipose_Subcutaneous ENSG00000180776.15 AS 4
15099 Adipose_Visceral_Omentum ENSG00000032742.17 AVO 5
25108 Adipose_Visceral_Omentum ENSG00000180776.15 AVO 4
1963 Adipose_Subcutaneous ENSG00000102683.7 AS 4
20479 Adipose_Visceral_Omentum ENSG00000139505.11 AVO 4
10316 Adipose_Subcutaneous ENSG00000179630.10 AS 4
5268 Adipose_Subcutaneous ENSG00000136161.12 AS 4
5256 Adipose_Subcutaneous ENSG00000136111.12 AS 4
18909 Adipose_Visceral_Omentum ENSG00000125257.13 AVO 4
16681 Adipose_Visceral_Omentum ENSG00000102595.19 AVO 4
4166 Adipose_Subcutaneous ENSG00000125246.15 AS 4
18906 Adipose_Visceral_Omentum ENSG00000125246.15 AVO 4
10909 Adipose_Subcutaneous ENSG00000185271.7 AS 5
16190 Adipose_Visceral_Omentum ENSG00000092200.12 AVO 4
7334 Adipose_Subcutaneous ENSG00000157326.18 AS 4
7340 Adipose_Subcutaneous ENSG00000157379.13 AS 5
22081 Adipose_Visceral_Omentum ENSG00000157379.13 AVO 4
4318 Adipose_Subcutaneous ENSG00000126790.11 AS 4
25183 Adipose_Visceral_Omentum ENSG00000181619.11 AVO 4
33192 Liver ENSG00000126790.11 L 4
5780 Adipose_Subcutaneous ENSG00000139998.14 AS 4
20530 Adipose_Visceral_Omentum ENSG00000139998.14 AVO 4
3677 Adipose_Subcutaneous ENSG00000119599.16 AS 4
10796 Adipose_Subcutaneous ENSG00000184227.7 AS 4
3688 Adipose_Subcutaneous ENSG00000119673.14 AS 4
5786 Adipose_Subcutaneous ENSG00000140043.11 AS 5
20536 Adipose_Visceral_Omentum ENSG00000140043.11 AVO 6
180 Adipose_Subcutaneous ENSG00000009830.11 AS 6
639 Adipose_Subcutaneous ENSG00000063761.15 AS 4
14908 Adipose_Visceral_Omentum ENSG00000009830.11 AVO 5
546 Adipose_Subcutaneous ENSG00000054983.16 AS 4
265 Adipose_Subcutaneous ENSG00000015133.18 AS 4
23187 Adipose_Visceral_Omentum ENSG00000165934.12 AVO 4
13650 Adipose_Subcutaneous ENSG00000258572.1 AS 4
41233 Liver ENSG00000258572.1 L 4
10872 Adipose_Subcutaneous ENSG00000184990.12 AS 4
16306 Adipose_Visceral_Omentum ENSG00000099814.15 AVO 4
10533 Adipose_Subcutaneous ENSG00000182117.5 AS 4
12482 Adipose_Subcutaneous ENSG00000215252.11 AS 4
4466 Adipose_Subcutaneous ENSG00000128829.11 AS 5
12768 Adipose_Subcutaneous ENSG00000229474.6 AS 4
5612 Adipose_Subcutaneous ENSG00000138600.9 AS 4
28222 Adipose_Visceral_Omentum ENSG00000256061.7 AVO 4
5503 Adipose_Subcutaneous ENSG00000137819.13 AS 4
2094 Adipose_Subcutaneous ENSG00000103811.15 AS 5
16812 Adipose_Visceral_Omentum ENSG00000103811.15 AVO 4
10526 Adipose_Subcutaneous ENSG00000182054.9 AS 4
25226 Adipose_Visceral_Omentum ENSG00000182054.9 AVO 4
5833 Adipose_Subcutaneous ENSG00000140470.13 AS 4
23708 Adipose_Visceral_Omentum ENSG00000168904.14 AVO 4
28345 Adipose_Visceral_Omentum ENSG00000259363.5 AVO 4
2021 Adipose_Subcutaneous ENSG00000103148.15 AS 4
1798 Adipose_Subcutaneous ENSG00000100726.14 AS 5
18135 Adipose_Visceral_Omentum ENSG00000116176.6 AVO 4
26379 Adipose_Visceral_Omentum ENSG00000197599.12 AVO 4
20638 Adipose_Visceral_Omentum ENSG00000140988.15 AVO 4
15330 Adipose_Visceral_Omentum ENSG00000059122.16 AVO 4
27054 Adipose_Visceral_Omentum ENSG00000213853.9 AVO 4
2061 Adipose_Subcutaneous ENSG00000103381.11 AS 4
10689 Adipose_Subcutaneous ENSG00000183426.16 AS 4
10749 Adipose_Subcutaneous ENSG00000183793.13 AS 4
25446 Adipose_Visceral_Omentum ENSG00000183793.13 AVO 4
10704 Adipose_Subcutaneous ENSG00000183549.10 AS 4
38804 Liver ENSG00000183549.10 L 4
21486 Adipose_Visceral_Omentum ENSG00000149922.10 AVO 4
13817 Adipose_Subcutaneous ENSG00000261079.1 AS 4
10827 Adipose_Subcutaneous ENSG00000184517.11 AS 4
691 Adipose_Subcutaneous ENSG00000065457.10 AS 5
15432 Adipose_Visceral_Omentum ENSG00000065457.10 AVO 4
2018 Adipose_Subcutaneous ENSG00000103111.14 AS 4
13826 Adipose_Subcutaneous ENSG00000261175.5 AS 4
7450 Adipose_Subcutaneous ENSG00000158717.10 AS 4
4697 Adipose_Subcutaneous ENSG00000131165.14 AS 4
25 Adipose_Subcutaneous ENSG00000003249.13 AS 6
20641 Adipose_Visceral_Omentum ENSG00000140995.16 AVO 4
14757 Adipose_Visceral_Omentum ENSG00000003249.13 AVO 5
34631 Liver ENSG00000140995.16 L 4
10449 Adipose_Subcutaneous ENSG00000181031.15 AS 4
20658 Adipose_Visceral_Omentum ENSG00000141252.19 AVO 5
19535 Adipose_Visceral_Omentum ENSG00000132383.11 AVO 5
11665 Adipose_Subcutaneous ENSG00000197417.7 AS 5
26346 Adipose_Visceral_Omentum ENSG00000197417.7 AVO 4
37198 Liver ENSG00000167723.14 L 4
10622 Adipose_Subcutaneous ENSG00000182853.11 AS 4
2621 Adipose_Subcutaneous ENSG00000108509.20 AS 4
4499 Adipose_Subcutaneous ENSG00000129204.16 AS 5
19236 Adipose_Visceral_Omentum ENSG00000129204.16 AVO 5
2690 Adipose_Subcutaneous ENSG00000109063.14 AS 4
14850 Adipose_Visceral_Omentum ENSG00000006744.18 AVO 4
27504 Adipose_Visceral_Omentum ENSG00000231595.1 AVO 4
4325 Adipose_Subcutaneous ENSG00000126858.16 AS 4
4768 Adipose_Subcutaneous ENSG00000132141.13 AS 4
8617 Adipose_Subcutaneous ENSG00000166750.9 AS 4
9543 Adipose_Subcutaneous ENSG00000172716.16 AS 4
19509 Adipose_Visceral_Omentum ENSG00000132141.13 AVO 4
29246 Adipose_Visceral_Omentum ENSG00000278053.4 AVO 4
2598 Adipose_Subcutaneous ENSG00000108349.16 AS 4
29239 Adipose_Visceral_Omentum ENSG00000277791.4 AVO 4
28564 Adipose_Visceral_Omentum ENSG00000264968.1 AVO 4
17335 Adipose_Visceral_Omentum ENSG00000108349.16 AVO 4
9689 Adipose_Subcutaneous ENSG00000173801.16 AS 4
7716 Adipose_Subcutaneous ENSG00000161653.10 AS 4
10233 Adipose_Subcutaneous ENSG00000178852.15 AS 5
24924 Adipose_Visceral_Omentum ENSG00000178852.15 AVO 4
38413 Liver ENSG00000178852.15 L 4
5919 Adipose_Subcutaneous ENSG00000141295.13 AS 4
20052 Adipose_Visceral_Omentum ENSG00000136449.13 AVO 4
8529 Adipose_Subcutaneous ENSG00000166260.10 AS 4
13895 Adipose_Subcutaneous ENSG00000263004.1 AS 4
28528 Adipose_Visceral_Omentum ENSG00000263004.1 AVO 6
13973 Adipose_Subcutaneous ENSG00000266714.6 AS 4
28603 Adipose_Visceral_Omentum ENSG00000266714.6 AVO 4
10585 Adipose_Subcutaneous ENSG00000182534.13 AS 4
8828 Adipose_Subcutaneous ENSG00000167889.12 AS 4
25285 Adipose_Visceral_Omentum ENSG00000182534.13 AVO 5
23551 Adipose_Visceral_Omentum ENSG00000167895.14 AVO 4
38702 Liver ENSG00000182534.13 L 4
5952 Adipose_Subcutaneous ENSG00000141519.14 AS 5
37956 Liver ENSG00000173818.16 L 4
13891 Adipose_Subcutaneous ENSG00000262877.4 AS 4
10599 Adipose_Subcutaneous ENSG00000182612.10 AS 4
28525 Adipose_Visceral_Omentum ENSG00000262877.4 AVO 4
25296 Adipose_Visceral_Omentum ENSG00000182612.10 AVO 4
5970 Adipose_Subcutaneous ENSG00000141580.15 AS 4
1936 Adipose_Subcutaneous ENSG00000101577.9 AS 5
16656 Adipose_Visceral_Omentum ENSG00000101577.9 AVO 4
13913 Adipose_Subcutaneous ENSG00000263753.6 AS 4
5932 Adipose_Subcutaneous ENSG00000141401.11 AS 4
977 Adipose_Subcutaneous ENSG00000075643.5 AS 5
15714 Adipose_Visceral_Omentum ENSG00000075643.5 AVO 5
20690 Adipose_Visceral_Omentum ENSG00000141469.16 AVO 4
8705 Adipose_Subcutaneous ENSG00000167216.16 AS 4
4909 Adipose_Subcutaneous ENSG00000133313.14 AS 4
28552 Adipose_Visceral_Omentum ENSG00000264247.1 AVO 4
8598 Adipose_Subcutaneous ENSG00000166573.5 AS 6
23313 Adipose_Visceral_Omentum ENSG00000166573.5 AVO 4
2316 Adipose_Subcutaneous ENSG00000105556.11 AS 4
4553 Adipose_Subcutaneous ENSG00000129946.10 AS 5
20740 Adipose_Visceral_Omentum ENSG00000141934.9 AVO 7
25361 Adipose_Visceral_Omentum ENSG00000183186.7 AVO 4
19286 Adipose_Visceral_Omentum ENSG00000129946.10 AVO 4
25198 Adipose_Visceral_Omentum ENSG00000181781.9 AVO 4
11723 Adipose_Subcutaneous ENSG00000197766.7 AS 5
684 Adipose_Subcutaneous ENSG00000065268.10 AS 5
1593 Adipose_Subcutaneous ENSG00000099817.11 AS 4
4580 Adipose_Subcutaneous ENSG00000130270.16 AS 5
12702 Adipose_Subcutaneous ENSG00000227500.9 AS 4
24543 Adipose_Visceral_Omentum ENSG00000175221.14 AVO 4
15423 Adipose_Visceral_Omentum ENSG00000065268.10 AVO 4
16307 Adipose_Visceral_Omentum ENSG00000099817.11 AVO 4
4220 Adipose_Subcutaneous ENSG00000125734.15 AS 4
10448 Adipose_Subcutaneous ENSG00000181029.8 AS 4
13217 Adipose_Subcutaneous ENSG00000244165.1 AS 4
13989 Adipose_Subcutaneous ENSG00000267100.1 AS 4
19249 Adipose_Visceral_Omentum ENSG00000129354.11 AVO 4
8736 Adipose_Subcutaneous ENSG00000167461.11 AS 4
25738 Adipose_Visceral_Omentum ENSG00000186204.14 AVO 4
10335 Adipose_Subcutaneous ENSG00000179913.10 AS 5
2327 Adipose_Subcutaneous ENSG00000105639.18 AS 4
659 Adipose_Subcutaneous ENSG00000064607.16 AS 4
2345 Adipose_Subcutaneous ENSG00000105699.16 AS 4
7697 Adipose_Subcutaneous ENSG00000161281.10 AS 4
12926 Adipose_Subcutaneous ENSG00000234465.10 AS 4
17076 Adipose_Visceral_Omentum ENSG00000105755.7 AVO 4
27596 Adipose_Visceral_Omentum ENSG00000234465.10 AVO 4
3560 Adipose_Subcutaneous ENSG00000117877.10 AS 4
38653 Liver ENSG00000182013.17 L 4
2308 Adipose_Subcutaneous ENSG00000105501.12 AS 4
13483 Adipose_Subcutaneous ENSG00000254415.3 AS 6
17003 Adipose_Visceral_Omentum ENSG00000105383.14 AVO 4
17024 Adipose_Visceral_Omentum ENSG00000105501.12 AVO 5
8806 Adipose_Subcutaneous ENSG00000167766.18 AS 8
9296 Adipose_Subcutaneous ENSG00000170949.17 AS 4
9297 Adipose_Subcutaneous ENSG00000170954.11 AS 6
11996 Adipose_Subcutaneous ENSG00000203326.11 AS 5
11497 Adipose_Subcutaneous ENSG00000196417.12 AS 4
7612 Adipose_Subcutaneous ENSG00000160336.14 AS 5
23527 Adipose_Visceral_Omentum ENSG00000167766.18 AVO 8
26090 Adipose_Visceral_Omentum ENSG00000189190.9 AVO 5
23998 Adipose_Visceral_Omentum ENSG00000170949.17 AVO 4
23999 Adipose_Visceral_Omentum ENSG00000170954.11 AVO 4
22346 Adipose_Visceral_Omentum ENSG00000160336.14 AVO 5
302 Adipose_Subcutaneous ENSG00000022556.15 AS 4
23987 Adipose_Visceral_Omentum ENSG00000170889.13 AVO 4
15035 Adipose_Visceral_Omentum ENSG00000022556.15 AVO 4
4747 Adipose_Subcutaneous ENSG00000131845.14 AS 4
1189 Adipose_Subcutaneous ENSG00000083828.15 AS 4
11850 Adipose_Subcutaneous ENSG00000198466.11 AS 4
16959 Adipose_Visceral_Omentum ENSG00000105136.20 AVO 4
20775 Adipose_Visceral_Omentum ENSG00000142396.10 AVO 4
11510 Adipose_Subcutaneous ENSG00000196476.11 AS 4
4255 Adipose_Subcutaneous ENSG00000125895.5 AS 4
1344 Adipose_Subcutaneous ENSG00000088882.7 AS 4
26492 Adipose_Visceral_Omentum ENSG00000198171.12 AVO 4
16598 Adipose_Visceral_Omentum ENSG00000101224.17 AVO 4
4254 Adipose_Subcutaneous ENSG00000125885.13 AS 4
11696 Adipose_Subcutaneous ENSG00000197586.12 AS 4
6729 Adipose_Subcutaneous ENSG00000149599.15 AS 4
13751 Adipose_Subcutaneous ENSG00000260257.2 AS 4
24533 Adipose_Visceral_Omentum ENSG00000175170.14 AVO 4
11675 Adipose_Subcutaneous ENSG00000197496.5 AS 5
12581 Adipose_Subcutaneous ENSG00000224397.5 AS 4
16025 Adipose_Visceral_Omentum ENSG00000087495.16 AVO 4
6740 Adipose_Subcutaneous ENSG00000149679.11 AS 4
1869 Adipose_Subcutaneous ENSG00000101190.12 AS 4
4200 Adipose_Subcutaneous ENSG00000125534.9 AS 4
15345 Adipose_Visceral_Omentum ENSG00000060491.16 AVO 4
16202 Adipose_Visceral_Omentum ENSG00000092758.15 AVO 4
16588 Adipose_Visceral_Omentum ENSG00000101190.12 AVO 4
40458 Liver ENSG00000225978.3 L 4
16581 Adipose_Visceral_Omentum ENSG00000101161.7 AVO 5
7479 Adipose_Subcutaneous ENSG00000159110.19 AS 4
6012 Adipose_Subcutaneous ENSG00000142166.12 AS 4
22216 Adipose_Visceral_Omentum ENSG00000159110.19 AVO 5
27486 Adipose_Visceral_Omentum ENSG00000231106.2 AVO 4
10932 Adipose_Subcutaneous ENSG00000185437.13 AS 4
10696 Adipose_Subcutaneous ENSG00000183486.12 AS 4
7355 Adipose_Subcutaneous ENSG00000157617.16 AS 4
25256 Adipose_Visceral_Omentum ENSG00000182240.15 AVO 4
20741 Adipose_Visceral_Omentum ENSG00000141956.13 AVO 4
7580 Adipose_Subcutaneous ENSG00000160200.17 AS 6
22315 Adipose_Visceral_Omentum ENSG00000160200.17 AVO 5
6015 Adipose_Subcutaneous ENSG00000142178.7 AS 5
10847 Adipose_Subcutaneous ENSG00000184787.18 AS 5
14416 Adipose_Subcutaneous ENSG00000273796.1 AS 4
10570 Adipose_Subcutaneous ENSG00000182362.13 AS 5
25271 Adipose_Visceral_Omentum ENSG00000182362.13 AVO 8
14366 Adipose_Subcutaneous ENSG00000273203.1 AS 4
1639 Adipose_Subcutaneous ENSG00000100056.11 AS 4
10823 Adipose_Subcutaneous ENSG00000184470.20 AS 4
25692 Adipose_Visceral_Omentum ENSG00000185838.13 AVO 4
16322 Adipose_Visceral_Omentum ENSG00000099940.11 AVO 4
1612 Adipose_Subcutaneous ENSG00000099956.18 AS 4
28939 Adipose_Visceral_Omentum ENSG00000272733.1 AVO 4
26097 Adipose_Visceral_Omentum ENSG00000189269.12 AVO 4
16335 Adipose_Visceral_Omentum ENSG00000099994.10 AVO 4
16401 Adipose_Visceral_Omentum ENSG00000100263.13 AVO 4
10920 Adipose_Subcutaneous ENSG00000185339.8 AS 4
1635 Adipose_Subcutaneous ENSG00000100036.12 AS 4
25624 Adipose_Visceral_Omentum ENSG00000185339.8 AVO 4
1667 Adipose_Subcutaneous ENSG00000100191.5 AS 4
1708 Adipose_Subcutaneous ENSG00000100316.15 AS 4
11989 Adipose_Subcutaneous ENSG00000198951.11 AS 4
1669 Adipose_Subcutaneous ENSG00000100197.20 AS 5
16457 Adipose_Visceral_Omentum ENSG00000100418.7 AVO 4
11408 Adipose_Subcutaneous ENSG00000189306.10 AS 4
10705 Adipose_Subcutaneous ENSG00000183569.17 AS 4
26101 Adipose_Visceral_Omentum ENSG00000189306.10 AVO 8
13130 Adipose_Subcutaneous ENSG00000241484.9 AS 4
12659 Adipose_Subcutaneous ENSG00000226328.6 AS 5
1497 Adipose_Subcutaneous ENSG00000093000.18 AS 4
1729 Adipose_Subcutaneous ENSG00000100376.11 AS 4
27339 Adipose_Visceral_Omentum ENSG00000226328.6 AVO 5
169 Adipose_Subcutaneous ENSG00000008735.13 AS 4
1701 Adipose_Subcutaneous ENSG00000100299.17 AS 5
14897 Adipose_Visceral_Omentum ENSG00000008735.13 AVO 4
30850 Liver ENSG00000100299.17 L 4
10806 Adipose_Subcutaneous ENSG00000184313.19 AS 4
13102 Adipose_Subcutaneous ENSG00000240563.1 AS 5
27770 Adipose_Visceral_Omentum ENSG00000240563.1 AVO 4
3878 Adipose_Subcutaneous ENSG00000121940.15 AS 4
6084 Adipose_Subcutaneous ENSG00000143028.8 AS 4
8972 Adipose_Subcutaneous ENSG00000168765.16 AS 7
4984 Adipose_Subcutaneous ENSG00000134184.12 AS 6
12337 Adipose_Subcutaneous ENSG00000213366.12 AS 4
4987 Adipose_Subcutaneous ENSG00000134202.10 AS 4
4986 Adipose_Subcutaneous ENSG00000134201.10 AS 4
23686 Adipose_Visceral_Omentum ENSG00000168765.16 AVO 5
19728 Adipose_Visceral_Omentum ENSG00000134184.12 AVO 4
19730 Adipose_Visceral_Omentum ENSG00000134201.10 AVO 4
33804 Liver ENSG00000134201.10 L 5
18309 Adipose_Visceral_Omentum ENSG00000118004.17 AVO 4
4205 Adipose_Subcutaneous ENSG00000125633.10 AS 4
4203 Adipose_Subcutaneous ENSG00000125629.14 AS 4
20357 Adipose_Visceral_Omentum ENSG00000138495.6 AVO 4
5430 Adipose_Subcutaneous ENSG00000137312.14 AS 4
26821 Adipose_Visceral_Omentum ENSG00000204632.11 AVO 5
12376 Adipose_Subcutaneous ENSG00000213780.10 AS 4
12123 Adipose_Subcutaneous ENSG00000204536.13 AS 4
12122 Adipose_Subcutaneous ENSG00000204531.17 AS 5
12277 Adipose_Subcutaneous ENSG00000206344.7 AS 8
12121 Adipose_Subcutaneous ENSG00000204525.16 AS 4
14238 Adipose_Subcutaneous ENSG00000272221.1 AS 5
12119 Adipose_Subcutaneous ENSG00000204516.9 AS 6
26799 Adipose_Visceral_Omentum ENSG00000204531.17 AVO 5
26798 Adipose_Visceral_Omentum ENSG00000204525.16 AVO 5
26794 Adipose_Visceral_Omentum ENSG00000204516.9 AVO 5
12077 Adipose_Subcutaneous ENSG00000204301.6 AS 4
27901 Adipose_Visceral_Omentum ENSG00000244731.7 AVO 4
26753 Adipose_Visceral_Omentum ENSG00000204301.6 AVO 5
40588 Liver ENSG00000231852.6 L 4
38461 Liver ENSG00000179344.16 L 4
2472 Adipose_Subcutaneous ENSG00000106628.10 AS 4
2417 Adipose_Subcutaneous ENSG00000106178.6 AS 4
11287 Adipose_Subcutaneous ENSG00000188372.14 AS 4
5352 Adipose_Subcutaneous ENSG00000136856.17 AS 4
23362 Adipose_Visceral_Omentum ENSG00000166900.15 AVO 4
10048 Adipose_Subcutaneous ENSG00000177103.13 AS 5
5757 Adipose_Subcutaneous ENSG00000139714.12 AS 4
3647 Adipose_Subcutaneous ENSG00000119242.8 AS 5
23689 Adipose_Visceral_Omentum ENSG00000168778.11 AVO 4
14576 Adipose_Subcutaneous ENSG00000277159.1 AS 5
4278 Adipose_Subcutaneous ENSG00000126217.20 AS 5
7037 Adipose_Subcutaneous ENSG00000153531.13 AS 4
21502 Adipose_Visceral_Omentum ENSG00000150403.17 AVO 4
33163 Liver ENSG00000126231.13 L 4
8490 Adipose_Subcutaneous ENSG00000166035.10 AS 4
9557 Adipose_Subcutaneous ENSG00000172775.16 AS 4
5882 Adipose_Subcutaneous ENSG00000140943.16 AS 5
21816 Adipose_Visceral_Omentum ENSG00000154099.17 AVO 4
20635 Adipose_Visceral_Omentum ENSG00000140955.10 AVO 4
29281 Adipose_Visceral_Omentum ENSG00000278740.1 AVO 4
23427 Adipose_Visceral_Omentum ENSG00000167280.16 AVO 4
10447 Adipose_Subcutaneous ENSG00000181027.10 AS 5
2307 Adipose_Subcutaneous ENSG00000105499.13 AS 4
2302 Adipose_Subcutaneous ENSG00000105479.15 AS 4
17023 Adipose_Visceral_Omentum ENSG00000105499.13 AVO 4
17014 Adipose_Visceral_Omentum ENSG00000105443.13 AVO 4
2186 Adipose_Subcutaneous ENSG00000104805.15 AS 4
4615 Adipose_Subcutaneous ENSG00000130529.15 AS 4
7712 Adipose_Subcutaneous ENSG00000161618.9 AS 4
6728 Adipose_Subcutaneous ENSG00000149596.6 AS 4
4056 Adipose_Subcutaneous ENSG00000124145.6 AS 4
4084 Adipose_Subcutaneous ENSG00000124257.6 AS 4#distribution of number of eQTL for genes with PIP>0.8
table(ctwas_gene_res$num_eqtl[ctwas_gene_res$susie_pip>0.8])/sum(ctwas_gene_res$susie_pip>0.8)
1 2 3
0.5555556 0.3333333 0.1111111 #genes with 2+ eQTL and PIP>0.8
ctwas_gene_res[ctwas_gene_res$num_eqtl>1 & ctwas_gene_res$susie_pip>0.8,] chrom id pos type
34916 1 ENSG00000143771.11|Liver 224356827 gene
33093 2 ENSG00000125629.14|Liver 118088372 gene
5600 2 ENSG00000138439.11|Adipose_Subcutaneous 202630335 gene
40029 6 ENSG00000204599.14|Liver 30324306 gene
4395 7 ENSG00000127948.15|Adipose_Subcutaneous 75894921 gene
37903 8 ENSG00000173273.15|Liver 9315699 gene
7623 9 ENSG00000160447.6|Adipose_Subcutaneous 128703005 gene
35363 11 ENSG00000149485.18|Liver 61829161 gene
41380 16 ENSG00000261701.6|Liver 72063820 gene
7045 16 ENSG00000153786.12|Adipose_Subcutaneous 85001918 gene
5923 17 ENSG00000141338.13|Adipose_Subcutaneous 68883786 gene
2199 19 ENSG00000104870.12|Adipose_Subcutaneous 49506216 gene
region_tag1 region_tag2 cs_index susie_pip mu2 region_tag
34916 1 114 1 0.9604176 49.22040 1_114
33093 2 70 1 0.9992436 63.02871 2_70
5600 2 120 1 0.9709620 48.18951 2_120
40029 6 26 2 0.8322238 83.95336 6_26
4395 7 48 1 0.8232941 39.26440 7_48
37903 8 12 1 0.9418412 75.73568 8_12
7623 9 66 1 0.8482181 51.56835 9_66
35363 11 34 1 0.9515589 163.71821 11_34
41380 16 38 1 1.0000000 209.60492 16_38
7045 16 49 1 0.9867427 30.18453 16_49
5923 17 39 4 0.9740176 33.46087 17_39
2199 19 34 3 0.9999838 1877.12212 19_34
PVE genename gene_type z tissue
34916 1.375706e-04 CNIH4 protein_coding 6.721857 Liver
33093 1.832863e-04 INSIG2 protein_coding -9.364196 Liver
5600 1.361680e-04 FAM117B protein_coding 7.877231 Adipose_Subcutaneous
40029 2.033286e-04 TRIM39 protein_coding 8.848422 Liver
4395 9.407500e-05 POR protein_coding 6.026895 Adipose_Subcutaneous
37903 2.075862e-04 TNKS protein_coding 11.026034 Liver
7623 1.272949e-04 PKN3 protein_coding -6.885356 Adipose_Subcutaneous
35363 4.533702e-04 FADS1 protein_coding 12.825883 Liver
41380 6.099887e-04 HPR protein_coding -17.240252 Liver
7045 8.667796e-05 ZDHHC7 protein_coding -4.891663 Adipose_Subcutaneous
5923 9.484715e-05 ABCA8 protein_coding 5.086840 Adipose_Subcutaneous
2199 5.462680e-03 FCGRT protein_coding -4.165895 Adipose_Subcutaneous
geneid tissue2 num_eqtl
34916 ENSG00000143771.11 L 2
33093 ENSG00000125629.14 L 3
5600 ENSG00000138439.11 AS 2
40029 ENSG00000204599.14 L 3
4395 ENSG00000127948.15 AS 2
37903 ENSG00000173273.15 L 2
7623 ENSG00000160447.6 AS 2
35363 ENSG00000149485.18 L 2
41380 ENSG00000261701.6 L 2
7045 ENSG00000153786.12 AS 3
5923 ENSG00000141338.13 AS 2
2199 ENSG00000104870.12 AS 2Results for Paper
options(digits=3)Distribution of genes across tissues
hist(table(ctwas_gene_res$geneid), main="Number of Imputed Tissues Per Gene", xlab="Number of Imputed Tissues") #note: use geneid instead of genename. genename did not uniquely identify
#proportion of all genes with numer of imputed tissues
table(table(ctwas_gene_res$geneid))/length(unique(ctwas_gene_res$geneid))
1 2 3
0.206 0.308 0.486 Highest combined PIPs
#number of genes with combined PIP>0.8
sum(ctwas_gene_res_combined$susie_pip>0.8)[1] 46#genes with combined PIP>0.8 or 20 highest PIPs
ctwas_gene_res_combined[1:max(sum(ctwas_gene_res_combined$susie_pip>0.8), 20),c("genename", "region_tag", "susie_pip", "pip_AS","pip_AVO","pip_L")] genename region_tag susie_pip pip_AS pip_AVO pip_L
6099 DNAJC13 3_82 1.384 6.73e-01 3.28e-01 3.82e-01
7680 ZDHHC7 16_49 1.035 9.87e-01 3.32e-03 4.49e-02
5454 PSRC1 1_67 1.011 4.83e-03 5.99e-03 1.00e+00
11576 GAS6 13_62 1.005 2.52e-03 4.19e-02 9.61e-01
6764 CNIH4 1_114 1.004 2.53e-03 4.10e-02 9.60e-01
15112 HPR 16_38 1.002 1.04e-03 1.07e-03 1.00e+00
7008 TIMD4 5_92 1.000 2.03e-03 9.98e-01 NA
6606 RPS11 19_34 1.000 3.31e-01 3.37e-01 3.31e-01
2375 FCGRT 19_34 1.000 1.00e+00 1.71e-05 6.09e-06
85 KMT2E 7_65 1.000 1.00e+00 0.00e+00 NA
4568 INSIG2 2_70 1.000 3.04e-04 4.09e-04 9.99e-01
16039 RP4-781K5.7 1_121 0.998 NA NA 9.98e-01
4051 C10orf88 10_77 0.996 3.94e-01 4.54e-01 1.48e-01
293 NPC1L1 7_32 0.996 3.15e-03 9.90e-01 3.15e-03
2454 PRKD2 19_33 0.993 3.26e-04 5.59e-01 4.34e-01
7595 PELO 5_31 0.990 4.00e-01 4.00e-01 1.90e-01
8571 ACP6 1_73 0.986 3.33e-01 2.81e-01 3.73e-01
1393 CETP 16_31 0.986 4.22e-01 5.63e-01 1.17e-03
8294 PKN3 9_66 0.980 8.48e-01 NA 1.32e-01
6477 ABCA8 17_39 0.974 9.74e-01 2.67e-05 NA
6128 FAM117B 2_120 0.973 9.71e-01 1.82e-03 NA
9815 PCSK9 1_34 0.971 9.71e-01 1.67e-06 NA
1980 PLTP 20_28 0.955 2.63e-03 5.79e-03 9.46e-01
7314 FADS1 11_34 0.954 NA 2.07e-03 9.52e-01
1265 GSK3B 3_74 0.949 NA 9.46e-01 3.46e-03
10456 TNKS 8_12 0.942 NA NA 9.42e-01
8626 INHBB 2_70 0.939 5.48e-04 5.48e-04 9.38e-01
3988 KDSR 18_35 0.932 1.34e-01 6.02e-02 7.38e-01
10151 KCNK3 2_16 0.931 1.94e-01 7.36e-01 NA
1385 SRRT 7_62 0.930 2.69e-01 3.05e-01 3.56e-01
7446 CSNK1G3 5_75 0.920 2.54e-03 3.14e-03 9.14e-01
1090 TPD52 8_57 0.916 1.39e-01 7.74e-01 2.71e-03
2571 SP4 7_19 0.914 2.00e-03 1.33e-03 9.11e-01
6136 PARP9 3_76 0.910 2.32e-01 6.75e-01 3.26e-03
8516 USP1 1_39 0.896 3.62e-03 NA 8.92e-01
14762 CYP2A6 19_28 0.894 1.93e-03 NA 8.92e-01
2502 PLPPR2 19_10 0.846 5.53e-01 2.89e-01 3.43e-03
3962 CCDC92 12_75 0.840 7.58e-01 7.06e-02 1.10e-02
4375 ACVR1C 2_94 0.839 1.42e-01 2.95e-03 6.93e-01
11150 SPTY2D1 11_13 0.834 4.15e-01 3.51e-03 4.15e-01
13159 TRIM39 6_26 0.832 5.02e-09 5.06e-09 8.32e-01
3948 CCND2 12_4 0.831 3.26e-01 2.52e-01 2.52e-01
4779 POR 7_48 0.828 8.23e-01 3.01e-03 2.12e-03
10890 FUT2 19_33 0.818 NA NA 8.18e-01
7810 TTC39B 9_13 0.812 5.73e-03 1.08e-02 7.96e-01
6791 ABCG8 2_27 0.808 NA 3.08e-01 5.00e-01Exploring gene PIP by tissue
library(tidyverse)── Attaching packages ────────────────────────────────── tidyverse 1.3.0 ──✔ tibble 3.1.2 ✔ dplyr 1.0.7
✔ tidyr 1.1.0 ✔ stringr 1.4.0
✔ readr 1.4.0 ✔ forcats 0.4.0
✔ purrr 0.3.4 ── Conflicts ───────────────────────────────────── tidyverse_conflicts() ──
✖ tidyr::extract() masks disgenet2r::extract()
✖ dplyr::filter() masks stats::filter()
✖ dplyr::lag() masks stats::lag()library(plotly)
Attaching package: 'plotly'The following object is masked from 'package:ggplot2':
last_plotThe following object is masked from 'package:stats':
filterThe following object is masked from 'package:graphics':
layout#plot tissue proportions for all genes
data <- ctwas_gene_res_combined[,c("prop_AS", "prop_L")]
plot(data)
ggplot(data, aes(x=prop_AS, y=prop_L) ) +
geom_bin2d(bins = 70) +
scale_fill_continuous(type = "viridis") +
theme_bw()
#plot tissue proportions for genes with combined PIP > 0.1
data <- ctwas_gene_res_combined[ctwas_gene_res_combined$susie_pip>0.1,c("prop_AS", "prop_L")]
plot(data)
ggplot(data, aes(x=prop_AS, y=prop_L) ) +
geom_bin2d(bins = 70) +
scale_fill_continuous(type = "viridis") +
theme_bw()
#plot tissue PIPs for all genes
data <- ctwas_gene_res_combined[,c("pip_AS", "pip_AVO", "pip_L")]
data[is.na(data)] <- 0
fig <- plot_ly(data, x = ~pip_AS, y = ~pip_L, z = ~pip_AVO)Registered S3 method overwritten by 'shiny':
method from
print.key_missing fastmapfigNo trace type specified:
Based on info supplied, a 'scatter3d' trace seems appropriate.
Read more about this trace type -> https://plot.ly/r/reference/#scatter3dNo scatter3d mode specifed:
Setting the mode to markers
Read more about this attribute -> https://plot.ly/r/reference/#scatter-modeWarning: `arrange_()` was deprecated in dplyr 0.7.0.
Please use `arrange()` instead.
See vignette('programming') for more helpHighest Individual PIPs
report_cols <- report_cols[!(report_cols %in% c("PVE"))]
#genes with PIP>0.8 or 20 highest PIPs
head(ctwas_gene_res[order(-ctwas_gene_res$susie_pip),report_cols], max(sum(ctwas_gene_res$susie_pip>0.8), 20)) genename region_tag susie_pip mu2 z tissue2 num_eqtl
33807 PSRC1 1_67 1.000 1702.2 -41.69 L 1
75 KMT2E 7_65 1.000 13998.6 -3.00 AS 1
41380 HPR 16_38 1.000 209.6 -17.24 L 2
2199 FCGRT 19_34 1.000 1877.1 -4.17 AS 2
33093 INSIG2 2_70 0.999 63.0 -9.36 L 3
42059 RP4-781K5.7 1_121 0.998 206.4 -15.11 L 1
21178 TIMD4 5_92 0.998 186.7 -13.88 AVO 1
14998 NPC1L1 7_32 0.990 105.6 11.63 AVO 1
7045 ZDHHC7 16_49 0.987 30.2 -4.89 AS 3
5923 ABCA8 17_39 0.974 33.5 5.09 AS 2
9036 PCSK9 1_34 0.971 117.9 17.21 AS 1
5600 FAM117B 2_120 0.971 48.2 7.88 AS 2
38762 GAS6 13_62 0.961 73.9 -8.92 L 1
34916 CNIH4 1_114 0.960 49.2 6.72 L 2
35363 FADS1 11_34 0.952 163.7 12.83 L 2
30969 PLTP 20_28 0.946 62.0 -5.73 L 1
15895 GSK3B 3_74 0.946 49.9 6.84 AVO 1
37903 TNKS 8_12 0.942 75.7 11.03 L 2
36412 INHBB 2_70 0.938 75.6 -8.52 L 1
35465 CSNK1G3 5_75 0.914 85.9 9.12 L 1
31464 SP4 7_19 0.911 103.8 10.69 L 1
36329 USP1 1_39 0.892 260.2 16.26 L 1
41162 CYP2A6 19_28 0.892 32.5 5.41 L 1
7623 PKN3 9_66 0.848 51.6 -6.89 AS 2
40029 TRIM39 6_26 0.832 84.0 8.85 L 3
4395 POR 7_48 0.823 39.3 6.03 AS 2
38237 FUT2 19_33 0.818 72.0 -11.93 L 1Approportioning heritability using PVE summed by tissue
#number of genes per tissue
table(ctwas_gene_res$tissue)
Adipose_Subcutaneous Adipose_Visceral_Omentum Liver
12961 12810 10901 #Proportion of gene heritability - Adipose_Subcutaneous
sum(ctwas_gene_res$PVE[ctwas_gene_res$tissue=="Adipose_Subcutaneous"])/sum(ctwas_gene_res$PVE)[1] 0.653#Proportion of gene heritability - Adipose_Visceral_Omentum
sum(ctwas_gene_res$PVE[ctwas_gene_res$tissue=="Adipose_Visceral_Omentum"])/sum(ctwas_gene_res$PVE)[1] 0.128#Proportion of gene heritability - Liver
sum(ctwas_gene_res$PVE[ctwas_gene_res$tissue=="Liver"])/sum(ctwas_gene_res$PVE)[1] 0.219Compare results with Liver-only analysis
ctwas_gene_res_L <- readRDS("/project2/mstephens/wcrouse/UKB_analysis_known_anno/ukb-d-30780_irnt/Liver/ctwas_gene_res.RDS")
ctwas_genes_L <- ctwas_gene_res_L$genename[ctwas_gene_res_L$susie_pip>0.8]
ctwas_gene_res_combined_subset <- ctwas_gene_res_combined[ctwas_gene_res_combined$susie_pip>0.8,]
#number of Liver ctwas genes
length(ctwas_genes_L)[1] 33#number of Liver ctwas genes in combined results for any tissue
sum(ctwas_genes_L %in% ctwas_gene_res_combined_subset$genename)[1] 28#multitissue analysis (combined PIP) results for all genes detected in Liver
ctwas_gene_res_combined[ctwas_gene_res_combined$genename %in% ctwas_genes_L,c("genename", "region_tag", "susie_pip", "pip_AS", "pip_AVO", "pip_L")] genename region_tag susie_pip pip_AS pip_AVO pip_L
5454 PSRC1 1_67 1.011 4.83e-03 5.99e-03 1.00000
11576 GAS6 13_62 1.005 2.52e-03 4.19e-02 0.96084
6764 CNIH4 1_114 1.004 2.53e-03 4.10e-02 0.96042
15112 HPR 16_38 1.002 1.04e-03 1.07e-03 1.00000
4568 INSIG2 2_70 1.000 3.04e-04 4.09e-04 0.99924
16039 RP4-781K5.7 1_121 0.998 NA NA 0.99831
4051 C10orf88 10_77 0.996 3.94e-01 4.54e-01 0.14846
293 NPC1L1 7_32 0.996 3.15e-03 9.90e-01 0.00315
2454 PRKD2 19_33 0.993 3.26e-04 5.59e-01 0.43353
7595 PELO 5_31 0.990 4.00e-01 4.00e-01 0.19013
8571 ACP6 1_73 0.986 3.33e-01 2.81e-01 0.37313
8294 PKN3 9_66 0.980 8.48e-01 NA 0.13165
1980 PLTP 20_28 0.955 2.63e-03 5.79e-03 0.94649
7314 FADS1 11_34 0.954 NA 2.07e-03 0.95156
10456 TNKS 8_12 0.942 NA NA 0.94184
8626 INHBB 2_70 0.939 5.48e-04 5.48e-04 0.93751
3988 KDSR 18_35 0.932 1.34e-01 6.02e-02 0.73805
1385 SRRT 7_62 0.930 2.69e-01 3.05e-01 0.35573
7446 CSNK1G3 5_75 0.920 2.54e-03 3.14e-03 0.91389
2571 SP4 7_19 0.914 2.00e-03 1.33e-03 0.91109
8516 USP1 1_39 0.896 3.62e-03 NA 0.89217
14762 CYP2A6 19_28 0.894 1.93e-03 NA 0.89205
4375 ACVR1C 2_94 0.839 1.42e-01 2.95e-03 0.69337
11150 SPTY2D1 11_13 0.834 4.15e-01 3.51e-03 0.41535
13159 TRIM39 6_26 0.832 5.02e-09 5.06e-09 0.83222
10890 FUT2 19_33 0.818 NA NA 0.81824
7810 TTC39B 9_13 0.812 5.73e-03 1.08e-02 0.79596
6791 ABCG8 2_27 0.808 NA 3.08e-01 0.50002
11132 KLHDC7A 1_13 0.769 3.83e-01 3.15e-03 0.38298
5781 DDX56 7_32 0.730 3.90e-03 2.43e-03 0.72321
10979 CRACR2B 11_1 0.573 3.03e-02 9.30e-02 0.44960
10312 POP7 7_62 0.544 NA 2.81e-01 0.26327
9066 ABCA1 9_52 0.365 NA 6.04e-02 0.30447#silver standard genes from Liver-only analysis
ctwas_genes_L[ctwas_genes_L %in% known_annotations][1] "ABCG8" "NPC1L1" "TNKS" "ABCA1" "FADS1" "PLTP" #genes detected in multitissue analysis (combined PIP) but not in Liver
ctwas_gene_res_combined_subset[!(ctwas_gene_res_combined_subset$genename %in% ctwas_genes_L),c("genename", "region_tag", "susie_pip", "pip_AS", "pip_AVO", "pip_L")] genename region_tag susie_pip pip_AS pip_AVO pip_L
6099 DNAJC13 3_82 1.384 0.67325 3.28e-01 3.82e-01
7680 ZDHHC7 16_49 1.035 0.98674 3.32e-03 4.49e-02
7008 TIMD4 5_92 1.000 0.00203 9.98e-01 NA
6606 RPS11 19_34 1.000 0.33139 3.37e-01 3.31e-01
2375 FCGRT 19_34 1.000 0.99998 1.71e-05 6.09e-06
85 KMT2E 7_65 1.000 1.00000 0.00e+00 NA
1393 CETP 16_31 0.986 0.42214 5.63e-01 1.17e-03
6477 ABCA8 17_39 0.974 0.97402 2.67e-05 NA
6128 FAM117B 2_120 0.973 0.97096 1.82e-03 NA
9815 PCSK9 1_34 0.971 0.97112 1.67e-06 NA
1265 GSK3B 3_74 0.949 NA 9.46e-01 3.46e-03
10151 KCNK3 2_16 0.931 0.19412 7.36e-01 NA
1090 TPD52 8_57 0.916 0.13887 7.74e-01 2.71e-03
6136 PARP9 3_76 0.910 0.23187 6.75e-01 3.26e-03
2502 PLPPR2 19_10 0.846 0.55334 2.89e-01 3.43e-03
3962 CCDC92 12_75 0.840 0.75839 7.06e-02 1.10e-02
3948 CCND2 12_4 0.831 0.32643 2.52e-01 2.52e-01
4779 POR 7_48 0.828 0.82329 3.01e-03 2.12e-03Show selected loci of interest
locus_plot("10_77", label="TWAS")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
ctwas_gene_res[ctwas_gene_res$region_tag=="10_77",report_cols] genename region_tag susie_pip mu2 z tissue2 num_eqtl
5563 BTBD16 10_77 0.00298 4.99 -0.18138 AS 6
2544 PLEKHA1 10_77 0.00300 5.06 -0.15918 AS 2
13495 ARMS2 10_77 0.00307 5.24 0.16721 AS 1
8489 HTRA1 10_77 0.00324 5.72 -0.40092 AS 2
12324 FAM24B 10_77 0.04751 27.24 -0.31738 AS 1
3730 C10orf88 10_77 0.39404 51.76 -6.76295 AS 1
10349 PSTK 10_77 0.00302 9.50 2.12854 AS 1
1529 IKZF5 10_77 0.00786 23.74 3.45518 AS 2
7113 BUB3 10_77 0.00730 13.76 -1.43503 AS 1
7114 GPR26 10_77 0.00297 4.94 0.00369 AS 1
3874 CPXM2 10_77 0.00334 6.23 0.61570 AS 3
10525 CHST15 10_77 0.01240 18.88 1.91897 AS 2
20313 BTBD16 10_77 0.00408 8.19 0.87757 AVO 2
17270 PLEKHA1 10_77 0.00328 6.06 -0.55306 AVO 3
23206 HTRA1 10_77 0.01367 20.47 -1.93084 AVO 1
18472 C10orf88 10_77 0.45398 52.06 -6.78390 AVO 1
25038 PSTK 10_77 0.00302 9.50 2.12854 AVO 1
16243 IKZF5 10_77 0.00358 15.21 2.98333 AVO 2
26130 ACADSB 10_77 0.01223 23.36 2.88457 AVO 1
21854 BUB3 10_77 0.00723 13.67 -1.42812 AVO 1
18627 CPXM2 10_77 0.00297 4.95 0.08386 AVO 2
25224 CHST15 10_77 0.00434 8.63 0.99069 AVO 1
34324 BTBD16 10_77 0.00308 5.23 -0.04217 L 1
31615 PLEKHA1 10_77 0.00309 5.64 0.66670 L 2
41121 ARMS2 10_77 0.00307 5.24 0.16721 L 1
36918 HTRA1 10_77 0.00438 9.08 1.06231 L 1
34326 CUZD1 10_77 0.00550 41.75 6.01571 L 1
32672 C10orf88 10_77 0.14846 49.88 -6.63445 L 2
38500 PSTK 10_77 0.00298 9.47 2.16087 L 1
30695 IKZF5 10_77 0.00358 15.17 2.97786 L 1
39402 ACADSB 10_77 0.01443 17.89 -0.89038 L 1
35714 BUB3 10_77 0.00723 13.66 -1.42774 L 1
32805 CPXM2 10_77 0.00364 6.83 -0.56557 L 3
38654 CHST15 10_77 0.04165 30.74 2.55479 L 2locus_plot("7_32", label="TWAS")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
ctwas_gene_res[ctwas_gene_res$region_tag=="7_32",report_cols] genename region_tag susie_pip mu2 z tissue2 num_eqtl
17 HECW1 7_32 0.00176 5.01 -0.2338 AS 3
2465 COA1 7_32 0.00257 7.86 -0.3741 AS 2
2466 BLVRA 7_32 0.00179 5.29 0.4660 AS 1
627 MRPS24 7_32 0.00209 6.52 0.3828 AS 1
2467 URGCP 7_32 0.00217 6.39 0.0351 AS 2
1072 UBE2D4 7_32 0.00201 6.40 0.6291 AS 1
12733 AC004951.6 7_32 0.00309 9.01 0.2209 AS 1
12967 LINC00957 7_32 0.00178 5.12 0.2901 AS 1
3938 POLM 7_32 0.00180 5.26 -0.3690 AS 3
2472 POLD2 7_32 0.00530 16.55 1.7807 AS 4
2474 GCK 7_32 0.00212 7.35 1.0294 AS 2
2476 YKT6 7_32 0.00208 8.28 1.6795 AS 1
270 NUDCD3 7_32 0.00601 19.65 4.2759 AS 1
268 NPC1L1 7_32 0.00315 92.87 10.7619 AS 1
5285 DDX56 7_32 0.00390 36.85 7.3571 AS 2
7441 TMED4 7_32 0.07867 46.20 7.6883 AS 2
2384 OGDH 7_32 0.00275 23.58 0.4742 AS 2
14750 HECW1 7_32 0.00209 6.42 -0.3770 AVO 1
22970 STK17A 7_32 0.00213 6.60 0.4764 AVO 2
17184 COA1 7_32 0.00543 14.55 -1.0972 AVO 2
17185 BLVRA 7_32 0.00190 5.90 0.6113 AVO 2
15368 MRPS24 7_32 0.00209 6.52 0.3828 AVO 1
15804 UBE2D4 7_32 0.00201 6.40 0.6291 AVO 1
27410 AC004951.6 7_32 0.00309 9.01 0.2209 AVO 1
27633 LINC00957 7_32 0.00196 6.00 -0.4692 AVO 1
20037 DBNL 7_32 0.00228 6.89 0.1684 AVO 2
18687 POLM 7_32 0.00189 5.65 -0.4204 AVO 2
17190 AEBP1 7_32 0.00216 7.57 -0.9568 AVO 2
17193 GCK 7_32 0.00305 10.74 1.2748 AVO 2
17195 YKT6 7_32 0.00208 8.28 1.6795 AVO 1
15322 CAMK2B 7_32 0.00271 7.81 -1.3113 AVO 1
14998 NPC1L1 7_32 0.98999 105.59 11.6310 AVO 1
20035 DDX56 7_32 0.00243 8.83 -0.7866 AVO 1
22176 TMED4 7_32 0.07044 45.64 7.6088 AVO 2
17103 OGDH 7_32 0.00175 11.23 -2.5518 AVO 2
36702 STK17A 7_32 0.00183 5.58 0.5440 L 1
31549 COA1 7_32 0.00336 10.19 -0.7043 L 2
31550 BLVRA 7_32 0.00179 5.29 0.4660 L 1
29913 MRPS24 7_32 0.00209 6.52 0.3828 L 1
31551 URGCP 7_32 0.00201 6.44 -0.6697 L 2
30299 UBE2D4 7_32 0.00295 10.16 1.1907 L 1
40519 AC004951.6 7_32 0.00309 9.01 0.2209 L 1
34078 DBNL 7_32 0.00233 7.00 0.1010 L 2
32860 POLM 7_32 0.00175 5.19 0.5460 L 3
31555 AEBP1 7_32 0.00549 19.94 -2.6281 L 1
31556 POLD2 7_32 0.00388 13.15 -1.4227 L 2
31557 MYL7 7_32 0.00235 7.31 0.4396 L 1
31558 GCK 7_32 0.00176 5.11 -0.2516 L 1
29872 CAMK2B 7_32 0.00260 7.85 -1.5162 L 2
29605 NPC1L1 7_32 0.00315 92.87 -10.7619 L 1
34076 DDX56 7_32 0.72321 58.01 9.4463 L 2
35991 TMED4 7_32 0.06948 45.42 7.5476 L 2
31473 OGDH 7_32 0.00268 23.60 0.1500 L 2locus_plot("19_33", label="TWAS")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
ctwas_gene_res[ctwas_gene_res$region_tag=="19_33",report_cols] genename region_tag susie_pip mu2 z tissue2 num_eqtl
2270 PRKD2 19_33 0.000326 10.22 2.204 AS 2
10447 FKRP 19_33 0.004289 25.28 4.425 AS 5
1404 STRN4 19_33 0.000477 13.32 -2.471 AS 1
2269 SLC1A5 19_33 0.000321 5.61 -0.802 AS 1
445 AP2S1 19_33 0.000373 6.25 0.493 AS 2
7556 ARHGAP35 19_33 0.000781 14.07 1.556 AS 1
4646 NPAS1 19_33 0.000325 5.34 0.474 AS 1
6022 SAE1 19_33 0.000443 8.06 0.827 AS 2
2274 CCDC9 19_33 0.000321 4.96 0.259 AS 1
13623 INAFM1 19_33 0.000530 8.78 0.483 AS 1
5071 C5AR2 19_33 0.000384 6.84 0.683 AS 1
5066 DHX34 19_33 0.000417 7.72 -0.816 AS 2
2294 MEIS3 19_33 0.000356 5.79 0.276 AS 3
3570 KPTN 19_33 0.000389 6.68 0.601 AS 1
2291 NAPA 19_33 0.000679 12.78 1.458 AS 1
322 EHD2 19_33 0.000321 4.95 -0.149 AS 2
2284 GLTSCR2 19_33 0.000503 9.42 -0.983 AS 2
10248 SELENOW 19_33 0.000856 14.57 -1.488 AS 1
2307 PLA2G4C 19_33 0.000640 12.15 -1.382 AS 4
2304 LIG1 19_33 0.000532 10.64 1.179 AS 2
10934 C19orf68 19_33 0.000344 5.62 0.497 AS 2
2303 CARD8 19_33 0.000471 9.74 1.237 AS 2
10162 ZNF114 19_33 0.000453 7.53 -0.275 AS 3
2302 CCDC114 19_33 0.001623 16.80 -1.802 AS 4
6021 EMP3 19_33 0.000421 6.67 -0.225 AS 1
7710 TMEM143 19_33 0.000337 5.22 0.520 AS 2
2300 GRIN2D 19_33 0.001156 15.18 -1.142 AS 1
2299 GRWD1 19_33 0.006434 26.10 1.949 AS 1
10565 KCNJ14 19_33 0.000729 10.38 -0.328 AS 2
2298 CYTH2 19_33 0.000903 14.50 -1.645 AS 3
1310 SULT2B1 19_33 0.000356 5.86 -0.517 AS 1
2314 FAM83E 19_33 0.002366 39.06 5.339 AS 1
632 SPHK2 19_33 0.372177 41.65 -8.721 AS 1
2310 DBP 19_33 0.000367 6.38 0.252 AS 1
633 CA11 19_33 0.000444 16.53 -5.385 AS 1
6023 NTN5 19_33 0.358874 68.78 10.033 AS 2
10021 MAMSTR 19_33 0.000444 10.80 -1.875 AS 1
10560 IZUMO1 19_33 0.000944 38.62 7.318 AS 3
9824 FUT1 19_33 0.092957 63.09 -8.260 AS 1
16984 PRKD2 19_33 0.558691 33.38 5.317 AVO 2
25142 FKRP 19_33 0.000329 10.90 2.494 AVO 3
16124 STRN4 19_33 0.000493 8.77 -0.862 AVO 2
16983 SLC1A5 19_33 0.000686 11.68 -0.422 AVO 2
22289 ARHGAP35 19_33 0.000781 14.07 1.556 AVO 1
19382 NPAS1 19_33 0.001510 19.92 1.833 AVO 1
16990 BBC3 19_33 0.000481 8.36 -0.639 AVO 1
16987 CCDC9 19_33 0.000333 5.40 0.421 AVO 2
19812 C5AR2 19_33 0.000385 6.86 0.687 AVO 1
17010 MEIS3 19_33 0.000346 5.68 0.476 AVO 1
17007 NAPA 19_33 0.000679 12.78 1.458 AVO 1
15054 EHD2 19_33 0.000321 4.94 -0.134 AVO 2
24942 SELENOW 19_33 0.000532 10.01 -1.150 AVO 2
17023 PLA2G4C 19_33 0.000832 15.09 -1.611 AVO 4
17020 LIG1 19_33 0.001091 17.89 1.678 AVO 2
25641 C19orf68 19_33 0.000355 5.97 0.607 AVO 1
17019 CARD8 19_33 0.000379 6.77 0.853 AVO 3
24851 ZNF114 19_33 0.000341 5.28 0.388 AVO 1
17018 CCDC114 19_33 0.000712 11.16 -1.013 AVO 2
20766 EMP3 19_33 0.000431 8.22 1.096 AVO 1
22442 TMEM143 19_33 0.000355 5.53 0.264 AVO 1
17016 GRIN2D 19_33 0.000478 8.14 -0.336 AVO 1
17015 GRWD1 19_33 0.002372 24.74 -2.617 AVO 1
25268 KCNJ14 19_33 0.001501 15.17 -0.830 AVO 2
17014 CYTH2 19_33 0.006498 30.55 -2.455 AVO 4
20768 LMTK3 19_33 0.000459 10.92 2.081 AVO 1
15375 SPHK2 19_33 0.307161 41.58 -8.660 AVO 2
15376 CA11 19_33 0.067653 39.48 -7.548 AVO 2
20767 NTN5 19_33 0.075613 73.00 11.509 AVO 1
24712 MAMSTR 19_33 0.000355 27.40 7.194 AVO 2
17029 RASIP1 19_33 0.009645 53.35 9.239 AVO 1
25262 IZUMO1 19_33 0.001629 43.61 8.464 AVO 3
39603 DACT3 19_33 0.000325 5.57 -0.789 L 1
31371 PRKD2 19_33 0.433530 32.85 5.290 L 2
38582 FKRP 19_33 0.001031 24.96 3.791 L 2
30591 STRN4 19_33 0.000328 5.13 0.093 L 1
31370 SLC1A5 19_33 0.000423 8.75 -1.271 L 2
36097 ARHGAP35 19_33 0.000781 14.07 1.556 L 1
33487 NPAS1 19_33 0.000348 6.62 1.067 L 2
34747 SAE1 19_33 0.000326 5.03 -0.107 L 1
33486 ZC3H4 19_33 0.000326 5.03 -0.107 L 1
31374 CCDC9 19_33 0.000327 5.04 0.116 L 2
41212 INAFM1 19_33 0.000355 6.10 -0.608 L 1
39604 C5AR1 19_33 0.000571 10.73 1.157 L 1
33882 C5AR2 19_33 0.000385 6.86 0.687 L 1
33877 DHX34 19_33 0.000468 8.87 -0.977 L 1
32527 ZNF541 19_33 0.000753 12.46 -1.124 L 1
29918 GLTSCR1 19_33 0.000722 12.77 -1.327 L 1
29657 EHD2 19_33 0.000327 5.20 -0.364 L 1
31407 PLA2G4C 19_33 0.001151 19.66 -2.177 L 2
31405 LIG1 19_33 0.000357 6.11 -0.697 L 2
38995 C19orf68 19_33 0.000350 5.81 0.544 L 2
31404 CARD8 19_33 0.000646 11.53 1.641 L 2
31403 CCDC114 19_33 0.000670 10.62 -0.960 L 2
34746 EMP3 19_33 0.000562 12.58 2.092 L 2
31400 GRWD1 19_33 0.001203 15.95 -1.461 L 1
38689 KCNJ14 19_33 0.001018 12.38 -0.525 L 2
31399 CYTH2 19_33 0.020766 40.43 -3.069 L 2
34748 LMTK3 19_33 0.000459 10.92 2.081 L 1
30511 SULT2B1 19_33 0.024615 39.27 -3.375 L 1
31413 FAM83E 19_33 0.000425 43.73 9.435 L 2
29919 SPHK2 19_33 0.002757 25.14 -7.174 L 3
31409 DBP 19_33 0.000367 6.38 -0.252 L 1
29920 CA11 19_33 0.000615 8.46 -1.217 L 1
38237 FUT2 19_33 0.818238 71.96 -11.927 L 1
38234 MAMSTR 19_33 0.000351 27.24 7.309 L 2
38686 IZUMO1 19_33 0.000321 5.47 -0.269 L 2
31393 SULT2A1 19_33 0.000346 5.87 0.655 L 1locus_plot("5_31", label="TWAS")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
ctwas_gene_res[ctwas_gene_res$region_tag=="5_31",report_cols] genename region_tag susie_pip mu2 z tissue2 num_eqtl
12395 ITGA1 5_31 0.00268 9.29 0.433 AS 1
6967 PELO 5_31 0.39993 74.01 8.522 AS 1
28074 LINC02106 5_31 0.00267 10.97 -1.437 AVO 1
15002 ISL1 5_31 0.00159 5.24 0.474 AVO 1
27071 ITGA1 5_31 0.00180 6.11 0.147 AVO 2
21706 PELO 5_31 0.39993 74.01 8.522 AVO 1
40245 ITGA1 5_31 0.00295 25.44 -4.218 L 3
35592 PELO 5_31 0.19013 72.60 8.427 L 2
8176 ITGA2 5_31 0.00771 20.68 -1.892 AS 3
8177 MOCS2 5_31 0.00194 7.12 0.695 AS 2
5020 FST 5_31 0.00177 6.22 0.524 AS 2
8194 NDUFS4 5_31 0.00165 5.52 -0.385 AS 1
10917 ARL15 5_31 0.00168 5.73 -0.436 AS 1
22907 ITGA2 5_31 0.00251 9.66 -1.009 AVO 3
22908 MOCS2 5_31 0.00197 7.28 0.723 AVO 2
19762 FST 5_31 0.00214 8.13 0.812 AVO 1
22925 NDUFS4 5_31 0.00188 6.79 -0.673 AVO 3
36642 ITGA2 5_31 0.00162 5.39 -0.302 L 2
36643 MOCS2 5_31 0.00168 5.69 -0.422 L 2
36662 NDUFS4 5_31 0.00156 4.99 0.144 L 2#note that ABCA1 is also in 9_52 for another tissue
locus_plot("9_52", label="TWAS")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
ctwas_gene_res[ctwas_gene_res$region_tag=="9_52",report_cols] genename region_tag susie_pip mu2 z tissue2 num_eqtl
5346 SMC2 9_52 0.00435 9.70 -1.181 AS 1
5339 NIPSNAP3A 9_52 0.00312 6.48 -0.583 AS 3
8335 NIPSNAP3B 9_52 0.00314 6.55 0.557 AS 2
20096 SMC2 9_52 0.00286 5.62 -0.552 AVO 2
20090 NIPSNAP3A 9_52 0.00393 8.75 1.039 AVO 2
23057 NIPSNAP3B 9_52 0.00524 11.62 1.226 AVO 3
23058 ABCA1 9_52 0.06037 35.39 -3.091 AVO 1
34129 SMC2 9_52 0.00299 6.05 -0.564 L 1
34123 NIPSNAP3A 9_52 0.00365 8.00 -0.937 L 2
36781 NIPSNAP3B 9_52 0.00323 6.83 -0.600 L 2locus_plot("9_53", label="TWAS")
| Version | Author | Date |
|---|---|---|
| c5af636 | wesleycrouse | 2022-02-05 |
ctwas_gene_res[ctwas_gene_res$region_tag=="9_53",report_cols] genename region_tag susie_pip mu2 z tissue2 num_eqtl
812 SLC44A1 9_53 0.000545 6.82 0.473 AS 1
2482 FSD1L 9_53 0.000777 11.02 1.325 AS 1
2481 FKTN 9_53 0.000451 5.21 -0.165 AS 2
11023 TAL2 9_53 0.000908 12.62 1.364 AS 1
15555 SLC44A1 9_53 0.002969 22.92 1.915 AVO 1
17203 FSD1L 9_53 0.000777 11.02 1.325 AVO 1
17202 FKTN 9_53 0.000441 4.98 0.026 AVO 3
25722 TAL2 9_53 0.000908 12.62 1.364 AVO 1
36782 ABCA1 9_53 0.304469 66.68 7.982 L 1
31565 FKTN 9_53 0.000572 8.13 -0.764 L 1
30686 TMEM38B 9_53 0.000675 7.73 0.702 L 1locus_plot("7_65", label="TWAS")
| Version | Author | Date |
|---|---|---|
| 909c4c2 | wesleycrouse | 2022-02-07 |
ctwas_gene_res[ctwas_gene_res$region_tag=="7_65",report_cols] genename region_tag susie_pip mu2 z tissue2 num_eqtl
13034 RP11-325F22.2 7_65 0 29.28 -0.442 AS 2
75 KMT2E 7_65 1 13998.55 -3.002 AS 1
5123 SRPK2 7_65 0 9766.04 -2.590 AS 2
1434 PUS7 7_65 0 13.99 1.295 AS 2
5122 RINT1 7_65 0 17.70 -1.030 AS 3
6520 ATXN7L1 7_65 0 6.88 -0.528 AS 1
4441 CDHR3 7_65 0 6.50 -0.258 AS 3
14809 KMT2E 7_65 0 440.49 1.549 AVO 1
19869 SRPK2 7_65 0 11839.49 -2.619 AVO 1
16149 PUS7 7_65 0 16.75 1.207 AVO 2
19868 RINT1 7_65 0 13.66 -0.520 AVO 1
19175 CDHR3 7_65 0 6.89 -0.302 AVO 2
40736 RP11-325F22.2 7_65 0 1032.04 0.970 L 2
33934 SRPK2 7_65 0 1793.06 -1.462 L 1
30618 PUS7 7_65 0 64.52 -1.525 L 1
33933 RINT1 7_65 0 33.23 -1.032 L 2
33305 CDHR3 7_65 0 17.07 0.448 L 2locus_plot("16_31", label="TWAS")
ctwas_gene_res[ctwas_gene_res$region_tag=="16_31",report_cols] genename region_tag susie_pip mu2 z tissue2 num_eqtl
13267 RP11-461O7.1 16_31 0.000892 6.08 -0.4170 AS 2
1291 GNAO1 16_31 0.000939 6.57 -0.5287 AS 1
7520 AMFR 16_31 0.001872 15.13 1.9978 AS 1
1292 OGFOD1 16_31 0.004210 20.03 1.5592 AS 2
8673 NUDT21 16_31 0.000833 5.66 -0.4943 AS 1
4159 BBS2 16_31 0.001613 11.69 -0.9723 AS 3
1289 MT3 16_31 0.000848 5.47 0.2341 AS 1
4161 MT2A 16_31 0.002184 20.45 2.9596 AS 2
9113 MT1E 16_31 0.000791 5.10 0.3616 AS 2
12226 MT1M 16_31 0.001403 12.24 1.8140 AS 1
12224 MT1A 16_31 0.001808 16.56 2.4980 AS 1
11844 MT1F 16_31 0.000986 7.30 0.5534 AS 1
4160 MT1G 16_31 0.000782 5.16 -0.6193 AS 3
12223 MT1H 16_31 0.000783 5.32 0.0738 AS 1
11160 MT1X 16_31 0.001319 11.55 -1.3797 AS 1
1987 NUP93 16_31 0.008445 27.61 -2.2175 AS 2
507 HERPUD1 16_31 0.000943 18.89 3.5208 AS 2
1287 CETP 16_31 0.422136 141.15 13.8242 AS 2
5873 NLRC5 16_31 0.001319 8.82 -0.2377 AS 2
5872 CPNE2 16_31 0.001213 8.37 0.1651 AS 2
9557 FAM192A 16_31 0.000986 7.25 0.8103 AS 4
7523 RSPRY1 16_31 0.001098 10.20 -1.7123 AS 3
1994 PLLP 16_31 0.000869 5.96 -0.3623 AS 2
64 CIAPIN1 16_31 0.004462 22.34 -2.0210 AS 3
1331 COQ9 16_31 0.000801 5.19 -0.2843 AS 1
1998 POLR2C 16_31 0.000966 7.38 -0.9059 AS 1
4164 DOK4 16_31 0.000786 4.98 0.1073 AS 1
5194 CCDC102A 16_31 0.000848 5.97 0.6976 AS 2
12219 ADGRG1 16_31 0.002124 14.88 -1.5176 AS 1
27932 RP11-461O7.1 16_31 0.000840 5.61 -0.3350 AVO 3
16014 GNAO1 16_31 0.001632 11.75 1.2209 AVO 1
22252 AMFR 16_31 0.004735 26.96 3.0056 AVO 1
16015 OGFOD1 16_31 0.003986 19.53 1.5298 AVO 2
23385 NUDT21 16_31 0.000899 6.44 -0.6824 AVO 2
18899 BBS2 16_31 0.001813 12.92 -1.1437 AVO 2
18901 MT2A 16_31 0.019112 45.19 4.1890 AVO 1
26901 MT1M 16_31 0.000802 6.70 1.3262 AVO 1
26899 MT1A 16_31 0.001808 16.56 2.4980 AVO 1
18900 MT1G 16_31 0.003332 21.52 -2.3995 AVO 1
26898 MT1H 16_31 0.000783 5.32 0.0738 AVO 1
25855 MT1X 16_31 0.000792 5.19 -0.4100 AVO 1
16705 NUP93 16_31 0.000914 7.15 -1.5072 AVO 1
15241 HERPUD1 16_31 0.000893 17.66 3.4140 AVO 2
16011 CETP 16_31 0.562613 139.05 13.3792 AVO 1
20623 NLRC5 16_31 0.001126 7.46 0.0124 AVO 2
20622 CPNE2 16_31 0.001244 8.58 0.1797 AVO 2
24249 FAM192A 16_31 0.001378 10.94 1.3936 AVO 2
22255 RSPRY1 16_31 0.001037 9.46 1.6393 AVO 2
16710 PLLP 16_31 0.001117 9.28 -1.3225 AVO 1
16712 CCL22 16_31 0.001843 14.49 1.7754 AVO 1
16714 CCL17 16_31 0.001358 9.74 0.7432 AVO 1
14797 CIAPIN1 16_31 0.004442 22.29 -2.0157 AVO 2
16717 POLR2C 16_31 0.000976 6.96 -0.5508 AVO 1
18904 DOK4 16_31 0.000930 7.13 -0.9941 AVO 1
19949 CCDC102A 16_31 0.000849 5.99 0.7040 AVO 2
26894 ADGRG1 16_31 0.001621 11.66 -1.0065 AVO 1
28441 RP11-249C24.10 16_31 0.000784 5.22 0.6743 AVO 1
40933 RP11-461O7.1 16_31 0.000983 6.66 0.1973 L 1
30496 GNAO1 16_31 0.000939 6.57 -0.5287 L 1
36067 AMFR 16_31 0.000997 7.02 -0.1575 L 1
37082 NUDT21 16_31 0.000877 6.23 -0.6748 L 2
33053 BBS2 16_31 0.005469 23.65 -1.9264 L 2
30494 MT3 16_31 0.000848 5.47 0.2341 L 1
37466 MT1E 16_31 0.000782 5.14 0.5733 L 1
40099 MT1M 16_31 0.001218 12.04 2.0216 L 1
40097 MT1A 16_31 0.001010 9.01 1.5830 L 2
39758 MT1F 16_31 0.010341 32.50 -2.7355 L 1
39177 MT1X 16_31 0.000792 5.19 -0.4100 L 1
31112 NUP93 16_31 0.005313 24.32 2.2771 L 2
29810 HERPUD1 16_31 0.001297 21.87 3.8389 L 2
30492 CETP 16_31 0.001173 72.15 10.0796 L 1
34612 NLRC5 16_31 0.000847 99.84 11.8602 L 1
34611 CPNE2 16_31 0.000798 5.18 0.2384 L 1
37844 FAM192A 16_31 0.000904 6.69 -0.7860 L 1
36070 RSPRY1 16_31 0.001149 10.89 -1.8324 L 1
31117 PLLP 16_31 0.003335 22.39 -2.6585 L 2
29453 CX3CL1 16_31 0.000895 6.67 -0.8286 L 1
31119 CCL17 16_31 0.001358 9.74 0.7432 L 1
29424 CIAPIN1 16_31 0.004793 23.06 -2.0356 L 2
30526 COQ9 16_31 0.001279 9.61 -0.9550 L 2
33057 DOK4 16_31 0.000935 7.18 -0.9957 L 2
34000 CCDC102A 16_31 0.000803 5.28 0.4044 L 2
40094 ADGRG1 16_31 0.002396 15.97 -1.5429 L 3
36060 CES5A 16_31 0.000786 5.34 -0.6790 L 2
5874 KATNB1 16_31 0.004440 22.00 -1.9006 AS 1
5875 KIFC3 16_31 0.001610 12.05 -1.2175 AS 1
7530 TEPP 16_31 0.001130 8.52 0.8904 AS 2
8515 ZNF319 16_31 0.000789 5.02 0.1401 AS 1
2002 USB1 16_31 0.001548 11.53 -1.2420 AS 1
2001 MMP15 16_31 0.002467 16.22 -1.5466 AS 1
833 CFAP20 16_31 0.000782 4.94 0.0431 AS 1
834 CSNK2A2 16_31 0.001361 10.38 -1.0726 AS 1
2004 CCDC113 16_31 0.000784 4.96 0.0764 AS 1
10521 GINS3 16_31 0.001002 7.40 0.7016 AS 1
2007 SETD6 16_31 0.025303 37.73 2.9772 AS 2
2008 SLC38A7 16_31 0.001490 11.14 1.2166 AS 1
4163 GOT2 16_31 0.003508 19.11 1.9415 AS 2
20624 KATNB1 16_31 0.004537 22.21 1.9150 AVO 2
22262 TEPP 16_31 0.000785 4.98 0.0992 AVO 1
23234 ZNF319 16_31 0.000789 5.02 0.1401 AVO 1
16721 USB1 16_31 0.000822 5.44 0.3082 AVO 2
16720 MMP15 16_31 0.002467 16.22 -1.5466 AVO 1
15577 CFAP20 16_31 0.000819 5.39 0.3112 AVO 2
15578 CSNK2A2 16_31 0.001360 10.37 -1.0721 AVO 1
16723 CCDC113 16_31 0.001231 9.39 0.9755 AVO 1
16725 NDRG4 16_31 0.000788 5.01 -0.1603 AVO 1
18897 CNOT1 16_31 0.001124 8.37 -0.9536 AVO 1
18903 GOT2 16_31 0.001254 9.53 1.0162 AVO 2
22260 DRC7 16_31 0.002248 15.28 -1.4915 AVO 1
38738 ADGRG3 16_31 0.001378 10.52 -1.0805 L 1
34613 KATNB1 16_31 0.004299 21.72 -1.8724 L 2
34614 KIFC3 16_31 0.008368 28.22 -2.2243 L 1
36943 ZNF319 16_31 0.000789 5.02 0.1401 L 1
31126 USB1 16_31 0.000821 5.41 0.3146 L 1
31125 MMP15 16_31 0.002467 16.22 -1.5466 L 1
30101 CFAP20 16_31 0.000804 5.21 0.2412 L 2
30102 CSNK2A2 16_31 0.000791 5.06 -0.1322 L 2
38650 GINS3 16_31 0.001013 7.51 -0.7183 L 2
31129 NDRG4 16_31 0.000793 5.07 0.1680 L 1
33052 CNOT1 16_31 0.008516 27.32 -2.4928 L 2
31131 SLC38A7 16_31 0.001490 11.14 1.2166 L 1
33056 GOT2 16_31 0.007834 27.09 2.3112 L 2locus_plot("1_34", label="TWAS")
ctwas_gene_res[ctwas_gene_res$region_tag=="1_34",report_cols] genename region_tag susie_pip mu2 z tissue2 num_eqtl
587 YIPF1 1_34 1.33e-15 12.24 1.023 AS 3
1144 HSPB11 1_34 7.77e-16 5.74 -0.230 AS 1
3401 LRRC42 1_34 7.77e-16 5.99 0.285 AS 2
3400 TMEM59 1_34 6.66e-16 5.21 0.210 AS 2
3399 TCEANC2 1_34 6.66e-16 5.27 -0.185 AS 1
7325 CDCP2 1_34 1.89e-15 14.70 -1.206 AS 1
3403 MRPL37 1_34 7.77e-16 5.59 0.534 AS 2
12499 CYB5RL 1_34 2.22e-15 16.68 1.160 AS 2
7327 SSBP3 1_34 6.66e-16 5.16 -0.601 AS 1
7784 ACOT11 1_34 3.00e-15 21.07 -1.852 AS 3
7785 FAM151A 1_34 1.39e-14 34.04 2.026 AS 1
10806 MROH7 1_34 5.30e-14 57.74 3.976 AS 4
13202 TTC4 1_34 7.77e-16 5.56 -0.106 AS 1
7786 PARS2 1_34 1.44e-15 11.93 -1.155 AS 2
108 TTC22 1_34 3.11e-15 17.69 1.166 AS 2
3387 DHCR24 1_34 1.11e-15 10.97 -0.381 AS 1
9036 PCSK9 1_34 9.71e-01 117.91 17.211 AS 1
12945 RP11-90C4.1 1_34 1.11e-15 9.08 -0.111 AS 1
15329 NDC1 1_34 1.24e-14 33.89 -2.464 AVO 1
15328 YIPF1 1_34 7.77e-16 6.79 -0.559 AVO 2
26972 DIO1 1_34 9.10e-15 31.02 -2.282 AVO 2
15876 HSPB11 1_34 7.77e-16 5.74 0.230 AVO 1
18141 TCEANC2 1_34 6.66e-16 5.06 0.119 AVO 2
27177 CYB5RL 1_34 2.33e-15 17.42 1.219 AVO 3
22072 SSBP3 1_34 6.66e-16 5.16 -0.601 AVO 1
22523 ACOT11 1_34 7.77e-16 7.18 -0.943 AVO 1
22524 FAM151A 1_34 1.39e-14 34.04 2.026 AVO 1
25506 MROH7 1_34 8.36e-14 61.21 3.859 AVO 2
27867 TTC4 1_34 8.88e-16 6.77 0.448 AVO 1
22525 PARS2 1_34 1.33e-15 10.51 -0.620 AVO 2
14838 TTC22 1_34 6.66e-16 6.02 -0.175 AVO 1
20826 TMEM61 1_34 8.66e-15 49.88 -6.519 AVO 1
23745 PCSK9 1_34 1.67e-06 195.27 13.459 AVO 3
22526 USP24 1_34 5.34e-13 53.70 2.658 AVO 1
36301 LEXM 1_34 7.77e-15 26.53 2.105 L 2
29877 YIPF1 1_34 1.53e-14 36.97 2.660 L 2
30364 HSPB11 1_34 7.77e-16 5.74 -0.230 L 1
32375 LRRC42 1_34 8.88e-16 8.33 0.702 L 2
32377 MRPL37 1_34 3.77e-15 23.30 -2.116 L 2
40333 CYB5RL 1_34 3.11e-15 19.19 1.379 L 1
36298 ACOT11 1_34 1.33e-15 13.43 -1.786 L 2
36299 FAM151A 1_34 1.33e-15 10.40 0.708 L 2
38883 MROH7 1_34 1.44e-15 11.13 0.803 L 1
36300 PARS2 1_34 1.33e-15 10.61 -0.634 L 2
29463 TTC22 1_34 1.89e-15 20.64 3.299 L 2
32362 DHCR24 1_34 1.22e-15 12.86 0.898 L 2
36302 USP24 1_34 6.66e-16 8.64 3.381 L 1
sessionInfo()R version 3.6.1 (2019-07-05)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Scientific Linux 7.4 (Nitrogen)
Matrix products: default
BLAS/LAPACK: /software/openblas-0.2.19-el7-x86_64/lib/libopenblas_haswellp-r0.2.19.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] plotly_4.9.0 forcats_0.4.0 stringr_1.4.0
[4] dplyr_1.0.7 purrr_0.3.4 readr_1.4.0
[7] tidyr_1.1.0 tibble_3.1.2 tidyverse_1.3.0
[10] ctwas_0.1.31 readxl_1.3.1 WebGestaltR_0.4.4
[13] disgenet2r_0.99.2 enrichR_3.0 cowplot_1.0.0
[16] ggplot2_3.3.3
loaded via a namespace (and not attached):
[1] fs_1.3.1 lubridate_1.7.4 bit64_4.0.5
[4] doParallel_1.0.16 httr_1.4.1 rprojroot_2.0.2
[7] tools_3.6.1 backports_1.1.4 doRNG_1.8.2
[10] utf8_1.2.1 R6_2.5.0 lazyeval_0.2.2
[13] DBI_1.1.1 colorspace_1.4-1 withr_2.4.1
[16] tidyselect_1.1.0 bit_4.0.4 curl_3.3
[19] compiler_3.6.1 git2r_0.26.1 cli_3.0.1
[22] rvest_0.3.5 logging_0.10-108 xml2_1.3.2
[25] labeling_0.3 scales_1.1.0 apcluster_1.4.8
[28] digest_0.6.20 rmarkdown_1.13 svglite_1.2.2
[31] pkgconfig_2.0.3 htmltools_0.3.6 dbplyr_1.4.2
[34] fastmap_1.1.0 htmlwidgets_1.3 rlang_0.4.11
[37] rstudioapi_0.10 RSQLite_2.2.7 shiny_1.3.2
[40] farver_2.1.0 generics_0.0.2 jsonlite_1.6
[43] crosstalk_1.0.0 magrittr_2.0.1 Matrix_1.2-18
[46] Rcpp_1.0.6 munsell_0.5.0 fansi_0.5.0
[49] gdtools_0.1.9 lifecycle_1.0.0 stringi_1.4.3
[52] whisker_0.3-2 yaml_2.2.0 plyr_1.8.4
[55] grid_3.6.1 blob_1.2.1 parallel_3.6.1
[58] promises_1.0.1 crayon_1.4.1 lattice_0.20-38
[61] haven_2.3.1 hms_1.1.0 knitr_1.23
[64] pillar_1.6.1 igraph_1.2.4.1 rjson_0.2.20
[67] rngtools_1.5 reshape2_1.4.3 codetools_0.2-16
[70] reprex_0.3.0 glue_1.4.2 evaluate_0.14
[73] data.table_1.14.0 modelr_0.1.8 vctrs_0.3.8
[76] httpuv_1.5.1 foreach_1.5.1 cellranger_1.1.0
[79] gtable_0.3.0 pgenlibr_0.3.1 assertthat_0.2.1
[82] cachem_1.0.5 xfun_0.8 mime_0.7
[85] xtable_1.8-4 broom_0.7.9 later_0.8.0
[88] viridisLite_0.3.0 iterators_1.0.13 memoise_2.0.0
[91] workflowr_1.6.2 ellipsis_0.3.2