- Statistical analysis
- Which genes are differentially regualted upon KO of DEPDC5
- Modelling the KO in all different combinations
- KO effect in noDIFF noRAPA
- D62
- KO effect in DIFF noRAPA
- D62
- KO effect in noDIFF RAPA
- D62
- KO effect in DIFF RAPA
- D62
Statistical analysis
AGC, AY
23 3 2021
Last updated: 2022-08-26
Checks: 6 1
Knit directory:
S:/KJP_Biolabor/Projects/CePTER/DEPDC5_D62_Analysis/
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home = getwd()
knitr::opts_chunk$set(fig.height=6, fig.width=8)Statistical analysis
Which genes are differentially regualted upon KO of DEPDC5
Modelling the KO in all different combinations
if(reanalyze | !file.exists(paste0(home,"/output/D62_ResTabs_KO.RData"))){
## comparisons against noRAPA NTC
Rapamycin=c("noRAPA", "RAPA")
Differentiation=c("noDIFF", "DIFF")
Type_sgRNA<-c("sg2.1","sg2.2")
target="KO"
r = Rapamycin[1]
d = Differentiation[1]
Tp = Type_sgRNA[[1]]
# no random effects included
for(r in Rapamycin){
Rapafilter = SampleInfo$RAPA %in% r
for(d in Differentiation){
Difffilter = SampleInfo$DIFF %in% d
for(Tp in Type_sgRNA){
sgRNAfilter = SampleInfo$gRNA %in% Tp
vs_label=paste0(c("sgNTC", Tp), sep="", collapse="_")
Set = rownames(SampleInfo)[Rapafilter&Difffilter&
sgRNAfilter]
Set = c(Set, rownames(SampleInfo)[SampleInfo$RAPA == "noRAPA" & Difffilter&
SampleInfo$gRNA == "sgNTC"])
lab = paste("restab", "D62_NTCnoRAPA", vs_label, d,r, sep="_")
print(lab)
assign(lab, comparison(ddsMat, Set, target, randomeffect = NULL))
}
}
}
# calculate all combinations against same NTC (treated)
Type_sgRNA<-list(c("sgNTC","sg2.1"),c("sgNTC","sg2.2"))
Cl<-"D62"
# no random effects included
for(r in Rapamycin){
Rapafilter = SampleInfo$RAPA %in% r
for(d in Differentiation){
Difffilter = SampleInfo$DIFF %in% d
for(Tp in Type_sgRNA){
sgRNAfilter = SampleInfo$gRNA %in% Tp
vs_label=paste0(Tp, sep="", collapse="_")
Set = rownames(SampleInfo)[Rapafilter&Difffilter&
sgRNAfilter]
lab = paste("restab", "D62_NTCwRAPA",vs_label, d,r, sep="_")
print(lab)
assign(lab,
comparison(ddsMat, samples = Set,
target =target,randomeffect = c()))
}
}
}
comparisons= apropos("restab")
save(list = comparisons, file = paste0(home,"/output/D62_ResTabs_KO.RData"))
} else
load(file = paste0(home,"/output/D62_ResTabs_KO.RData"))samesign <- function(x) {abs(sum(sign(x)))==length(x)}
mypval=0.05
colors <- rev(colorRampPalette(brewer.pal(9, "Spectral"))(255))
genelists=lapply(list.files(paste0(home,"/data/genelists_to_test"), full.names = T),
function(x){read.table(x, header=T)})
names(genelists) = gsub(".txt", "", list.files(paste0(home,"/data/genelists_to_test")))
getlinmodoutput = function(targetline="D62",
targetdiff,
targetrapa,
refset="NTCnoRAPA"){
if(refset=="NTCnoRAPA"){
samplesincl=SampleInfo$DIFF==targetdiff &
SampleInfo$RAPA==targetrapa &
SampleInfo$KO == "KO"
samplesincl = samplesincl | (SampleInfo$DIFF==targetdiff &
SampleInfo$RAPA=="noRAPA" &
SampleInfo$KO == "WT")
} else {
samplesincl = SampleInfo$DIFF==targetdiff &
SampleInfo$RAPA==targetrapa
}
pvalrep= get(paste0("restab_",
targetline,"_",refset, "_sgNTC_sg2.1_",
targetdiff, "_" ,
targetrapa))$padj<mypval &
get(paste0("restab_",
targetline, "_",refset,"_sgNTC_sg2.2_",
targetdiff, "_" ,
targetrapa))$padj<mypval
betarep = apply(cbind(get(paste0("restab_",
targetline,"_",refset, "_sgNTC_sg2.1_",
targetdiff, "_" ,
targetrapa))$log2FoldChange,
get(paste0("restab_",
targetline,"_",refset, "_sgNTC_sg2.2_",
targetdiff, "_" ,
targetrapa))$log2FoldChange), 1,
samesign)
idx=which(betarep & pvalrep)
hits=geneids[idx]
restab=data.frame(
entrezgene = geneids[idx],
genname=rowData(ddsMat)[hits,"hgnc"],
log2FC_2.1 = get(paste0("restab_",
targetline,"_",refset, "_sgNTC_sg2.1_",
targetdiff, "_" ,
targetrapa))$log2FoldChange[idx],
fdr_2.1 = get(paste0("restab_",
targetline,"_",refset, "_sgNTC_sg2.1_",
targetdiff, "_" ,
targetrapa))$padj[idx],
log2FC_2.2 = get(paste0("restab_",
targetline,"_",refset, "_sgNTC_sg2.2_",
targetdiff, "_" ,
targetrapa))$log2FoldChange[idx],
fdr_2.2 = get(paste0("restab_",
targetline,"_",refset, "_sgNTC_sg2.2_",
targetdiff, "_" ,
targetrapa))$padj[idx])
print(restab)
write.xlsx(restab, file=paste0(output, "/Restab_",
targetline,"_",refset, "_",
targetdiff, "_",
targetrapa, ".xlsx"))
SamplesSet=SampleInfo[samplesincl,]
plotmatrix = log_2cpm[hits,rownames(SamplesSet)]
rownames(SamplesSet)=SamplesSet$label_rep
colnames(plotmatrix)=SamplesSet$label_rep
rownames(plotmatrix)=rowData(ddsMat)[hits,"hgnc"]
gRNAcol = Dark8[c(1:nlevels(SampleInfo$gRNA))+nlevels(SampleInfo$CellLine)]
names(gRNAcol) = levels(SampleInfo$gRNA)
gRNAcol = gRNAcol[as.character(unique(SamplesSet$gRNA))]
diffcol = brewer.pal(3,"Set1")[1:nlevels(SampleInfo$DIFF)]
names(diffcol) = levels(SampleInfo$DIFF)
diffcol = diffcol[as.character(unique(SamplesSet$DIFF))]
rapacol = brewer.pal(3,"Set2")[1:nlevels(SampleInfo$RAPA)]
names(rapacol) = levels(SampleInfo$RAPA)
rapacol = rapacol[as.character(unique(SamplesSet$RAPA))]
ann_colors = list(
DIFF = diffcol,
RAPA = rapacol,
gRNA = gRNAcol)
collabels = SamplesSet[,c("DIFF","RAPA", "gRNA")] %>%
mutate_all(as.character) %>% as.data.frame()
rownames(collabels)=SamplesSet$label_rep
idx=order(SamplesSet$gRNA)
pheatmap(plotmatrix[,idx],
border_color = NA,
annotation_col = collabels[idx,],
show_rownames = F, show_colnames = F,
annotation_colors = ann_colors,
clustering_method = "ward.D2",
cluster_cols = F,
col = colors,
scale = "row",
main = paste("Normalized log2 counts", targetline, targetdiff, targetrapa))
gene_univers = rownames(ddsMat)
gostres = getGOresults(hits, gene_univers)
toptab = gostres$result
write.xlsx(toptab, file = paste0(output, "/GOres_",targetline,targetdiff,targetrapa,".xlsx"), sheetName = "GO_enrichment")
idx = grepl("GO|KEGG", toptab$source)
titlename = paste(targetline,targetdiff,targetrapa)
if(!any(idx)){
p = ggplot() + annotate("text", x = 4, y = 25, size=4,
label = "no significant GO term") +
ggtitle(titlename)+theme_void()+
theme(plot.title = element_text(hjust = 0.5))
} else {
p=GOplot(toptab[idx, ], 10, Title = titlename)
}
print(p)
## enrichment test for genelist
Resall=data.frame()
for (gl in names(genelists)){
tmp=table(signif=geneids %in% hits, targetgene=geneids %in% genelists[[gl]]$ENTREZ_ID)
resfish=fisher.test(tmp)
res = c(resfish$estimate, unlist(resfish$conf.int), resfish$p.value)
Resall = rbind(Resall, res)
}
colnames(Resall)=c("OR", "CI95L", "CI95U", "P")
rownames(Resall)=names(genelists)
Resall$Beta = log(Resall$OR)
Resall$SE = (log(Resall$OR)-log(Resall$CI95L))/1.96
Resall$Padj=p.adjust(Resall$P, method = "bonferroni")
print(Resall)
multiORplot(Resall, Pval = "P", Padj = "Padj", beta="Beta",SE = "SE",
pheno=paste(targetline, targetdiff, targetrapa), xlims=c(-4.5,4.5))
}
geneids=rownames(restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_noRAPA)KO effect in noDIFF noRAPA
D62
getlinmodoutput(targetdiff = "noDIFF",targetrapa = "noRAPA") entrezgene genname log2FC_2.1 fdr_2.1 log2FC_2.2 fdr_2.2
1 64856 VWA1 1.0892844 3.075562e-12 0.7285097 3.335990e-06
2 26038 CHD5 2.6315908 1.417316e-07 1.4609239 1.668736e-02
3 3925 STMN1 -0.8131038 6.841853e-11 -0.4047316 1.617550e-04
4 90853 SPOCD1 1.5410330 1.306139e-05 0.9545620 4.769198e-02
5 23499 MACF1 0.3837815 4.965528e-02 0.3341228 2.673200e-02
6 59269 HIVEP3 0.8406193 5.691220e-03 0.7731647 8.991416e-04
7 11004 KIF2C -1.4716331 3.774881e-06 -1.2753566 6.553854e-08
8 5052 PRDX1 -0.5761057 1.440015e-09 -0.4282492 7.515508e-09
9 9077 DIRAS3 1.8022491 1.054607e-14 1.5352770 9.581298e-21
10 81849 ST6GALNAC5 -0.7856164 1.709336e-10 -0.4114943 1.159554e-05
11 64123 ADGRL4 1.3768823 1.525051e-03 1.8273933 5.105453e-10
12 2633 GBP1 4.3457775 1.595376e-04 4.0102130 9.650536e-05
13 84722 PSRC1 -0.4534422 9.730923e-04 -0.3020121 9.492046e-03
14 3321 IGSF3 -0.8433839 9.585479e-04 -0.5473542 6.989319e-03
15 10628 TXNIP -1.3810106 4.071429e-05 -1.1473212 4.686387e-07
16 140576 S100A16 0.8919626 1.093717e-09 0.3317805 4.172758e-02
17 10763 NES 0.7606565 1.467078e-13 0.4262272 8.725999e-07
18 57863 CADM3 -2.0260731 1.510930e-03 -1.0777568 3.583125e-02
19 400793 C1orf226 0.8127671 6.400278e-03 0.6002242 2.740678e-02
20 4921 DDR2 -0.8525309 3.949671e-02 -0.8846002 8.610829e-04
21 5999 RGS4 2.1857048 4.032092e-08 2.0257520 1.248142e-07
22 6004 RGS16 1.3232831 2.664105e-11 0.5609847 2.313075e-02
23 64710 NUCKS1 -0.4835910 2.329196e-06 -0.2913098 1.451638e-03
24 1063 CENPF -1.1466949 3.266629e-13 -0.4548584 2.238609e-04
25 149111 CNIH3 1.0690978 4.325986e-03 1.0625651 4.806234e-04
26 84886 C1orf198 0.5484394 3.527610e-02 0.5158203 2.465076e-02
27 4811 NID1 -1.5129348 2.124236e-03 -1.0116004 2.309960e-02
28 22944 KIN -2.0055566 5.757344e-04 -1.1838012 1.061975e-02
29 5660 PSAP 0.7111062 4.410466e-20 0.1798656 8.451417e-03
30 54541 DDIT4 1.0557531 3.490589e-03 0.8450571 2.198764e-02
31 5328 PLAU 1.2384477 1.577948e-02 1.0758169 3.641623e-02
32 84858 <NA> 1.8245316 4.091039e-04 1.5504984 1.376196e-03
33 3988 LIPA 1.0234270 1.371967e-04 0.6509579 3.729125e-02
34 143282 FGFBP3 0.6243988 2.721432e-04 0.4629851 4.527298e-03
35 26509 MYOF 1.7145925 3.329288e-02 2.0874494 1.456813e-03
36 9124 PDLIM1 1.1001337 7.354962e-04 1.1004307 2.870465e-06
37 83742 MARVELD1 -0.8431712 1.326637e-02 -0.6517105 3.315254e-02
38 6319 SCD 0.5331130 1.645543e-05 0.3371696 1.108394e-03
39 6468 FBXW4 1.1779903 1.481301e-03 0.7718936 3.641623e-02
40 259217 HSPA12A 1.8421463 3.370295e-03 1.6193468 2.292344e-02
41 642938 INSYN2A 0.4027642 4.015934e-02 0.7777285 6.605916e-10
42 4288 MKI67 -1.0123111 1.442152e-06 -0.5893857 5.819468e-03
43 977 CD151 1.2635289 3.728767e-27 0.3295937 9.815768e-03
44 6240 RRM1 -0.8816314 1.153480e-02 -1.0401431 1.908546e-04
45 4004 LMO1 -2.3567118 2.079132e-07 -2.7131580 1.254653e-21
46 10553 HTATIP2 1.9333095 1.690227e-02 2.0019304 5.655760e-04
47 5080 PAX6 -0.9181084 1.019508e-02 -0.8147835 2.564557e-03
48 960 CD44 1.4591708 9.338179e-16 1.1683319 1.210130e-15
49 79026 AHNAK 1.5851868 1.544050e-09 0.9169080 4.768239e-04
50 1717 DHCR7 0.7307510 3.188177e-04 0.3960401 3.001859e-02
51 26011 TENM4 1.7246307 2.481137e-02 1.5154269 4.675757e-02
52 11098 PRSS23 0.8798684 1.960728e-02 0.9004492 3.761899e-04
53 1410 CRYAB 1.1173770 3.476939e-12 0.5931808 1.088950e-04
54 6876 TAGLN 0.6543144 1.983800e-13 0.3420865 6.018107e-08
55 1656 DDX6 -0.4617054 2.166969e-02 -0.3694408 5.537409e-03
56 2012 EMP1 0.6479519 1.563592e-02 1.1887114 1.119352e-12
57 196410 METTL7B 1.5599602 3.020553e-12 0.7182732 2.255546e-03
58 967 CD63 0.9019072 3.851592e-39 0.2540967 1.196946e-05
59 4035 LRP1 0.6449247 4.076243e-05 0.5918438 1.866013e-07
60 4193 MDM2 0.6719346 3.844160e-05 0.3615605 1.262560e-02
61 160335 TMTC2 -1.6135376 6.014427e-06 -1.0544925 1.724845e-04
62 490 ATP2B1 -0.7878372 1.474724e-03 -0.6061956 4.808735e-04
63 5829 PXN 0.7640621 4.062369e-04 0.5820746 7.936104e-03
64 3146 HMGB1 -0.7285274 5.966944e-16 -0.3215517 6.194211e-07
65 8848 TSC22D1 0.5613517 5.123576e-04 0.6635049 1.163073e-11
66 8660 IRS2 0.4101733 2.430542e-05 0.2984944 4.872851e-04
67 28526 <NA> 1.9278887 1.741341e-07 1.9178656 1.968941e-11
68 54916 TMEM260 -1.0306993 3.988816e-02 -0.9104398 3.976121e-02
69 57570 TRMT5 -0.6824356 9.703832e-05 -0.3831739 6.823688e-03
70 23224 SYNE2 -1.3811382 1.909678e-06 -0.7362985 6.120540e-05
71 64093 SMOC1 0.7201019 1.536550e-07 0.3597993 9.699354e-04
72 9369 NRXN3 -1.7174772 2.192983e-05 -1.0877059 8.093515e-04
73 55384 MEG3 1.6246309 6.353745e-22 1.1918119 3.931182e-15
74 113146 AHNAK2 2.2298981 1.100829e-04 2.6577306 1.642724e-14
75 11245 GPR176 2.1616993 3.793467e-03 2.0977492 1.717827e-03
76 90417 KNSTRN -1.3213590 3.768730e-03 -0.8170137 4.172758e-02
77 51203 NUSAP1 -1.3682393 1.819314e-06 -0.5193085 8.702281e-03
78 2628 GATM 0.6525196 3.474952e-02 1.0416366 7.594344e-12
79 302 ANXA2 0.3964197 1.975148e-04 0.2995517 1.056447e-02
80 7168 TPM1 0.5163549 2.189321e-02 0.4713141 1.858398e-03
81 9768 PCLAF -1.6192503 6.619244e-04 -1.0918606 3.178054e-03
82 3671 ISLR 1.4582038 7.636745e-08 0.8562869 9.938267e-04
83 23205 ACSBG1 0.6910217 1.265573e-02 0.5922977 3.041423e-02
84 9055 PRC1 -0.7454089 1.738144e-02 -0.5070052 4.882398e-02
85 56963 RGMA 1.6179562 2.570150e-22 0.7273235 5.283814e-07
86 23336 SYNM 0.7053394 8.114026e-05 0.7285223 3.606307e-08
87 51330 TNFRSF12A 1.4059052 4.373945e-20 0.9554401 6.348958e-16
88 2013 EMP2 -0.7546354 7.607574e-05 -0.4966014 7.060439e-03
89 26471 NUPR1 2.3612545 1.870745e-12 1.0657975 2.418253e-02
90 4313 MMP2 0.8703997 3.440811e-09 0.4221113 6.487195e-03
91 6376 CX3CL1 0.8954558 1.512042e-03 0.5519566 1.955410e-02
92 794 CALB2 -4.6167606 1.822472e-06 -2.1172122 2.112181e-03
93 23406 COTL1 0.7992038 1.400921e-09 0.4700650 1.672984e-06
94 79007 DBNDD1 1.9205874 2.565613e-24 0.6772243 1.108394e-03
95 9212 AURKB -1.2399686 2.287452e-03 -1.1963693 1.632320e-03
96 9423 NTN1 1.4854613 2.618750e-12 0.6558489 6.669248e-03
97 9953 <NA> -0.7862300 1.911337e-04 -0.4187471 7.670737e-03
98 5376 PMP22 0.5572320 3.108196e-03 0.4802813 1.670511e-03
99 125144 SNHG29 -0.5331262 6.565905e-03 -0.2835938 2.475929e-02
100 7153 TOP2A -0.9721903 1.993781e-11 -0.8239175 1.222927e-15
101 284119 CAVIN1 1.0611724 1.125087e-04 0.6185919 4.656529e-02
102 2670 GFAP 1.0690762 1.553293e-30 0.2604783 4.641576e-03
103 6426 SRSF1 -0.9521000 2.684500e-06 -0.5783965 6.608999e-04
104 54549 SDK2 -0.9445922 4.684966e-02 -0.8412877 4.125061e-02
105 283991 <NA> 0.5569752 3.228727e-05 0.3796500 4.175454e-03
106 332 BIRC5 -1.2781479 4.572826e-04 -0.7416046 8.606921e-04
107 284184 NDUFAF8 0.8494269 4.400209e-12 0.3473532 8.122019e-03
108 11031 RAB31 0.3245603 2.321577e-03 0.2509527 1.338585e-02
109 1000 CDH2 0.2478272 2.666336e-02 0.3194867 5.502703e-08
110 115106 <NA> -1.6973970 1.660721e-03 -0.9655808 8.649361e-03
111 4645 MYO5B -1.4814373 9.958677e-03 -0.8092195 3.583125e-02
112 5596 MAPK4 -1.1639881 3.998119e-03 -0.9126168 1.983599e-02
113 976 ADGRE5 1.5563103 2.052428e-10 0.9699747 2.475935e-04
114 9518 GDF15 1.7737014 2.565613e-24 0.9110701 2.968916e-08
115 348 APOE 2.0368060 6.914416e-20 1.2379642 7.171243e-11
116 83987 CCDC8 -2.7519728 5.038789e-04 -2.1441453 2.994825e-04
117 27113 BBC3 1.5017524 3.074687e-09 1.1134730 4.976536e-06
118 23645 <NA> 0.7988109 3.681655e-04 0.5178092 3.288663e-02
119 79784 MYH14 -3.2161023 5.022167e-07 -3.3862033 9.359765e-10
120 151354 <NA> 0.9973829 3.281705e-09 0.8068247 5.502703e-08
121 6432 SRSF7 -0.5308112 1.770509e-02 -0.4885241 3.027381e-02
122 91461 <NA> -0.5131360 2.364997e-04 -0.4134268 6.372799e-05
123 25927 CNRIP1 -6.6989984 1.205616e-03 -5.2262001 2.255546e-03
124 3099 HK2 -1.7924230 3.763123e-03 -1.1143942 3.847751e-03
125 343990 CRACDL 1.5513833 9.048284e-04 1.5050862 5.244535e-06
126 164832 LONRF2 0.8062659 1.016761e-03 0.6143445 1.061975e-02
127 4175 MCM6 -1.1984461 1.248926e-02 -1.0400180 6.655388e-03
128 130574 LYPD6 -1.2606232 4.596596e-02 -1.6174273 9.289330e-03
129 114793 FMNL2 0.8390155 1.687899e-08 0.5687998 1.361514e-05
130 55854 ZC3H15 -0.6060614 1.144384e-02 -0.4326721 3.653289e-02
131 26010 SPATS2L 0.4043183 4.131211e-02 0.5234441 7.203596e-04
132 389073 C2orf80 -0.6857721 3.141838e-05 -0.3998037 4.014575e-03
133 1373 CPS1 -2.4069129 3.329915e-02 -1.5377128 1.121948e-02
134 2637 GBX2 0.9261524 4.325986e-03 0.6662947 2.507785e-02
135 10267 RAMP1 1.3725884 8.222159e-12 0.8504061 2.690388e-05
136 5834 PYGB 1.0717781 1.273346e-07 0.6080728 2.456034e-02
137 22974 TPX2 -1.3244518 9.287860e-04 -0.7959339 5.286385e-03
138 1299 COL9A3 0.5763424 4.894524e-05 0.2836497 7.718569e-03
139 3785 KCNQ2 -0.6122229 2.017555e-03 -0.6179499 3.191695e-05
140 140578 CHODL -2.8027100 5.361518e-04 -1.5336391 2.067193e-02
141 116448 <NA> 0.9341630 1.781013e-05 0.5876127 1.493659e-02
142 5121 <NA> -1.5677901 7.982074e-03 -1.1880812 4.481359e-02
143 1826 DSCAM 1.5771813 7.354962e-04 2.1020644 2.810046e-11
144 80781 COL18A1 1.3186038 2.371954e-07 0.8089897 6.655388e-03
145 1312 COMT 0.5106568 1.009903e-05 0.3231095 8.796510e-03
146 23467 <NA> 1.1217928 9.404146e-13 0.5426083 9.571565e-04
147 10752 CHL1 -1.0507620 2.039054e-12 -0.4938486 1.008946e-05
148 23171 GPD1L -1.6672836 8.686360e-04 -1.2531363 8.991416e-04
149 56992 KIF15 -1.1460509 1.350669e-02 -1.3062017 1.097283e-02
150 151887 CCDC80 0.7869097 4.245320e-08 0.5435400 4.786979e-06
151 2596 GAP43 1.6364412 2.243038e-59 1.0798978 1.176119e-32
152 11343 MGLL 0.9208202 4.827230e-05 0.6124697 8.907194e-03
153 5947 RBP1 -0.4676065 2.065758e-02 -0.7465618 2.229788e-07
154 440982 <NA> 3.0724570 3.299840e-02 3.5022415 1.313114e-03
155 10051 SMC4 -1.3310413 1.626927e-13 -0.5801032 1.293223e-03
156 8646 CHRD 1.6869291 3.299840e-02 1.7578236 2.135439e-03
157 6480 ST6GAL1 -4.2851264 1.646800e-02 -7.1414798 4.717064e-04
158 131583 FAM43A 1.7599988 8.970095e-05 1.2640133 5.295856e-03
159 347 APOD -1.9862063 1.760697e-03 -1.9388294 6.526021e-03
160 10460 TACC3 -0.9053632 1.593226e-02 -0.9375377 6.553253e-05
161 80333 KCNIP4 -2.1231152 7.429885e-05 -1.2853303 3.367812e-02
162 5099 PCDH7 -2.6026035 6.185863e-03 -1.5828258 2.013908e-02
163 5156 PDGFRA -0.9551616 3.879820e-08 -0.4385603 4.971439e-04
164 3490 IGFBP7 1.4858305 1.043598e-18 1.8278345 1.747889e-53
165 79966 SCD5 0.4050749 2.026390e-04 0.7008740 2.372241e-28
166 8404 SPARCL1 2.1765723 5.749106e-10 2.1513872 3.918759e-16
167 3015 H2AZ1 -0.7064878 1.621255e-07 -0.4993665 1.898985e-05
168 1062 CENPE -2.1755855 1.275813e-19 -0.5724353 4.658449e-03
169 55013 MCUB -0.8289339 5.110689e-03 -0.6419360 1.166422e-03
170 2983 GUCY1B1 -1.9332928 1.077333e-02 -1.3467286 1.873558e-02
171 4889 NPY5R -1.2088762 3.804174e-02 -1.3279815 1.095295e-03
172 3148 HMGB2 -1.4513006 1.140854e-07 -0.5872440 1.763412e-04
173 55714 TENM3 -2.5344066 2.026891e-13 -0.5553902 2.432824e-02
174 1767 DNAH5 5.8165242 3.636635e-02 5.6533364 4.525126e-02
175 7204 TRIO 0.7066729 8.199761e-03 0.5629365 7.524829e-03
176 6507 SLC1A3 -0.5128031 3.890674e-07 -0.3899367 5.506826e-07
177 102467080 <NA> -2.2094626 4.470417e-02 -2.7773677 4.412879e-03
178 728723 <NA> 7.3332529 9.430977e-04 6.3853331 2.150554e-02
179 22836 RHOBTB3 -0.4283172 3.417498e-02 -0.3694922 6.071604e-04
180 4001 LMNB1 -1.2366912 5.892292e-11 -0.6987209 4.365961e-06
181 2201 FBN2 -1.3303425 6.131690e-03 -1.1780917 9.492046e-03
182 10112 KIF20A -1.3658440 8.555787e-05 -1.0750296 4.376420e-04
183 84418 <NA> 0.7226909 1.854422e-03 0.4647585 2.967546e-02
184 113829 <NA> 1.2350898 5.396466e-06 0.6322482 3.538265e-02
185 57717 PCDHB16 -1.3028842 5.530593e-04 -0.7867778 1.402857e-02
186 2246 FGF1 0.7332113 8.555787e-05 0.6731462 6.551751e-05
187 202374 STK32A 1.6462918 2.485989e-03 1.2999571 6.823688e-03
188 6678 SPARC 0.7430602 6.700525e-26 0.6107188 8.261940e-23
189 9232 PTTG1 -0.6679420 1.723066e-03 -0.5335900 4.553954e-06
190 221749 PXDC1 0.5202452 1.483568e-02 0.4267824 3.943582e-02
191 51299 NRN1 2.8346049 3.048430e-04 2.7340323 1.441315e-04
192 10590 SCGN -3.2959812 5.409653e-03 -1.0164333 2.302360e-06
193 222698 NKAPL 3.5941338 1.499320e-02 3.5831756 2.563656e-04
194 7726 TRIM26 6.5704536 2.168534e-03 6.5387254 2.785842e-03
195 221491 SMIM29 0.9425016 1.718713e-04 0.4821175 4.738456e-02
196 1026 CDKN1A 1.7453810 8.686504e-79 0.8928271 5.940822e-32
197 3910 LAMA4 0.4077226 4.634758e-02 0.4381660 1.336896e-02
198 57224 NHSL1 1.4592479 5.493698e-03 1.2016807 2.723916e-02
199 6196 RPS6KA2 0.8475993 3.714411e-07 0.4745065 4.658449e-03
200 221833 SP8 -0.9898680 5.396466e-06 -0.6132468 1.683932e-03
201 55536 CDCA7L -0.7780624 2.352479e-04 -0.5031204 1.644441e-02
202 10457 GPNMB 1.5160771 1.748388e-04 1.2495676 9.793869e-04
203 4852 NPY -1.6635528 2.160922e-08 -1.3049255 1.069403e-07
204 64409 GALNT17 2.4304410 4.418133e-06 1.4306199 3.153610e-02
205 23089 PEG10 0.3634026 1.838462e-02 0.5073602 9.958056e-09
206 5054 SERPINE1 1.2476521 9.029955e-15 1.2030681 1.863591e-18
207 5764 PTN 0.3462228 1.652673e-03 0.3256584 8.725999e-07
208 8795 TNFRSF10B 0.7801657 2.767747e-02 0.8052392 2.038249e-03
209 4741 NEFM 1.8245160 2.718716e-04 1.4768708 1.675617e-03
210 4747 NEFL 1.3043536 1.356134e-07 0.8373609 5.766403e-04
211 2185 PTK2B 1.8432074 1.983800e-13 1.0401362 8.117528e-05
212 1191 CLU 0.6346144 2.842432e-18 0.3188940 5.764001e-10
213 157570 ESCO2 -2.3392823 2.150740e-02 -1.5660868 9.836713e-04
214 5327 PLAT 0.5763119 4.478844e-04 0.4540847 1.497045e-03
215 10434 LYPLA1 -1.2302889 1.589568e-03 -0.6142569 3.976121e-02
216 11075 STMN2 -4.7688923 1.772183e-02 -4.3525251 1.838981e-02
217 5375 PMP2 -1.3010953 1.823070e-46 -0.2563026 2.613947e-03
218 1345 COX6C 0.4028032 2.288205e-04 0.2365620 2.616200e-03
219 29028 ATAD2 -1.3185527 6.489143e-04 -0.8523916 1.121948e-02
220 114907 FBXO32 0.7502901 1.563154e-02 0.9131897 8.216921e-06
221 169044 <NA> 1.0208083 8.337346e-03 0.9880348 1.443547e-03
222 340371 <NA> 0.8884357 4.930026e-06 0.5513259 4.513721e-02
223 11168 PSIP1 -0.7564217 5.843104e-05 -0.3478707 1.767618e-02
224 6194 RPS6 -0.4727294 1.536550e-07 -0.1956618 2.833713e-02
225 9568 <NA> 1.8836545 4.228593e-19 1.7690687 2.524294e-26
226 10592 SMC2 -1.5498404 8.635201e-07 -0.7496846 1.262560e-02
227 2934 GSN 0.9595896 3.928363e-03 0.8539323 7.811367e-05
228 64855 NIBAN2 1.0039742 4.038707e-07 0.4461762 1.575051e-02
229 56262 LRRC8A 1.0113393 4.043294e-15 0.3689812 6.436992e-03
230 5730 PTGDS 1.3860170 1.983800e-13 0.7788765 2.690388e-05
231 4571 <NA> 0.9828721 7.409716e-07 0.8379026 2.855739e-06
232 100189191 <NA> -6.6852030 1.335824e-02 -5.7268208 3.719196e-02
233 51186 TCEAL9 0.9506406 8.102250e-13 0.3986340 5.340717e-05
234 27018 BEX3 0.2314104 1.607417e-02 0.2416858 1.629642e-04
235 1641 DCX -0.8989459 1.739980e-07 -0.7034328 1.196946e-05
236 5358 PLS3 0.6070451 1.377846e-02 0.7926681 6.018107e-08
237 10178 TENM1 -1.2341158 6.170708e-04 -1.1153249 2.026317e-05Lade nötiges Paket: gprofiler2
OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 1.2493170 0.71100298 2.060004 3.997515e-01
02_TSC2_KO_Grabole_2016 1.7532671 1.34304311 2.286689 2.358088e-05
03_TSC2_Grabole-2016 1.9083166 1.44871521 2.528768 2.001931e-06
04_TSC2-tuber-Martin2017 3.9177364 1.52014793 8.493193 3.102625e-03
05_TSC2-SEN_SEGA-Martin2017 3.3787094 2.54592258 4.458609 3.086603e-16
06_all_EpilepsyGene 0.9136922 0.32971921 2.038430 1.000000e+00
07_high_conf_EpilepsyGene 0.9328263 0.11105192 3.480452 1.000000e+00
08_ASD_Epilepsy_EpilepsyGene 2.0509392 0.54469645 5.469632 1.409101e-01
09_Epi25_dataset 0.6846692 0.01705876 3.958973 1.000000e+00
10_SFARI_all 1.4590930 0.52462921 3.272844 3.166033e-01
11_SFARI_score4plus 1.2990334 0.34713723 3.430442 5.563158e-01
12_DeRubeis_RDNV 0.7195488 0.01791718 4.166238 1.000000e+00
13_Iossifov_RDNV 1.8931988 1.05502770 3.174616 2.247509e-02
14_FMRP_Darnell 1.4892943 0.87449385 2.399380 1.134977e-01
15_Voineagu_M12 0.4945257 0.10074334 1.475620 2.930041e-01
16_Voineagu_M16 2.9424386 1.63314424 4.959172 2.803166e-04
17_ID_genes_Neel 0.8929799 0.28525539 2.136302 1.000000e+00
18_ID_genes_pinto2014 0.4781289 0.05723250 1.765901 4.470429e-01
19_Fromer_SCZ_FunDN 1.4522062 0.73400740 2.611490 2.128794e-01
20_Cocchi_Pruning 3.3992671 1.06620904 8.361197 1.971963e-02
Beta SE Padj
01_Swaminathan2018_DEPDC5KO 0.22259701 0.2875896 1.000000e+00
02_TSC2_KO_Grabole_2016 0.56148098 0.1359913 4.716177e-04
03_TSC2_Grabole-2016 0.64622152 0.1405839 4.003861e-05
04_TSC2-tuber-Martin2017 1.36551403 0.4830135 6.205249e-02
05_TSC2-SEN_SEGA-Martin2017 1.21749380 0.1443881 6.173205e-15
06_all_EpilepsyGene -0.09026153 0.5200267 1.000000e+00
07_high_conf_EpilepsyGene -0.06953629 1.0858271 1.000000e+00
08_ASD_Epilepsy_EpilepsyGene 0.71829783 0.6764410 1.000000e+00
09_Epi25_dataset -0.37881944 1.8838123 1.000000e+00
10_SFARI_all 0.37781502 0.5218768 1.000000e+00
11_SFARI_score4plus 0.26162044 0.6732936 1.000000e+00
12_DeRubeis_RDNV -0.32913090 1.8841145 1.000000e+00
13_Iossifov_RDNV 0.63826786 0.2983168 4.495017e-01
14_FMRP_Darnell 0.39830237 0.2716390 1.000000e+00
15_Voineagu_M12 -0.70415611 0.8117465 1.000000e+00
16_Voineagu_M16 1.07923870 0.3003732 5.606332e-03
17_ID_genes_Neel -0.11319125 0.5822342 1.000000e+00
18_ID_genes_pinto2014 -0.73787502 1.0830400 1.000000e+00
19_Fromer_SCZ_FunDN 0.37308394 0.3481225 1.000000e+00
20_Cocchi_Pruning 1.22355984 0.5915563 3.943925e-01
KO effect in DIFF noRAPA
D62
getlinmodoutput(targetdiff = "DIFF",targetrapa = "noRAPA") entrezgene genname log2FC_2.1 fdr_2.1 log2FC_2.2 fdr_2.2
1 375790 AGRN -0.4095366 4.541936e-02 -0.8193766 2.940741e-03
2 51150 SDF4 -0.5045009 2.016520e-03 -0.6130317 1.126153e-04
3 64856 VWA1 -0.5711883 2.969308e-03 -1.4292346 5.573565e-15
4 1953 MEGF6 -1.0513995 1.667149e-02 -2.6636915 7.100257e-05
5 26038 CHD5 -1.2188855 8.890761e-03 -1.2908928 2.557452e-02
6 5351 PLOD1 -0.6033686 2.041058e-03 -0.5114490 3.982798e-02
7 9249 DHRS3 -1.3190383 8.751526e-16 -1.2467008 2.728191e-18
8 126917 IFFO2 -0.3809991 4.730754e-02 -1.2535537 8.070086e-09
9 2048 EPHB2 -0.8733756 2.142055e-09 -1.1159219 8.225789e-13
10 3925 STMN1 0.7854586 3.992855e-07 1.4092446 4.302212e-25
11 2537 IFI6 -0.8526948 2.873716e-06 -0.8392726 1.082687e-04
12 10657 KHDRBS1 0.4607051 7.854427e-03 0.4414765 3.164186e-02
13 65108 <NA> 0.4911297 4.223750e-02 0.9807717 2.059921e-06
14 6421 SFPQ 0.4424978 1.963220e-02 0.4953071 2.274753e-02
15 63967 CLSPN 1.5050166 2.994132e-02 1.6142082 4.662595e-02
16 84879 MFSD2A 0.9674876 1.115952e-05 1.8064180 2.239033e-20
17 6513 SLC2A1 -0.5393673 2.496997e-02 -0.7859054 2.126528e-03
18 1996 ELAVL4 3.2526117 5.784672e-06 4.0471939 5.265819e-09
19 5865 RAB3B 3.5792799 2.097445e-05 4.3609050 4.842433e-08
20 3725 JUN 0.7207107 3.071839e-08 0.5364941 6.557799e-03
21 4774 NFIA 0.5084119 9.704186e-04 0.7115189 2.442476e-05
22 91624 NEXN 0.9933624 1.064809e-03 1.2008241 4.905177e-05
23 3491 CCN1 1.1195767 8.496264e-14 1.2106373 1.267284e-12
24 9411 ARHGAP29 1.7545351 1.866874e-02 1.8531499 3.499818e-02
25 84722 PSRC1 -0.3880493 2.124082e-02 -0.5416116 5.754725e-03
26 3752 KCND3 4.4614872 1.091255e-02 4.7313571 1.538811e-02
27 7482 WNT2B -1.4641738 3.292720e-03 -3.1533870 3.473845e-02
28 54879 ST7L -1.1975888 2.855280e-03 -2.0893903 8.782753e-08
29 389 RHOC -0.7131818 4.100469e-04 -0.8086711 1.375990e-04
30 476 ATP1A1 -1.1090774 4.413887e-09 -0.6351347 7.433223e-03
31 10628 TXNIP -1.0242225 7.601973e-03 -1.5728240 8.349711e-04
32 25832 NBPF14 -0.5964256 1.125473e-02 -0.7179448 7.102298e-03
33 4170 MCL1 0.5791882 9.711034e-03 0.5315779 4.022081e-02
34 10962 MLLT11 0.6716757 4.183809e-03 0.9674580 4.717386e-04
35 6282 S100A11 -0.6710110 1.980465e-04 -1.4509000 1.147719e-08
36 112770 GLMP -1.1638935 1.575170e-04 -0.8287964 1.362657e-02
37 10485 MIR9-1HG 0.3831640 2.381681e-03 0.3859450 2.673569e-02
38 93183 PIGM -0.8618055 1.763717e-03 -0.9515013 1.694960e-03
39 477 ATP1A2 1.4300732 5.252651e-05 2.0030399 1.842601e-09
40 5999 RGS4 1.4755372 1.310525e-02 1.7994122 5.067488e-03
41 387597 ILDR2 -0.7566188 3.030088e-04 -0.9090916 1.155738e-04
42 481 ATP1B1 1.0534462 6.401206e-03 1.2793952 1.469068e-03
43 23057 NMNAT2 3.4078962 9.278183e-04 3.5039038 4.067671e-03
44 23127 COLGALT2 -0.6544929 3.489726e-03 -1.0207651 1.734016e-06
45 5997 RGS2 2.3462296 3.117778e-03 2.3989907 1.226128e-02
46 23046 KIF21B 1.3941358 4.201668e-02 2.8823435 3.849660e-10
47 23612 PHLDA3 -1.0070559 6.558898e-08 -0.5809101 1.902293e-02
48 89796 NAV1 0.9096642 9.397460e-05 1.2045189 2.779659e-08
49 55220 KLHDC8A 0.4221899 4.447089e-02 1.1680073 2.401560e-12
50 254428 SLC41A1 -0.6733399 1.170382e-02 -1.0331474 4.445111e-04
51 50486 <NA> -1.2865007 3.551702e-02 -3.7678927 6.554199e-37
52 1063 CENPF 0.9584688 1.524609e-04 0.6809078 2.438204e-02
53 3930 LBR 1.1595800 2.660623e-04 1.1648918 1.816828e-03
54 7044 LEFTY2 -1.9062784 1.973434e-02 -5.5053780 1.299284e-06
55 56776 FMN2 1.8126370 2.130849e-05 1.4381718 1.343422e-02
56 5214 PFKP -0.7177737 3.635803e-03 -0.9869597 9.825263e-04
57 1316 KLF6 0.4499054 4.566323e-02 0.9463501 3.670025e-06
58 5209 PFKFB3 0.8932132 1.722147e-06 0.6416209 7.841295e-03
59 56243 KIAA1217 -1.0182112 1.357757e-02 -1.6549404 3.325038e-04
60 57512 <NA> 6.2437538 1.069829e-02 6.1780211 4.217540e-02
61 3185 HNRNPF 0.4833284 1.223805e-02 0.5246720 4.644121e-02
62 118738 ZNF488 -1.3684277 1.512700e-05 -1.5220924 2.643263e-05
63 100507008 <NA> -1.0774683 1.550885e-02 -1.1999015 2.280369e-02
64 84159 ARID5B 1.0976502 1.040875e-09 0.7005891 1.321530e-03
65 55680 RUFY2 1.4578324 2.486895e-02 1.7756965 1.200570e-02
66 140766 ADAMTS14 -1.0682409 2.477355e-02 -1.9481264 1.072294e-04
67 64115 VSIR -1.6561828 1.474093e-04 -2.5108181 7.589827e-08
68 5660 PSAP -0.5985553 5.893906e-10 -0.6485975 8.405687e-09
69 9806 SPOCK2 -0.7097012 6.273305e-07 -0.9577646 7.542568e-10
70 5328 PLAU -0.7200618 1.829326e-02 -1.7410365 9.083042e-12
71 132 ADK 0.8363206 4.083343e-02 1.2135609 3.886456e-03
72 23522 KAT6B 0.7101744 1.234099e-02 1.1743309 1.206557e-04
73 311 ANXA11 -0.8806356 7.784308e-05 -1.0562615 5.668088e-04
74 27063 ANKRD1 -1.4270897 1.153427e-03 -2.0426851 3.030782e-04
75 9124 PDLIM1 -0.4662416 3.761093e-03 -1.8420619 1.349910e-20
76 10580 SORBS1 0.7855235 2.886969e-02 1.2166623 7.183231e-04
77 83742 MARVELD1 -1.0286767 7.174480e-03 -3.0259238 1.527708e-05
78 84171 LOXL4 -1.0912243 4.996114e-03 -2.0187601 3.426042e-05
79 25911 DPCD 1.1067700 1.338041e-03 0.9704612 3.758772e-02
80 9118 INA 2.2944904 2.357074e-09 3.0493626 2.313032e-18
81 63877 FAM204A 1.2393674 4.485084e-03 1.1310294 4.145350e-02
82 9531 BAG3 -0.6233691 2.571072e-02 -0.8178849 2.026620e-03
83 64787 EPS8L2 -1.8935110 2.340663e-02 -2.5663294 1.858836e-03
84 6181 <NA> -0.7174814 2.210442e-12 -0.4741535 3.476979e-05
85 977 CD151 -0.8681080 7.588897e-08 -0.7357631 8.423508e-04
86 54472 TOLLIP -0.4982524 3.574692e-02 -0.6498546 2.745332e-03
87 1509 CTSD -1.3935398 4.407189e-11 -1.1722509 1.071834e-11
88 975 CD81 -0.6989561 1.534773e-10 -0.5289782 1.682520e-05
89 1200 TPP1 -0.8488296 3.009729e-09 -0.6858730 2.653874e-06
90 283298 OLFML1 -2.6003629 3.508751e-04 -4.4032135 1.447613e-11
91 8495 PPFIBP2 -1.9465948 4.024658e-03 -2.6782537 2.372853e-02
92 6157 <NA> -0.4576164 1.138453e-05 -0.5739210 4.013843e-08
93 56672 AKIP1 -0.8686258 2.325365e-04 -1.0389619 1.177951e-02
94 100463486 MTRNR2L8 -0.5670028 1.677433e-05 -0.7652167 1.678545e-11
95 10335 IRAG1 2.7682411 1.357927e-03 3.4438449 2.442476e-05
96 10418 SPON1 2.3280350 3.487032e-25 2.8478625 1.018164e-36
97 100126784 <NA> -1.1031581 3.597762e-02 -2.0769832 4.911540e-04
98 90139 TSPAN18 -1.2446392 8.470947e-03 -3.2097899 1.034229e-07
99 4192 MDK -0.7494072 3.003566e-10 -1.3108852 5.259237e-23
100 54972 TMEM132A -1.5776136 1.977545e-06 -1.2161426 1.815955e-02
101 1937 <NA> -0.7085167 1.958882e-08 -0.3632931 2.369763e-02
102 6094 ROM1 -0.7308415 6.221272e-03 -0.7488741 2.219012e-02
103 51035 UBXN1 -0.6609201 4.991695e-03 -0.6196110 1.006333e-02
104 6520 SLC3A2 -0.9889574 1.618617e-12 -1.0115235 2.888269e-09
105 5920 PLAAT4 -0.8685048 5.434819e-07 -0.6796063 7.983631e-06
106 402 ARL2 -1.1010997 8.832002e-07 -0.7358065 4.016629e-03
107 4054 LTBP3 -0.9063847 9.822043e-05 -1.4519207 2.508272e-09
108 54961 SSH3 -0.9198075 9.399958e-03 -1.2848016 2.089242e-03
109 80194 TMEM134 -0.8107057 4.212660e-04 -0.8099869 2.372853e-02
110 1374 CPT1A -0.5600652 3.549433e-02 -0.8117826 7.467679e-04
111 55191 NADSYN1 -1.2628092 4.260543e-04 -1.0690123 3.470726e-02
112 6188 RPS3 -0.5220880 5.920265e-07 -0.4648421 2.598922e-05
113 2893 GRIA4 1.1706552 2.985746e-02 1.3518217 1.694079e-02
114 1410 CRYAB -0.9156951 1.652388e-06 -1.0653068 4.714061e-09
115 10525 HYOU1 -0.4883015 1.171868e-02 -0.4761770 4.158770e-02
116 403312 <NA> -3.0710157 2.124082e-02 -6.4439291 3.093675e-03
117 50937 CDON -1.2861130 1.410750e-02 -2.0978902 9.137794e-05
118 334 APLP2 -0.6864807 5.448047e-07 -0.5980690 3.633511e-08
119 84318 CCDC77 1.9559608 1.846516e-02 2.1511872 3.716361e-02
120 2597 GAPDH -0.6744001 8.190301e-11 -0.3867043 1.143118e-03
121 2 A2M 1.3474587 3.850375e-04 1.3629432 4.317881e-03
122 53919 SLCO1C1 2.1891277 4.202592e-03 3.5136960 9.991595e-10
123 51474 LIMA1 1.3616229 9.938361e-26 0.9004616 6.724941e-08
124 3164 NR4A1 1.9296629 8.141530e-03 2.9065407 2.530990e-06
125 84926 <NA> -0.9005917 1.074380e-03 -1.1135619 3.033953e-04
126 3489 <NA> -1.6158749 2.771846e-09 -2.8254651 3.159904e-19
127 967 CD63 -0.6319375 1.722591e-10 -0.3146512 4.581603e-02
128 4327 MMP19 -1.0299423 3.509051e-02 -2.3782134 1.632477e-03
129 1606 DGKA -0.8424901 7.612123e-03 -1.7099077 1.209739e-07
130 10956 OS9 -0.5445322 9.862403e-04 -0.3954939 2.732771e-02
131 4193 MDM2 -0.8867596 8.462040e-07 -0.7687663 7.925596e-06
132 10576 CCT2 0.6457436 2.425615e-05 0.4989460 2.578000e-02
133 6857 SYT1 1.6553199 6.653010e-16 1.7170863 1.103898e-11
134 1848 DUSP6 0.9381464 1.810766e-05 0.8078709 5.403907e-03
135 694 BTG1 0.8585758 2.682658e-04 1.5106789 1.368231e-10
136 7112 TMPO 1.1688164 9.282508e-03 1.2765529 1.019445e-02
137 429 <NA> -2.4723188 6.537856e-09 -1.5324763 1.191777e-03
138 51559 NT5DC3 -1.6587631 1.025955e-04 -2.5754704 4.174588e-07
139 5992 RFX4 0.8024374 3.748112e-02 1.1055461 5.672481e-03
140 9921 RNF10 -0.8939529 2.535337e-10 -0.5491389 2.306058e-03
141 100293704 <NA> 4.1563955 2.825374e-05 3.4350327 2.757241e-02
142 9612 NCOR2 -0.7602512 9.848057e-06 -0.5710013 1.021898e-03
143 100507206 LINC00943 6.2670067 1.041634e-02 7.3414130 9.659927e-04
144 219287 AMER2 2.2963669 6.465470e-03 2.5913085 3.626914e-03
145 2963 GTF2F2 -0.6050292 1.601933e-02 -0.8411555 3.360772e-03
146 1948 EFNB2 0.7101395 1.071572e-04 0.9160726 4.874069e-05
147 1284 COL4A2 -0.8486497 1.003297e-08 -0.8581541 8.485687e-09
148 4323 MMP14 -1.5278728 3.183308e-05 -0.9471221 2.920741e-02
149 26020 LRP10 -0.7125061 1.212563e-05 -0.5718418 9.659966e-04
150 5720 PSME1 -0.5474208 1.436507e-03 -0.5961568 2.539067e-03
151 9472 <NA> 1.7299691 7.413449e-03 1.8351442 4.383108e-02
152 64067 NPAS3 -0.4257191 2.027830e-02 -0.5270289 8.920812e-03
153 6235 RPS29 -0.7419613 1.250840e-11 -0.3988568 3.375981e-03
154 54331 GNG2 1.7369460 1.854177e-06 2.3657889 2.163594e-12
155 10979 FERMT2 0.4448354 1.174916e-02 0.6132385 5.687382e-04
156 652 BMP4 3.4239509 2.447949e-02 3.9282995 1.794477e-02
157 1033 CDKN3 1.4117871 1.754875e-02 1.5761865 2.062667e-02
158 5015 OTX2 -3.8567439 1.522762e-04 -8.7825497 4.552874e-08
159 23002 DAAM1 0.5663210 1.303210e-02 0.6304340 1.524497e-02
160 6252 RTN1 1.2046072 1.295980e-10 2.0068226 1.885586e-24
161 57570 TRMT5 0.5383095 1.996713e-02 0.7275723 1.994641e-03
162 3306 HSPA2 1.0034327 1.000618e-02 1.4517179 5.152929e-04
163 87 ACTN1 -0.5041066 2.248568e-05 -0.6336172 6.001777e-06
164 10577 NPC2 -0.5348598 2.832452e-03 -0.6278263 2.755529e-04
165 83694 RPS6KL1 3.8201660 2.367539e-02 4.3708508 7.955020e-03
166 7043 TGFB3 -1.7755221 6.625823e-05 -1.6010358 6.498426e-04
167 9369 NRXN3 1.2076958 2.605854e-02 2.4114552 3.790622e-08
168 145508 <NA> 7.1295244 3.778787e-04 6.8727572 3.909650e-03
169 10516 FBLN5 1.3768596 1.003297e-08 2.7433114 3.778099e-29
170 4707 NDUFB1 -0.9902840 3.074268e-17 -0.3341957 3.882418e-02
171 90050 FAM181A 0.6619662 1.475180e-02 0.8686714 1.425327e-03
172 83982 <NA> -0.7202890 1.524609e-04 -0.8509876 5.152929e-04
173 283596 SNHG10 -0.9927725 4.083343e-02 -1.3740020 3.135116e-02
174 64919 BCL11B 3.1371153 3.527181e-03 3.6254253 5.774574e-04
175 1778 <NA> -0.5485667 2.643472e-04 -0.6910382 7.226175e-04
176 7127 TNFAIP2 -1.2472245 1.314800e-07 -1.8952684 9.764034e-13
177 26153 <NA> 1.5367998 1.627414e-03 2.5552542 4.666134e-12
178 7057 THBS1 1.1322840 4.725397e-02 2.3120156 1.526250e-07
179 388115 CCDC9B -0.9707164 9.390954e-03 -0.9800008 3.091238e-02
180 825 CAPN3 -2.5049072 6.996708e-03 -2.7096515 9.066743e-03
181 10169 SERF2 -0.5095081 4.008222e-04 -0.4437709 1.077343e-02
182 2628 GATM 1.0041797 1.277399e-04 2.1362447 7.146462e-22
183 9768 PCLAF 1.0548874 4.023695e-02 1.4751358 8.189029e-04
184 6176 RPLP1 -0.6184124 1.489460e-07 -0.4588419 2.538493e-05
185 5315 PKM -0.9462179 1.335801e-13 -1.1946909 1.515324e-20
186 3073 HEXA -0.6745240 4.093446e-04 -0.9780560 4.440033e-06
187 80381 CD276 -1.2080251 9.710680e-12 -0.7212907 4.517706e-04
188 4016 <NA> -1.1621947 9.591498e-12 -2.2308563 1.475835e-19
189 57611 ISLR2 -1.5610380 9.397460e-05 -1.5080340 9.766076e-04
190 1512 CTSH -0.9583259 6.302709e-03 -2.5144022 6.510032e-08
191 64782 AEN -0.7125988 1.841671e-02 -0.6638910 4.525681e-02
192 9055 PRC1 0.8420240 1.445306e-02 1.1261837 5.275301e-04
193 6627 <NA> 0.9282727 1.628912e-02 0.9524635 1.785120e-02
194 146330 <NA> 1.2518787 7.372125e-03 1.1795037 3.470726e-02
195 1186 CLCN7 -0.9913242 1.581963e-04 -0.9764001 1.804932e-03
196 100507303 <NA> -1.6805316 4.220443e-15 -0.5121858 4.520012e-02
197 9235 IL32 -0.6818497 1.842470e-02 -1.5879467 1.420426e-07
198 84662 GLIS2 -0.8247250 2.320839e-03 -0.7922237 2.174280e-02
199 2903 GRIN2A 2.2027307 1.186896e-03 2.3038080 3.160988e-03
200 8303 SNN 0.4455792 4.644851e-02 0.5221263 4.096260e-02
201 51704 GPRC5B -0.4680241 1.239776e-02 -0.5989051 3.145272e-03
202 388228 <NA> 0.6882155 3.388523e-02 1.3196507 1.756807e-05
203 25970 SH2B1 -0.5829693 2.921922e-02 -0.6386420 4.342193e-02
204 4502 <NA> -0.8684887 2.126854e-13 -0.7408360 1.655015e-07
205 6236 RRAD -1.2954374 5.170409e-08 -1.6201892 2.264646e-10
206 8824 CES2 -0.6597458 2.165159e-04 -0.6495872 2.871545e-03
207 5699 <NA> -0.9433930 1.457500e-03 -0.9026673 1.290766e-02
208 6560 SLC12A4 -1.2108080 1.003837e-04 -1.1917565 2.167243e-05
209 999 CDH1 -2.6912992 3.675478e-03 -2.7009634 9.781015e-03
210 794 CALB2 1.4563435 2.088537e-14 2.7326036 4.233752e-48
211 497190 CLEC18B -1.7466351 1.406097e-05 -2.3578587 1.134816e-09
212 57687 <NA> 1.0462980 5.389711e-10 1.3416085 9.018065e-15
213 55839 CENPN 1.9090533 4.758100e-04 1.8937478 3.155924e-03
214 80790 CMIP 0.6259151 1.220729e-02 1.0032746 8.047882e-05
215 23199 GSE1 0.6500420 3.495892e-03 0.8982309 9.960357e-04
216 8140 SLC7A5 -1.0824671 7.858961e-22 -2.2452474 1.547199e-54
217 6137 RPL13 -0.7156228 2.316918e-06 -0.3737988 3.926732e-02
218 10381 TUBB3 0.5010398 2.416989e-03 0.9889765 1.199731e-10
219 79007 DBNDD1 -1.2128263 4.882144e-04 -1.3401715 1.812461e-04
220 11337 GABARAP -0.8348070 7.715736e-08 -0.3634791 4.902417e-02
221 5187 PER1 0.7651457 3.149675e-02 1.7124505 6.582345e-10
222 4628 MYH10 0.4612805 1.372416e-02 0.4664788 4.737911e-02
223 9423 NTN1 -0.8132813 1.369377e-05 -0.5323178 1.166804e-02
224 5376 PMP22 0.5824850 4.264601e-03 0.5750672 1.361909e-02
225 201161 <NA> 1.2126377 2.236816e-07 2.0594058 2.654752e-23
226 51655 RASD1 0.9198690 3.515780e-03 1.5883485 1.716524e-08
227 146691 TOM1L2 -0.6079747 6.706658e-04 -0.6006084 3.145272e-03
228 8851 CDK5R1 0.7194148 3.138099e-02 1.4191421 2.630099e-07
229 124842 TMEM132E -1.1219998 4.794497e-05 -0.9900478 3.356139e-03
230 7153 TOP2A 0.6511570 1.137433e-02 1.1935666 2.066820e-08
231 60681 FKBP10 -0.4783603 9.282508e-03 -0.8373423 9.942255e-06
232 4669 NAGLU -1.1848892 2.049626e-05 -0.7648877 2.447416e-02
233 10493 VAT1 -0.4830937 1.805737e-02 -0.6498699 1.231201e-03
234 8153 RND2 -0.9388098 7.327209e-04 -0.7153644 3.690794e-02
235 10900 RUNDC3A 3.4232521 1.037063e-03 4.2168733 2.487972e-06
236 51629 SLC25A39 -0.7710945 5.536538e-04 -0.6620026 1.644075e-02
237 2896 GRN -0.8731183 6.200187e-10 -1.0363383 3.516910e-10
238 23131 GPATCH8 0.9859784 8.951123e-03 1.0218764 2.447416e-02
239 2535 FZD2 -0.8609953 5.812486e-03 -0.7855913 2.362308e-02
240 2670 GFAP -0.8880523 2.924309e-14 -0.6316674 1.689940e-12
241 4836 <NA> -1.1723199 1.030154e-14 -0.6540254 3.325038e-04
242 113026 PLCD3 -0.6555781 9.747615e-04 -1.0411326 1.978628e-07
243 4804 NGFR -1.9056027 1.518377e-04 -2.0854285 5.774088e-05
244 9902 MRC2 -0.4766944 2.269338e-04 -0.8065596 5.349633e-08
245 2232 FDXR -1.1088438 2.249946e-04 -0.9142345 7.479277e-03
246 3021 H3-3B 0.4388141 1.639482e-02 0.5520628 2.606542e-03
247 91107 TRIM47 -0.5611067 3.970094e-02 -1.1071090 2.279490e-04
248 6427 SRSF2 0.6480996 1.038843e-03 0.7560787 1.133735e-03
249 57690 TNRC6C 0.9229884 2.032680e-03 1.2408552 4.864067e-05
250 7077 TIMP2 -0.5543884 1.204285e-05 -0.5314700 3.524744e-03
251 3959 LGALS3BP -1.0898674 5.878910e-11 -1.0120031 6.988221e-10
252 2548 GAA -1.1102211 2.941173e-04 -1.1230197 1.954423e-03
253 57674 RNF213 -0.8381919 1.004688e-03 -0.8197228 9.066743e-03
254 284184 NDUFAF8 -0.7896434 2.779541e-07 -0.4036235 1.838629e-02
255 124565 SLC38A10 -0.9287498 1.547999e-06 -0.7670923 8.223759e-03
256 5034 P4HB -0.4904015 4.422442e-04 -0.4531657 1.332349e-02
257 23136 EPB41L3 0.7952735 1.970178e-02 1.2231705 5.820257e-05
258 361 AQP4 1.9744058 1.884676e-21 2.4605834 5.192154e-20
259 8715 NOL4 2.5588222 5.457858e-05 2.3582394 4.119081e-03
260 56853 CELF4 2.8209731 1.393291e-02 3.6577947 1.803873e-04
261 5596 MAPK4 2.1524133 1.618136e-05 3.1760688 8.647871e-15
262 51320 MEX3C 0.7125434 1.606521e-03 0.7097423 1.580893e-02
263 6925 TCF4 0.5133689 9.417442e-03 0.6808140 3.298958e-03
264 51046 ST8SIA3 1.7149492 5.575706e-03 2.0068729 1.401190e-03
265 115701 ALPK2 -0.3734904 1.009453e-02 -0.9164225 3.602790e-06
266 90701 SEC11C 0.6300709 1.026419e-02 0.6954960 1.566203e-02
267 22850 ADNP2 0.9290115 3.211088e-02 1.0547023 3.869495e-02
268 10272 <NA> -1.9231970 1.242140e-08 -2.4261528 9.126936e-09
269 2879 GPX4 -0.8032023 9.131109e-05 -0.5574165 7.786075e-03
270 60680 CELF5 1.6306300 1.111506e-04 2.8128217 2.643450e-18
271 10362 HMG20B -0.5795260 2.201606e-02 -0.6495918 3.781472e-02
272 1938 EEF2 -0.7481511 8.743561e-11 -0.6570017 1.299284e-06
273 80700 UBXN6 -1.3411933 3.086274e-07 -0.5621434 3.470726e-02
274 25873 RPL36 -1.1973264 1.077139e-23 -0.4972307 9.698640e-04
275 126328 NDUFA11 -0.8775321 1.958882e-08 -0.4355587 4.136950e-02
276 3383 ICAM1 -0.5475674 3.043923e-02 -0.9747244 6.115328e-03
277 7297 TYK2 -0.8441545 3.482509e-03 -0.8571501 8.414839e-03
278 1995 ELAVL3 1.5915190 4.203001e-14 2.9384178 2.628971e-63
279 51398 WDR83OS -0.6712717 4.639231e-06 -0.5014992 7.895365e-03
280 4784 NFIX -0.5865548 1.171868e-02 -0.6984317 7.419264e-03
281 9592 <NA> 0.7818117 1.312546e-03 0.8378179 1.025390e-02
282 23025 UNC13A 1.9715346 3.989972e-02 2.9582727 5.511003e-04
283 54858 PGPEP1 -1.1903414 3.073928e-11 -1.2047971 6.065331e-09
284 1463 NCAN 0.5372292 5.508163e-04 1.3587582 3.010784e-20
285 57616 TSHZ3 2.1966430 1.003716e-03 2.7114870 2.719685e-05
286 1054 CEBPG 2.4854524 7.843094e-11 1.8922275 3.095694e-04
287 9710 GARRE1 -0.6555832 1.456301e-02 -0.8321661 5.924183e-03
288 7392 USF2 -0.9962607 3.825282e-06 -0.5331062 3.804954e-02
289 826 CAPNS1 -0.9240183 7.655060e-10 -0.6648593 1.818685e-04
290 7538 ZFP36 2.0965628 8.061713e-05 2.1072748 1.377638e-03
291 645 BLVRB -1.0425590 1.061855e-03 -1.1143163 3.961323e-04
292 602 BCL3 -0.6415942 1.445306e-02 -1.5072211 5.265819e-09
293 27113 BBC3 -1.3396761 1.444217e-14 -1.1519733 1.140833e-09
294 8605 PLA2G4C -1.3646974 3.798788e-02 -1.6907504 4.257213e-02
295 10945 KDELR1 -0.3259247 3.425822e-02 -0.5403373 4.295628e-03
296 6141 RPL18 -0.4015145 9.783400e-04 -0.3351432 1.357813e-02
297 51171 HSD17B14 -2.4475629 7.587371e-06 -3.0654508 8.323988e-07
298 4924 NUCB1 -0.8898897 4.396609e-08 -0.5295417 6.115328e-03
299 581 BAX -1.5018632 1.472426e-13 -0.7553891 7.965274e-06
300 2512 FTL -0.5033572 2.071844e-03 -0.6857683 6.851876e-09
301 2217 FCGRT -0.8874348 6.210984e-04 -1.0540916 1.737421e-03
302 6237 RRAS -1.0583985 1.814848e-05 -1.7603488 2.465258e-06
303 2109 ETFB -0.9172335 8.043166e-06 -0.5426740 2.598169e-02
304 147807 <NA> -1.7047506 3.039626e-02 -1.7491326 4.941566e-02
305 101060391 <NA> 2.4715761 1.427430e-02 3.7036718 2.621680e-06
306 6664 SOX11 0.6311761 3.548487e-05 1.8473670 4.632773e-31
307 57498 KIDINS220 0.6079342 4.524642e-03 0.6657516 7.176441e-03
308 6382 SDC1 -1.3382067 3.794705e-03 -1.7751396 2.960107e-03
309 5500 PPP1CB -0.3566350 1.764587e-02 -1.0157787 1.401469e-10
310 6432 SRSF7 0.9134427 4.093446e-04 0.8839854 2.387854e-03
311 9378 NRXN1 3.2466511 1.225951e-04 4.3584971 4.110696e-10
312 55704 CCDC88A 1.3788688 2.389737e-20 1.1202549 2.653548e-08
313 51255 RNF181 -0.6098092 1.128883e-03 -0.7259563 8.727483e-04
314 51652 CHMP3 -1.0700679 1.737304e-05 -0.9002936 1.351186e-03
315 400986 ANKRD36C 1.0433345 1.065900e-03 0.9147547 2.388319e-02
316 57730 ANKRD36B 0.9923870 2.687596e-04 0.8825329 2.092788e-02
317 9486 CHST10 -0.9085586 1.473834e-07 -0.9388194 3.342742e-08
318 84417 ECRG4 1.0156780 2.552547e-03 1.1657628 1.055937e-03
319 3625 <NA> -1.1562493 1.364735e-05 -1.6228571 1.002300e-04
320 2863 <NA> -1.6579966 2.066066e-03 -2.2619382 1.890523e-04
321 4249 MGAT5 0.7354107 1.063177e-02 0.9656419 1.185644e-03
322 3800 KIF5C 0.4556294 1.763758e-02 0.7199533 4.277784e-04
323 114793 FMNL2 -0.7987794 1.171565e-05 -0.8717975 2.719685e-05
324 56475 RPRM 2.6393333 2.692385e-02 3.7420358 3.679967e-04
325 90 ACVR1 1.2420487 1.899938e-02 1.5871805 3.023614e-03
326 220988 HNRNPA3 0.6389881 5.964460e-04 0.6473359 2.815547e-03
327 91404 SESTD1 1.6600210 1.111506e-04 1.5351811 9.066743e-03
328 51602 NOP58 1.2025070 2.864822e-06 1.0514439 1.143118e-03
329 8828 NRP2 -0.5317226 2.425229e-03 -0.9764990 4.361339e-09
330 8609 KLF7 0.9936242 1.325519e-06 0.9866636 4.517706e-04
331 2066 ERBB4 2.2396353 4.100469e-04 2.8991771 1.167719e-07
332 79582 SPAG16 0.6190746 4.700875e-03 0.7705482 1.955819e-03
333 6168 RPL37A -0.9396317 8.680184e-19 -0.3840962 4.163477e-03
334 3488 IGFBP5 -1.4896444 8.072817e-13 -2.6454977 5.652670e-27
335 5798 PTPRN 6.8726501 9.083539e-04 7.7871502 3.476979e-05
336 79586 CHPF -1.0246442 5.003934e-08 -0.5407254 4.362068e-02
337 7857 <NA> 2.6021431 7.706302e-10 3.7148838 2.193291e-25
338 5270 SERPINE2 -1.0018258 8.026516e-08 -1.4460396 4.552874e-08
339 151473 SLC16A14 6.8885107 9.039198e-04 7.1940831 1.593263e-03
340 5757 PTMA 0.7428128 1.652843e-04 0.7707692 1.442434e-04
341 3635 INPP5D -2.2678809 5.208667e-03 -2.8373930 6.669893e-04
342 2637 GBX2 -2.7097991 4.293880e-03 -6.3088695 1.342612e-04
343 2817 GPC1 -0.7105645 1.457500e-03 -0.7075240 3.028675e-03
344 83959 SLC4A11 -1.8193726 1.233695e-02 -2.3851510 4.644121e-02
345 57506 MAVS -0.9340439 4.124753e-05 -0.8765917 2.085698e-04
346 6238 RRBP1 -0.8779930 2.020395e-05 -0.9180331 2.592803e-04
347 2937 GSS -0.7534159 8.576030e-03 -1.0892960 8.111724e-04
348 4826 NNAT 3.1581106 1.194518e-16 5.3255153 1.206740e-19
349 84969 TOX2 -1.1548905 6.373651e-04 -1.3513027 9.689222e-04
350 51604 PIGT -0.5082443 3.110183e-02 -0.7031226 6.982086e-03
351 11065 UBE2C 1.3272127 3.482509e-03 1.7874888 3.257545e-04
352 5740 PTGIS -2.7710800 1.890294e-02 -7.0784709 9.728671e-05
353 100462983 MTRNR2L3 -0.9910046 3.609496e-03 -1.1828045 1.656836e-03
354 56937 PMEPA1 -0.5320660 3.022419e-03 -0.9454583 1.836351e-07
355 3911 LAMA5 -0.6144204 8.420533e-03 -1.2663307 1.409309e-08
356 6227 RPS21 -0.5685228 1.775938e-06 -0.4278776 1.600810e-03
357 79144 PPDPF -0.6761500 2.618381e-06 -0.4118019 1.890401e-02
358 4661 <NA> 5.8098946 7.668167e-03 7.5689872 1.158351e-05
359 140578 CHODL 0.8540394 2.124082e-02 1.2471015 1.943344e-03
360 10600 USP16 1.2808729 6.492063e-09 0.7838947 1.566203e-02
361 56245 C21orf62 0.8845232 6.769030e-04 0.9911059 1.890523e-04
362 1827 RCAN1 1.6077177 4.528098e-32 1.7948495 5.211876e-32
363 5211 PFKL -1.0086018 5.135812e-06 -0.8106155 1.782628e-03
364 80781 COL18A1 -0.6519162 3.489677e-03 -1.4193803 4.072636e-11
365 1291 COL6A1 -0.7424651 2.474967e-07 -0.6750073 2.264092e-05
366 1292 COL6A2 -1.3257081 8.242001e-04 -1.4716832 1.370357e-03
367 114044 MCM3AP-AS1 4.8345090 2.117025e-02 5.1403831 2.858695e-02
368 9993 DGCR2 -0.7484963 6.685442e-07 -0.4764508 1.488234e-02
369 652968 CASTOR1 -0.9054170 9.394588e-03 -1.0721755 5.891976e-03
370 6948 TCN2 -1.3809025 3.774116e-04 -1.2593961 5.521371e-03
371 8542 APOL1 -2.4446249 3.469519e-03 -2.7218890 4.159163e-04
372 4627 MYH9 -0.3778974 4.183716e-03 -0.6971789 5.066593e-05
373 29775 CARD10 -0.9491607 6.527177e-03 -1.3116225 2.320783e-02
374 27350 APOBEC3C -1.9712267 5.060477e-06 -2.6040539 1.588902e-06
375 6122 RPL3 -0.4053336 3.227527e-04 -0.4766353 2.816087e-04
376 468 ATF4 0.7251146 2.816812e-04 0.6186308 1.994641e-03
377 55964 SEPTIN3 0.6445300 1.469193e-04 0.9447643 4.142801e-08
378 112885 PHF21B 1.5458340 4.350773e-03 2.2259992 8.294663e-06
379 55007 FAM118A -1.0390227 1.014990e-02 -1.3407462 3.962503e-02
380 375323 LHFPL4 3.2914513 1.100144e-02 5.0276729 2.919134e-09
381 7508 XPC -0.7197664 7.140592e-03 -0.7392739 2.928362e-02
382 9975 NR1D2 -1.2999325 5.263202e-03 -1.1804262 2.990120e-02
383 7068 THRB 5.0064347 2.270573e-03 6.0866477 1.309467e-05
384 116135 LRRC3B 1.1465580 1.021039e-03 1.4798345 1.818685e-04
385 27303 RBMS3 -2.0755081 7.668167e-03 -1.9865338 4.317191e-02
386 91392 ZNF502 2.1324500 4.337593e-02 2.7812227 3.342794e-03
387 10675 CSPG5 0.8353689 1.601933e-02 1.5784377 1.185997e-06
388 4134 MAP4 -0.3390575 4.375203e-03 -0.2940204 3.587645e-02
389 2771 GNAI2 -0.4636031 8.569642e-05 -0.4944595 2.408297e-05
390 7869 SEMA3B -1.6564932 3.862308e-08 -1.4513602 1.745701e-04
391 440957 SMIM4 -0.5958505 5.117766e-04 -0.5449620 2.265123e-03
392 7086 TKT -0.9017131 4.610312e-12 -1.1391536 8.482534e-15
393 2317 FLNB -0.6845340 3.984342e-02 -1.1857779 2.745332e-03
394 11170 FAM107A 1.1009337 2.709190e-03 2.4321216 5.947464e-17
395 132204 SYNPR 3.1683107 7.361290e-13 3.1351647 8.666835e-12
396 9223 MAGI1 0.4886117 1.660351e-02 0.6969315 2.438204e-02
397 56650 CLDND1 1.0712947 1.990708e-04 0.8798926 3.725134e-02
398 961 CD47 0.8238312 1.930611e-05 0.8183946 1.397105e-04
399 55081 <NA> 1.0869656 3.821786e-05 0.9825755 9.306479e-03
400 29114 TAGLN3 0.8215485 3.700229e-03 1.9259335 6.780918e-15
401 79858 NEK11 1.3326372 1.996092e-02 1.4479830 3.333364e-02
402 7018 TF -3.3232865 2.405283e-35 -2.6389352 1.155659e-27
403 5806 PTX3 1.8501347 1.754627e-11 1.4100724 2.477616e-03
404 6657 SOX2 -0.5220920 5.263072e-05 -0.4677946 1.999204e-02
405 84002 B3GNT5 3.1685177 1.047117e-04 2.9678226 4.211058e-03
406 6480 ST6GAL1 5.2799963 3.583567e-02 6.4016047 2.265123e-03
407 6165 RPL35A -0.3520399 1.015559e-02 -0.3375458 4.897053e-02
408 53834 FGFRL1 -0.8610945 4.109856e-04 -1.0660824 1.138515e-04
409 10417 SPON2 -2.3182470 1.543773e-08 -4.2936110 9.946733e-14
410 285489 DOK7 -1.6848822 2.773213e-02 -3.3149758 2.597013e-03
411 4043 LRPAP1 -0.4776386 1.800286e-03 -0.6202236 2.425953e-04
412 27065 NSG1 1.4547421 1.538258e-03 2.5616306 3.941577e-12
413 57537 SORCS2 -0.7963868 4.223483e-02 -1.6908825 1.012552e-04
414 8532 CPZ -0.7817281 5.583150e-04 -1.1441708 6.434948e-06
415 79730 <NA> 3.1925786 8.091324e-03 3.7129693 1.177388e-03
416 9662 CEP135 2.3716028 3.901395e-03 2.3674758 2.085977e-02
417 57482 CRACD 1.4048826 1.534526e-03 1.3386405 3.473845e-02
418 2926 GRSF1 0.6163410 3.973976e-02 0.7575895 1.878569e-02
419 9508 ADAMTS3 1.2487115 3.219427e-02 1.8042029 5.566136e-03
420 9987 HNRNPDL 0.7576618 1.222739e-09 0.8450377 5.997885e-11
421 8404 SPARCL1 3.4421811 1.890294e-02 5.6833297 1.581164e-09
422 6164 RPL34 -0.2818415 9.384072e-03 -0.4235520 6.916522e-04
423 5188 <NA> -0.6434372 8.809308e-03 -1.0747561 3.095694e-04
424 84057 MND1 6.3595666 8.312957e-04 5.7683103 2.228943e-02
425 2982 GUCY1A1 -2.5615469 3.073185e-02 -2.4540368 3.596483e-02
426 3148 HMGB2 1.5486097 4.131207e-07 1.7903237 1.320091e-06
427 79682 CENPU 1.7489542 2.358664e-02 1.9973075 1.599367e-02
428 134121 <NA> 1.2796871 2.310883e-02 1.6368077 1.552128e-03
429 100505738 MIR4458HG -0.6829890 3.864705e-04 -0.9980030 1.665149e-07
430 6167 RPL37 -0.9213204 1.407983e-12 -0.3598677 3.596070e-02
431 3157 HMGCS1 0.8161423 1.619626e-04 1.1873172 5.061542e-09
432 5144 PDE4D 3.0150852 1.278346e-02 3.9688351 8.997510e-05
433 3796 KIF2A 0.7119465 2.298569e-02 0.9533351 1.000226e-02
434 4131 MAP1B 0.6409932 1.392403e-11 0.4285036 8.629840e-03
435 8507 ENC1 0.7105075 8.417686e-03 1.0075880 4.079814e-05
436 3156 HMGCR 1.1901546 1.788473e-06 1.0787649 2.908894e-04
437 7060 THBS4 1.6625515 3.700229e-03 1.9177103 1.879318e-03
438 1070 CETN3 -0.7720163 3.553947e-03 -0.5855236 4.941566e-02
439 7025 <NA> -0.5331827 4.331730e-03 -0.7465323 1.383557e-02
440 1946 EFNA5 1.7976054 3.221947e-03 2.3055068 1.364406e-04
441 324 APC 0.8236851 2.127409e-03 0.9432079 9.689222e-04
442 441108 <NA> -0.7490272 3.007057e-02 -1.0915868 2.447416e-02
443 23338 JADE2 -2.1536622 1.849520e-03 -1.8847536 1.607384e-02
444 9879 DDX46 0.4316611 3.755352e-02 0.6885911 3.449829e-03
445 9547 CXCL14 -1.1592910 2.264139e-15 -2.3882954 1.748834e-08
446 6695 SPOCK1 -1.4323253 2.985063e-06 -1.7771606 1.564048e-08
447 1958 EGR1 2.2574398 4.100469e-04 2.4815105 1.195813e-03
448 1839 HBEGF 0.7060774 3.219126e-02 1.2849143 2.137062e-04
449 2246 FGF1 0.6143881 3.167065e-02 1.0136959 1.629543e-03
450 11346 SYNPO -1.2061350 4.329632e-09 -1.2058775 8.530738e-06
451 10318 TNIP1 -1.1392066 3.351148e-08 -1.2069096 1.313948e-05
452 6678 SPARC -0.3085683 4.644851e-02 -0.5909387 2.442476e-05
453 345630 FBLL1 1.0156913 3.720260e-02 1.4519761 2.339917e-03
454 64901 RANBP17 7.3193637 1.025955e-04 6.1720844 4.190071e-02
455 1843 DUSP1 2.3289940 1.390953e-03 2.5480526 3.133156e-03
456 8992 ATP6V0E1 -0.3468481 3.024070e-02 -0.6275270 3.033400e-04
457 51617 <NA> 1.7956096 9.711090e-03 4.1012064 1.097758e-18
458 10814 CPLX2 1.6186017 1.043166e-03 3.4959251 7.251559e-29
459 11282 MGAT4B -0.7603028 1.195494e-05 -0.7867426 1.078348e-04
460 54898 ELOVL2 0.7891252 5.703222e-03 1.1113025 3.876063e-04
461 84062 DTNBP1 -1.1467664 2.702368e-05 -0.7257966 4.145350e-02
462 3400 <NA> 1.3146187 3.369625e-14 0.9409950 7.382052e-06
463 10590 SCGN 2.4250008 7.037777e-26 3.1688152 5.652459e-49
464 100129195 ZSCAN16-AS1 -0.9919782 2.318761e-03 -0.9874230 2.372853e-02
465 10537 UBD -1.3605891 1.568922e-04 -3.7566251 2.600006e-15
466 3105 HLA-A -0.7721547 2.367539e-02 -1.1999501 6.081451e-04
467 3106 HLA-B -0.7012609 3.856387e-04 -0.9622349 3.891084e-06
468 6892 TAPBP -1.1018289 1.253132e-09 -0.8933290 2.206121e-07
469 221491 SMIM29 -0.9218884 2.768231e-04 -0.8155327 1.821625e-02
470 6428 SRSF3 0.5815088 1.925323e-03 0.5327334 3.333364e-02
471 1026 CDKN1A -0.7445167 2.958591e-09 -1.0389839 9.994481e-13
472 221477 C6orf89 -0.4383175 3.119456e-02 -0.6176692 2.968614e-03
473 4188 MDFI -1.7036101 3.845899e-07 -1.4214050 5.451974e-03
474 6722 SRF 0.4945680 3.925916e-02 0.6543793 2.320783e-02
475 5429 POLH -0.8572630 4.996114e-03 -0.8523754 3.111382e-02
476 441151 TMEM151B 2.4714638 2.246212e-02 3.8518943 1.661677e-06
477 10492 SYNCRIP 0.6456309 1.146635e-04 0.6673359 5.668088e-04
478 10690 FUT9 1.6135560 4.496886e-02 2.0335869 1.478942e-02
479 100133941 CD24 0.7736300 4.061450e-04 1.0346292 5.668484e-06
480 2534 FYN 0.5662551 2.445531e-03 0.5032670 3.061403e-02
481 2697 GJA1 0.7769008 2.142055e-09 0.6745041 2.252541e-07
482 1490 CCN2 1.7576486 4.740599e-38 1.4848577 2.026620e-03
483 51696 <NA> 2.2213221 8.253492e-03 2.0533598 4.927610e-02
484 168090 C6orf118 6.5370887 9.912320e-06 7.1098054 7.340385e-07
485 51660 MPC1 1.3771688 1.179438e-16 0.8873961 2.265123e-03
486 392617 ELFN1 -0.7723583 1.361221e-02 -0.9297286 1.119240e-02
487 29886 SNX8 -0.8195445 1.012372e-03 -0.7999480 5.254358e-03
488 2115 ETV1 1.6879494 7.614340e-28 1.6873638 3.754955e-16
489 8701 DNAH11 6.6067617 3.610518e-03 7.3324766 1.005705e-03
490 4852 NPY 1.3065693 2.221224e-06 2.3309502 5.128796e-28
491 441204 <NA> -1.5495794 4.241548e-02 -3.8773492 1.752408e-04
492 79017 GGCT 1.2005300 5.250533e-06 0.9920255 1.564745e-02
493 64759 TNS3 -0.6747864 1.569101e-02 -1.2948669 1.039388e-05
494 7378 UPP1 -0.6847359 5.323075e-03 -0.9439945 8.024406e-04
495 64409 GALNT17 -1.0330728 5.765903e-06 -1.9242295 7.281613e-03
496 11257 <NA> -0.8846712 3.157582e-02 -1.2390700 1.280812e-02
497 5244 ABCB4 -0.8029967 1.000909e-02 -1.7639557 1.443107e-08
498 1750 DLX6 1.6876904 1.074380e-03 2.9617545 2.577095e-16
499 1749 DLX5 2.1403466 3.330027e-05 3.6286422 3.355781e-22
500 25798 <NA> -0.5697038 2.528938e-05 -0.4978698 1.195813e-03
501 245812 <NA> -0.6882340 3.677197e-02 -1.0333447 1.364081e-02
502 7205 <NA> -0.5610654 1.128883e-03 -0.4880182 1.476705e-02
503 5054 SERPINE1 2.8428159 3.704122e-19 2.6220037 4.061962e-14
504 2861 GPR37 1.9524966 2.425447e-04 2.6224191 2.354399e-09
505 9296 ATP6V1F -0.6297690 3.603297e-03 -0.5086225 2.619702e-02
506 4232 MEST 1.0997440 9.949038e-06 1.8222392 1.563627e-15
507 26958 COPG2 2.0279355 3.071839e-08 2.3778189 7.107555e-09
508 155066 ATP6V0E2 -0.9387413 4.901488e-10 -0.5342727 4.860574e-04
509 54480 CHPF2 -0.6816237 3.425822e-02 -0.8327015 2.138184e-02
510 349136 WDR86 -1.1448503 1.561161e-09 -1.1317281 1.661758e-04
511 79660 PPP1R3B 1.4515542 1.555100e-03 1.8445544 5.408729e-05
512 10395 DLC1 1.8666561 2.280812e-16 1.7153743 5.997885e-11
513 4747 NEFL -1.9499689 7.411800e-07 -2.8381102 5.437741e-10
514 1808 DPYSL2 0.7938179 4.526794e-10 0.9699894 2.989223e-14
515 1191 CLU -0.3536011 8.258154e-03 -0.6740472 2.714996e-07
516 80223 RAB11FIP1 -1.7252299 1.777853e-05 -2.8727814 3.109746e-05
517 286183 NKAIN3 -0.9095352 1.619177e-06 -1.0933370 2.559890e-05
518 8836 GGH -0.4446193 4.961455e-02 -1.4253748 3.883817e-10
519 5569 PKIA 1.2302738 4.545022e-03 1.2067039 2.921959e-02
520 11075 STMN2 5.0178692 4.039958e-03 6.1978578 3.966498e-04
521 862 RUNX1T1 2.3534165 9.067719e-06 3.3089522 1.119515e-13
522 7381 UQCRB -0.3130180 4.232915e-02 -0.3555414 1.242384e-02
523 79870 BAALC 0.5156894 2.569769e-04 0.4336691 1.656836e-03
524 4062 LY6H 2.3281384 9.327216e-04 3.5223270 2.754717e-10
525 1936 EEF1D -1.1117231 2.704108e-05 -0.6600540 9.022899e-03
526 113655 MFSD3 -1.2694565 1.886682e-04 -0.9020509 4.446365e-02
527 6132 RPL8 -0.7008929 8.295695e-13 -0.5470781 4.292663e-06
528 6595 SMARCA2 -0.5005963 2.128126e-02 -0.7168505 1.237660e-03
529 11168 PSIP1 1.0311192 7.655060e-10 0.4980641 4.166996e-02
530 92949 ADAMTSL1 -1.5747186 1.178586e-02 -2.3156612 5.553919e-03
531 10210 <NA> 0.8612838 2.257219e-02 0.8828085 4.667604e-02
532 2683 B4GALT1 -0.7110255 3.176405e-03 -1.5339468 1.558087e-05
533 7094 TLN1 -0.5595991 1.057199e-02 -0.6843306 1.552128e-03
534 389765 <NA> 5.4167190 2.133071e-02 5.9018589 1.550150e-02
535 8013 NR4A3 1.6926032 5.653334e-03 1.7210198 1.734746e-02
536 19 ABCA1 -0.3545432 4.929436e-02 -1.1633278 8.704903e-14
537 5998 RGS3 -0.4205005 4.337593e-02 -0.7371648 1.573076e-03
538 3371 TNC 1.4887713 2.568738e-02 1.9836646 2.549804e-03
539 5069 PAPPA -2.2794329 9.571169e-03 -3.7850262 2.918134e-03
540 1620 BRINP1 2.2480329 1.627583e-07 3.0111835 2.505557e-15
541 6136 RPL12 -0.3982599 3.179378e-03 -0.6014169 4.943460e-06
542 64855 NIBAN2 -0.5689618 2.714784e-02 -0.7917959 7.940203e-03
543 10044 SH2D3C 2.6863991 2.729971e-02 3.4168381 1.952613e-03
544 114789 SLC25A25 0.9565245 7.851947e-04 0.9885164 1.600810e-03
545 5524 PTPA -0.6516898 2.894609e-03 -0.8141781 6.648189e-04
546 100506119 LINC01503 -1.1269390 1.317657e-02 -1.7671980 4.880285e-04
547 1289 COL5A1 -1.2112262 3.804089e-03 -2.0207849 6.255122e-07
548 4851 NOTCH1 -0.5435727 3.013578e-02 -0.7688592 5.924183e-03
549 4558 <NA> -0.4390864 1.128883e-03 -0.3839364 9.338884e-03
550 4577 <NA> -1.3386473 7.087322e-15 -1.2498384 5.280320e-11
551 4567 <NA> -1.4240347 4.078910e-27 -0.5383313 1.321248e-03
552 4578 <NA> -0.6840371 3.484701e-02 -1.0416733 9.766076e-04
553 1654 DDX3X 1.1414177 1.042344e-06 0.8214014 6.765529e-03
554 4129 MAOB 0.9057778 1.524609e-04 1.4594028 1.659212e-12
555 57477 SHROOM4 -1.3916576 4.680550e-02 -2.0099208 2.076708e-02
556 170685 NUDT10 1.4053316 2.996299e-02 1.9828991 1.181037e-03
557 28986 MAGEH1 1.2557662 4.701573e-03 1.7791003 4.271693e-05
558 4675 NAP1L3 1.7653736 4.230242e-04 1.8870734 2.265123e-03
559 6173 <NA> -0.7106463 7.262684e-03 -0.8018508 8.672044e-03
560 11013 <NA> 1.5281486 3.468449e-05 2.7261900 1.113867e-23
561 55859 <NA> 0.3781885 1.716155e-02 0.3878479 2.939565e-02
562 51186 TCEAL9 -0.3892609 3.662576e-03 -0.3464859 1.041252e-02
563 5063 PAK3 1.4575697 3.804089e-03 1.5492220 1.059705e-02
564 1641 DCX 1.7378594 1.806928e-19 3.0735949 4.554326e-68
565 3597 IL13RA1 -0.6852056 4.146922e-02 -1.1106445 1.936129e-02
566 6170 RPL39 -0.4891487 3.418020e-05 -0.4737819 1.080627e-03
567 3897 L1CAM 0.9307928 4.521374e-02 1.3151852 4.894149e-03
568 2316 FLNA -0.6322225 4.888813e-07 -0.5283306 1.251199e-03
569 8270 LAGE3 -0.5948944 2.044780e-02 -0.8901983 2.894585e-03
570 2539 G6PD -0.5669937 4.023695e-02 -0.8645735 7.784778e-03
OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 1.6214396 1.18032404 2.187405 2.472160e-03
02_TSC2_KO_Grabole_2016 1.8229487 1.53478736 2.164433 4.166022e-12
03_TSC2_Grabole-2016 1.9023263 1.59233264 2.277780 2.380051e-13
04_TSC2-tuber-Martin2017 3.6773344 1.96824099 6.424719 5.307322e-05
05_TSC2-SEN_SEGA-Martin2017 2.8805306 2.38227452 3.472770 7.223428e-26
06_all_EpilepsyGene 1.0868739 0.62157183 1.781176 6.950876e-01
07_high_conf_EpilepsyGene 1.3861102 0.54274367 2.966400 3.629156e-01
08_ASD_Epilepsy_EpilepsyGene 0.8233931 0.21973239 2.179563 1.000000e+00
09_Epi25_dataset 0.5616319 0.06672542 2.104121 5.862315e-01
10_SFARI_all 1.3179773 0.68673061 2.318193 3.269155e-01
11_SFARI_score4plus 1.3645524 0.63911573 2.590754 3.425416e-01
12_DeRubeis_RDNV 2.2289846 0.86174833 4.859288 4.805024e-02
13_Iossifov_RDNV 1.2967790 0.83783634 1.932040 2.129306e-01
14_FMRP_Darnell 1.4056939 0.99616952 1.939874 4.001085e-02
15_Voineagu_M12 1.0541549 0.57921150 1.779947 7.843163e-01
16_Voineagu_M16 3.3334839 2.31711243 4.692098 7.567759e-10
17_ID_genes_Neel 1.2092138 0.67761522 2.013593 4.780496e-01
18_ID_genes_pinto2014 1.0129237 0.47653675 1.911436 8.702785e-01
19_Fromer_SCZ_FunDN 0.8766391 0.51109705 1.414184 7.286343e-01
20_Cocchi_Pruning 3.9652851 2.00793636 7.242600 8.267264e-05
Beta SE Padj
01_Swaminathan2018_DEPDC5KO 0.48331438 0.16200274 4.944320e-02
02_TSC2_KO_Grabole_2016 0.60045533 0.08778749 8.332045e-11
03_TSC2_Grabole-2016 0.64307753 0.09075383 4.760102e-12
04_TSC2-tuber-Martin2017 1.30218813 0.31890198 1.061464e-03
05_TSC2-SEN_SEGA-Martin2017 1.05797452 0.09689735 1.444686e-24
06_all_EpilepsyGene 0.08330561 0.28510684 1.000000e+00
07_high_conf_EpilepsyGene 0.32650138 0.47837731 1.000000e+00
08_ASD_Epilepsy_EpilepsyGene -0.19432159 0.67399146 1.000000e+00
09_Epi25_dataset -0.57690860 1.08686773 1.000000e+00
10_SFARI_all 0.27609825 0.33260788 1.000000e+00
11_SFARI_score4plus 0.31082645 0.38698785 1.000000e+00
12_DeRubeis_RDNV 0.80154614 0.48486641 9.610049e-01
13_Iossifov_RDNV 0.25988349 0.22286530 1.000000e+00
14_FMRP_Darnell 0.34053107 0.17569842 8.002171e-01
15_Voineagu_M12 0.05273943 0.30552398 1.000000e+00
16_Voineagu_M16 1.20401797 0.18555929 1.513552e-08
17_ID_genes_Neel 0.18997038 0.29548268 1.000000e+00
18_ID_genes_pinto2014 0.01284086 0.38472005 1.000000e+00
19_Fromer_SCZ_FunDN -0.13165989 0.27527342 1.000000e+00
20_Cocchi_Pruning 1.37757777 0.34717870 1.653453e-03
KO effect in noDIFF RAPA
D62
getlinmodoutput(targetdiff = "noDIFF",targetrapa = "RAPA") entrezgene genname log2FC_2.1 fdr_2.1 log2FC_2.2 fdr_2.2
1 375790 AGRN -0.7830596 3.295473e-07 -0.5051920 4.391947e-02
2 2023 ENO1 0.9925868 6.689458e-07 0.6482814 2.479114e-02
3 56998 CTNNBIP1 0.5811856 2.519022e-03 0.5507327 6.635886e-03
4 10630 PDPN 1.4419090 5.919649e-11 0.9738968 4.916388e-05
5 3925 STMN1 -0.6449759 1.811171e-05 -0.6964049 2.409901e-04
6 83667 SESN2 1.4404370 1.129822e-14 1.2728655 6.814788e-08
7 8565 YARS1 1.2112800 1.089305e-04 0.9994600 1.377347e-02
8 4725 NDUFS5 0.8472489 1.037469e-09 0.4949652 3.180663e-02
9 6202 <NA> -0.2753174 2.813229e-02 -0.4561566 2.444661e-03
10 8503 PIK3R3 1.5760410 6.874351e-20 1.2395143 1.818616e-09
11 9077 DIRAS3 1.7176765 6.602288e-18 1.2839183 2.449181e-07
12 81849 ST6GALNAC5 -1.0478513 1.655478e-13 -0.9760845 1.811898e-09
13 64123 ADGRL4 1.4020313 1.171060e-03 1.2017255 2.361234e-02
14 2633 GBP1 3.9061963 1.681615e-03 4.4053684 3.807240e-05
15 6125 <NA> -0.6828161 9.147973e-11 -0.4811536 2.981189e-04
16 1301 COL11A1 0.8562904 2.305744e-03 1.1586679 7.574325e-08
17 26227 PHGDH 1.9194937 8.307368e-22 2.3136946 1.106356e-29
18 10628 TXNIP -1.1270322 7.783607e-03 -1.7663456 1.780192e-07
19 140576 S100A16 0.7534756 7.946100e-06 0.5722993 3.517155e-02
20 9181 ARHGEF2 -0.4634304 2.341054e-02 -0.6708935 1.610538e-03
21 10763 NES 0.7072571 3.282436e-08 0.5295565 2.888838e-04
22 9507 ADAMTS4 0.9421749 1.996897e-02 1.1233340 3.324644e-02
23 2212 FCGR2A -2.3711937 5.342599e-05 -2.2818291 6.946215e-04
24 387597 ILDR2 0.4875237 1.697096e-02 0.7833515 2.753216e-05
25 6004 RGS16 1.1311793 8.260652e-10 1.0753088 6.798374e-05
26 116496 NIBAN1 2.0457551 7.102174e-07 1.9144428 7.085667e-05
27 824 CAPN2 0.6197758 1.577312e-02 0.7726694 2.421003e-03
28 149111 CNIH3 1.5732193 1.236103e-07 1.4170177 5.183025e-05
29 3020 H3-3A -0.5390210 4.830611e-03 -0.6040056 5.394219e-03
30 183 AGT 0.8072493 8.005232e-04 0.8280949 2.328836e-04
31 4811 NID1 -1.5016308 2.866951e-03 -1.5060833 1.081566e-02
32 7431 VIM -0.5932418 1.205034e-06 -0.5485910 3.899045e-03
33 8325 FZD8 -0.9417011 1.633203e-02 -1.1975699 1.054004e-02
34 219699 UNC5B 0.8163324 4.047024e-08 0.9264237 1.957529e-08
35 54541 DDIT4 1.9127348 2.163219e-11 1.6434186 1.957529e-08
36 23234 DNAJC9 0.7349550 3.138131e-02 0.8261810 2.794636e-02
37 219654 ZCCHC24 -0.5431326 8.989282e-04 -0.5714200 2.991268e-04
38 9124 PDLIM1 1.2258187 2.605397e-06 1.0595779 1.356536e-03
39 80019 UBTD1 1.2274180 1.396894e-02 1.2299378 3.054954e-02
40 83742 MARVELD1 -1.3485243 3.267090e-06 -0.9735816 8.140662e-03
41 644511 RPL13AP6 -0.7382874 2.389756e-04 -0.5978152 1.973293e-02
42 10581 IFITM2 -1.9856204 8.953844e-17 -2.2578514 8.369471e-18
43 10410 IFITM3 -0.5164410 1.260918e-04 -0.5609883 3.801745e-03
44 977 CD151 0.7671350 2.015220e-06 0.6316686 3.018086e-02
45 8665 EIF3F -0.5480935 1.219357e-03 -0.6635923 1.368846e-03
46 4004 LMO1 -2.5797355 4.047024e-08 -2.6040132 6.128110e-15
47 6157 <NA> -0.3793310 1.881240e-04 -0.4315367 2.012879e-02
48 10335 IRAG1 1.7877320 4.264072e-03 1.5555086 4.265670e-02
49 5080 PAX6 -0.8436887 1.428381e-02 -0.9330713 1.884973e-02
50 90993 CREB3L1 0.9812654 2.456859e-03 1.3250038 1.482465e-05
51 8525 DGKZ 0.7794046 8.509468e-04 0.7812704 1.054004e-02
52 254263 CNIH2 0.7496305 1.097413e-02 0.8477914 1.874942e-02
53 595 CCND1 2.1436979 2.450562e-06 1.9365598 7.180898e-06
54 23201 FAM168A -0.7612918 3.457406e-03 -0.8598301 4.510339e-04
55 871 SERPINH1 0.4430623 2.882487e-04 0.5165011 6.030246e-03
56 143686 SESN3 1.2348235 2.360075e-07 1.3193109 4.839548e-08
57 57562 CEP126 1.5630160 9.417432e-03 1.4566951 3.855296e-02
58 114908 <NA> -0.8543199 2.646062e-03 -0.7028913 4.326217e-02
59 1410 CRYAB 0.7419323 1.195297e-04 0.7986174 3.590581e-05
60 4684 NCAM1 0.5426350 1.034665e-03 0.6015482 6.630190e-04
61 6876 TAGLN -0.5067508 2.953048e-05 -0.4291982 2.361234e-02
62 57453 DSCAML1 1.6431629 3.329927e-02 1.6731081 4.440006e-02
63 50937 CDON -3.7829266 3.157166e-02 -5.2549444 2.627062e-03
64 84623 KIRREL3 -3.7248064 4.168679e-02 -7.5168316 2.404412e-04
65 2113 ETS1 -7.9366484 2.388550e-05 -4.3469543 9.600231e-03
66 27087 B3GAT1 -0.5597962 3.015777e-03 -0.6811093 4.245730e-03
67 894 CCND2 0.8934701 1.992293e-12 1.0170601 2.703638e-11
68 2 A2M -0.6799047 5.819831e-07 -0.8902810 7.029165e-08
69 9976 CLEC2B 4.8120263 1.315740e-04 5.6621290 1.391724e-08
70 2012 EMP1 -1.4949405 1.318950e-07 -1.5188116 3.492679e-06
71 3709 ITPR2 2.0080495 7.922213e-10 2.0133932 2.096133e-08
72 81539 SLC38A1 2.4704960 3.198456e-02 2.8516234 3.339888e-03
73 1280 COL2A1 -1.7108195 1.663978e-10 -1.0952326 3.167592e-06
74 10376 <NA> 0.6889250 2.471587e-06 0.4468471 1.089521e-02
75 7846 TUBA1A 0.8326231 9.143257e-16 0.4436578 2.889052e-03
76 84790 TUBA1C 1.1162251 6.938667e-15 1.0612090 5.720949e-07
77 1975 EIF4B -0.5280988 4.341873e-02 -0.8717308 1.239713e-02
78 3178 HNRNPA1 -0.8804545 7.749494e-10 -0.7161885 1.962200e-05
79 84324 <NA> 1.4141260 2.519022e-03 1.7237333 1.345319e-05
80 23344 ESYT1 0.9145527 2.499382e-02 1.2379576 2.421003e-03
81 4666 NACA -0.3619302 2.565329e-02 -0.4303974 2.460459e-02
82 6472 SHMT2 1.1882159 4.748700e-03 1.4569799 4.082249e-04
83 144453 BEST3 1.7109231 1.009329e-09 1.6966933 6.979850e-08
84 4673 NAP1L1 -0.5458068 3.654321e-02 -0.5276290 3.441171e-03
85 160335 TMTC2 -1.1358907 9.907774e-05 -1.4323673 4.235177e-05
86 1848 DUSP6 -0.8163379 3.224719e-10 -0.6578631 4.235177e-05
87 50515 CHST11 -0.4035131 2.813229e-02 -0.4537174 2.227514e-02
88 6311 ATXN2 -0.4682890 3.403559e-02 -0.6283188 1.415230e-02
89 51499 TRIAP1 1.2939512 3.267090e-06 1.1778883 2.091401e-04
90 5027 P2RX7 8.8802685 2.028298e-08 9.2232172 1.275959e-08
91 8848 TSC22D1 0.5955270 3.869239e-05 0.6997709 1.469306e-04
92 9445 ITM2B -0.5793603 3.850154e-06 -0.4741785 1.899613e-03
93 5100 PCDH8 -1.9371643 4.990478e-08 -2.0083000 8.932002e-06
94 8874 ARHGEF7 1.1201255 4.631796e-09 1.1519789 1.864475e-09
95 2621 GAS6 1.9298677 4.443006e-02 2.0729415 4.888677e-02
96 4860 PNP 1.8155705 4.763449e-04 1.3442116 4.867427e-02
97 28526 <NA> 2.1231742 2.861885e-10 2.0565643 4.000953e-09
98 10278 <NA> 1.5947969 3.102180e-04 1.4795907 1.384945e-02
99 9985 REC8 1.5232430 8.193040e-20 1.5746823 2.495274e-13
100 4053 LTBP2 -2.8539315 1.681167e-07 -1.2831123 1.524297e-02
101 55384 MEG3 1.0667223 1.742715e-06 1.0011398 2.626418e-04
102 3320 HSP90AA1 0.4304650 1.206121e-04 0.4029921 4.724906e-03
103 1152 CKB 0.9097570 4.479705e-16 0.8155128 4.000953e-09
104 113146 AHNAK2 1.7372416 5.949155e-03 1.5949863 2.606146e-02
105 64397 ZNF106 0.8981486 1.295912e-07 0.7291592 4.765263e-04
106 51065 <NA> 0.4214371 4.873396e-04 0.4300981 5.846331e-03
107 57611 ISLR2 -1.5551381 3.305725e-04 -1.4950848 6.617584e-04
108 23205 ACSBG1 1.1126580 1.166430e-06 0.9279995 5.090320e-04
109 10509 SEMA4B -0.6743508 8.615007e-03 -0.7813766 1.550838e-02
110 56963 RGMA 1.3836463 7.004728e-18 1.2560281 1.474468e-06
111 7023 <NA> -2.1033429 3.075167e-02 -2.5526745 6.030246e-03
112 2013 EMP2 -1.3564345 8.248599e-14 -1.0198586 1.692998e-06
113 124152 IQCK -0.5708228 2.090980e-02 -0.8200022 2.981189e-04
114 26471 NUPR1 2.7862916 8.307368e-22 1.8659235 1.204677e-06
115 11273 ATXN2L -1.2475375 1.486038e-02 -1.1333805 4.149063e-02
116 643911 <NA> 2.5605456 1.390433e-03 2.7846333 4.235177e-05
117 2775 GNAO1 -0.9638596 1.203127e-05 -0.7296164 6.966556e-03
118 23406 COTL1 0.6726662 4.758231e-05 0.5845588 2.415700e-04
119 10381 TUBB3 0.3371715 3.648935e-02 0.4992626 2.098316e-03
120 79007 DBNDD1 1.3741020 1.490219e-09 1.1093693 5.929156e-03
121 482 ATP1B2 -0.4918224 2.015220e-06 -0.5708962 1.147631e-05
122 9423 NTN1 1.2839665 9.804621e-11 0.9844203 2.415700e-04
123 9953 <NA> -0.9973668 3.576278e-04 -1.0881248 7.574325e-08
124 256302 NATD1 -1.2628394 1.639927e-03 -1.5612716 4.635308e-03
125 8153 RND2 0.9221021 1.057573e-03 0.7258360 3.527505e-02
126 4830 NME1 1.0416458 5.814657e-07 1.1939895 3.270526e-06
127 9902 MRC2 -0.5129959 1.783518e-02 -0.4305769 1.442417e-02
128 27092 <NA> -0.6676901 1.302609e-04 -0.7511143 2.981189e-04
129 23580 CDC42EP4 0.6685190 4.006227e-04 0.5390616 2.108486e-02
130 54549 SDK2 -1.3802060 2.536855e-03 -1.0961501 2.245900e-02
131 51155 JPT1 0.4944537 2.663520e-04 0.6996336 2.207775e-05
132 643008 SMIM5 6.9288262 5.303260e-03 6.9203360 1.168431e-02
133 283991 <NA> -0.7119266 5.631216e-05 -0.8115246 1.677474e-05
134 146664 MGAT5B -2.5234477 7.102174e-07 -1.9241422 3.498456e-05
135 9021 SOCS3 -0.9138269 1.947296e-03 -0.9073798 9.070174e-04
136 7077 TIMP2 -0.4551642 1.135516e-04 -0.4129483 8.746301e-03
137 284184 NDUFAF8 0.9130603 7.301495e-07 0.6962730 5.029262e-03
138 71 ACTG1 -0.4620899 5.100470e-05 -0.6467827 6.814788e-08
139 5831 PYCR1 0.9824516 8.417856e-04 0.7612016 4.429016e-02
140 23253 ANKRD12 -0.5791114 1.678079e-02 -0.5240250 3.479436e-02
141 361 AQP4 0.6894458 3.691573e-05 0.7537129 2.238061e-04
142 64762 GAREM1 -2.0889792 4.439245e-05 -1.4588854 3.552128e-03
143 115701 ALPK2 -0.6110394 2.348780e-02 -0.6112116 4.272354e-02
144 23239 PHLPP1 -0.6609033 3.545682e-02 -0.7426337 1.705119e-02
145 92126 DSEL 0.9079642 2.866951e-03 0.9849736 2.213103e-02
146 1265 CNN2 -1.1306687 7.408768e-09 -1.3577834 1.329113e-10
147 1938 EEF2 -0.4387126 1.112270e-02 -0.5091792 8.812568e-03
148 57153 SLC44A2 -0.7954645 2.850143e-06 -1.0322158 9.275215e-07
149 976 ADGRE5 0.9521932 1.500797e-03 1.0512485 5.599683e-03
150 4713 NDUFB7 0.8012245 2.922105e-02 0.9426144 4.888677e-02
151 1463 NCAN 0.4557637 1.755276e-05 0.4400428 2.516062e-02
152 163175 LGI4 -0.8811531 1.229615e-02 -0.9355542 1.937726e-02
153 4793 NFKBIB 1.0886830 1.577312e-02 1.4209632 2.047499e-04
154 115290 FBXO17 4.9836685 1.350014e-03 4.5657529 3.884168e-02
155 10683 DLL3 1.1217341 1.124895e-05 1.2070370 5.387399e-07
156 348 APOE 1.4234066 9.147973e-11 1.3682021 6.814788e-08
157 27113 BBC3 1.3959784 2.022786e-08 1.4153733 1.974888e-03
158 29997 <NA> -0.4237622 2.877179e-02 -0.5037452 3.082554e-02
159 2014 EMP3 1.6507168 6.222956e-04 1.4941916 8.746301e-03
160 10856 RUVBL2 0.8825740 1.666519e-02 0.9993349 2.076668e-02
161 23040 MYT1L -6.4617983 1.711582e-02 -6.3318910 4.212373e-02
162 129642 MBOAT2 -0.8413429 1.192703e-03 -0.7660251 2.014167e-02
163 28951 TRIB2 -0.5659250 5.319850e-04 -0.3724000 1.526979e-02
164 151354 <NA> 1.2190968 9.221227e-13 1.2749206 2.495274e-13
165 81553 CYRIA 1.2878219 2.468035e-03 1.4105290 1.540420e-03
166 91461 <NA> -0.6826956 3.282436e-08 -0.6177082 4.975196e-04
167 23433 RHOQ 0.8040852 8.338466e-04 0.9982660 3.810327e-06
168 618 BCYRN1 2.6693594 2.172692e-38 2.5916460 5.352601e-05
169 53335 BCL11A -1.4688626 8.531540e-05 -1.0771037 1.075762e-02
170 94097 SFXN5 0.9341462 7.350328e-03 0.9365237 7.635315e-03
171 9168 TMSB10 -0.6896943 7.222704e-12 -0.7307418 1.337441e-10
172 56910 STARD7 0.5488665 2.024327e-03 0.4607817 2.664770e-02
173 100506421 PANTR1 -0.7180148 2.850143e-06 -0.6293211 1.532357e-04
174 1622 DBI 0.7281180 4.076437e-12 0.4807958 7.731474e-04
175 6328 SCN3A 1.4516193 7.329401e-11 1.4191266 2.164187e-05
176 6326 SCN2A 2.0080540 6.062901e-03 1.8093617 2.983559e-02
177 165215 <NA> 0.7655218 1.189111e-03 0.6715021 3.551199e-02
178 3329 HSPD1 0.4468808 7.905957e-03 0.6753641 2.647578e-04
179 26010 SPATS2L 0.6453491 2.024327e-03 0.5706857 2.573422e-02
180 389073 C2orf80 -0.8819781 6.627774e-09 -0.5671427 6.629801e-03
181 7857 <NA> 1.5795399 1.269940e-13 1.2893529 1.552195e-07
182 81618 ITM2C -1.1569375 9.884501e-16 -0.5885298 2.108486e-02
183 2817 GPC1 0.6368793 2.226108e-03 0.6342499 7.826915e-03
184 2280 FKBP1A 0.5414863 8.005232e-04 0.5352480 5.218521e-03
185 5332 PLCB4 -1.9157545 9.856946e-04 -1.3769301 4.239241e-02
186 3397 ID1 3.2466858 5.396866e-05 3.1325201 2.711859e-04
187 4826 NNAT 0.7841971 4.714573e-02 1.4871359 3.871618e-06
188 9334 B4GALT5 0.5299172 2.860703e-02 0.5847839 3.975828e-02
189 3785 KCNQ2 -0.9591275 4.096321e-06 -0.5675444 1.958154e-02
190 1826 DSCAM 2.1433966 4.691324e-08 2.5850132 7.237897e-14
191 6285 S100B -0.3839336 7.350328e-03 -0.4833253 4.816150e-04
192 440823 MIAT 1.2706644 4.198782e-06 0.9692973 7.554949e-03
193 83999 KREMEN1 -1.3918724 1.085639e-03 -1.3988816 2.421003e-03
194 4627 MYH9 -0.5062993 5.165683e-03 -0.5001791 7.528845e-03
195 6122 RPL3 -0.3886845 1.228736e-03 -0.4588551 1.327969e-02
196 10752 CHL1 -0.8898417 2.592465e-10 -0.7759620 5.720949e-07
197 6138 RPL15 -0.7531904 2.929699e-12 -0.3787905 3.493538e-02
198 57060 PCBP4 0.9487725 8.176796e-03 0.9560938 3.160312e-02
199 7086 TKT 0.6878846 3.305725e-04 0.9727439 1.776350e-05
200 54756 IL17RD -0.9355540 3.811236e-12 -0.9427079 4.125136e-10
201 100506621 <NA> 1.6937138 1.091287e-03 2.0728189 4.020557e-06
202 151887 CCDC80 1.1534571 1.116952e-21 0.9686929 6.861728e-07
203 2596 GAP43 1.8580749 2.477698e-66 1.4625612 4.877498e-32
204 4171 MCM2 0.8059128 2.288285e-03 0.7859034 2.344828e-02
205 2047 EPHB1 2.7484413 4.873700e-08 2.9778188 7.221653e-09
206 5947 RBP1 -0.4957535 1.305523e-02 -0.6533588 3.243665e-03
207 64393 ZMAT3 0.7323454 1.007526e-05 0.8285674 8.066086e-06
208 2049 EPHB3 -0.8126826 3.015777e-03 -1.0063983 2.781484e-05
209 3280 HES1 -0.5886471 2.414069e-04 -0.5465658 9.932744e-03
210 347 APOD -3.0953962 4.034502e-07 -2.2712642 2.177719e-02
211 6165 RPL35A -0.3580130 5.165683e-03 -0.4266551 1.974888e-03
212 57537 SORCS2 -0.6450856 2.461379e-02 -0.8989371 3.458917e-03
213 23231 SEL1L3 -0.5207816 2.813229e-02 -0.5739710 2.014167e-02
214 5156 PDGFRA -0.9392241 1.186302e-09 -0.9665092 4.020557e-06
215 3490 IGFBP7 1.1534380 2.344637e-12 1.2542994 4.782721e-12
216 55752 SEPTIN11 0.4851816 1.063820e-02 0.4679387 4.017480e-02
217 79966 SCD5 0.3272269 1.844456e-02 0.4102574 1.906731e-02
218 8404 SPARCL1 2.8087175 1.905333e-14 1.8385528 8.626136e-07
219 6164 RPL34 -0.4329017 1.601551e-04 -0.6035140 4.510339e-04
220 4889 NPY5R -1.5087702 8.027025e-03 -1.6376177 8.603475e-03
221 55714 TENM3 -2.2138623 1.449066e-09 -1.0767567 5.441991e-03
222 10409 BASP1 -0.8340552 2.090980e-02 -0.8739130 7.329230e-03
223 6897 TARS1 0.7890136 2.016526e-03 0.8043556 1.402495e-04
224 689 BTF3 -0.8444687 1.855508e-06 -0.4459926 4.748658e-02
225 22836 RHOBTB3 -0.4838039 4.769316e-04 -0.4630598 8.814686e-03
226 401207 C5orf63 1.6985122 3.646139e-14 1.8987112 1.026370e-17
227 84466 MEGF10 -1.4201656 1.901231e-07 -1.5194971 4.775096e-09
228 9547 CXCL14 1.6189268 2.189710e-09 1.6657979 9.439242e-09
229 56662 VTRNA1-3 6.8055300 1.097430e-02 7.2568102 1.959645e-03
230 81848 SPRY4 -1.5145855 4.034502e-07 -1.1529884 4.816150e-04
231 202374 STK32A 1.6836929 2.536855e-03 2.1266387 1.002760e-06
232 85027 <NA> 1.1232749 3.806986e-05 0.9346778 1.000157e-03
233 10569 SLU7 -0.6878420 1.590930e-02 -0.7179102 5.181694e-03
234 3779 KCNMB1 -1.6471229 2.618520e-02 -2.7077959 3.017350e-03
235 100113407 TMEM170B -1.4196314 7.141358e-04 -1.2076728 1.054004e-02
236 7726 TRIM26 5.8706542 2.415968e-02 6.3924411 6.381110e-03
237 1026 CDKN1A 1.3714055 1.562515e-37 1.1333855 5.810533e-19
238 1915 EEF1A1 -0.6087627 2.446383e-10 -0.7138034 2.001388e-04
239 5570 PKIB 1.3849946 7.563702e-03 1.8809301 1.404530e-07
240 1490 CCN2 -3.0518736 3.059983e-15 -2.9008147 2.393523e-15
241 6624 FSCN1 -0.3265981 1.854946e-02 -0.4506110 8.613338e-03
242 221833 SP8 -1.0011656 2.223689e-06 -0.7832690 2.091401e-04
243 4852 NPY -1.6483751 1.819183e-06 -1.3018714 1.352032e-04
244 3181 HNRNPA2B1 -0.4005258 3.193098e-02 -0.5780810 1.368846e-03
245 9586 CREB5 0.8936772 9.713426e-03 0.7844193 3.565763e-02
246 9865 TRIL -0.9675944 1.594456e-03 -0.7852621 4.176142e-02
247 107 ADCY1 -1.2156447 2.932513e-03 -1.1682966 2.877580e-02
248 2970 GTF2IP1 0.5622302 5.236522e-04 0.5116459 8.635876e-03
249 2791 GNG11 0.7480073 3.497644e-03 0.9998186 2.546048e-03
250 23089 PEG10 0.8827558 4.795695e-10 0.9037230 7.574325e-08
251 1749 DLX5 -2.1536790 1.706705e-05 -1.7130560 3.436082e-03
252 25798 <NA> -0.5524484 1.082603e-05 -0.6486295 8.919168e-06
253 11333 <NA> 0.6446609 1.485309e-03 0.5063778 3.975828e-02
254 5054 SERPINE1 -1.5376214 1.512854e-09 -1.3573869 8.325880e-08
255 7425 VGF 0.9465103 6.958135e-03 0.8113525 2.117367e-02
256 4232 MEST -0.6744520 7.800528e-03 -0.8458414 2.354501e-03
257 26958 COPG2 -2.2304260 2.247738e-04 -1.6123694 2.402438e-02
258 5420 PODXL -0.5721857 2.519022e-03 -0.6268907 4.708311e-03
259 5799 PTPRN2 -0.9268557 9.985470e-08 -0.9405245 2.514684e-04
260 4023 LPL -1.2582515 7.773822e-04 -1.8384670 3.834286e-05
261 4741 NEFM 3.0095868 3.973061e-18 2.2470007 9.724940e-07
262 4747 NEFL 1.5865818 3.491512e-15 1.6747982 3.710007e-14
263 665 BNIP3L -0.7188864 6.475075e-03 -0.7062358 5.350728e-03
264 81551 STMN4 2.6841855 6.874351e-20 2.7015071 5.810533e-19
265 2185 PTK2B 1.6216028 3.574477e-11 1.3509460 4.955018e-06
266 55893 <NA> -1.0583604 3.545108e-04 -0.9710353 4.202729e-03
267 5327 PLAT 0.5622500 9.144476e-04 0.5477463 4.738409e-03
268 6224 RPS20 -0.2514251 4.898070e-02 -0.4470762 2.939269e-03
269 6386 SDCBP -0.6610444 3.873406e-05 -0.5823109 4.753488e-04
270 286183 NKAIN3 0.6304030 1.678079e-02 0.6069123 4.239241e-02
271 79776 ZFHX4 -0.8580157 1.904816e-04 -0.9754281 9.135750e-03
272 11075 STMN2 -5.4518653 9.184294e-03 -7.1246314 1.854458e-03
273 5375 PMP2 -0.8541614 7.408768e-09 -0.5263599 3.662117e-02
274 1666 DECR1 0.6149645 2.161658e-03 0.6789573 2.728435e-02
275 6156 RPL30 -0.4304568 4.502108e-04 -0.5118099 3.229880e-05
276 26986 PABPC1 -0.9318235 6.666927e-23 -0.4246663 2.869663e-03
277 3646 EIF3E -0.8996928 3.831524e-05 -0.5621298 7.433963e-03
278 55638 SYBU 2.5971840 7.922213e-10 1.6174539 2.070713e-02
279 123 PLIN2 0.4829531 1.082883e-02 0.5295214 2.218859e-02
280 6194 RPS6 -0.5083678 4.229489e-06 -0.3805450 3.140998e-02
281 152007 GLIPR2 0.9565742 2.109357e-05 0.8838724 9.420653e-04
282 9568 <NA> 1.8796693 7.588301e-22 1.7156601 2.495274e-13
283 114299 <NA> 2.7099434 2.122430e-02 2.4605050 2.067453e-02
284 114991 ZNF618 -1.5609130 2.353112e-07 -1.0419385 1.052067e-03
285 85301 COL27A1 -0.9741186 4.873700e-08 -0.7987359 7.586876e-04
286 3371 TNC 1.1052895 8.094478e-08 0.8112919 1.891807e-03
287 23245 ASTN2 2.1917557 1.305523e-02 2.4061737 7.202853e-03
288 1620 BRINP1 -5.6782116 4.292098e-07 -2.2762204 3.934795e-02
289 445 ASS1 1.0118493 1.294548e-06 0.6957962 1.369574e-02
290 10439 OLFM1 -1.1428477 2.632653e-02 -2.1790603 2.938566e-03
291 4571 <NA> 0.8904569 4.633292e-04 0.9738771 1.204677e-06
292 6303 <NA> -0.6831722 6.662148e-06 -0.6646103 2.041303e-03
293 8406 SRPX 1.1222889 2.424502e-02 1.1012305 3.082554e-02
294 3476 IGBP1 -0.9228563 2.536855e-03 -0.8690712 1.290846e-03
295 6191 <NA> -0.5594572 1.605964e-07 -0.3573592 3.471283e-02
296 56062 KLHL4 1.1732907 2.683423e-03 1.4676162 4.571160e-06
297 56849 TCEAL7 1.3536698 1.953442e-06 1.4710967 3.728234e-07
298 51186 TCEAL9 1.0009871 2.684026e-20 0.8557534 4.827557e-07
299 5631 PRPS1 1.3766310 2.068477e-05 1.1167823 6.030246e-03
300 10178 TENM1 -1.0166588 1.594456e-03 -1.0612770 3.171332e-02
OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 1.4122371 0.88398103 2.161751 1.064169e-01
02_TSC2_KO_Grabole_2016 2.6174092 2.06395627 3.326171 3.787141e-16
03_TSC2_Grabole-2016 2.6248072 2.02776449 3.423101 4.872073e-15
04_TSC2-tuber-Martin2017 3.5444208 1.47664996 7.341278 2.986753e-03
05_TSC2-SEN_SEGA-Martin2017 2.8103010 2.16714292 3.622678 3.947596e-14
06_all_EpilepsyGene 1.3510605 0.66107574 2.482583 2.876916e-01
07_high_conf_EpilepsyGene 1.4989027 0.39925567 3.979140 3.507142e-01
08_ASD_Epilepsy_EpilepsyGene 1.1904707 0.24050357 3.602881 7.426548e-01
09_Epi25_dataset 0.5378743 0.01341566 3.103601 1.000000e+00
10_SFARI_all 0.9435781 0.30133921 2.258520 1.000000e+00
11_SFARI_score4plus 1.0177388 0.27243686 2.680180 7.995110e-01
12_DeRubeis_RDNV 1.7517066 0.35150628 5.363974 2.544902e-01
13_Iossifov_RDNV 1.2685810 0.67973209 2.184355 3.558253e-01
14_FMRP_Darnell 1.8457920 1.20408971 2.735010 4.597121e-03
15_Voineagu_M12 0.6545800 0.20957896 1.560245 4.545189e-01
16_Voineagu_M16 4.1441637 2.63976567 6.279853 7.084273e-09
17_ID_genes_Neel 1.1407571 0.48358037 2.305845 6.974887e-01
18_ID_genes_pinto2014 1.1610513 0.41829347 2.596473 6.521925e-01
19_Fromer_SCZ_FunDN 1.6455723 0.93712403 2.710946 5.712343e-02
20_Cocchi_Pruning 2.6608085 0.83625535 6.527269 4.713633e-02
Beta SE Padj
01_Swaminathan2018_DEPDC5KO 0.34517503 0.2390279 1.000000e+00
02_TSC2_KO_Grabole_2016 0.96218498 0.1212042 7.574283e-15
03_TSC2_Grabole-2016 0.96500745 0.1316702 9.744146e-14
04_TSC2-tuber-Martin2017 1.26537475 0.4467341 5.973507e-02
05_TSC2-SEN_SEGA-Martin2017 1.03329161 0.1325928 7.895192e-13
06_all_EpilepsyGene 0.30088983 0.3646820 1.000000e+00
07_high_conf_EpilepsyGene 0.40473328 0.6749421 1.000000e+00
08_ASD_Epilepsy_EpilepsyGene 0.17434881 0.8160047 1.000000e+00
09_Epi25_dataset -0.62013038 1.8832665 1.000000e+00
10_SFARI_all -0.05807614 0.5823687 1.000000e+00
11_SFARI_score4plus 0.01758329 0.6724141 1.000000e+00
12_DeRubeis_RDNV 0.56059052 0.8194481 1.000000e+00
13_Iossifov_RDNV 0.23789893 0.3183446 1.000000e+00
14_FMRP_Darnell 0.61290845 0.2179513 9.194242e-02
15_Voineagu_M12 -0.42376150 0.5810680 1.000000e+00
16_Voineagu_M16 1.42170100 0.2301076 1.416855e-07
17_ID_genes_Neel 0.13169214 0.4378724 1.000000e+00
18_ID_genes_pinto2014 0.14932586 0.5208663 1.000000e+00
19_Fromer_SCZ_FunDN 0.49808824 0.2872591 1.000000e+00
20_Cocchi_Pruning 0.97863001 0.5905364 9.427265e-01
getlinmodoutput(targetdiff = "noDIFF",targetrapa = "RAPA", refset = "NTCwRAPA" ) entrezgene genname log2FC_2.1 fdr_2.1 log2FC_2.2 fdr_2.2
1 64856 VWA1 0.8030245 1.460522e-02 0.8573359 2.379033e-02
2 3925 STMN1 -0.5621997 5.931549e-03 -0.6136263 1.933759e-02
3 9077 DIRAS3 1.9834594 3.993096e-17 1.5497197 2.141006e-07
4 64123 ADGRL4 1.8591906 7.536418e-05 1.6588420 3.756279e-03
5 6004 RGS16 1.1260514 1.116405e-06 1.0703477 2.320961e-03
6 149111 CNIH3 1.5152862 4.321969e-05 1.3591838 3.712089e-03
7 642938 INSYN2A 0.8676982 7.698076e-03 1.0093673 3.529990e-03
8 10581 IFITM2 -1.3183795 7.206153e-04 -1.5901730 1.290538e-04
9 4004 LMO1 -2.2592955 1.057398e-04 -2.2842552 1.029016e-08
10 960 CD44 1.4783297 1.242470e-07 1.3181342 5.315257e-05
11 1410 CRYAB 0.6528849 7.686252e-03 0.7095910 3.377235e-03
12 3709 ITPR2 1.4736906 7.945057e-05 1.4792115 6.769939e-04
13 84790 TUBA1C 0.8353178 1.261909e-05 0.7806232 1.222516e-02
14 160335 TMTC2 -0.9795429 8.552302e-03 -1.2761142 4.320227e-03
15 105376684 <NA> -7.3611655 7.343363e-03 -7.2311260 1.744505e-02
16 28526 <NA> 1.8017386 3.332743e-05 1.7352076 2.424211e-04
17 771 CA12 -0.8196275 2.710179e-04 -0.7915473 2.688799e-03
18 57611 ISLR2 -1.4079246 2.358940e-02 -1.3474653 4.246075e-02
19 56963 RGMA 1.1731544 1.258364e-08 1.0455090 3.529990e-03
20 2013 EMP2 -1.0859712 1.194183e-05 -0.7493947 3.566127e-02
21 643911 <NA> 2.7470949 2.482146e-02 2.9738926 4.672450e-03
22 2775 GNAO1 -1.1535874 8.715183e-06 -0.9192826 4.124693e-03
23 55273 TMEM100 6.4811644 1.942508e-06 5.8792099 9.207100e-04
24 11031 RAB31 0.4843884 1.403435e-02 0.5239510 1.724623e-02
25 361 AQP4 0.7596383 2.396159e-03 0.8238998 4.672450e-03
26 1995 ELAVL3 -0.7733073 5.793295e-03 -0.7804627 2.724563e-02
27 348 APOE 1.1037031 5.920378e-05 1.0484969 2.320961e-03
28 79784 MYH14 -3.8513216 3.308529e-07 -2.3025907 2.636260e-02
29 151354 <NA> 0.9477041 2.124582e-05 1.0035972 1.153129e-05
30 10267 RAMP1 1.2201730 9.879553e-07 1.0255545 3.256744e-04
31 1827 RCAN1 0.6685747 9.436088e-03 0.7360705 8.953265e-03
32 1826 DSCAM 1.3460266 7.989576e-03 1.7874228 6.724688e-06
33 2596 GAP43 1.3243424 2.481808e-23 0.9288546 1.029016e-08
34 5947 RBP1 -0.6398179 3.926367e-02 -0.7974155 1.173735e-02
35 440982 <NA> 7.2398808 5.793295e-03 7.5740840 2.320961e-03
36 4071 TM4SF1 1.8426096 6.993979e-07 1.4587178 3.712089e-03
37 3280 HES1 -0.7476753 8.866699e-04 -0.7054720 1.438330e-02
38 3490 IGFBP7 2.0336088 4.414861e-30 2.1344478 4.787056e-29
39 79966 SCD5 0.5729957 1.328968e-03 0.6559705 2.080349e-03
40 8404 SPARCL1 2.6761967 3.326139e-08 1.7055759 5.605707e-03
41 401207 C5orf63 0.6795351 2.813485e-02 0.8797647 1.201939e-03
42 85027 <NA> 0.9774337 2.531243e-03 0.7887911 2.483687e-02
43 1026 CDKN1A 1.0856110 8.078057e-15 0.8475918 1.023411e-06
44 4188 MDFI -0.9871920 4.692325e-02 -1.1913176 2.815769e-02
45 4852 NPY -1.9180616 9.454048e-08 -1.5715347 5.042983e-06
46 23089 PEG10 0.7155489 1.600641e-03 0.7365073 6.201484e-03
47 1749 DLX5 -2.2855033 8.297120e-05 -1.8452078 9.203312e-03
48 25798 <NA> -0.4903052 8.346773e-03 -0.5864822 4.672450e-03
49 5054 SERPINE1 1.9304914 3.332743e-05 2.1117923 1.740549e-06
50 4747 NEFL 1.2018058 1.301402e-05 1.2900633 1.519552e-05
51 2185 PTK2B 1.6732904 4.938218e-11 1.4023571 1.153129e-05
52 5327 PLAT 0.5947832 5.991585e-03 0.5803625 1.933759e-02
53 11075 STMN2 -6.0356503 7.560988e-03 -7.7099259 1.526840e-03
54 2171 FABP5 1.5497408 2.529428e-06 1.0759024 4.506761e-02
55 9568 <NA> 1.7738821 1.205907e-16 1.6094149 1.711089e-09
56 56548 CHST7 1.0834089 4.020573e-04 1.1287904 2.320961e-03
57 5358 PLS3 1.0402234 5.747932e-04 1.3025474 1.023411e-06
58 10178 TENM1 -1.3297755 1.057398e-04 -1.3748241 7.463147e-03
OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 0.8777097 0.17523600 2.712007 1.000000e+00
02_TSC2_KO_Grabole_2016 2.3526365 1.35658314 4.115526 1.290207e-03
03_TSC2_Grabole-2016 2.2684120 1.26932030 4.208189 3.500225e-03
04_TSC2-tuber-Martin2017 6.8474658 1.34970593 21.614783 1.149345e-02
05_TSC2-SEN_SEGA-Martin2017 3.6778309 2.05633663 6.438719 7.633899e-06
06_all_EpilepsyGene 1.9288523 0.38423012 5.982515 2.151638e-01
07_high_conf_EpilepsyGene 1.9325519 0.04771494 11.405736 4.097788e-01
08_ASD_Epilepsy_EpilepsyGene 4.2468457 0.49608257 16.421962 8.619854e-02
09_Epi25_dataset 0.0000000 0.00000000 10.853125 1.000000e+00
10_SFARI_all 3.0654629 0.60914585 9.546760 8.239215e-02
11_SFARI_score4plus 2.7072417 0.31756827 10.389322 1.762594e-01
12_DeRubeis_RDNV 0.0000000 0.00000000 11.411849 1.000000e+00
13_Iossifov_RDNV 0.9199100 0.10843513 3.498929 1.000000e+00
14_FMRP_Darnell 1.9630980 0.68678990 4.589240 1.383517e-01
15_Voineagu_M12 0.0000000 0.00000000 2.557987 4.062768e-01
16_Voineagu_M16 4.6064570 1.60576168 10.826397 3.020582e-03
17_ID_genes_Neel 0.0000000 0.00000000 2.729480 6.482452e-01
18_ID_genes_pinto2014 0.0000000 0.00000000 3.735162 6.281407e-01
19_Fromer_SCZ_FunDN 2.0097658 0.52645246 5.482875 1.520947e-01
20_Cocchi_Pruning 2.6773201 0.06590805 15.920384 3.176479e-01
Beta SE Padj
01_Swaminathan2018_DEPDC5KO -0.13043934 0.8220318 1.000000000
02_TSC2_KO_Grabole_2016 0.85553663 0.2809018 0.025804142
03_TSC2_Grabole-2016 0.81908004 0.2962237 0.070004505
04_TSC2-tuber-Martin2017 1.92387863 0.8285673 0.229869090
05_TSC2-SEN_SEGA-Martin2017 1.30232316 0.2966312 0.000152678
06_all_EpilepsyGene 0.65692514 0.8231830 1.000000000
07_high_conf_EpilepsyGene 0.65884134 1.8884449 1.000000000
08_ASD_Epilepsy_EpilepsyGene 1.44617652 1.0955048 1.000000000
09_Epi25_dataset -Inf NaN 1.000000000
10_SFARI_all 1.12019860 0.8244368 1.000000000
11_SFARI_score4plus 0.99593029 1.0933636 1.000000000
12_DeRubeis_RDNV -Inf NaN 1.000000000
13_Iossifov_RDNV -0.08347946 1.0908795 1.000000000
14_FMRP_Darnell 0.67452385 0.5358422 1.000000000
15_Voineagu_M12 -Inf NaN 1.000000000
16_Voineagu_M16 1.52745901 0.5376841 0.060411632
17_ID_genes_Neel -Inf NaN 1.000000000
18_ID_genes_pinto2014 -Inf NaN 1.000000000
19_Fromer_SCZ_FunDN 0.69801819 0.6834757 1.000000000
20_Cocchi_Pruning 0.98481635 1.8899547 1.000000000
KO effect in DIFF RAPA
D62
getlinmodoutput(targetdiff = "DIFF",targetrapa = "RAPA") entrezgene genname log2FC_2.1 fdr_2.1 log2FC_2.2 fdr_2.2
1 9249 DHRS3 -0.8702049 9.794695e-06 -1.0401296 1.908794e-04
2 10630 PDPN -0.6420981 1.328380e-03 -0.9166837 2.782742e-04
3 126917 IFFO2 -0.7095883 1.328380e-03 -1.0998573 1.808327e-03
4 400745 SH2D5 6.6421948 1.636217e-02 7.6078463 2.379146e-04
5 1889 ECE1 -1.2879425 5.448953e-03 -1.3959975 3.707763e-03
6 2048 EPHB2 -0.8119037 2.074310e-06 -1.1428148 5.146040e-07
7 57134 MAN1C1 -0.6174277 2.778678e-02 -1.1726702 2.003632e-05
8 57190 SELENON -0.8174618 1.048372e-04 -1.0854637 5.790464e-05
9 27245 AHDC1 -0.7011670 4.789158e-02 -1.1058652 3.967818e-03
10 2537 IFI6 -0.9154056 1.733711e-07 -0.9958707 6.209363e-05
11 83667 SESN2 -0.8698284 3.348300e-02 -1.2970142 1.683733e-04
12 1912 PHC2 -0.6629031 2.761389e-02 -0.7101349 3.108137e-02
13 127687 C1orf122 -0.5512172 2.309092e-02 -0.6033709 3.016985e-02
14 84879 MFSD2A 1.5280304 1.535221e-09 2.0551098 6.811424e-17
15 6513 SLC2A1 -0.7119057 2.345858e-02 -0.8277294 2.213270e-02
16 8503 PIK3R3 -0.7119493 4.571128e-02 -1.1458757 3.639720e-03
17 5865 RAB3B 4.5771671 3.571622e-10 5.4144750 1.259123e-04
18 8613 PLPP3 0.5750940 1.442192e-02 0.9404329 1.534580e-04
19 4774 NFIA 0.6128494 2.302822e-03 0.7970079 2.215872e-03
20 79971 WLS 0.9158724 1.021470e-09 1.3217411 8.554430e-11
21 3491 CCN1 1.7166363 1.488136e-23 1.5766023 1.358691e-10
22 23285 <NA> 4.5060199 3.309995e-02 5.0647370 1.606855e-02
23 54874 FNBP1L 0.9193797 4.642875e-02 1.5231530 1.904779e-03
24 9890 PLPPR4 -3.1592433 2.260743e-04 -2.5216635 3.575649e-03
25 127003 CFAP276 1.2241631 5.957958e-03 1.9954874 6.633816e-06
26 1117 CHI3L2 -2.3928183 2.130579e-06 -2.5396234 9.319774e-08
27 7482 WNT2B -1.7703546 4.673293e-03 -2.7979231 9.683555e-07
28 54879 ST7L -1.2524136 3.332666e-03 -1.4958733 6.932722e-03
29 389 RHOC -0.6795066 1.094448e-02 -0.8842241 1.047794e-02
30 476 ATP1A1 -0.8723541 9.694798e-04 -0.8590712 2.055163e-02
31 5738 PTGFRN -0.8139259 4.799805e-03 -1.1677343 8.167610e-05
32 647135 SRGAP2B 1.0715478 6.256772e-03 1.6685860 4.777650e-06
33 6282 S100A11 -0.9719507 3.177550e-06 -1.5945948 7.484662e-11
34 140576 S100A16 -1.0554327 6.375028e-05 -0.9969635 2.319788e-03
35 6284 S100A13 -0.9804621 2.060921e-03 -1.1777575 2.697710e-04
36 63827 BCAN -1.1656406 8.715749e-08 -0.7086598 8.984848e-03
37 93183 PIGM -0.9816928 2.555046e-03 -0.7692141 4.412384e-02
38 50848 F11R -1.1850898 2.305841e-02 -1.7223230 6.574791e-04
39 257177 CFAP126 3.0271157 2.486380e-03 3.9977168 2.446772e-07
40 8490 RGS5 0.9871038 1.899387e-04 1.3713587 1.680433e-07
41 23127 COLGALT2 -0.7333432 9.324603e-03 -0.8582788 3.560033e-03
42 116496 NIBAN1 -1.0446381 1.625792e-02 -1.4691925 2.041723e-03
43 51377 UCHL5 1.5905726 4.556549e-02 1.8141245 3.961369e-02
44 23612 PHLDA3 -0.6288566 4.159805e-02 -0.9118039 1.552424e-02
45 89796 NAV1 0.8887002 5.271256e-03 0.7948131 1.376176e-02
46 134 ADORA1 -1.3185997 4.144645e-03 -1.4114659 5.096005e-03
47 1116 CHI3L1 -2.6115024 1.208695e-02 -2.1674289 2.611588e-02
48 947 CD34 -2.5431290 2.950214e-02 -3.8219667 1.470914e-03
49 50486 <NA> -2.4260288 2.325505e-16 -3.0634207 1.068292e-20
50 7044 LEFTY2 -2.0064246 2.032404e-05 -3.3736191 3.771351e-10
51 56776 FMN2 2.1449606 4.807079e-06 2.1149674 2.037015e-05
52 1316 KLF6 1.1972400 2.196591e-08 1.1330613 1.624593e-04
53 2665 GDI2 3.1800776 3.018173e-02 3.2355077 3.509061e-02
54 7431 VIM 1.0615888 2.932357e-11 0.9328584 1.892918e-07
55 10529 NEBL 1.1141860 2.985345e-04 1.6529758 1.147439e-06
56 22852 ANKRD26 0.9005820 4.181479e-02 1.1633644 9.679134e-03
57 118738 ZNF488 -1.5589308 7.028558e-04 -1.6930972 1.044668e-03
58 8505 PARG 2.2988292 2.298951e-03 2.6818767 9.899451e-04
59 84159 ARID5B 1.4561376 1.818833e-15 1.6019328 7.389890e-10
60 221037 JMJD1C 1.1413654 4.873134e-02 1.4571420 3.007831e-02
61 5660 PSAP -0.5436960 1.899387e-04 -0.5930284 4.436193e-03
62 54541 DDIT4 -1.8999569 1.279542e-18 -1.5617952 1.558459e-10
63 25961 NUDT13 6.8227528 7.120887e-03 6.8823473 7.089486e-03
64 5328 PLAU -1.8051485 1.424238e-07 -2.4161307 3.088200e-15
65 142891 SAMD8 1.2167269 3.807863e-02 1.4376791 7.264359e-03
66 27063 ANKRD1 -2.1195362 4.474603e-05 -2.4006620 1.471437e-04
67 1592 CYP26A1 -4.8596134 6.312146e-11 -2.4281066 4.992770e-04
68 9124 PDLIM1 -0.5229078 5.392838e-03 -1.3111088 1.811159e-10
69 10580 SORBS1 0.8916824 4.398108e-02 1.3113528 2.727619e-03
70 9849 ZNF518A 1.5401151 2.562268e-02 1.7890637 1.468074e-02
71 84171 LOXL4 -1.1962768 3.718183e-02 -2.3242991 5.587152e-06
72 3257 HPS1 -1.1398465 7.811903e-04 -0.9794147 1.688600e-02
73 9748 SLK 1.2409666 7.280947e-03 1.4740585 1.442922e-03
74 120 ADD3 1.0270899 2.295963e-05 1.1101210 1.904779e-03
75 9126 SMC3 0.8299034 3.179656e-02 1.0698870 1.476370e-02
76 3983 ABLIM1 0.8058028 6.818597e-04 0.7933721 2.654188e-02
77 975 CD81 -0.5212097 5.881688e-03 -0.7685199 1.330742e-04
78 283298 OLFML1 -3.1263200 7.831127e-04 -3.0036699 7.665164e-07
79 7003 TEAD1 1.1780833 9.794695e-06 1.6239063 9.020228e-09
80 10418 SPON1 2.1741508 6.755551e-15 2.5590703 1.068292e-20
81 100126784 <NA> -1.4015044 1.901541e-02 -1.4478429 1.853502e-02
82 24147 FJX1 1.1144123 6.120134e-09 0.8760488 1.735644e-04
83 90139 TSPAN18 -1.8384241 4.046303e-04 -2.3054290 7.972248e-06
84 90993 CREB3L1 -1.2735232 6.210652e-03 -1.2936317 1.366194e-02
85 55626 AMBRA1 -0.9927751 4.895349e-02 -1.2127677 3.509061e-02
86 79026 AHNAK 0.8884194 4.878484e-04 1.0278375 5.499695e-04
87 256364 EML3 -1.3784786 2.166718e-02 -1.4281668 1.640363e-02
88 6094 ROM1 -0.9464862 4.359757e-02 -1.8271874 9.460667e-04
89 6520 SLC3A2 -0.6010128 1.136755e-02 -0.8513390 3.004790e-03
90 5920 PLAAT4 -1.5864254 2.077763e-16 -1.6401471 4.845336e-11
91 11145 PLAAT3 -0.7196691 4.056531e-05 -0.7963243 9.134792e-03
92 26472 <NA> -0.9247206 1.650139e-02 -1.2102668 2.526266e-03
93 4054 LTBP3 -0.8540564 2.105743e-03 -1.2806071 3.385228e-04
94 80227 PAAF1 -1.1675713 1.599730e-02 -1.6211909 6.014922e-03
95 871 SERPINH1 -0.4822611 3.565226e-02 -0.9819086 2.716955e-05
96 5058 PAK1 -0.7554188 1.835342e-02 -0.8378435 5.934077e-03
97 60494 CCDC81 2.2805826 4.294546e-02 2.7535993 2.388664e-03
98 120114 FAT3 1.0765492 5.326777e-05 1.6843150 5.489214e-06
99 79659 DYNC2H1 1.1983193 7.500672e-03 1.4897946 4.504253e-03
100 2893 GRIA4 1.5448086 5.843233e-03 2.3573803 3.549778e-06
101 7070 THY1 -1.9515256 8.943879e-06 -1.9971484 2.588397e-05
102 50937 CDON -2.1978705 8.412397e-05 -2.8331210 4.769691e-07
103 84623 KIRREL3 -2.0006115 3.381142e-03 -2.0826278 3.256629e-02
104 334 APLP2 -0.6596621 5.592386e-05 -0.6041049 8.866753e-03
105 65125 WNK1 0.6675285 3.574424e-02 0.8616293 4.456096e-02
106 2597 GAPDH -0.5248687 2.136306e-02 -0.6199905 7.119239e-03
107 7167 TPI1 -1.1268297 3.464276e-05 -1.1051538 2.591956e-04
108 9746 CLSTN3 -1.1395614 5.051479e-03 -1.3509561 1.148789e-03
109 2 A2M 1.3834893 3.889229e-09 1.2866302 2.710622e-05
110 2012 EMP1 1.6013894 8.618402e-05 2.0049140 2.388623e-06
111 11228 RASSF8 1.3770183 2.991154e-02 1.5437649 1.195964e-02
112 636 BICD1 0.7723611 4.502745e-02 0.9248198 3.104741e-02
113 440097 DBX2 4.1236720 2.761389e-02 4.2129865 1.783039e-02
114 1280 COL2A1 3.9736137 2.121007e-03 4.0362936 2.637820e-04
115 51474 LIMA1 1.3522772 3.141070e-10 1.3088797 1.029063e-04
116 3164 NR4A1 2.3621346 3.107017e-03 2.5075572 1.471107e-03
117 3489 <NA> -3.1684362 9.884164e-35 -3.6650546 5.021148e-35
118 3679 ITGA7 -0.7720557 3.551682e-02 -0.7646140 3.652514e-02
119 1606 DGKA -1.1418467 2.520844e-03 -2.0640839 6.920572e-07
120 6866 TAC3 -4.4018343 9.008210e-05 -2.2010970 5.337774e-05
121 1019 CDK4 -0.8535941 1.868937e-02 -0.7184192 2.076911e-02
122 10576 CCT2 0.5185069 2.504219e-02 0.7208397 5.157943e-03
123 6857 SYT1 1.3579287 1.590906e-04 1.5130491 2.820452e-05
124 160335 TMTC2 -1.2322975 2.485890e-02 -1.4552058 4.724671e-03
125 84125 LRRIQ1 1.6190068 1.882625e-02 2.1757057 2.192423e-03
126 80184 CEP290 1.3954645 6.795816e-04 1.3688197 1.084185e-02
127 1848 DUSP6 1.2880900 4.095711e-07 1.3562059 3.285592e-05
128 429 <NA> -1.2001440 2.092578e-02 -1.5098689 1.537816e-03
129 51559 NT5DC3 -1.3971847 1.319610e-02 -2.4564489 8.004114e-05
130 4938 OAS1 -6.0655526 3.961964e-05 -4.3761550 7.202309e-04
131 9921 RNF10 -0.6753467 1.710313e-03 -0.6977640 1.657455e-02
132 9612 NCOR2 -0.7709235 2.448638e-04 -1.0968871 1.174579e-04
133 53342 IL17D 1.4271867 3.117730e-02 1.4868968 3.660421e-02
134 26524 LATS2 1.9738166 2.631665e-12 2.1051688 1.177164e-11
135 55213 RCBTB1 2.4026672 4.745192e-02 2.5534468 3.778203e-02
136 10150 MBNL2 1.1988580 8.025352e-07 1.0849575 6.803360e-04
137 1948 EFNB2 0.8930437 1.142266e-04 1.0379934 2.191155e-04
138 1284 COL4A2 -0.7522418 7.234623e-06 -0.8132902 1.934513e-03
139 9985 REC8 -0.8811120 3.790527e-05 -0.9146541 5.019194e-04
140 54813 KLHL28 1.5878165 4.359757e-02 1.8279565 1.957397e-02
141 10979 FERMT2 0.8668750 2.009076e-05 0.8587077 5.216472e-04
142 652 BMP4 5.2239530 1.034773e-06 4.5812032 3.787086e-04
143 57161 PELI2 1.0098966 1.279683e-02 1.8089457 1.415149e-04
144 5015 OTX2 -4.1724443 6.014753e-04 -7.7513998 6.780151e-06
145 3306 HSPA2 1.1031974 3.816204e-02 1.7831662 9.821393e-06
146 87 ACTN1 -0.4715602 3.230139e-03 -0.6530761 7.189627e-03
147 89932 PAPLN -2.0434982 3.788123e-03 -2.4396537 1.240604e-03
148 91748 MIDEAS 1.8437688 2.596062e-04 1.4097996 3.078606e-02
149 91750 LIN52 7.3586806 7.558117e-04 6.7929895 3.676167e-02
150 7043 TGFB3 -2.3806142 3.579420e-04 -1.6424905 1.573491e-03
151 1734 DIO2 -2.8787481 3.934404e-03 -2.8579185 2.733301e-04
152 10516 FBLN5 2.1203131 2.339444e-21 2.6672653 1.068292e-20
153 4707 NDUFB1 -0.6371749 1.613544e-02 -0.6880549 3.741672e-03
154 90050 FAM181A 0.7026767 3.257981e-02 0.8317661 1.463922e-02
155 83982 <NA> -0.7858180 3.788123e-03 -0.9554009 8.663085e-03
156 12 SERPINA3 -1.0928097 5.435726e-07 -2.1659703 5.383703e-08
157 317762 <NA> -1.1415379 1.960104e-04 -0.9268366 2.085976e-02
158 7453 WARS1 -1.1137925 7.403891e-03 -1.1877257 3.840242e-04
159 1778 <NA> -0.8599978 3.644681e-05 -0.7127652 1.666965e-02
160 23186 <NA> 1.5421005 3.312328e-02 1.7881154 8.984848e-03
161 7127 TNFAIP2 -2.0371750 1.086495e-23 -2.2230001 2.531007e-10
162 7057 THBS1 1.7083931 2.189633e-03 2.4116586 5.357471e-06
163 2628 GATM 1.6305164 6.988424e-10 1.7248976 2.529714e-09
164 80031 SEMA6D 0.9025637 4.007236e-02 1.1477096 1.054213e-02
165 55329 MNS1 1.0871432 2.213310e-02 1.3100351 2.385152e-02
166 51495 HACD3 0.6985591 1.459480e-03 0.7733559 2.137496e-02
167 5315 PKM -1.0650906 6.410302e-11 -1.4937767 7.643068e-14
168 80381 CD276 -1.0479212 6.731425e-05 -1.3305282 6.040921e-05
169 4016 <NA> -1.1951972 5.642609e-10 -2.1437608 7.617542e-11
170 64220 STRA6 -1.5558629 1.022286e-08 -2.0378849 6.066252e-12
171 55272 IMP3 -1.1975167 1.407190e-04 -0.8758051 1.843729e-02
172 49855 SCAPER 1.2631768 2.255850e-02 1.4056129 1.565269e-03
173 1512 CTSH -1.3914988 9.906341e-04 -1.8041644 1.989209e-03
174 64782 AEN -0.7877903 2.899926e-02 -1.0936403 7.484975e-03
175 56963 RGMA -0.9149298 3.998689e-04 -1.3495988 1.632725e-08
176 18 ABAT 0.6707712 2.489975e-02 0.9341745 1.155951e-03
177 2903 GRIN2A 2.7357003 1.585718e-05 2.5921878 2.355363e-04
178 2013 EMP2 0.8598325 1.422745e-02 1.6100264 3.292616e-08
179 26471 NUPR1 -1.4791543 1.934933e-04 -1.5364080 4.009143e-02
180 27324 TOX3 -0.8199818 1.147411e-03 -0.9382922 4.351330e-03
181 54947 LPCAT2 1.2308899 2.758666e-02 1.2647993 3.027623e-02
182 4502 <NA> -0.8447907 1.111632e-05 -0.7476092 1.124292e-02
183 4498 MT1JP 4.9581335 2.520844e-03 5.0603883 2.388664e-03
184 6236 RRAD -1.4864441 1.438928e-06 -1.6488085 2.342924e-04
185 10204 NUTF2 -0.6198159 3.725852e-02 -0.7917682 1.237731e-02
186 5699 <NA> -1.1418958 1.319610e-02 -1.0338106 2.336391e-02
187 6560 SLC12A4 -0.8375102 2.808440e-02 -1.2495190 1.618789e-03
188 54921 CHTF8 -0.8281115 4.812666e-02 -0.9228884 4.653449e-02
189 497190 CLEC18B -1.8130441 3.442171e-04 -1.5604160 8.663085e-03
190 57687 <NA> 1.2538154 6.312146e-11 1.3033702 1.342139e-07
191 4094 MAF 0.9101083 1.475176e-02 1.5246996 8.004114e-05
192 54758 KLHDC4 -1.8537784 3.582707e-02 -1.9647262 3.778203e-02
193 8140 SLC7A5 -0.7394130 1.181188e-03 -1.5340156 1.559598e-12
194 79007 DBNDD1 -2.0251699 5.263677e-08 -1.7206308 7.979702e-05
195 1107 CHD3 -1.1390686 4.908692e-03 -1.0562523 3.467720e-03
196 9423 NTN1 -0.7862733 3.658209e-03 -0.8149528 2.312917e-02
197 5376 PMP22 0.6967419 3.417416e-03 1.0885869 1.085864e-04
198 4642 MYO1D 6.4094460 4.045680e-02 7.1055708 2.424094e-03
199 124842 TMEM132E -3.1037068 7.029061e-17 -3.2230094 2.966224e-02
200 60681 FKBP10 -0.9052788 8.382146e-06 -1.2543964 4.746007e-06
201 4836 <NA> -0.6023684 3.380518e-02 -0.9041986 2.130740e-02
202 113026 PLCD3 -0.7450877 3.417416e-03 -0.8652446 5.923701e-03
203 55073 <NA> 3.4669716 5.421452e-03 3.3104655 3.014578e-02
204 55163 PNPO -1.1046242 2.060921e-03 -1.2146003 2.741049e-02
205 4804 NGFR -1.3065387 6.110275e-03 -1.2489577 4.207207e-02
206 1655 DDX5 0.4717216 4.846293e-02 0.6097198 3.556703e-02
207 3759 KCNJ2 1.9727944 1.468127e-02 2.7100478 8.004114e-05
208 6662 SOX9 0.6457921 3.502880e-02 1.1646511 1.925466e-03
209 2232 FDXR -1.2120535 8.486818e-03 -1.8688867 3.757563e-05
210 51155 JPT1 -0.5536597 1.488710e-02 -0.7414208 6.932722e-03
211 91107 TRIM47 -2.0017119 1.075934e-10 -2.3827524 3.446834e-08
212 284184 NDUFAF8 -0.6706425 1.598148e-03 -0.8440136 8.203951e-04
213 348262 MCRIP1 -0.7523709 4.465562e-02 -1.0446589 1.688600e-02
214 5034 P4HB -0.4543854 2.142260e-02 -0.5078332 4.207207e-02
215 2194 FASN -0.7235800 1.515178e-02 -0.9360883 1.242792e-02
216 114876 OSBPL1A 1.3057841 2.104057e-06 1.5147002 9.821393e-06
217 361 AQP4 1.0557538 2.520844e-03 1.8390826 3.459074e-05
218 4645 MYO5B -1.4080417 2.652893e-02 -1.8051401 3.761031e-03
219 5596 MAPK4 2.3332187 2.443723e-04 2.6647468 4.371215e-07
220 23239 PHLPP1 0.8908202 3.012397e-04 1.2308454 8.577989e-07
221 596 BCL2 1.3281477 3.874023e-02 1.7517641 2.702571e-04
222 10272 <NA> -1.3480049 1.332733e-03 -1.5364226 6.616941e-04
223 10975 UQCR11 -0.4736007 2.662868e-02 -0.7172415 2.358518e-02
224 2872 MKNK2 -0.7362165 6.709186e-03 -1.0370836 9.246743e-04
225 4616 GADD45B 1.1974882 1.680947e-04 1.0593744 2.957840e-02
226 91039 DPP9 -1.4129726 3.788123e-03 -1.5745440 1.997669e-02
227 126328 NDUFA11 -0.6662896 6.487686e-03 -0.7165509 1.102890e-02
228 1264 CNN1 -1.0302346 1.249444e-04 -1.5088944 6.861112e-07
229 54858 PGPEP1 -1.1297057 1.742422e-04 -0.7930293 3.207166e-02
230 1054 CEBPG 1.7212404 1.399782e-02 1.9076082 2.737070e-03
231 826 CAPNS1 -0.7145712 7.969899e-03 -1.0190790 8.881903e-03
232 7538 ZFP36 2.7061502 1.417965e-07 1.9880521 8.007645e-03
233 126299 <NA> -0.5164540 2.950214e-02 -0.6152886 4.279761e-02
234 602 BCL3 -0.7562378 1.619694e-02 -1.3403036 4.705297e-04
235 27113 BBC3 -0.8478769 1.155051e-04 -1.2765873 2.010192e-08
236 51171 HSD17B14 -1.9347867 4.730163e-03 -2.2523362 1.515824e-03
237 581 BAX -1.1654632 7.626497e-07 -1.0925439 7.493213e-05
238 2109 ETFB -0.9106383 5.326777e-05 -0.9558306 5.797112e-03
239 84787 KMT5C -2.0110488 2.390716e-03 -1.3856015 3.824844e-02
240 9741 LAPTM4A -0.5104741 2.345858e-02 -0.8891868 5.337774e-05
241 6382 SDC1 -1.9426375 4.652286e-03 -2.7204541 4.015322e-04
242 5500 PPP1CB -0.5705857 2.790987e-03 -1.0125722 1.703389e-04
243 81606 LBH 1.1963265 1.735848e-03 1.1103523 1.590201e-02
244 51232 CRIM1 1.0857103 1.057254e-05 1.3469841 6.938661e-05
245 618 BCYRN1 -1.1601381 9.081175e-05 -1.1613696 7.819963e-06
246 6711 SPTBN1 0.6343670 2.060604e-02 0.8131394 3.613945e-03
247 55704 CCDC88A 0.6293154 4.667836e-02 0.8803134 2.015144e-02
248 400986 ANKRD36C 0.9929078 2.758666e-02 1.0779072 3.204514e-02
249 9486 CHST10 -0.9986909 5.914655e-04 -0.9125609 2.581052e-04
250 84417 ECRG4 1.0447776 1.017080e-02 1.1899241 1.140768e-02
251 3625 <NA> -0.9333406 6.110275e-03 -1.6182067 4.316925e-06
252 2995 GYPC -1.7890666 1.147888e-02 -1.5761938 1.546050e-02
253 56475 RPRM 4.3557549 9.194609e-08 4.7505184 9.777715e-10
254 129881 CFAP210 2.4441067 2.404514e-04 2.4975404 1.149701e-03
255 6741 SSB 1.0786495 2.929416e-03 1.0547010 4.889999e-03
256 1123 CHN1 0.6380941 3.012397e-04 0.9383991 2.164894e-03
257 151246 SGO2 1.9823543 4.571128e-02 1.9011537 4.412384e-02
258 10152 ABI2 0.9004568 4.318369e-04 1.0801353 6.525642e-05
259 8609 KLF7 1.3561272 5.532541e-09 1.1691658 5.337774e-05
260 10314 LANCL1 1.7968983 1.529627e-04 1.5778927 3.967121e-03
261 2066 ERBB4 2.4737815 1.139811e-03 3.7510411 1.559598e-12
262 79582 SPAG16 0.6637017 4.255476e-02 0.8716435 3.661282e-03
263 3485 IGFBP2 -0.7785655 1.469109e-06 -0.8160109 1.066367e-02
264 3488 IGFBP5 -2.1399895 3.375354e-18 -2.2227097 4.196115e-14
265 5270 SERPINE2 -0.9375060 3.932808e-04 -0.7998009 2.723773e-02
266 3667 IRS1 1.2564193 1.613544e-02 1.3555660 1.161353e-02
267 92737 DNER 0.7296541 4.812564e-02 0.9400442 1.042755e-02
268 257407 C2orf72 1.6671501 5.102206e-03 1.9973846 1.250540e-04
269 3769 KCNJ13 2.6497393 1.223317e-03 3.3353468 1.119341e-06
270 2817 GPC1 -1.1264015 1.592620e-05 -0.9542791 2.424094e-03
271 4826 NNAT 2.7092363 1.981545e-08 3.2211410 4.568973e-11
272 84969 TOX2 -1.1107046 1.867304e-02 -1.6088850 1.333148e-02
273 55959 SULF2 -1.7097237 9.432701e-04 -2.0593723 2.754289e-03
274 655 BMP7 0.6516863 2.345858e-02 0.8062005 1.037066e-02
275 56937 PMEPA1 -0.7185488 4.427389e-04 -0.7973414 5.640513e-03
276 11047 ADRM1 -0.8361599 1.042566e-02 -1.0552800 1.143328e-03
277 140578 CHODL 1.5178684 3.765851e-05 1.6072225 2.116851e-05
278 10600 USP16 1.1221561 1.822845e-03 1.1420910 1.481960e-02
279 1827 RCAN1 1.1034291 1.388433e-08 1.3209653 7.276523e-10
280 7267 TTC3 0.5353325 3.730806e-02 0.7616492 1.911044e-02
281 5211 PFKL -0.8550956 8.824446e-03 -1.0213064 3.779815e-02
282 51586 MED15 -0.7463114 2.991154e-02 -0.7216400 4.343222e-02
283 6948 TCN2 -1.8365276 9.348294e-03 -1.8121841 2.914156e-04
284 7078 TIMP3 0.7308883 1.832688e-02 1.2375753 3.285592e-05
285 8542 APOL1 -3.6489390 1.529627e-04 -3.9693213 6.526148e-05
286 114904 C1QTNF6 -1.1670092 3.940409e-02 -1.2996292 1.390113e-02
287 23616 SH3BP1 -1.4965495 4.654776e-03 -2.8340251 4.746007e-06
288 11078 TRIOBP -0.4607248 3.710617e-02 -0.7691425 6.964023e-03
289 27350 APOBEC3C -2.7579760 4.807079e-06 -2.5020867 9.509294e-05
290 2847 MCHR1 -2.9047919 8.531027e-04 -3.0086149 1.168141e-03
291 2917 GRM7 6.8558864 9.504412e-03 7.2009222 2.874746e-03
292 100505641 FGD5-AS1 0.7406840 2.692463e-02 0.8929744 3.154993e-02
293 25907 TMEM158 -1.2392679 7.283377e-05 -1.2408605 2.786605e-04
294 79442 LRRC2 4.8032430 7.562671e-04 5.0152818 1.250080e-04
295 51246 SHISA5 -0.9021016 1.958157e-03 -0.9289792 6.641636e-04
296 57060 PCBP4 -1.0918143 1.277098e-02 -1.2812909 5.923701e-03
297 11344 <NA> -0.8035449 6.297992e-03 -1.2698839 1.082406e-04
298 7086 TKT -0.9438676 2.130579e-06 -1.4724809 1.953998e-07
299 55079 FEZF2 -1.3819673 2.673481e-03 -1.3649965 9.117715e-04
300 23429 RYBP 1.1986580 1.731990e-02 1.3075760 9.873759e-03
301 253559 CADM2 1.6130357 2.521553e-03 2.0703621 1.683733e-04
302 56650 CLDND1 1.1424184 1.399319e-03 1.2241964 3.466028e-03
303 961 CD47 0.7496940 2.373138e-03 0.6692668 3.207166e-02
304 55081 <NA> 1.0677831 5.500106e-03 1.1381152 1.295695e-03
305 151887 CCDC80 0.6897242 7.479143e-03 0.8284530 3.603351e-04
306 2596 GAP43 -0.5860822 3.465204e-03 -0.6833783 6.643199e-03
307 54437 SEMA5B -0.6221855 1.882625e-02 -0.8301337 3.190479e-02
308 79858 NEK11 1.5590867 3.444604e-02 2.4213715 1.760994e-06
309 7018 TF -1.8927271 1.818833e-15 -1.0115731 6.828350e-04
310 51421 AMOTL2 1.2107443 6.806849e-04 1.4062631 1.646695e-04
311 5947 RBP1 -1.5865579 2.015005e-26 -1.2966017 1.225898e-07
312 5806 PTX3 1.8462867 7.199573e-06 2.0405618 6.343051e-09
313 10417 SPON2 -3.3609289 3.532954e-06 -3.7237338 1.118777e-07
314 57537 SORCS2 -0.9762227 3.486187e-02 -1.4798215 7.583063e-04
315 85460 ZNF518B 1.8047082 4.183023e-03 1.7601318 4.889999e-03
316 259282 BOD1L1 0.5201945 4.759144e-02 0.7616620 2.566650e-02
317 22998 LIMCH1 0.5964996 9.906341e-04 0.6136851 2.601096e-02
318 9508 ADAMTS3 1.5668308 2.722280e-02 1.8080564 1.307750e-02
319 79960 JADE1 1.2561816 4.257289e-03 1.0557625 3.961369e-02
320 57575 PCDH10 1.4842430 2.442048e-04 1.8355075 2.065426e-05
321 80854 SETD7 -0.8185458 4.900421e-02 -1.4305901 3.629990e-04
322 2549 GAB1 0.8933994 9.968826e-03 1.1763303 5.336430e-03
323 5188 <NA> -0.9696811 1.128238e-02 -0.8148340 2.601096e-02
324 6307 MSMO1 0.8202208 3.063575e-03 0.9904135 4.008274e-04
325 23022 PALLD 0.8203477 3.343707e-03 0.6517112 4.026703e-02
326 3148 HMGB2 1.3902300 9.358605e-04 1.4964408 3.466028e-03
327 80014 WWC2 1.5077252 5.569873e-03 1.6337916 4.705297e-04
328 8470 SORBS2 0.7774946 3.028106e-04 0.6294174 2.385152e-02
329 2195 FAT1 0.8131067 5.051479e-03 1.3978566 2.702571e-04
330 23379 ICE1 1.0853409 3.117730e-02 1.3296719 3.778203e-02
331 134121 <NA> 1.5327179 9.651516e-03 2.3053458 8.702439e-07
332 3157 HMGCS1 0.7391885 2.673481e-03 1.0037165 2.526266e-03
333 55914 ERBIN 0.8272980 1.835342e-02 1.4538577 3.718866e-04
334 3156 HMGCR 0.9055108 8.346949e-03 1.0600570 1.134561e-02
335 133746 JMY 0.9081683 2.177853e-02 1.1422575 7.616687e-03
336 7060 THBS4 2.3443647 6.885590e-06 2.3302850 6.274778e-04
337 7025 <NA> -0.8066261 6.795816e-04 -0.9269345 2.192423e-03
338 1105 CHD1 1.2242602 1.189098e-02 1.6028340 4.419966e-03
339 1946 EFNA5 2.4408090 3.090004e-05 2.4804390 6.648397e-05
340 324 APC 1.0410874 1.111810e-03 1.5315701 2.297585e-04
341 1456 CSNK1G3 1.4732785 7.318522e-03 1.8832219 2.430956e-03
342 57507 ZNF608 1.1772239 4.419816e-02 1.2535980 1.077182e-02
343 401207 C5orf63 -0.7152955 1.241150e-02 -0.9131935 2.192423e-03
344 84466 MEGF10 1.8092252 3.544644e-06 1.1733286 3.522841e-02
345 8572 PDLIM4 -0.8042731 2.592049e-02 -1.0260482 1.295695e-03
346 27089 UQCRQ -0.5361123 3.637772e-03 -0.6639010 3.420727e-02
347 9547 CXCL14 -1.8687526 1.770465e-32 -2.5656011 1.495936e-39
348 6695 SPOCK1 -1.6682759 7.720578e-06 -2.7112224 2.012757e-12
349 1958 EGR1 2.4598152 1.795437e-04 2.5466942 5.669999e-04
350 51247 PAIP2 0.8721594 5.841692e-04 0.8662296 1.326221e-02
351 1809 DPYSL3 -0.9696835 8.589897e-08 -0.9035729 1.338876e-05
352 11346 SYNPO -1.5238124 1.211177e-09 -1.7570515 3.664102e-08
353 55568 GALNT10 0.7896552 5.448953e-03 0.7079355 3.116160e-02
354 26999 CYFIP2 -0.7511372 6.961383e-03 -0.7315871 3.358754e-02
355 9232 PTTG1 -0.9989437 4.952622e-03 -0.9646327 5.266939e-03
356 23286 WWC1 0.8085005 1.452971e-02 1.0887096 4.705297e-04
357 1843 DUSP1 2.5268616 3.718090e-03 2.5402099 3.307831e-03
358 8614 STC2 -1.8578146 4.206285e-04 -1.8523512 2.637820e-04
359 84851 TRIM52 6.3617317 4.417802e-03 6.9732875 4.166404e-04
360 221749 PXDC1 0.9011447 7.283377e-05 1.1085754 1.077860e-04
361 4739 NEDD9 1.2738068 9.794695e-06 1.0696236 3.707999e-03
362 84830 ADTRP 1.6656204 1.378988e-02 2.3137138 1.161371e-05
363 3400 <NA> 1.5750061 1.104334e-15 1.5869603 3.771351e-10
364 10537 UBD -2.0873239 7.455735e-08 -2.8005498 6.241412e-09
365 3105 HLA-A -1.5239966 4.838244e-06 -0.9968184 2.108854e-02
366 3106 HLA-B -1.0357628 8.563055e-07 -1.0585646 8.852170e-04
367 6892 TAPBP -0.8871305 4.199675e-05 -1.0759009 2.204245e-04
368 1026 CDKN1A -0.8316808 8.384613e-08 -1.5054481 9.779892e-15
369 2739 GLO1 0.6928464 3.131227e-02 0.7675737 4.451486e-02
370 4188 MDFI -2.2086189 2.257366e-09 -1.7774680 5.591040e-05
371 5429 POLH -1.1784592 4.417802e-03 -1.1081187 9.804193e-03
372 667 DST 1.2629742 1.424238e-07 1.9534245 4.726491e-02
373 79940 LINC00472 1.4444928 3.865318e-02 2.8962830 3.076670e-07
374 1915 EEF1A1 0.6271181 2.887853e-03 0.6368240 4.653449e-02
375 100133941 CD24 1.1934937 1.144762e-06 1.3240155 1.981373e-07
376 285755 PPIL6 1.8827377 8.169943e-03 2.0478083 2.310070e-03
377 3910 LAMA4 0.7188565 3.874023e-02 0.8198526 4.916032e-02
378 2697 GJA1 1.3765753 7.105437e-23 1.4624145 1.582151e-14
379 154214 RNF217 2.4102950 1.268124e-05 2.1900125 1.007178e-03
380 1490 CCN2 2.2575437 1.770465e-32 2.0256712 1.068292e-20
381 51696 <NA> 2.3673205 1.842907e-02 2.2035454 4.158057e-02
382 6648 SOD2 -0.7015835 7.479143e-03 -0.8804546 7.841559e-03
383 168090 C6orf118 6.2591937 3.551133e-04 7.0656738 2.275590e-06
384 2115 ETV1 1.3607620 2.074310e-06 1.5885440 8.567961e-12
385 6424 SFRP4 -1.0873687 1.224412e-10 -1.6506217 3.349551e-14
386 10652 YKT6 -0.6105490 3.925318e-02 -0.7509839 2.808502e-02
387 3486 IGFBP3 1.9252602 8.715749e-08 1.5836464 2.355363e-04
388 51119 SBDS 1.1784616 5.957958e-03 1.0523699 3.961369e-02
389 64409 GALNT17 -1.1073150 3.644681e-05 -1.8657379 2.178280e-08
390 155370 SBDSP1 1.7221992 1.636217e-02 1.5972194 4.067875e-02
391 3984 LIMK1 -0.7406690 4.299917e-02 -1.4173691 3.193715e-04
392 9988 DMTF1 2.7844122 1.402480e-02 3.2086119 9.702197e-04
393 1021 CDK6 0.7718891 4.359757e-02 1.1586428 1.755742e-02
394 7980 TFPI2 0.8418426 5.914655e-04 1.0491806 7.493213e-05
395 2791 GNG11 0.8358781 1.628460e-02 0.8496367 2.966224e-02
396 222865 TMEM130 -2.3271890 8.320523e-04 -2.1581089 1.783039e-02
397 10095 ARPC1B -1.1716736 2.673919e-03 -1.0093216 1.085725e-02
398 79690 GAL3ST4 -1.5038820 4.590741e-05 -1.3642001 1.126403e-03
399 5054 SERPINE1 1.9484639 4.805049e-07 1.5218928 1.995334e-03
400 1174 AP1S1 -0.8686414 3.245913e-02 -1.0947152 4.889999e-03
401 136227 COL26A1 0.9856836 1.613544e-02 1.2308276 3.746490e-03
402 10234 LRRC17 -2.8352184 2.959956e-02 -5.0413958 3.788070e-09
403 50640 PNPLA8 1.7965209 5.004492e-03 1.6304588 2.346602e-02
404 858 CAV2 -1.4532955 4.417802e-03 -2.0232878 1.218165e-03
405 2861 GPR37 2.9270589 2.608155e-12 3.3869762 4.153477e-14
406 7328 UBE2H -0.4539210 2.866134e-02 -0.7003310 3.238744e-03
407 4708 <NA> -0.7818392 2.026161e-03 -0.8137652 1.922160e-02
408 26047 CNTNAP2 -2.9235371 3.690939e-04 -2.7690271 3.811547e-03
409 155066 ATP6V0E2 -0.6425637 1.021301e-02 -1.0316768 5.966463e-05
410 51667 NUB1 1.2120480 2.190974e-02 1.4286863 2.490482e-02
411 349136 WDR86 -0.6793698 1.094448e-02 -0.8780693 9.830944e-03
412 10395 DLC1 1.7700732 1.230399e-10 1.5814496 2.266267e-07
413 57509 MTUS1 1.3279827 3.971037e-02 1.7515064 2.029801e-03
414 5108 PCM1 0.6296563 2.613782e-02 1.0944067 3.718866e-04
415 4747 NEFL -2.4697340 3.858818e-07 -2.4268546 2.427204e-06
416 1808 DPYSL2 0.8712415 1.424238e-07 0.9222317 5.410490e-06
417 81551 STMN4 -2.1760474 5.188815e-11 -2.5255769 3.088200e-15
418 80139 ZNF703 -1.6318203 1.459480e-03 -1.9408008 1.530981e-04
419 80223 RAB11FIP1 -1.8514669 1.883047e-04 -2.1552343 6.945104e-04
420 5327 PLAT -0.9426855 9.155802e-05 -1.2287574 6.636739e-06
421 9821 RB1CC1 1.6078703 4.349835e-06 1.3805131 1.902604e-02
422 286183 NKAIN3 -0.9164839 1.569422e-05 -0.9003674 1.843729e-02
423 8836 GGH -0.8820527 5.055733e-04 -1.3403599 1.751109e-04
424 83690 CRISPLD1 1.5438934 1.386708e-16 1.0629238 5.790464e-05
425 51101 <NA> 0.9197911 4.087158e-02 1.0266947 4.685597e-02
426 6383 SDC2 1.0676893 2.679821e-07 0.9792857 2.023716e-04
427 25897 RNF19A 1.1085351 8.624300e-03 1.3082186 1.528592e-02
428 114907 FBXO32 0.8178647 3.430723e-07 0.5884895 4.679822e-02
429 157638 LRATD2 0.8171015 2.592411e-03 0.7465006 1.859717e-02
430 10655 DMRT2 -7.3194679 1.427260e-03 -4.9765653 2.628093e-02
431 8777 MPDZ 0.9438101 3.487332e-02 1.3112202 5.732331e-04
432 11168 PSIP1 0.8441563 1.417117e-03 1.0080687 3.467720e-03
433 92949 ADAMTSL1 -2.4743892 2.404514e-04 -2.5083493 1.480496e-03
434 1029 CDKN2A -1.0698981 2.693797e-03 -1.0809118 5.318513e-03
435 2683 B4GALT1 -0.8050145 1.786092e-02 -1.5559157 1.731370e-05
436 23137 <NA> 0.8680319 2.565594e-02 1.0374083 4.283932e-02
437 687 KLF9 1.3492087 2.007537e-07 1.5378853 5.096218e-07
438 5727 PTCH1 1.9853072 5.970156e-03 1.9617776 5.954834e-03
439 8013 NR4A3 2.4904087 6.908980e-06 3.1746652 1.196718e-09
440 54566 EPB41L4B 1.8852877 4.469557e-05 1.8231148 8.637070e-05
441 401548 <NA> 2.9447858 7.197629e-03 2.6829839 3.424548e-02
442 5998 RGS3 -0.5840860 4.877383e-02 -0.7715307 1.638896e-02
443 399665 <NA> -0.7378701 1.847333e-02 -0.7969264 2.473596e-02
444 80142 PTGES2 -1.1690185 4.957142e-02 -1.3531726 1.243737e-02
445 5524 PTPA -0.7293439 3.510046e-02 -0.9508710 1.700948e-03
446 389792 IER5L -0.7284427 9.413223e-03 -1.1608257 1.250080e-04
447 84814 <NA> -6.8009388 3.832155e-02 -6.7539332 4.025168e-02
448 1289 COL5A1 -1.8804761 3.712439e-07 -2.0532414 6.814519e-05
449 29085 PHPT1 -0.7767434 3.563725e-03 -0.6540889 3.522841e-02
450 5730 PTGDS -1.5236081 2.334225e-07 -1.4155954 3.718866e-04
451 4571 <NA> -1.2077125 1.926212e-03 -1.1240600 1.905700e-03
452 1756 DMD 0.8880564 9.122453e-03 1.4276635 3.041793e-04
453 83604 TMEM47 1.7104306 6.312146e-11 1.8614711 1.606743e-09
454 7317 UBA1 -0.5390180 2.867141e-02 -0.7015361 1.485338e-02
455 5127 CDK16 -0.8688021 6.334141e-03 -0.8488377 3.241757e-02
456 83692 CD99L2 -0.8252556 4.595109e-03 -0.7957799 1.366194e-02
457 1069 CETN2 0.5259222 2.712703e-02 0.8316609 2.042964e-04
458 633 BGN -1.4153441 1.019612e-02 -2.3268395 8.242040e-07
459 537 ATP6AP1 -1.1433512 8.346232e-05 -0.9590374 4.786404e-02
OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 1.4756215 1.021464590 2.078115 3.274835e-02
02_TSC2_KO_Grabole_2016 1.6641362 1.373571755 2.014742 1.359647e-07
03_TSC2_Grabole-2016 1.8316335 1.504188246 2.236420 5.229449e-10
04_TSC2-tuber-Martin2017 4.2722382 2.233978893 7.593020 1.934504e-05
05_TSC2-SEN_SEGA-Martin2017 1.9827408 1.578703793 2.474985 6.044251e-09
06_all_EpilepsyGene 1.2843779 0.719840991 2.138225 3.102380e-01
07_high_conf_EpilepsyGene 1.4764095 0.528256524 3.335901 3.120259e-01
08_ASD_Epilepsy_EpilepsyGene 1.5847430 0.566201243 3.588209 2.885074e-01
09_Epi25_dataset 1.0713602 0.215628905 3.264358 7.598994e-01
10_SFARI_all 1.9413348 1.059688145 3.305647 1.853638e-02
11_SFARI_score4plus 1.7164023 0.802849809 3.264524 9.565232e-02
12_DeRubeis_RDNV 0.3646461 0.009100953 2.101845 5.260007e-01
13_Iossifov_RDNV 1.3104319 0.805102804 2.032759 2.111285e-01
14_FMRP_Darnell 1.2372069 0.823887776 1.798561 2.546266e-01
15_Voineagu_M12 0.9540530 0.468206892 1.746123 1.000000e+00
16_Voineagu_M16 3.0381129 2.003706438 4.466527 4.122801e-07
17_ID_genes_Neel 1.0199201 0.500220768 1.868455 8.755363e-01
18_ID_genes_pinto2014 0.4898401 0.131782214 1.279836 1.995030e-01
19_Fromer_SCZ_FunDN 1.1068666 0.644145572 1.789726 6.100315e-01
20_Cocchi_Pruning 4.9939093 2.525076123 9.136560 8.636787e-06
Beta SE Padj
01_Swaminathan2018_DEPDC5KO 0.38907924 0.18767437 6.549671e-01
02_TSC2_KO_Grabole_2016 0.50930622 0.09790395 2.719295e-06
03_TSC2_Grabole-2016 0.60520822 0.10048716 1.045890e-08
04_TSC2-tuber-Martin2017 1.45213787 0.33079266 3.869008e-04
05_TSC2-SEN_SEGA-Martin2017 0.68448014 0.11626327 1.208850e-07
06_all_EpilepsyGene 0.25027444 0.29540785 1.000000e+00
07_high_conf_EpilepsyGene 0.38961313 0.52438082 1.000000e+00
08_ASD_Epilepsy_EpilepsyGene 0.46042222 0.52511629 1.000000e+00
09_Epi25_dataset 0.06892908 0.81792115 1.000000e+00
10_SFARI_all 0.66337578 0.30887812 3.707276e-01
11_SFARI_score4plus 0.54023043 0.38766227 1.000000e+00
12_DeRubeis_RDNV -1.00882792 1.88293278 1.000000e+00
13_Iossifov_RDNV 0.27035679 0.24854189 1.000000e+00
14_FMRP_Darnell 0.21285633 0.20743739 1.000000e+00
15_Voineagu_M12 -0.04703610 0.36316781 1.000000e+00
16_Voineagu_M16 1.11123658 0.21236627 8.245603e-06
17_ID_genes_Neel 0.01972424 0.36348469 1.000000e+00
18_ID_genes_pinto2014 -0.71367624 0.66986142 1.000000e+00
19_Fromer_SCZ_FunDN 0.10153311 0.27620594 1.000000e+00
20_Cocchi_Pruning 1.60821903 0.34793256 1.727357e-04
getlinmodoutput(targetdiff = "DIFF",targetrapa = "RAPA", refset = "NTCwRAPA" ) entrezgene genname log2FC_2.1 fdr_2.1 log2FC_2.2 fdr_2.2
1 2048 EPHB2 -0.5844492 1.601499e-02 -0.9155074 1.354145e-03
2 2537 IFI6 -0.7010783 8.040745e-03 -0.7815160 3.132856e-02
3 7802 DNALI1 1.1551849 7.457999e-03 1.1123245 2.753143e-02
4 656 BMP8B -4.3696453 8.803629e-05 -4.1397593 5.459052e-04
5 84879 MFSD2A 1.2281235 1.965733e-06 1.7552161 1.122712e-12
6 5865 RAB3B 1.6493707 4.465200e-03 2.4877824 6.594001e-08
7 3491 CCN1 0.9183982 7.579197e-06 0.7784458 2.753143e-02
8 2633 GBP1 1.8933713 1.501465e-03 1.7672396 3.995640e-03
9 127003 CFAP276 1.6882724 2.839987e-04 2.4595315 1.003361e-07
10 10628 TXNIP -1.1219260 2.851055e-03 -1.1836796 6.295463e-03
11 63827 BCAN -1.1464871 8.299200e-07 -0.6896098 4.022170e-02
12 3766 KCNJ10 -1.2044622 1.373679e-04 -1.1287694 2.169938e-03
13 257177 CFAP126 2.8399531 2.717907e-04 3.8109236 2.735624e-10
14 8490 RGS5 0.9430361 1.786616e-03 1.3273510 4.495792e-06
15 55220 KLHDC8A 0.6951021 4.636355e-02 1.0864127 8.650462e-04
16 50486 <NA> -2.1451872 2.585499e-18 -2.7830791 4.179116e-23
17 7044 LEFTY2 -1.1468367 1.385907e-02 -2.5118705 2.149008e-06
18 2786 GNG4 2.3436557 4.465200e-03 3.1398129 1.562584e-07
19 1959 EGR2 3.8846116 1.679040e-14 3.0315167 5.126766e-05
20 84858 <NA> 1.8062680 1.709089e-06 1.2785794 2.197425e-02
21 2674 GFRA1 -1.7276673 7.540604e-05 -1.9909032 7.225396e-05
22 5654 HTRA1 0.9265121 2.105270e-05 0.9286148 1.419288e-03
23 10418 SPON1 2.9482577 9.690519e-30 3.3331993 1.789378e-38
24 203859 ANO5 2.3880007 3.103096e-03 2.7523800 7.231881e-05
25 4038 LRP4 -0.7480393 8.990926e-03 -1.0202640 7.912549e-03
26 374393 FAM111B 3.2891956 3.036275e-02 3.5420547 1.522831e-02
27 79026 AHNAK 0.6654714 4.143655e-02 0.8048769 3.201026e-02
28 254263 CNIH2 1.8776550 1.040622e-04 2.0847320 2.685876e-06
29 2 A2M 1.5190611 3.193582e-12 1.4222515 1.439940e-06
30 79365 BHLHE41 1.2106415 6.905593e-04 1.2313105 3.995640e-03
31 6857 SYT1 1.6683728 8.962647e-06 1.8237151 2.110425e-06
32 101929005 <NA> -6.9708042 4.418423e-04 -4.6029204 9.008603e-03
33 114795 TMEM132B -2.0423423 5.591399e-15 -1.4960637 4.846059e-06
34 688 KLF5 1.6293748 1.038077e-03 1.2405652 4.163597e-02
35 1948 EFNB2 0.9649580 6.728368e-05 1.1098983 2.145665e-04
36 23002 DAAM1 0.7549476 2.716145e-02 0.8319282 2.753143e-02
37 6252 RTN1 1.7634057 2.333495e-12 1.5536847 2.770348e-04
38 89932 PAPLN -1.5738666 4.299050e-02 -1.9698221 1.607762e-02
39 10516 FBLN5 2.0017182 1.323846e-25 2.5486282 4.687237e-21
40 26153 <NA> 4.9439872 4.867672e-03 5.7558523 3.737899e-05
41 7057 THBS1 1.3670907 2.165183e-03 2.0696822 4.051997e-06
42 4756 NEO1 0.9731714 2.838263e-08 1.1440173 1.493514e-05
43 4916 NTRK3 1.5301080 4.829515e-08 1.3001181 1.848612e-04
44 2903 GRIN2A 2.6806855 3.126489e-05 2.5384700 4.359783e-04
45 729993 SHISA9 -3.8906884 6.900445e-22 -1.3772648 3.301516e-03
46 51704 GPRC5B -0.6965404 1.535995e-02 -0.7199939 4.400840e-02
47 5579 PRKCB -6.4499033 3.151642e-11 -2.7969992 1.322087e-02
48 999 CDH1 -4.5747249 3.016659e-16 -2.8895584 2.205613e-07
49 54768 HYDIN 3.1138005 3.384464e-07 3.4374344 7.224320e-10
50 794 CALB2 1.9731509 2.785777e-03 2.4708643 1.488766e-06
51 57687 <NA> 1.0676611 3.379263e-09 1.1174032 9.580576e-06
52 5187 PER1 1.6172545 2.138032e-03 1.9663057 3.759972e-06
53 201161 <NA> 1.0741222 7.146064e-03 1.3592159 2.907086e-04
54 7153 TOP2A 0.8905880 1.892264e-03 0.9745793 6.768778e-03
55 10882 <NA> -1.2476382 5.159240e-06 -1.2873491 1.702279e-03
56 113026 PLCD3 -0.7139995 2.028433e-02 -0.8342760 3.007915e-02
57 4804 NGFR -2.2035302 1.218551e-10 -2.1448207 1.880375e-06
58 2302 FOXJ1 1.2519998 4.679308e-06 1.3465537 1.186135e-03
59 11322 TMC6 -4.5309138 4.774950e-03 -4.0969189 3.201026e-02
60 361 AQP4 2.5635878 2.241622e-18 3.3473029 1.073340e-16
61 5596 MAPK4 1.9452939 5.842815e-04 2.2767959 8.837296e-08
62 51046 ST8SIA3 2.3074095 2.785777e-03 2.6047875 1.109491e-03
63 90701 SEC11C -0.6557054 3.229834e-02 -0.7760037 4.348299e-02
64 404217 <NA> 1.0654569 6.973826e-05 1.0074858 9.552659e-04
65 1995 ELAVL3 1.3858314 1.866195e-05 2.2025879 3.191590e-13
66 9518 GDF15 -0.7426862 4.629676e-02 -1.6933332 4.065644e-05
67 79784 MYH14 -2.3284457 1.838639e-02 -3.3398391 1.027542e-03
68 92749 DRC1 2.1683527 2.785777e-03 2.6726025 3.759972e-06
69 57628 DPP10 -5.2202074 3.664045e-08 -3.4139399 3.737899e-05
70 3625 <NA> -0.9767644 8.988301e-03 -1.6615968 4.344424e-06
71 2995 GYPC -2.3374886 4.877829e-06 -2.1257263 2.391014e-06
72 56475 RPRM 1.7750559 4.755493e-02 2.1695403 5.813931e-03
73 129881 CFAP210 2.3640626 1.471679e-03 2.4162686 4.995507e-03
74 1134 CHRNA1 -5.2042681 2.191095e-11 -8.5037878 4.066660e-08
75 8324 FZD7 -1.3257906 1.734580e-04 -1.0432077 2.405225e-02
76 8609 KLF7 1.0346818 1.544898e-05 0.8476982 1.161968e-02
77 3488 IGFBP5 -1.2071406 1.460991e-03 -1.2892386 3.417235e-03
78 5270 SERPINE2 -1.3844484 2.152519e-07 -1.2467958 4.212466e-04
79 92737 DNER 1.1950369 4.465200e-03 1.4052480 1.004895e-03
80 3769 KCNJ13 1.7547914 2.427283e-02 2.4387114 2.984745e-05
81 4826 NNAT 3.6877783 4.792925e-26 4.2006138 4.152309e-28
82 55959 SULF2 -1.4289876 1.064627e-02 -1.7780168 2.556965e-02
83 56245 C21orf62 1.0634763 4.472992e-05 0.8769423 2.790773e-02
84 116448 <NA> -1.1527437 5.652288e-03 -1.1581057 1.134540e-02
85 1827 RCAN1 0.7187131 2.320004e-03 0.9362363 1.732037e-04
86 3708 ITPR1 1.9492555 8.038676e-03 1.9058343 3.555590e-02
87 116135 LRRC3B 1.9151330 1.659171e-03 1.7449314 1.677395e-02
88 114884 OSBPL10 -1.9432227 4.481965e-03 -1.7342826 3.185883e-02
89 79442 LRRC2 3.4370870 2.321235e-03 3.6464221 2.340152e-04
90 64147 KIF9 1.5017571 1.147328e-04 2.1367445 5.934113e-08
91 11170 FAM107A 1.4033068 3.229834e-02 1.4541890 4.163597e-02
92 132204 SYNPR 6.8506004 1.926905e-04 6.6427886 2.311735e-04
93 1295 COL8A1 -4.5472935 6.661090e-03 -3.7402461 2.753143e-02
94 151887 CCDC80 0.7296925 1.713718e-02 0.8683484 1.526926e-03
95 7018 TF -3.7184564 1.721396e-66 -2.8373320 5.562076e-30
96 5947 RBP1 -1.0936355 5.253202e-07 -0.8037544 4.130282e-02
97 5806 PTX3 1.5664566 1.373679e-04 1.7610651 1.723679e-07
98 10417 SPON2 -2.4659561 1.262912e-02 -2.8343935 2.249885e-03
99 83888 <NA> -1.9573467 8.949057e-03 -2.3586659 2.311735e-04
100 201780 <NA> 1.0935517 7.536448e-06 1.0277894 5.530668e-03
101 23284 ADGRL3 -3.3750033 7.055351e-11 -1.7636588 1.363084e-03
102 9508 ADAMTS3 2.2329199 3.951529e-04 2.4736437 2.238692e-04
103 2920 CXCL2 8.1486161 1.339906e-04 7.8070786 2.129180e-04
104 134121 <NA> 1.9601335 1.873352e-04 2.7327902 2.311097e-10
105 8507 ENC1 0.9054972 2.172818e-02 1.0168645 2.863416e-02
106 1946 EFNA5 1.6668921 1.152721e-06 1.7049758 2.723816e-05
107 9547 CXCL14 -0.8082314 7.395235e-04 -1.5055991 1.936896e-09
108 6695 SPOCK1 -1.1952779 8.323687e-03 -2.2385261 6.594001e-08
109 1958 EGR1 2.4384032 1.075179e-34 2.5255163 1.444721e-18
110 1839 HBEGF 0.7097541 4.806870e-02 1.2133655 2.381940e-05
111 2878 GPX3 -1.3039233 4.367899e-08 -2.0968752 8.969947e-11
112 23286 WWC1 1.0146586 3.812164e-03 1.2949889 1.181825e-04
113 1843 DUSP1 1.9070214 3.084357e-02 1.9207454 2.742071e-02
114 51617 <NA> 6.1428862 3.114379e-03 6.8867674 3.737899e-05
115 10814 CPLX2 5.4609870 4.418423e-04 6.4008339 1.003361e-07
116 221749 PXDC1 0.6427621 5.651259e-03 0.8503611 7.732420e-03
117 84062 DTNBP1 -0.9345057 1.444723e-02 -1.0734617 7.721019e-03
118 3400 <NA> 1.0495736 1.369734e-04 1.0614846 3.046886e-03
119 10590 SCGN 3.4188121 6.157139e-11 4.5848750 6.141301e-26
120 7021 TFAP2B -8.8135379 1.003263e-07 -3.8657719 2.550146e-04
121 285755 PPIL6 1.9286056 1.035531e-02 2.0936062 3.182026e-03
122 1490 CCN2 0.9951832 6.973826e-05 0.7633184 2.561547e-02
123 80129 CCDC170 2.1577217 4.467859e-02 2.8156107 8.392469e-03
124 10457 GPNMB -1.5288283 8.425953e-04 -2.1689390 9.152129e-08
125 4852 NPY 3.1519799 7.989936e-05 4.2202467 1.680493e-14
126 6424 SFRP4 -0.7828072 4.392521e-04 -1.3460638 1.315271e-07
127 81628 TSC22D4 -0.6172060 1.874653e-02 -0.7801785 2.996625e-02
128 5054 SERPINE1 1.6825892 1.397417e-08 1.2560134 3.185320e-03
129 2861 GPR37 1.3652118 2.321235e-03 1.8253186 1.260450e-04
130 10395 DLC1 1.6104766 1.234236e-09 1.4218990 2.244802e-06
131 1808 DPYSL2 1.0102488 6.534125e-08 1.0613397 3.433965e-06
132 23643 LY96 -2.5960407 2.229924e-03 -1.9524795 4.587400e-02
133 11075 STMN2 4.3095979 1.701127e-02 5.8526106 8.836740e-09
134 6383 SDC2 0.8742833 2.175923e-04 0.7858399 1.707420e-02
135 6674 SPAG1 2.0758505 2.785777e-03 2.0003649 1.134540e-02
136 10655 DMRT2 -8.1117706 8.962647e-06 -5.7290427 5.822932e-04
137 1029 CDKN2A -1.0367133 1.263131e-03 -1.0483347 4.380981e-03
138 687 KLF9 1.4638994 4.727652e-09 1.6524793 5.934113e-08
139 9568 <NA> 2.3438085 4.465200e-03 2.2371217 2.897821e-03
140 54566 EPB41L4B -1.0946069 1.984354e-03 -1.1567214 4.914294e-04
141 1620 BRINP1 2.9326320 2.760538e-02 3.7284868 2.949459e-05
142 83543 AIF1L -0.9372391 1.138078e-03 -0.9069212 2.561547e-02
143 8021 NUP214 -0.8751811 3.911704e-03 -0.9871582 5.616330e-03
144 5730 PTGDS -2.0124717 4.957753e-20 -1.9036600 7.962779e-09
145 4129 MAOB 1.2821359 1.974426e-05 1.0076275 1.211226e-02
146 1641 DCX 3.7333185 9.772500e-19 5.0031534 1.764598e-51
147 1069 CETN2 0.6722015 1.072993e-02 0.9779653 9.712269e-05
OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 1.5710698 0.81157043 2.795221 1.528172e-01
02_TSC2_KO_Grabole_2016 2.1717985 1.54739180 3.053726 4.324330e-06
03_TSC2_Grabole-2016 1.9878918 1.39658395 2.860079 6.169167e-05
04_TSC2-tuber-Martin2017 3.5223279 0.93001955 9.482590 3.131705e-02
05_TSC2-SEN_SEGA-Martin2017 3.9779291 2.79667249 5.619997 5.063714e-14
06_all_EpilepsyGene 1.2436682 0.39536608 2.997206 6.067161e-01
07_high_conf_EpilepsyGene 2.3177651 0.46595788 7.073113 1.476893e-01
08_ASD_Epilepsy_EpilepsyGene 3.3640623 0.88889184 9.045974 3.596164e-02
09_Epi25_dataset 0.0000000 0.00000000 4.174176 1.000000e+00
10_SFARI_all 3.2829854 1.37375335 6.757351 4.526248e-03
11_SFARI_score4plus 3.8752839 1.50753939 8.368227 3.236208e-03
12_DeRubeis_RDNV 0.0000000 0.00000000 4.388931 1.000000e+00
13_Iossifov_RDNV 0.9063491 0.28856711 2.179380 1.000000e+00
14_FMRP_Darnell 2.0928373 1.15583616 3.550296 9.859691e-03
15_Voineagu_M12 0.8090892 0.16407906 2.432547 1.000000e+00
16_Voineagu_M16 1.3925198 0.44240092 3.359152 4.172680e-01
17_ID_genes_Neel 0.5699163 0.06807157 2.113266 5.887929e-01
18_ID_genes_pinto2014 0.7801407 0.09304023 2.900996 1.000000e+00
19_Fromer_SCZ_FunDN 1.5643803 0.65844116 3.194222 2.554450e-01
20_Cocchi_Pruning 5.5901824 1.74345774 13.871443 2.783365e-03
Beta SE Padj
01_Swaminathan2018_DEPDC5KO 0.45175680 0.3370107 1.000000e+00
02_TSC2_KO_Grabole_2016 0.77555561 0.1729514 8.648660e-05
03_TSC2_Grabole-2016 0.68707467 0.1801252 1.233833e-03
04_TSC2-tuber-Martin2017 1.25912209 0.6794244 6.263410e-01
05_TSC2-SEN_SEGA-Martin2017 1.38076137 0.1797607 1.012743e-12
06_all_EpilepsyGene 0.21806524 0.5846982 1.000000e+00
07_high_conf_EpilepsyGene 0.84060339 0.8185018 1.000000e+00
08_ASD_Epilepsy_EpilepsyGene 1.21314925 0.6790454 7.192327e-01
09_Epi25_dataset -Inf NaN 1.000000e+00
10_SFARI_all 1.18875318 0.4444931 9.052497e-02
11_SFARI_score4plus 1.35461893 0.4817042 6.472416e-02
12_DeRubeis_RDNV -Inf NaN 1.000000e+00
13_Iossifov_RDNV -0.09833069 0.5839270 1.000000e+00
14_FMRP_Darnell 0.73852070 0.3029065 1.971938e-01
15_Voineagu_M12 -0.21184616 0.8140616 1.000000e+00
16_Voineagu_M16 0.33111490 0.5850274 1.000000e+00
17_ID_genes_Neel -0.56226582 1.0841479 1.000000e+00
18_ID_genes_pinto2014 -0.24828105 1.0849195 1.000000e+00
19_Fromer_SCZ_FunDN 0.44748979 0.4415153 1.000000e+00
20_Cocchi_Pruning 1.72101191 0.5944600 5.566729e-02
# with noRAPA NTCF as reference
noDIFFresults=data.frame(ENTREZ_ID=rownames(restab_D62_NTCnoRAPA_sgNTC_sg2.1_noDIFF_noRAPA),
SYMBOL=rowData(ddsMat)$hgnc,
sg2.1_noDIFF_noRAPA_FC=restab_D62_NTCnoRAPA_sgNTC_sg2.1_noDIFF_noRAPA$log2FoldChange,
sg2.1_noDIFF_noRAPA_adjP=restab_D62_NTCnoRAPA_sgNTC_sg2.1_noDIFF_noRAPA$padj,
sg2.2_noDIFF_noRAPA_FC=restab_D62_NTCnoRAPA_sgNTC_sg2.2_noDIFF_noRAPA$log2FoldChange,
sg2.2_noDIFF_noRAPA_adjP=restab_D62_NTCnoRAPA_sgNTC_sg2.2_noDIFF_noRAPA$padj,
sgAVG_noDIFF_noRAPA_FC = rowMeans(cbind(restab_D62_NTCnoRAPA_sgNTC_sg2.1_noDIFF_noRAPA$log2FoldChange, restab_D62_NTCnoRAPA_sgNTC_sg2.2_noDIFF_noRAPA$log2FoldChange)),
sgAVG_noDIFF_noRAPA_adjP = rowMeans(cbind(restab_D62_NTCnoRAPA_sgNTC_sg2.1_noDIFF_noRAPA$padj, restab_D62_NTCnoRAPA_sgNTC_sg2.2_noDIFF_noRAPA$padj)),
sg2.1_noDIFF_RAPA_FC=restab_D62_NTCnoRAPA_sgNTC_sg2.1_noDIFF_RAPA$log2FoldChange,
sg2.1_noDIFF_RAPA_adjP=restab_D62_NTCnoRAPA_sgNTC_sg2.1_noDIFF_RAPA$padj,
sg2.2_noDIFF_RAPA_FC=restab_D62_NTCnoRAPA_sgNTC_sg2.2_noDIFF_RAPA$log2FoldChange,
sg2.2_noDIFF_RAPA_adjP=restab_D62_NTCnoRAPA_sgNTC_sg2.2_noDIFF_RAPA$padj,
sgAVG_noDIFF_RAPA_FC = rowMeans(cbind(restab_D62_NTCnoRAPA_sgNTC_sg2.1_noDIFF_RAPA$log2FoldChange, restab_D62_NTCnoRAPA_sgNTC_sg2.2_noDIFF_RAPA$log2FoldChange)),
sgAVG_noDIFF_RAPA_adjP = rowMeans(cbind(restab_D62_NTCnoRAPA_sgNTC_sg2.1_noDIFF_RAPA$padj, restab_D62_NTCnoRAPA_sgNTC_sg2.2_noDIFF_RAPA$padj)),
sg2.1_noDIFF_RAPA_rapantc_FC=restab_D62_NTCwRAPA_sgNTC_sg2.1_noDIFF_RAPA$log2FoldChange,
sg2.1_noDIFF_RAPA_rapantc_adjP=restab_D62_NTCwRAPA_sgNTC_sg2.1_noDIFF_RAPA$padj,
sg2.2_noDIFF_RAPA_rapantc_FC=restab_D62_NTCwRAPA_sgNTC_sg2.2_noDIFF_RAPA$log2FoldChange,
sg2.2_noDIFF_RAPA_rapantc_adjP=restab_D62_NTCwRAPA_sgNTC_sg2.2_noDIFF_RAPA$padj,
sgAVG_noDIFF_RAPA_rapantc_FC = rowMeans(cbind(restab_D62_NTCwRAPA_sgNTC_sg2.1_noDIFF_RAPA$log2FoldChange, restab_D62_NTCwRAPA_sgNTC_sg2.2_noDIFF_RAPA$log2FoldChange)),
sgAVG_noDIFF_RAPA_rapantc_adjP = rowMeans(cbind(restab_D62_NTCwRAPA_sgNTC_sg2.1_noDIFF_RAPA$padj, restab_D62_NTCwRAPA_sgNTC_sg2.2_noDIFF_RAPA$padj)))
write.xlsx(noDIFFresults, file=paste0(output, "/noDIFF_refnoRAPA_allgenes.xlsx"))
DIFFresults=data.frame(ENTREZ_ID=rownames(restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_noRAPA),
SYMBOL=rowData(ddsMat)$hgnc,
sg2.1_DIFF_noRAPA_FC=restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_noRAPA$log2FoldChange,
sg2.1_DIFF_noRAPA_adjP=restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_noRAPA$padj,
sg2.2_DIFF_noRAPA_FC=restab_D62_NTCnoRAPA_sgNTC_sg2.2_DIFF_noRAPA$log2FoldChange,
sg2.2_DIFF_noRAPA_adjP=restab_D62_NTCnoRAPA_sgNTC_sg2.2_DIFF_noRAPA$padj,
sgAVG_DIFF_noRAPA_FC = rowMeans(cbind(restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_noRAPA$log2FoldChange, restab_D62_NTCnoRAPA_sgNTC_sg2.2_DIFF_noRAPA$log2FoldChange)),
sgAVG_DIFF_noRAPA_adjP = rowMeans(cbind(restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_noRAPA$padj, restab_D62_NTCnoRAPA_sgNTC_sg2.2_DIFF_noRAPA$padj)),
sg2.1_DIFF_RAPA_FC=restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_RAPA$log2FoldChange,
sg2.1_DIFF_RAPA_adjP=restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_RAPA$padj,
sg2.2_DIFF_RAPA_FC=restab_D62_NTCnoRAPA_sgNTC_sg2.2_DIFF_RAPA$log2FoldChange,
sg2.2_DIFF_RAPA_adjP=restab_D62_NTCnoRAPA_sgNTC_sg2.2_DIFF_RAPA$padj,
sgAVG_DIFF_RAPA_FC = rowMeans(cbind(restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_RAPA$log2FoldChange, restab_D62_NTCnoRAPA_sgNTC_sg2.2_DIFF_RAPA$log2FoldChange)),
sgAVG_DIFF_RAPA_adjP = rowMeans(cbind(restab_D62_NTCnoRAPA_sgNTC_sg2.1_DIFF_RAPA$padj, restab_D62_NTCnoRAPA_sgNTC_sg2.2_DIFF_RAPA$padj)),
sg2.1_DIFF_RAPA_rapantc_FC=restab_D62_NTCwRAPA_sgNTC_sg2.1_DIFF_RAPA$log2FoldChange,
sg2.1_DIFF_RAPA_rapantc_adjP=restab_D62_NTCwRAPA_sgNTC_sg2.1_DIFF_RAPA$padj,
sg2.2_DIFF_RAPA_rapantc_FC=restab_D62_NTCwRAPA_sgNTC_sg2.2_DIFF_RAPA$log2FoldChange,
sg2.2_DIFF_RAPA_rapantc_adjP=restab_D62_NTCwRAPA_sgNTC_sg2.2_DIFF_RAPA$padj,
sgAVG_DIFF_RAPA_rapantc_FC = rowMeans(cbind(restab_D62_NTCwRAPA_sgNTC_sg2.1_DIFF_RAPA$log2FoldChange, restab_D62_NTCwRAPA_sgNTC_sg2.2_DIFF_RAPA$log2FoldChange)),
sgAVG_DIFF_RAPA_rapantc_adjP = rowMeans(cbind(restab_D62_NTCwRAPA_sgNTC_sg2.1_DIFF_RAPA$padj, restab_D62_NTCwRAPA_sgNTC_sg2.2_DIFF_RAPA$padj)))
write.xlsx(DIFFresults, file=paste0(output, "/DIFF_refnoRAPA_allgenes.xlsx"))noDIFFhits=(noDIFFresults$sg2.1_noDIFF_noRAPA_adjP<=0.05 &
noDIFFresults$sg2.2_noDIFF_noRAPA_adjP<=0.05 &
sign(noDIFFresults$sg2.1_noDIFF_noRAPA_FC)==sign(noDIFFresults$sg2.2_noDIFF_noRAPA_FC))
sum(noDIFFhits, na.rm = T)[1] 237sum(noDIFFhits & noDIFFresults$sg2.1_noDIFF_noRAPA_FC>0, na.rm = T)[1] 139sum(noDIFFhits & noDIFFresults$sg2.1_noDIFF_noRAPA_FC<0, na.rm = T)[1] 98ggplot(data = noDIFFresults[,], aes(sg2.1_noDIFF_noRAPA_FC, sg2.2_noDIFF_noRAPA_FC, col=noDIFFhits)) +
geom_point(pch=16, alpha=0.5) +
geom_abline(slope=1, intercept = 0) + ggtitle("DIFF correlation between KOs")Warning: Removed 15 rows containing missing values (geom_point).
## rescued Genes
noDIFF_RAPA_nosig = (noDIFFresults$sg2.1_noDIFF_RAPA_adjP>0.05 & noDIFFresults$sg2.2_noDIFF_RAPA_adjP>0.05)
# just necessary to check one KO as significant DEX is defoned that both have to have the same direction
noDIFF_RAPA_chngsFC = (sign(noDIFFresults$sg2.1_noDIFF_noRAPA_FC) != sign(noDIFFresults$sg2.1_noDIFF_RAPA_FC)) &
(sign(noDIFFresults$sg2.1_noDIFF_noRAPA_FC) != sign(noDIFFresults$sg2.2_noDIFF_RAPA_FC))
noDIFFhits_ENTREZ = na.omit(noDIFFresults$ENTREZ_ID[noDIFFhits])
noDIFFRAPA_RESC_ENTREZ = na.omit(noDIFFresults$ENTREZ_ID[ (noDIFFhits & noDIFF_RAPA_nosig)| (noDIFFhits & noDIFF_RAPA_chngsFC)])
noDIFFRAPA_noRESC_ENTREZ = noDIFFhits_ENTREZ[! noDIFFhits_ENTREZ %in% noDIFFRAPA_RESC_ENTREZ]
GOIs =list(noDIFFRAPA_RESC=noDIFFRAPA_RESC_ENTREZ,
noDIFFRAPA_noRESC=noDIFFRAPA_noRESC_ENTREZ)
for (n in names(GOIs)){
Resall=data.frame()
for (gl in names(genelists)){
tmp=table(signif=geneids %in% GOIs[[n]], targetgene=geneids %in% genelists[[gl]]$ENTREZ_ID)
resfish=fisher.test(tmp)
res = c(resfish$estimate, unlist(resfish$conf.int), resfish$p.value)
Resall = rbind(Resall, res)
}
colnames(Resall)=c("OR", "CI95L", "CI95U", "P")
rownames(Resall)=names(genelists)
Resall$Beta = log(Resall$OR)
Resall$SE = (log(Resall$OR)-log(Resall$CI95L))/1.96
Resall$Padj=p.adjust(Resall$P, method = "bonferroni")
print(Resall)
multiORplot(Resall, Pval = "P", Padj = "Padj", beta="Beta",SE = "SE",
pheno=n, xlims=c(-4.5,4.5))
} OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 1.8962220 0.911530751 3.568958 0.056083599
02_TSC2_KO_Grabole_2016 1.2217549 0.803375513 1.839685 0.353405161
03_TSC2_Grabole-2016 1.2100031 0.808429778 1.817862 0.378031656
04_TSC2-tuber-Martin2017 5.0017523 1.313509365 13.581994 0.010350766
05_TSC2-SEN_SEGA-Martin2017 1.9776818 1.214996272 3.124058 0.004642208
06_all_EpilepsyGene 0.3370130 0.008432705 1.931077 0.374198551
07_high_conf_EpilepsyGene 0.0000000 0.000000000 3.951174 1.000000000
08_ASD_Epilepsy_EpilepsyGene 1.1296704 0.028090902 6.560011 0.591072462
09_Epi25_dataset 1.5688392 0.038885691 9.178556 0.476267938
10_SFARI_all 1.6473395 0.331853744 5.011086 0.435882613
11_SFARI_score4plus 0.7223500 0.018016559 4.166233 1.000000000
12_DeRubeis_RDNV 1.6487664 0.040842341 9.659725 0.459837758
13_Iossifov_RDNV 1.5681418 0.559278472 3.560051 0.291371543
14_FMRP_Darnell 1.4020081 0.586416629 2.888490 0.386785201
15_Voineagu_M12 0.3723823 0.009314882 2.135126 0.525734045
16_Voineagu_M16 2.8509610 1.108347992 6.163063 0.015440752
17_ID_genes_Neel 0.3972944 0.009935966 2.278697 0.522903902
18_ID_genes_pinto2014 0.5432259 0.013569641 3.123350 1.000000000
19_Fromer_SCZ_FunDN 1.9435398 0.757336454 4.188107 0.103209798
20_Cocchi_Pruning 2.9867194 0.351472776 11.388948 0.150938725
Beta SE Padj
01_Swaminathan2018_DEPDC5KO 0.6398635 0.3737211 1.00000000
02_TSC2_KO_Grabole_2016 0.2002883 0.2138884 1.00000000
03_TSC2_Grabole-2016 0.1906229 0.2057573 1.00000000
04_TSC2-tuber-Martin2017 1.6097883 0.6821867 0.20701531
05_TSC2-SEN_SEGA-Martin2017 0.6819253 0.2485634 0.09284417
06_all_EpilepsyGene -1.0876338 1.8816347 1.00000000
07_high_conf_EpilepsyGene -Inf NaN 1.00000000
08_ASD_Epilepsy_EpilepsyGene 0.1219259 1.8848140 1.00000000
09_Epi25_dataset 0.4503360 1.8864617 1.00000000
10_SFARI_all 0.4991616 0.8174605 1.00000000
11_SFARI_score4plus -0.3252454 1.8832748 1.00000000
12_DeRubeis_RDNV 0.5000274 1.8867670 1.00000000
13_Iossifov_RDNV 0.4498913 0.5260199 1.00000000
14_FMRP_Darnell 0.3379056 0.4447094 1.00000000
15_Voineagu_M12 -0.9878344 1.8817896 1.00000000
16_Voineagu_M16 1.0476561 0.4820334 0.30881503
17_ID_genes_Neel -0.9230777 1.8818962 1.00000000
18_ID_genes_pinto2014 -0.6102301 1.8824950 1.00000000
19_Fromer_SCZ_FunDN 0.6645109 0.4808462 1.00000000
20_Cocchi_Pruning 1.0941756 1.0917340 1.00000000
OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 0.7648963 0.27463081 1.719572 7.078505e-01
02_TSC2_KO_Grabole_2016 2.3047717 1.61017655 3.309040 2.063852e-06
03_TSC2_Grabole-2016 2.8460661 1.91234218 4.323870 2.153124e-08
04_TSC2-tuber-Martin2017 2.9045975 0.58222672 8.907576 9.140780e-02
05_TSC2-SEN_SEGA-Martin2017 4.7901632 3.32477250 6.873501 1.507645e-16
06_all_EpilepsyGene 1.3921050 0.44178111 3.363956 4.173341e-01
07_high_conf_EpilepsyGene 1.6994039 0.20136399 6.395293 3.351302e-01
08_ASD_Epilepsy_EpilepsyGene 2.7750826 0.55664935 8.501253 1.010018e-01
09_Epi25_dataset 0.0000000 0.00000000 4.660279 1.000000e+00
10_SFARI_all 1.2999599 0.26275219 3.931033 5.066738e-01
11_SFARI_score4plus 1.7634015 0.35556928 5.354192 2.499747e-01
12_DeRubeis_RDNV 0.0000000 0.00000000 4.900161 1.000000e+00
13_Iossifov_RDNV 2.1338933 0.99201771 4.092438 3.257362e-02
14_FMRP_Darnell 1.5486293 0.74975566 2.886936 1.773306e-01
15_Voineagu_M12 0.5963721 0.07117314 2.214779 7.758121e-01
16_Voineagu_M16 2.9325996 1.29844787 5.818451 5.555544e-03
17_ID_genes_Neel 1.3009101 0.34699517 3.445838 5.557777e-01
18_ID_genes_pinto2014 0.4303979 0.01077268 2.463698 7.313735e-01
19_Fromer_SCZ_FunDN 1.0645640 0.33823760 2.567505 8.122055e-01
20_Cocchi_Pruning 3.6115255 0.72120512 11.144081 5.579388e-02
Beta SE Padj
01_Swaminathan2018_DEPDC5KO -0.26801505 0.5226084 1.000000e+00
02_TSC2_KO_Grabole_2016 0.83498163 0.1829785 4.127704e-05
03_TSC2_Grabole-2016 1.04593772 0.2028617 4.306248e-07
04_TSC2-tuber-Martin2017 1.06629483 0.8199950 1.000000e+00
05_TSC2-SEN_SEGA-Martin2017 1.56656448 0.1863078 3.015290e-15
06_all_EpilepsyGene 0.33081701 0.5855907 1.000000e+00
07_high_conf_EpilepsyGene 0.53027755 1.0882238 1.000000e+00
08_ASD_Epilepsy_EpilepsyGene 1.02068053 0.8196430 1.000000e+00
09_Epi25_dataset -Inf NaN 1.000000e+00
10_SFARI_all 0.26233340 0.8157537 1.000000e+00
11_SFARI_score4plus 0.56724464 0.8169795 1.000000e+00
12_DeRubeis_RDNV -Inf NaN 1.000000e+00
13_Iossifov_RDNV 0.75794817 0.3907972 6.514723e-01
14_FMRP_Darnell 0.43737020 0.3700909 1.000000e+00
15_Voineagu_M12 -0.51689051 1.0845659 1.000000e+00
16_Voineagu_M16 1.07588925 0.4156733 1.111109e-01
17_ID_genes_Neel 0.26306409 0.6742390 1.000000e+00
18_ID_genes_pinto2014 -0.84304520 1.8814781 1.000000e+00
19_Fromer_SCZ_FunDN 0.06256531 0.5849857 1.000000e+00
20_Cocchi_Pruning 1.28413025 0.8219194 1.000000e+00
gene_univers = rownames(ddsMat)
gostres = getGOresults(GOIs, gene_univers)
toptab = gostres$result
write.xlsx(toptab, file = paste0(output, "/GOres_Rescue_noDIFF.xlsx"), sheetName = "GO_enrichment")
fit<- euler(list(PROLIF_DEX=noDIFFhits_ENTREZ,
RAPA_RESC=noDIFFRAPA_RESC_ENTREZ), shape = "ellipse")
plot(fit, quantities = TRUE, main="PROLIF rescue")
### DIFFERERNTIATION
DIFFhits=(DIFFresults$sg2.1_DIFF_noRAPA_adjP<=0.05 &
DIFFresults$sg2.2_DIFF_noRAPA_adjP<=0.05 &
sign(DIFFresults$sg2.1_DIFF_noRAPA_FC)==sign(DIFFresults$sg2.2_DIFF_noRAPA_FC))
sum(DIFFhits, na.rm = T)[1] 570sum(DIFFhits & DIFFresults$sg2.1_DIFF_noRAPA_FC>0, na.rm = T)[1] 250sum(DIFFhits & DIFFresults$sg2.1_DIFF_noRAPA_FC<0, na.rm = T)[1] 320ggplot(data = DIFFresults[,], aes(sg2.1_DIFF_noRAPA_FC, sg2.2_DIFF_noRAPA_FC, col=DIFFhits)) +
geom_point(pch=16, alpha=0.5) +
geom_abline(slope=1, intercept = 0) +
theme_bw()Warning: Removed 9 rows containing missing values (geom_point).
## rescued Genes
DIFF_RAPA_nosig = (DIFFresults$sg2.1_DIFF_RAPA_adjP>0.05 & DIFFresults$sg2.2_DIFF_RAPA_adjP>0.05)
# just necessary to check one KO as significant DEX is defoned that both have to have the same direction
DIFF_RAPA_chngsFC = (sign(DIFFresults$sg2.1_DIFF_noRAPA_FC) != sign(DIFFresults$sg2.1_DIFF_RAPA_FC)) &
(sign(DIFFresults$sg2.1_DIFF_noRAPA_FC) != sign(DIFFresults$sg2.2_DIFF_RAPA_FC))
DIFFhits_ENTREZ = na.omit(DIFFresults$ENTREZ_ID[DIFFhits])
DIFFRAPA_RESC_ENTREZ = na.omit(DIFFresults$ENTREZ_ID[ (DIFFhits & DIFF_RAPA_nosig)| (DIFFhits & DIFF_RAPA_chngsFC)])
DIFFRAPA_noRESC_ENTREZ = DIFFhits_ENTREZ[! DIFFhits_ENTREZ %in% DIFFRAPA_RESC_ENTREZ]
GOIs =list(DIFFRAPA_RESC=DIFFRAPA_RESC_ENTREZ,
DIFFRAPA_noRESC=DIFFRAPA_noRESC_ENTREZ)
for (n in names(GOIs)){
Resall=data.frame()
for (gl in names(genelists)){
tmp=table(signif=geneids %in% GOIs[[n]], targetgene=geneids %in% genelists[[gl]]$ENTREZ_ID)
resfish=fisher.test(tmp)
res = c(resfish$estimate, unlist(resfish$conf.int), resfish$p.value)
Resall = rbind(Resall, res)
}
colnames(Resall)=c("OR", "CI95L", "CI95U", "P")
rownames(Resall)=names(genelists)
Resall$Beta = log(Resall$OR)
Resall$SE = (log(Resall$OR)-log(Resall$CI95L))/1.96
Resall$Padj=p.adjust(Resall$P, method = "bonferroni")
print(Resall)
multiORplot(Resall, Pval = "P", Padj = "Padj", beta="Beta",SE = "SE",
pheno=n, xlims=c(-4.5,4.5))
} OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 1.8891393 1.19980453 2.863444 4.104511e-03
02_TSC2_KO_Grabole_2016 1.9445559 1.50211707 2.517220 2.735000e-07
03_TSC2_Grabole-2016 1.8078886 1.38579985 2.370461 5.494935e-06
04_TSC2-tuber-Martin2017 2.5641410 0.80864668 6.255024 5.288820e-02
05_TSC2-SEN_SEGA-Martin2017 2.7611616 2.07634220 3.644987 8.353515e-12
06_all_EpilepsyGene 0.7122637 0.22787876 1.699957 5.624527e-01
07_high_conf_EpilepsyGene 0.4343922 0.01086968 2.488120 7.305864e-01
08_ASD_Epilepsy_EpilepsyGene 0.0000000 0.00000000 1.733132 2.795309e-01
09_Epi25_dataset 0.0000000 0.00000000 2.413608 4.099390e-01
10_SFARI_all 1.8635289 0.78616580 3.791970 8.781811e-02
11_SFARI_score4plus 2.2065886 0.86491367 4.713672 4.753787e-02
12_DeRubeis_RDNV 2.1054608 0.42202664 6.458896 1.801229e-01
13_Iossifov_RDNV 1.3006993 0.65818798 2.335348 3.971279e-01
14_FMRP_Darnell 1.4799304 0.88203383 2.356335 9.571302e-02
15_Voineagu_M12 0.9522070 0.34359677 2.124533 1.000000e+00
16_Voineagu_M16 3.9755890 2.40891783 6.271949 2.902900e-07
17_ID_genes_Neel 1.1950946 0.47154511 2.529327 5.322089e-01
18_ID_genes_pinto2014 1.1555563 0.36842197 2.772631 6.264708e-01
19_Fromer_SCZ_FunDN 1.0050600 0.45126753 1.956236 1.000000e+00
20_Cocchi_Pruning 1.8621430 0.37415993 5.688552 2.271892e-01
Beta SE Padj
01_Swaminathan2018_DEPDC5KO 0.636121330 0.2316136 8.209022e-02
02_TSC2_KO_Grabole_2016 0.665033625 0.1317133 5.470001e-06
03_TSC2_Grabole-2016 0.592159642 0.1356542 1.098987e-04
04_TSC2-tuber-Martin2017 0.941623513 0.5887840 1.000000e+00
05_TSC2-SEN_SEGA-Martin2017 1.015651450 0.1454304 1.670703e-10
06_all_EpilepsyGene -0.339307129 0.5814461 1.000000e+00
07_high_conf_EpilepsyGene -0.833807567 1.8816175 1.000000e+00
08_ASD_Epilepsy_EpilepsyGene -Inf NaN 1.000000e+00
09_Epi25_dataset -Inf NaN 1.000000e+00
10_SFARI_all 0.622471973 0.4403365 1.000000e+00
11_SFARI_score4plus 0.791447723 0.4778435 9.507575e-01
12_DeRubeis_RDNV 0.744534364 0.8200108 1.000000e+00
13_Iossifov_RDNV 0.262902039 0.3475341 1.000000e+00
14_FMRP_Darnell 0.391995032 0.2640408 1.000000e+00
15_Voineagu_M12 -0.048972791 0.5200580 1.000000e+00
16_Voineagu_M16 1.380172907 0.2556098 5.805801e-06
17_ID_genes_Neel 0.178225323 0.4744724 1.000000e+00
18_ID_genes_pinto2014 0.144581894 0.5832185 1.000000e+00
19_Fromer_SCZ_FunDN 0.005047199 0.4085419 1.000000e+00
20_Cocchi_Pruning 0.621727962 0.8187755 1.000000e+00
OR CI95L CI95U P
01_Swaminathan2018_DEPDC5KO 1.3808266 0.8734614 2.095386 1.454025e-01
02_TSC2_KO_Grabole_2016 1.6907262 1.3435532 2.125508 5.263292e-06
03_TSC2_Grabole-2016 1.9351144 1.5256057 2.465333 1.587112e-08
04_TSC2-tuber-Martin2017 4.2640338 1.9653149 8.273783 2.576900e-04
05_TSC2-SEN_SEGA-Martin2017 2.8180606 2.1903830 3.605470 4.686266e-15
06_all_EpilepsyGene 1.3893244 0.7034997 2.492215 2.948316e-01
07_high_conf_EpilepsyGene 2.1594725 0.7708589 4.895185 6.917868e-02
08_ASD_Epilepsy_EpilepsyGene 1.5078515 0.4013453 4.007951 3.483485e-01
09_Epi25_dataset 1.0256268 0.1216163 3.855898 7.225946e-01
10_SFARI_all 0.8852094 0.2828034 2.117279 1.000000e+00
11_SFARI_score4plus 0.7098934 0.1442467 2.127879 8.020013e-01
12_DeRubeis_RDNV 2.2281418 0.5882687 5.999134 1.154765e-01
13_Iossifov_RDNV 1.2794987 0.7019030 2.165088 3.671954e-01
14_FMRP_Darnell 1.3267725 0.8226961 2.045149 2.146901e-01
15_Voineagu_M12 1.1332862 0.5088418 2.205854 7.146470e-01
16_Voineagu_M16 2.5825756 1.5131714 4.170728 3.850128e-04
17_ID_genes_Neel 1.2110133 0.5434303 2.358910 5.714451e-01
18_ID_genes_pinto2014 0.9006786 0.2877019 2.154842 1.000000e+00
19_Fromer_SCZ_FunDN 0.7804990 0.3513532 1.513744 6.449328e-01
20_Cocchi_Pruning 5.3911724 2.4663155 10.571777 4.392584e-05
Beta SE Padj
01_Swaminathan2018_DEPDC5KO 0.32268233 0.2336600 1.000000e+00
02_TSC2_KO_Grabole_2016 0.52515812 0.1172655 1.052658e-04
03_TSC2_Grabole-2016 0.66016643 0.1213137 3.174225e-07
04_TSC2-tuber-Martin2017 1.45021561 0.3951853 5.153800e-03
05_TSC2-SEN_SEGA-Martin2017 1.03604892 0.1285574 9.372532e-14
06_all_EpilepsyGene 0.32881755 0.3471966 1.000000e+00
07_high_conf_EpilepsyGene 0.76986397 0.5255683 1.000000e+00
08_ASD_Epilepsy_EpilepsyGene 0.41068582 0.6753157 1.000000e+00
09_Epi25_dataset 0.02530394 1.0878512 1.000000e+00
10_SFARI_all -0.12193103 0.5821798 1.000000e+00
11_SFARI_score4plus -0.34264041 0.8130560 1.000000e+00
12_DeRubeis_RDNV 0.80116795 0.6794589 1.000000e+00
13_Iossifov_RDNV 0.24646833 0.3063410 1.000000e+00
14_FMRP_Darnell 0.28274932 0.2438356 1.000000e+00
15_Voineagu_M12 0.12512153 0.4085406 1.000000e+00
16_Voineagu_M16 0.94878720 0.2727446 7.700256e-03
17_ID_genes_Neel 0.19145747 0.4088323 1.000000e+00
18_ID_genes_pinto2014 -0.10460677 0.5822570 1.000000e+00
19_Fromer_SCZ_FunDN -0.24782181 0.4072151 1.000000e+00
20_Cocchi_Pruning 1.68476288 0.3989987 8.785167e-04
gene_univers = rownames(ddsMat)
gostres = getGOresults(GOIs, gene_univers)
toptab = gostres$result
write.xlsx(toptab, file = paste0(output, "/GOres_Rescue_DIFF.xlsx"), sheetName = "GO_enrichment")
fit<- euler(list(DIFF_DEX=DIFFhits_ENTREZ,
RAPA_RESC=DIFFRAPA_RESC_ENTREZ), shape = "ellipse")
plot(fit, quantities = TRUE, main="DIFF rescue")
allhits = list(DIFF_DEX=DIFFhits_ENTREZ,
DIFF_RAPA_RESC=DIFFRAPA_RESC_ENTREZ,
PROLIF_DEX=noDIFFhits_ENTREZ,
PROLIF_RAPA_RESC=noDIFFRAPA_RESC_ENTREZ
)
fit2 <- euler(allhits, shape = "ellipse")
plot(fit2, quantities = TRUE, main="Overlap of gene hits")
sessionInfo()R version 4.2.0 (2022-04-22 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 18363)
Matrix products: default
locale:
[1] LC_COLLATE=German_Germany.utf8 LC_CTYPE=German_Germany.utf8
[3] LC_MONETARY=German_Germany.utf8 LC_NUMERIC=C
[5] LC_TIME=German_Germany.utf8
attached base packages:
[1] stats4 stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] gprofiler2_0.2.1 eulerr_6.1.1
[3] openxlsx_4.2.5 limma_3.52.2
[5] flashClust_1.01-2 WGCNA_1.71
[7] fastcluster_1.2.3 dynamicTreeCut_1.63-1
[9] knitr_1.39 DESeq2_1.36.0
[11] SummarizedExperiment_1.26.1 Biobase_2.56.0
[13] MatrixGenerics_1.8.0 matrixStats_0.62.0
[15] GenomicRanges_1.48.0 GenomeInfoDb_1.32.2
[17] IRanges_2.30.0 S4Vectors_0.34.0
[19] BiocGenerics_0.42.0 pheatmap_1.0.12
[21] RColorBrewer_1.1-3 compareGroups_4.5.1
[23] forcats_0.5.1 stringr_1.4.0
[25] dplyr_1.0.9 purrr_0.3.4
[27] readr_2.1.2 tidyr_1.2.0
[29] tibble_3.1.7 ggplot2_3.3.6
[31] tidyverse_1.3.1 kableExtra_1.3.4
loaded via a namespace (and not attached):
[1] readxl_1.4.0 uuid_1.1-0 backports_1.4.1
[4] Hmisc_4.7-0 workflowr_1.7.0 systemfonts_1.0.4
[7] lazyeval_0.2.2 polylabelr_0.2.0 splines_4.2.0
[10] BiocParallel_1.30.3 digest_0.6.29 foreach_1.5.2
[13] htmltools_0.5.2 GO.db_3.15.0 fansi_1.0.3
[16] checkmate_2.1.0 magrittr_2.0.3 Rsolnp_1.16
[19] memoise_2.0.1 cluster_2.1.3 doParallel_1.0.17
[22] tzdb_0.3.0 Biostrings_2.64.0 annotate_1.74.0
[25] modelr_0.1.8 officer_0.4.3 svglite_2.1.0
[28] jpeg_0.1-9 colorspace_2.0-3 blob_1.2.3
[31] rvest_1.0.2 haven_2.5.0 xfun_0.31
[34] crayon_1.5.1 RCurl_1.98-1.6 jsonlite_1.8.0
[37] genefilter_1.78.0 impute_1.70.0 survival_3.3-1
[40] iterators_1.0.14 glue_1.6.2 polyclip_1.10-0
[43] gtable_0.3.0 zlibbioc_1.42.0 XVector_0.36.0
[46] webshot_0.5.3 DelayedArray_0.22.0 scales_1.2.0
[49] DBI_1.1.3 Rcpp_1.0.9 htmlTable_2.4.1
[52] viridisLite_0.4.0 xtable_1.8-4 foreign_0.8-82
[55] bit_4.0.4 preprocessCore_1.58.0 Formula_1.2-4
[58] truncnorm_1.0-8 htmlwidgets_1.5.4 httr_1.4.3
[61] ellipsis_0.3.2 mice_3.14.0 farver_2.1.1
[64] pkgconfig_2.0.3 XML_3.99-0.10 deldir_1.0-6
[67] nnet_7.3-17 sass_0.4.1 dbplyr_2.2.1
[70] locfit_1.5-9.6 utf8_1.2.2 labeling_0.4.2
[73] tidyselect_1.1.2 rlang_1.0.2 later_1.3.0
[76] AnnotationDbi_1.58.0 munsell_0.5.0 cellranger_1.1.0
[79] tools_4.2.0 cachem_1.0.6 cli_3.3.0
[82] generics_0.1.3 RSQLite_2.2.14 broom_1.0.0
[85] evaluate_0.15 fastmap_1.1.0 yaml_2.3.5
[88] bit64_4.0.5 fs_1.5.2 zip_2.2.0
[91] KEGGREST_1.36.3 xml2_1.3.3 compiler_4.2.0
[94] rstudioapi_0.13 plotly_4.10.0 png_0.1-7
[97] reprex_2.0.1 geneplotter_1.74.0 bslib_0.4.0
[100] stringi_1.7.6 HardyWeinberg_1.7.5 highr_0.9
[103] gdtools_0.2.4 lattice_0.20-45 Matrix_1.4-1
[106] vctrs_0.4.1 pillar_1.8.0 lifecycle_1.0.1
[109] jquerylib_0.1.4 data.table_1.14.2 bitops_1.0-7
[112] flextable_0.7.2 httpuv_1.6.5 latticeExtra_0.6-30
[115] R6_2.5.1 promises_1.2.0.1 gridExtra_2.3
[118] writexl_1.4.0 codetools_0.2-18 assertthat_0.2.1
[121] chron_2.3-57 rprojroot_2.0.3 withr_2.5.0
[124] GenomeInfoDbData_1.2.8 parallel_4.2.0 hms_1.1.1
[127] rpart_4.1.16 grid_4.2.0 rmarkdown_2.14
[130] git2r_0.30.1 lubridate_1.8.0 base64enc_0.1-3
[133] interp_1.1-3