Hub : Traits

kidney_right_g

Project: dissection

1051 significantly associated models · 164 unique genes

Significant Loci

# chr p0 p1 # assoc genes # joint models best TWAS P best SNP P cond SNP P % var exp joint genes
1 1 169577644 171448580 6 1 2.4e-07 1.5e-07 1.0000 100 Sox6
2 1 254740406 257259017 4 1 7.0e-08 4.3e-08 0.0909 90 Casp7
3 1 258394596 260518987 12 5 3.9e-12 7.8e-14 NaN NaN Rab11fip2 Fam204a Prlhr Cacul1 Nanos1
4 3 105151820 106550924 1 1 2.8e-08 1.1e-05 1.0000 100 Ivd
5 5 109125119 110596972 3 1 5.2e-08 4.1e-06 0.3266 95 NA
6 7 110098486 121146934 104 10 1.7e-13 8.0e-13 1.0000 100 Ccdc134 Septin3 Nup50 Josd1 Xpnpep3 Rrp7a Serhl2 Cyp2d4 Sult4a1 NA
7 9 106993481 108434469 2 1 1.2e-08 7.8e-10 0.0049 79 Arhgap28
8 12 27006 6860177 28 7 1.0e-09 1.2e-08 NaN NaN Fry Stard13 Arhgef18 AABR07035218.1 Katnal1 B3glct Zfp958
9 16 19065621 19932386 1 1 4.7e-09 1.3e-03 0.6919 98 NA
10 19 36759451 38410018 3 1 3.6e-08 1.1e-08 0.0658 90 Pmfbp1

p0: physical position of the start of the locus. p1: physical position of the end of the locus. # joint models: number of models selected by step-wise conditional analysis.

Pleiotropic Associations

Trait chisq ratio # genes+ # genes++ % genes++ corr corr P genes
dissection: UMAP 1 of all traits 9.3 115 50 172.4 -0.91 1.1e-159 Fry Rxfp2 Hsph1 Wdr95 Mcoln1 Camsap3 Xab2 Stxbp2 Trappc5 Evi5l Snapc2 Elavl1 Stard13 N4bp2l2 Brca2 Polr3h Csdc2 Pmm1 Desi1 Xrcc6 Snu13 Mapk11 Mei1 Plxnb2 Ccdc134 Srebf2 Septin3 Ivd Rab11fip2 Tcf20 Pacsin2 Fam204a Prlhr Cacul1 Ttll1 Dennd10 Prdx3 Grk5 Tomm22 Josd1 Pmfbp1 Atxn10 Ist1 Sun2 Ttc38 Gtse1 Nptxr Trmu Apobec3 Cerk Tbc1d22a Arhgap28 Syngr1 Afap1l2 Fhip2a Lama1 Mgat3 Mief1 Grap2 Mchr1 Slc25a17 Xpnpep3 Nucb2 Pik3c2a Sox6 Celsr1 Tmem184b Rrp7a Serhl2 Cenpm Phf5a Plekha7 L3mbtl2 Tnrc6b Nanos1 Enthd1 Arhgef18 Pex11g Lrrc8e Cyp2d5 Cyp2d3 AABR07035218.1 Insr Lmf2 Rangap1 Cyp2d4 Zfp950 Cdpf1 Ces2c Sfxn4 NA Katnal1 Tafa5 Shisa8 Pet100 Tob2 RGD1311703 Zc3h7b Casp7 Rbx1 N4bp2l1 Selenoo B3glct NA NA Zfp958 NA NA NA NA NA Rps13 NA NA NA
retroperitoneal_fat_g 16.8 37 18 62.1 0.88 1.4e-34 Polr3h Csdc2 Rab11fip2 Fam204a Prlhr Cacul1 Dennd10 Prdx3 Grk5 Tomm22 Josd1 Sun2 Nptxr Apobec3 Syngr1 Afap1l2 Fhip2a Mgat3 Mief1 Grap2 Mchr1 Slc25a17 Xpnpep3 Phf5a Nanos1 Enthd1 Rangap1 Zfp950 Ces2c Sfxn4 Zc3h7b Casp7 Rbx1 NA NA NA NA
body_g 17.1 54 42 144.8 0.98 7.0e-95 Fry Rxfp2 Hsph1 Wdr95 Mcoln1 Camsap3 Xab2 Stxbp2 Trappc5 Evi5l Snapc2 Elavl1 Stard13 N4bp2l2 Brca2 Ivd Rab11fip2 Fam204a Prlhr Cacul1 Dennd10 Prdx3 Grk5 Arhgap28 Afap1l2 Fhip2a Nucb2 Pik3c2a Sox6 Plekha7 Nanos1 Arhgef18 Pex11g Lrrc8e AABR07035218.1 Insr Zfp950 Ces2c Sfxn4 Katnal1 Tafa5 Pet100 RGD1311703 Casp7 N4bp2l1 B3glct NA Zfp958 NA NA NA NA Rps13 NA
dissection: UMAP 3 of all traits 13.0 34 22 75.9 -0.98 2.1e-64 Fry Rxfp2 Hsph1 Wdr95 Mcoln1 Camsap3 Xab2 Stxbp2 Trappc5 Evi5l Snapc2 Elavl1 Stard13 N4bp2l2 Brca2 Pick1 Pla2g6 Csnk1e Sun2 Nptxr Syngr1 Mief1 Tmem184b Arhgef18 Pex11g Lrrc8e Insr Katnal1 Pet100 N4bp2l1 B3glct Zfp958 NA NA
dissection: PC 3 of all traits 9.1 8 2 6.9 0.52 4.1e-02 Evi5l Elavl1 N4bp2l2 Rab11fip2 Prlhr Cacul1 Insr Sfxn4
dissection: PC 2 of all traits 10.1 18 10 34.5 -0.38 1.3e-02 Xab2 Snapc2 Elavl1 N4bp2l2 Rab11fip2 Prlhr Cacul1 Dennd10 Grk5 Nanos1 Insr Zfp950 Ces2c Sfxn4 N4bp2l1 NA Zfp958 NA
heart_g 12.1 2 0 0.0 0.00 1.0e+00 Nanos1 Sfxn4
EDL weight in grams 6.1 21 7 24.1 1.00 5.3e-79 Fry Rxfp2 Mcoln1 Camsap3 Xab2 Stxbp2 Trappc5 Evi5l Snapc2 Elavl1 Stard13 N4bp2l2 Brca2 Arhgef18 Pex11g Lrrc8e Insr Pet100 N4bp2l1 Zfp958 NA
Tibia length in mm 6.9 13 0 0.0 1.00 9.9e-42 Mcoln1 Stxbp2 Trappc5 Evi5l Snapc2 Stard13 N4bp2l2 Brca2 Pex11g Lrrc8e Insr Pet100 N4bp2l1
sol weight in grams 6.5 3 0 0.0 0.00 1.0e+00 Afap1l2 Fhip2a NA
TA weight in grams 8.1 21 17 58.6 1.00 7.0e-77 Fry Rxfp2 Mcoln1 Camsap3 Xab2 Stxbp2 Trappc5 Evi5l Snapc2 Elavl1 Stard13 N4bp2l2 Brca2 Arhgef18 Pex11g Lrrc8e Insr Pet100 N4bp2l1 Zfp958 NA
Total sessions with >9 infusions 19.8 1 0 0.0 0.00 1.0e+00 Casp7
tb_th_sd 14.7 8 0 0.0 1.00 2.4e-11 Prlhr Cacul1 Dennd10 Grk5 Nanos1 Zfp950 Ces2c Sfxn4
tautz: manual_mpc18 12.3 1 0 0.0 0.00 1.0e+00 NA
Liver iron concentration 14.5 2 0 0.0 1.00 8.1e-05 Rxfp2 B3glct

chisq ratio: Average Chi2 statistic for the selected genes in the secondary trait, divided by the average statistic for all genes in the secondary trait. # genes+: Shared significant genes at Bonferroni correction. # genes++: Shared significant genes at transcriptome-wide significance. % genes++: Number of [++] genes as a percentage of primary trait’s total joint genes. corr: Correlation of effect sizes across the [+] genes.

Associations by panel

tissue modality # hits % hits/tests avg chisq
Adipose alternative polyA 17 0.80 3.0
Adipose alternative TSS 10 0.62 3.2
Adipose gene expression 50 0.60 2.7
Adipose isoform ratio 16 0.57 2.8
Adipose intron excision ratio 16 0.55 2.8
Adipose mRNA stability 24 0.70 2.7
BLA alternative polyA 8 0.67 2.9
BLA alternative TSS 9 1.07 3.0
BLA gene expression 43 0.71 2.8
BLA isoform ratio 14 0.80 3.0
BLA intron excision ratio 28 0.94 3.0
BLA mRNA stability 18 0.89 3.1
Brain alternative polyA 11 0.55 2.8
Brain alternative TSS 17 0.99 2.9
Brain gene expression 53 0.59 2.8
Brain isoform ratio 22 0.70 2.8
Brain intron excision ratio 43 0.80 3.0
Brain mRNA stability 34 0.78 2.8
Eye alternative polyA 0 0.00 2.7
Eye alternative TSS 0 0.00 2.9
Eye gene expression 9 0.80 3.0
Eye isoform ratio 0 0.00 2.7
Eye intron excision ratio 6 0.98 3.2
Eye mRNA stability 2 0.86 3.0
IL alternative polyA 4 0.66 3.3
IL alternative TSS 0 0.00 2.6
IL gene expression 26 0.71 2.9
IL isoform ratio 5 0.63 3.2
IL intron excision ratio 7 0.73 2.9
IL mRNA stability 8 0.72 2.7
LHb alternative polyA 1 0.17 2.6
LHb alternative TSS 0 0.00 2.3
LHb gene expression 27 0.84 3.0
LHb isoform ratio 3 0.40 3.0
LHb intron excision ratio 10 0.97 3.0
LHb mRNA stability 7 0.68 2.9
Liver alternative polyA 8 0.53 3.0
Liver alternative TSS 0 0.00 2.6
Liver gene expression 31 0.43 2.6
Liver isoform ratio 12 0.50 2.9
Liver intron excision ratio 30 0.69 2.8
Liver mRNA stability 14 0.57 2.8
NAcc alternative polyA 1 0.19 3.3
NAcc alternative TSS 2 0.58 2.8
NAcc gene expression 28 0.85 3.0
NAcc isoform ratio 5 0.67 3.1
NAcc intron excision ratio 8 0.84 2.9
NAcc mRNA stability 12 1.11 3.2
NAcc2 alternative polyA 10 0.90 3.1
NAcc2 alternative TSS 8 1.09 3.2
NAcc2 gene expression 49 0.92 3.0
NAcc2 isoform ratio 10 0.65 2.8
NAcc2 intron excision ratio 21 0.79 3.0
NAcc2 mRNA stability 12 0.67 2.9
OFC alternative polyA 6 1.03 3.3
OFC alternative TSS 0 0.00 2.3
OFC gene expression 25 0.67 3.0
OFC isoform ratio 7 0.86 3.1
OFC intron excision ratio 6 0.60 2.8
OFC mRNA stability 8 0.74 2.9
PL alternative polyA 5 0.83 3.2
PL alternative TSS 0 0.00 2.2
PL gene expression 32 0.86 2.9
PL isoform ratio 9 1.03 3.1
PL intron excision ratio 7 0.67 2.9
PL mRNA stability 6 0.52 2.8
PL2 alternative polyA 13 1.04 3.0
PL2 alternative TSS 13 1.38 3.3
PL2 gene expression 43 0.67 2.8
PL2 isoform ratio 16 0.87 3.0
PL2 intron excision ratio 25 0.79 3.0
PL2 mRNA stability 21 0.86 2.9

avg chisq: Average Chi2 (squared Z-score) across all models in this panel for this trait.