Hub : Traits

punishment

Project: u01_tom_jhou

12 significantly associated models · 6 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 68581504 69974370 1 1 3.0e-37 6.0e-04 4.2e-05 -42 Syt5
2 1 72595620 74100561 4 4 1.0e-16 4.0e-02 4.7e-01 88 Zfp329 Zscan18 Zfp110 Vom2r35
3 5 49091753 49968409 1 1 3.6e-08 3.2e-08 1.2e-01 92 RGD1359108

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 4.2 1 0 0 0.00 1.0e+00 RGD1359108
retroperitoneal_fat_g 3.1 3 0 0 0.00 1.0e+00 Zfp329 Zfp110 Vom2r35
body_g 6.1 2 1 17 0.00 1.0e+00 RGD1359108 Syt5
dissection: UMAP 3 of all traits 5.0 4 0 0 0.91 1.3e-02 Syt5 Zfp329 Zscan18 Vom2r35
kidney_right_g 4.3 2 0 0 0.00 1.0e+00 RGD1359108 Zfp329
dissection: PC 2 of all traits 5.3 2 0 0 0.00 1.0e+00 Zfp329 Vom2r35
glucose_mg_dl 12.1 1 0 0 0.00 1.0e+00 Syt5
EDL weight in grams 5.5 1 0 0 0.00 1.0e+00 RGD1359108
Tibia length in mm 7.5 1 0 0 0.00 1.0e+00 Syt5
TA weight in grams 8.2 1 1 17 0.00 1.0e+00 RGD1359108
Std. dev. time between licks in bursts 22.8 1 1 17 0.00 1.0e+00 Syt5
Average drop size 12.2 1 0 0 0.00 1.0e+00 Syt5
light_reinforcement_lr_relactive 21.5 1 1 17 0.00 1.0e+00 Syt5
light_reinforcement_lr_active 21.5 1 1 17 0.00 1.0e+00 Syt5
Delay discounting water rate 0 sec 10.3 1 0 0 0.00 1.0e+00 Syt5
Median of all reaction times 7.0 1 0 0 0.00 1.0e+00 Syt5
social_reinforcement_socialrfq 10.9 3 0 0 -0.91 8.7e-02 Syt5 Zfp329 Zfp110
reaction_time_pinit_slope 8.1 2 0 0 0.00 1.0e+00 Syt5 Vom2r35
reaction_time_peropfalsealarm_slope 11.6 1 0 0 0.00 1.0e+00 Syt5
reaction_time_meanrt_slope 15.7 1 0 0 0.00 1.0e+00 Syt5
reaction_time_devmedrt_slope 42.2 1 1 17 0.00 1.0e+00 Syt5
ccp_trial_3_saline_dist_mm 23.3 1 1 17 0.00 1.0e+00 Syt5
Conditioned locomotion 10.8 4 0 0 -0.97 6.7e-03 Syt5 Zfp329 Zscan18 Zfp110
Trabecular tissue density 7.3 3 0 0 0.00 1.0e+00 Syt5 Zfp329 Zfp110
ctth_sd 7.8 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_mpc15 10.5 1 0 0 0.00 1.0e+00 Zfp110
tautz: manual_mpc18 7.6 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_spc15 11.6 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_spc9 24.1 1 1 17 0.00 1.0e+00 Syt5
tautz: manual_mpc3 8.8 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_spc12 20.2 1 1 17 0.00 1.0e+00 Syt5
tautz: manual_spc14 8.9 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_mpc16 6.5 1 0 0 0.00 1.0e+00 Zfp329
tautz: manual_mpc4 10.7 3 1 17 -1.00 3.2e-04 Syt5 Zfp329 Zscan18
tautz: manual_mpc10 7.8 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_mpc5 23.6 1 1 17 0.00 1.0e+00 Syt5
tautz: manual_spc22 69.7 1 1 17 0.00 1.0e+00 Syt5
tautz: manual_mpc14 6.2 1 0 0 0.00 1.0e+00 Zfp110
tautz: manual_mpc12 25.5 1 1 17 0.00 1.0e+00 Syt5
tautz: manual_spc24 8.0 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_mpc19 32.6 1 1 17 0.00 1.0e+00 Syt5
tautz: manual_spc10 19.2 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_spc23 11.9 5 0 0 0.96 4.3e-05 Syt5 Zfp329 Zscan18 Zfp110 Vom2r35
tautz: manual_spc6 21.2 2 1 17 0.00 1.0e+00 Syt5 Zfp329
tautz: manual_spc1 10.7 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_mpc13 7.4 3 0 0 0.00 1.0e+00 Zfp329 Zscan18 Vom2r35
tautz: manual_spc5 17.8 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_spc3 11.2 1 0 0 0.00 1.0e+00 Syt5
tautz: manual_spc19 11.8 1 0 0 0.00 1.0e+00 Syt5
Ambulatory time at time1 of open field 22.2 2 1 17 0.00 1.0e+00 Syt5 Zfp110
The total number of resting periods in time1 37.4 1 1 17 0.00 1.0e+00 Syt5
Weight adjusted by age 8.2 1 0 0 0.00 1.0e+00 Syt5
Liver cobalt concentration 19.4 1 0 0 0.00 1.0e+00 Syt5
Liver cadmium concentration 7.7 1 0 0 0.00 1.0e+00 Syt5
Liver zinc concentration 12.4 1 0 0 0.00 1.0e+00 Syt5

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 1 0.047 1.14
Adipose alternative TSS 0 0.000 1.28
Adipose gene expression 2 0.024 1.24
Adipose isoform ratio 0 0.000 1.17
Adipose intron excision ratio 0 0.000 1.19
Adipose mRNA stability 0 0.000 1.28
BLA alternative polyA 0 0.000 1.21
BLA alternative TSS 0 0.000 1.31
BLA gene expression 1 0.016 1.27
BLA isoform ratio 1 0.057 1.27
BLA intron excision ratio 0 0.000 1.14
BLA mRNA stability 1 0.049 1.36
Brain alternative polyA 0 0.000 1.19
Brain alternative TSS 0 0.000 1.23
Brain gene expression 1 0.011 1.23
Brain isoform ratio 2 0.063 1.24
Brain intron excision ratio 0 0.000 1.18
Brain mRNA stability 0 0.000 1.25
Eye alternative polyA 0 0.000 1.10
Eye alternative TSS 0 0.000 1.30
Eye gene expression 0 0.000 1.35
Eye isoform ratio 0 0.000 1.21
Eye intron excision ratio 0 0.000 1.17
Eye mRNA stability 0 0.000 1.48
IL alternative polyA 0 0.000 1.19
IL alternative TSS 0 0.000 1.30
IL gene expression 0 0.000 1.22
IL isoform ratio 0 0.000 1.20
IL intron excision ratio 0 0.000 1.07
IL mRNA stability 0 0.000 1.19
LHb alternative polyA 0 0.000 0.98
LHb alternative TSS 0 0.000 1.24
LHb gene expression 0 0.000 1.23
LHb isoform ratio 0 0.000 1.21
LHb intron excision ratio 0 0.000 1.23
LHb mRNA stability 0 0.000 1.30
Liver alternative polyA 0 0.000 1.18
Liver alternative TSS 0 0.000 1.26
Liver gene expression 0 0.000 1.21
Liver isoform ratio 0 0.000 1.22
Liver intron excision ratio 0 0.000 1.15
Liver mRNA stability 0 0.000 1.22
NAcc alternative polyA 0 0.000 1.08
NAcc alternative TSS 0 0.000 1.09
NAcc gene expression 0 0.000 1.24
NAcc isoform ratio 0 0.000 1.33
NAcc intron excision ratio 0 0.000 1.11
NAcc mRNA stability 0 0.000 1.30
NAcc2 alternative polyA 0 0.000 1.16
NAcc2 alternative TSS 0 0.000 1.32
NAcc2 gene expression 0 0.000 1.25
NAcc2 isoform ratio 0 0.000 1.22
NAcc2 intron excision ratio 0 0.000 1.16
NAcc2 mRNA stability 1 0.056 1.30
OFC alternative polyA 0 0.000 1.02
OFC alternative TSS 0 0.000 0.94
OFC gene expression 0 0.000 1.23
OFC isoform ratio 0 0.000 1.27
OFC intron excision ratio 0 0.000 1.09
OFC mRNA stability 0 0.000 1.28
PL alternative polyA 0 0.000 1.08
PL alternative TSS 0 0.000 1.13
PL gene expression 0 0.000 1.22
PL isoform ratio 0 0.000 1.09
PL intron excision ratio 0 0.000 1.23
PL mRNA stability 0 0.000 1.30
PL2 alternative polyA 0 0.000 1.19
PL2 alternative TSS 0 0.000 1.24
PL2 gene expression 0 0.000 1.20
PL2 isoform ratio 2 0.108 1.32
PL2 intron excision ratio 0 0.000 1.11
PL2 mRNA stability 0 0.000 1.28

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