Hub : Traits

Liver zinc concentration

Project: vulpe_liver_2014

1 significantly associated model · 1 unique gene

Significant Loci

# chr p0 p1 # assoc genes # joint models best TWAS P best SNP P cond SNP P % var exp joint genes
1 1 201865024 202832586 1 1 1.1e-10 0.12 0.0012 -342 Ccs

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
Number of licking bursts 8.1 1 0 0 0 1 Ccs
Food consumed during 24 hour testing period 18.6 1 0 0 0 1 Ccs
Water consumed over 24 hour session 11.5 1 0 0 0 1 Ccs
Average drop size 5.0 1 0 0 0 1 Ccs
reaction_time_peropinit_slope 3.9 1 0 0 0 1 Ccs
tautz: manual_spc9 12.9 1 0 0 0 1 Ccs
tautz: manual_mpc3 3.2 1 0 0 0 1 Ccs
tautz: manual_spc8 48.6 1 1 100 0 1 Ccs
tautz: manual_mpc4 43.2 1 1 100 0 1 Ccs
tautz: manual_spc22 6.9 1 0 0 0 1 Ccs
tautz: manual_mcs 4.9 1 0 0 0 1 Ccs
tautz: manual_spc17 3.0 1 0 0 0 1 Ccs
tautz: manual_mpc19 3.6 1 0 0 0 1 Ccs
tautz: manual_spc10 28.4 1 1 100 0 1 Ccs
tautz: manual_spc11 3.6 1 0 0 0 1 Ccs
tautz: manual_spc23 3.3 1 0 0 0 1 Ccs
tautz: manual_spc6 4.2 1 0 0 0 1 Ccs
tautz: manual_mpc2 16.6 1 0 0 0 1 Ccs
tautz: manual_spc1 24.0 1 1 100 0 1 Ccs
tautz: manual_spc16 19.8 1 0 0 0 1 Ccs
tautz: manual_spc5 8.9 1 0 0 0 1 Ccs
tautz: manual_mpc6 6.1 1 0 0 0 1 Ccs
tautz: manual_spc18 9.4 1 0 0 0 1 Ccs
tautz: manual_mpc11 24.9 1 1 100 0 1 Ccs
tautz: manual_spc19 6.0 1 0 0 0 1 Ccs
tautz: manual_mpc1 37.0 1 1 100 0 1 Ccs
Liver selenium concentration 35.1 1 1 100 0 1 Ccs
Liver iron concentration 23.9 1 1 100 0 1 Ccs
Liver cobalt concentration 35.3 1 1 100 0 1 Ccs
Liver cadmium concentration 5.8 1 0 0 0 1 Ccs
Liver sodium concentration 11.5 1 0 0 0 1 Ccs
Liver manganese concentration 4.7 1 0 0 0 1 Ccs

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 0 0.000 1.19
Adipose alternative TSS 0 0.000 1.04
Adipose gene expression 0 0.000 1.08
Adipose isoform ratio 0 0.000 1.10
Adipose intron excision ratio 0 0.000 0.99
Adipose mRNA stability 0 0.000 1.15
BLA alternative polyA 0 0.000 1.04
BLA alternative TSS 0 0.000 1.17
BLA gene expression 0 0.000 1.07
BLA isoform ratio 0 0.000 1.15
BLA intron excision ratio 0 0.000 1.06
BLA mRNA stability 0 0.000 1.16
Brain alternative polyA 0 0.000 1.09
Brain alternative TSS 0 0.000 1.14
Brain gene expression 0 0.000 1.09
Brain isoform ratio 0 0.000 1.07
Brain intron excision ratio 0 0.000 1.07
Brain mRNA stability 0 0.000 1.14
Eye alternative polyA 0 0.000 1.50
Eye alternative TSS 0 0.000 1.32
Eye gene expression 0 0.000 1.15
Eye isoform ratio 0 0.000 1.16
Eye intron excision ratio 0 0.000 1.17
Eye mRNA stability 0 0.000 1.15
IL alternative polyA 0 0.000 1.05
IL alternative TSS 0 0.000 1.18
IL gene expression 0 0.000 1.07
IL isoform ratio 0 0.000 1.07
IL intron excision ratio 0 0.000 1.16
IL mRNA stability 0 0.000 1.18
LHb alternative polyA 0 0.000 1.15
LHb alternative TSS 0 0.000 1.21
LHb gene expression 0 0.000 1.09
LHb isoform ratio 0 0.000 1.13
LHb intron excision ratio 0 0.000 1.13
LHb mRNA stability 0 0.000 1.14
Liver alternative polyA 0 0.000 1.21
Liver alternative TSS 0 0.000 1.09
Liver gene expression 1 0.014 1.14
Liver isoform ratio 0 0.000 1.12
Liver intron excision ratio 0 0.000 1.14
Liver mRNA stability 0 0.000 1.20
NAcc alternative polyA 0 0.000 1.11
NAcc alternative TSS 0 0.000 1.16
NAcc gene expression 0 0.000 1.05
NAcc isoform ratio 0 0.000 1.20
NAcc intron excision ratio 0 0.000 1.13
NAcc mRNA stability 0 0.000 1.11
NAcc2 alternative polyA 0 0.000 1.10
NAcc2 alternative TSS 0 0.000 1.23
NAcc2 gene expression 0 0.000 1.07
NAcc2 isoform ratio 0 0.000 1.12
NAcc2 intron excision ratio 0 0.000 1.03
NAcc2 mRNA stability 0 0.000 1.17
OFC alternative polyA 0 0.000 1.13
OFC alternative TSS 0 0.000 1.10
OFC gene expression 0 0.000 1.06
OFC isoform ratio 0 0.000 1.09
OFC intron excision ratio 0 0.000 1.08
OFC mRNA stability 0 0.000 1.19
PL alternative polyA 0 0.000 1.03
PL alternative TSS 0 0.000 1.10
PL gene expression 0 0.000 1.05
PL isoform ratio 0 0.000 1.13
PL intron excision ratio 0 0.000 1.15
PL mRNA stability 0 0.000 1.10
PL2 alternative polyA 0 0.000 1.08
PL2 alternative TSS 0 0.000 1.06
PL2 gene expression 0 0.000 1.07
PL2 isoform ratio 0 0.000 1.13
PL2 intron excision ratio 0 0.000 1.05
PL2 mRNA stability 0 0.000 1.16

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