Project: vulpe_liver_2014
26 significantly associated models · 5 unique genes
| # | chr | p0 | p1 | # assoc genes | # joint models | best TWAS P | best SNP P | cond SNP P | % var exp | joint genes |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8 | 29620582 | 31650241 | 4 | 1 | 2.5e-08 | 1.4e-08 | 0.13 | 93 | Barx2 |
| 2 | 16 | 75583273 | 76982669 | 1 | 1 | 2.6e-07 | 6.9e-02 | 0.89 | 99 | Adprhl1 |
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.
| Trait | chisq ratio | # genes+ | # genes++ | % genes++ | corr | corr P | genes |
|---|---|---|---|---|---|---|---|
| pavca_ny_levercs_d4d5 | 7.3 | 3 | 0 | 0 | -1 | 0.00074 | Barx2 Arhgap32 Kcnj5 |
| tautz: manual_spc9 | 8.1 | 1 | 0 | 0 | 0 | 1.00000 | Adprhl1 |
| tautz: manual_mpc3 | 11.8 | 1 | 0 | 0 | 0 | 1.00000 | Adprhl1 |
| tautz: manual_spc2 | 7.7 | 2 | 0 | 0 | 0 | 1.00000 | Barx2 Kcnj5 |
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.
| tissue | modality | # hits | % hits/tests | avg chisq |
|---|---|---|---|---|
| Adipose | alternative polyA | 0 | 0.000 | 1.28 |
| Adipose | alternative TSS | 1 | 0.062 | 1.23 |
| Adipose | gene expression | 2 | 0.024 | 1.24 |
| Adipose | isoform ratio | 1 | 0.035 | 1.31 |
| Adipose | intron excision ratio | 1 | 0.034 | 1.14 |
| Adipose | mRNA stability | 0 | 0.000 | 1.30 |
| BLA | alternative polyA | 0 | 0.000 | 1.33 |
| BLA | alternative TSS | 0 | 0.000 | 1.15 |
| BLA | gene expression | 2 | 0.033 | 1.28 |
| BLA | isoform ratio | 2 | 0.114 | 1.31 |
| BLA | intron excision ratio | 0 | 0.000 | 1.23 |
| BLA | mRNA stability | 0 | 0.000 | 1.35 |
| Brain | alternative polyA | 0 | 0.000 | 1.28 |
| Brain | alternative TSS | 0 | 0.000 | 1.12 |
| Brain | gene expression | 2 | 0.022 | 1.25 |
| Brain | isoform ratio | 0 | 0.000 | 1.21 |
| Brain | intron excision ratio | 1 | 0.018 | 1.21 |
| Brain | mRNA stability | 0 | 0.000 | 1.27 |
| Eye | alternative polyA | 0 | 0.000 | 1.10 |
| Eye | alternative TSS | 0 | 0.000 | 0.92 |
| Eye | gene expression | 0 | 0.000 | 1.33 |
| Eye | isoform ratio | 0 | 0.000 | 1.25 |
| Eye | intron excision ratio | 0 | 0.000 | 1.22 |
| Eye | mRNA stability | 0 | 0.000 | 1.26 |
| IL | alternative polyA | 0 | 0.000 | 1.39 |
| IL | alternative TSS | 0 | 0.000 | 1.05 |
| IL | gene expression | 0 | 0.000 | 1.27 |
| IL | isoform ratio | 0 | 0.000 | 1.14 |
| IL | intron excision ratio | 0 | 0.000 | 1.12 |
| IL | mRNA stability | 0 | 0.000 | 1.32 |
| LHb | alternative polyA | 0 | 0.000 | 1.34 |
| LHb | alternative TSS | 0 | 0.000 | 1.12 |
| LHb | gene expression | 1 | 0.031 | 1.24 |
| LHb | isoform ratio | 0 | 0.000 | 1.24 |
| LHb | intron excision ratio | 0 | 0.000 | 1.17 |
| LHb | mRNA stability | 0 | 0.000 | 1.24 |
| Liver | alternative polyA | 0 | 0.000 | 1.25 |
| Liver | alternative TSS | 0 | 0.000 | 1.17 |
| Liver | gene expression | 3 | 0.042 | 1.24 |
| Liver | isoform ratio | 0 | 0.000 | 1.19 |
| Liver | intron excision ratio | 0 | 0.000 | 1.19 |
| Liver | mRNA stability | 0 | 0.000 | 1.25 |
| NAcc | alternative polyA | 0 | 0.000 | 1.21 |
| NAcc | alternative TSS | 0 | 0.000 | 1.25 |
| NAcc | gene expression | 1 | 0.030 | 1.30 |
| NAcc | isoform ratio | 0 | 0.000 | 1.26 |
| NAcc | intron excision ratio | 0 | 0.000 | 1.23 |
| NAcc | mRNA stability | 0 | 0.000 | 1.22 |
| NAcc2 | alternative polyA | 0 | 0.000 | 1.39 |
| NAcc2 | alternative TSS | 0 | 0.000 | 1.35 |
| NAcc2 | gene expression | 2 | 0.037 | 1.33 |
| NAcc2 | isoform ratio | 2 | 0.130 | 1.30 |
| NAcc2 | intron excision ratio | 2 | 0.076 | 1.25 |
| NAcc2 | mRNA stability | 1 | 0.056 | 1.33 |
| OFC | alternative polyA | 0 | 0.000 | 1.31 |
| OFC | alternative TSS | 0 | 0.000 | 1.55 |
| OFC | gene expression | 0 | 0.000 | 1.28 |
| OFC | isoform ratio | 0 | 0.000 | 1.22 |
| OFC | intron excision ratio | 0 | 0.000 | 1.16 |
| OFC | mRNA stability | 0 | 0.000 | 1.25 |
| PL | alternative polyA | 0 | 0.000 | 1.38 |
| PL | alternative TSS | 0 | 0.000 | 1.12 |
| PL | gene expression | 0 | 0.000 | 1.29 |
| PL | isoform ratio | 0 | 0.000 | 1.22 |
| PL | intron excision ratio | 0 | 0.000 | 1.21 |
| PL | mRNA stability | 0 | 0.000 | 1.31 |
| PL2 | alternative polyA | 0 | 0.000 | 1.36 |
| PL2 | alternative TSS | 0 | 0.000 | 1.18 |
| PL2 | gene expression | 1 | 0.016 | 1.30 |
| PL2 | isoform ratio | 0 | 0.000 | 1.29 |
| PL2 | intron excision ratio | 1 | 0.032 | 1.30 |
| PL2 | mRNA stability | 0 | 0.000 | 1.30 |
avg chisq: Average Chi2 (squared Z-score) across all models in this panel for this trait.