Project: r01_doug_adams
18 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 | 10 | 89561948 | 91822036 | 5 | 1 | 5.8e-09 | 8.3e-09 | 0.091 | 91 | Marchf10 |
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 |
|---|---|---|---|---|---|---|---|
| body_g | 2.5 | 3 | 0 | 0 | 1.00 | 2.0e-05 | Mrc2 Marchf10 Cyb561 |
| EDL weight in grams | 5.2 | 2 | 0 | 0 | 0.00 | 1.0e+00 | Marchf10 Kcnh6 |
| Total cortical area | 6.7 | 5 | 1 | 100 | -0.99 | 1.9e-11 | Mrc2 Marchf10 Cyb561 Kcnh6 Strada |
| tautz: manual_spc15 | 8.5 | 2 | 0 | 0 | 0.00 | 1.0e+00 | Mrc2 Marchf10 |
| tautz: manual_mpc3 | 6.6 | 1 | 0 | 0 | 0.00 | 1.0e+00 | Mrc2 |
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 | 0.98 |
| Adipose | alternative TSS | 0 | 0.000 | 1.06 |
| Adipose | gene expression | 0 | 0.000 | 1.12 |
| Adipose | isoform ratio | 0 | 0.000 | 1.07 |
| Adipose | intron excision ratio | 0 | 0.000 | 1.02 |
| Adipose | mRNA stability | 0 | 0.000 | 1.12 |
| BLA | alternative polyA | 0 | 0.000 | 0.97 |
| BLA | alternative TSS | 0 | 0.000 | 1.16 |
| BLA | gene expression | 1 | 0.016 | 1.12 |
| BLA | isoform ratio | 0 | 0.000 | 0.98 |
| BLA | intron excision ratio | 2 | 0.067 | 1.11 |
| BLA | mRNA stability | 0 | 0.000 | 1.10 |
| Brain | alternative polyA | 1 | 0.050 | 0.99 |
| Brain | alternative TSS | 0 | 0.000 | 1.04 |
| Brain | gene expression | 1 | 0.011 | 1.10 |
| Brain | isoform ratio | 0 | 0.000 | 1.01 |
| Brain | intron excision ratio | 3 | 0.056 | 1.10 |
| Brain | mRNA stability | 0 | 0.000 | 1.11 |
| Eye | alternative polyA | 0 | 0.000 | 1.19 |
| Eye | alternative TSS | 0 | 0.000 | 0.89 |
| Eye | gene expression | 0 | 0.000 | 1.08 |
| Eye | isoform ratio | 0 | 0.000 | 1.00 |
| Eye | intron excision ratio | 0 | 0.000 | 1.12 |
| Eye | mRNA stability | 0 | 0.000 | 0.99 |
| IL | alternative polyA | 0 | 0.000 | 0.98 |
| IL | alternative TSS | 0 | 0.000 | 0.89 |
| IL | gene expression | 0 | 0.000 | 1.06 |
| IL | isoform ratio | 0 | 0.000 | 1.01 |
| IL | intron excision ratio | 0 | 0.000 | 1.00 |
| IL | mRNA stability | 0 | 0.000 | 1.11 |
| LHb | alternative polyA | 0 | 0.000 | 0.93 |
| LHb | alternative TSS | 0 | 0.000 | 0.84 |
| LHb | gene expression | 0 | 0.000 | 1.07 |
| LHb | isoform ratio | 0 | 0.000 | 0.93 |
| LHb | intron excision ratio | 0 | 0.000 | 1.10 |
| LHb | mRNA stability | 0 | 0.000 | 1.16 |
| Liver | alternative polyA | 0 | 0.000 | 1.05 |
| Liver | alternative TSS | 0 | 0.000 | 1.05 |
| Liver | gene expression | 0 | 0.000 | 1.11 |
| Liver | isoform ratio | 0 | 0.000 | 1.02 |
| Liver | intron excision ratio | 1 | 0.023 | 1.15 |
| Liver | mRNA stability | 0 | 0.000 | 1.11 |
| NAcc | alternative polyA | 0 | 0.000 | 0.84 |
| NAcc | alternative TSS | 0 | 0.000 | 1.11 |
| NAcc | gene expression | 0 | 0.000 | 1.10 |
| NAcc | isoform ratio | 0 | 0.000 | 1.11 |
| NAcc | intron excision ratio | 0 | 0.000 | 1.15 |
| NAcc | mRNA stability | 0 | 0.000 | 1.06 |
| NAcc2 | alternative polyA | 0 | 0.000 | 1.00 |
| NAcc2 | alternative TSS | 0 | 0.000 | 1.09 |
| NAcc2 | gene expression | 1 | 0.019 | 1.12 |
| NAcc2 | isoform ratio | 0 | 0.000 | 1.08 |
| NAcc2 | intron excision ratio | 0 | 0.000 | 1.14 |
| NAcc2 | mRNA stability | 0 | 0.000 | 1.07 |
| OFC | alternative polyA | 0 | 0.000 | 0.92 |
| OFC | alternative TSS | 0 | 0.000 | 0.91 |
| OFC | gene expression | 0 | 0.000 | 1.12 |
| OFC | isoform ratio | 0 | 0.000 | 1.11 |
| OFC | intron excision ratio | 0 | 0.000 | 0.96 |
| OFC | mRNA stability | 0 | 0.000 | 1.10 |
| PL | alternative polyA | 0 | 0.000 | 0.91 |
| PL | alternative TSS | 0 | 0.000 | 0.98 |
| PL | gene expression | 1 | 0.027 | 1.08 |
| PL | isoform ratio | 0 | 0.000 | 1.03 |
| PL | intron excision ratio | 0 | 0.000 | 1.07 |
| PL | mRNA stability | 0 | 0.000 | 1.13 |
| PL2 | alternative polyA | 2 | 0.159 | 1.04 |
| PL2 | alternative TSS | 0 | 0.000 | 1.11 |
| PL2 | gene expression | 1 | 0.016 | 1.08 |
| PL2 | isoform ratio | 1 | 0.054 | 1.03 |
| PL2 | intron excision ratio | 3 | 0.095 | 1.10 |
| PL2 | mRNA stability | 0 | 0.000 | 1.06 |
avg chisq: Average Chi2 (squared Z-score) across all models in this panel for this trait.