Project: r01_doug_adams
17 significantly associated models · 8 unique genes
| # | chr | p0 | p1 | # assoc genes | # joint models | best TWAS P | best SNP P | cond SNP P | % var exp | joint genes |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 7 | 129497169 | 132411050 | 7 | 2 | 5.4e-08 | 6.1e-07 | 9.2e-85 | -1430 | Csrnp2 NA |
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 | 5.0 | 7 | 1 | 50 | 1.00 | 1.8e-17 | Slc11a2 Csrnp2 Tuba1b Dip2b Atf1 NA NA |
| dissection: UMAP 3 of all traits | 3.7 | 1 | 0 | 0 | 0.00 | 1.0e+00 | Tuba1b |
| kidney_right_g | 3.6 | 1 | 0 | 0 | 0.00 | 1.0e+00 | Tuba1b |
| os_mean | 6.8 | 1 | 0 | 0 | 0.00 | 1.0e+00 | Tuba1b |
| EDL weight in grams | 2.8 | 6 | 0 | 0 | 0.99 | 2.1e-07 | Slc11a2 Csrnp2 Tuba1b Dip2b Atf1 NA |
| Tibia length in mm | 6.3 | 8 | 0 | 0 | 1.00 | 3.4e-21 | Efhd1 Slc11a2 Csrnp2 Tuba1b Dip2b Atf1 NA NA |
| delay_discounting_pc1800 | 7.2 | 3 | 0 | 0 | 0.00 | 1.0e+00 | Csrnp2 Tuba1b NA |
| reaction_time_pinit_slope | 7.8 | 1 | 0 | 0 | 0.00 | 1.0e+00 | Tuba1b |
| reaction_time_peropfalsealarm_slope | 9.9 | 2 | 0 | 0 | 0.00 | 1.0e+00 | Tuba1b NA |
| pavca_ny_d5_magazine_ncs | 8.1 | 1 | 0 | 0 | 0.00 | 1.0e+00 | Tuba1b |
| tautz: manual_mpc18 | 7.0 | 1 | 0 | 0 | 0.00 | 1.0e+00 | Efhd1 |
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 | 2.0 |
| Adipose | alternative TSS | 0 | 0.000 | 2.1 |
| Adipose | gene expression | 0 | 0.000 | 1.9 |
| Adipose | isoform ratio | 0 | 0.000 | 2.0 |
| Adipose | intron excision ratio | 0 | 0.000 | 1.9 |
| Adipose | mRNA stability | 1 | 0.029 | 2.0 |
| BLA | alternative polyA | 0 | 0.000 | 1.9 |
| BLA | alternative TSS | 0 | 0.000 | 1.9 |
| BLA | gene expression | 1 | 0.016 | 2.0 |
| BLA | isoform ratio | 0 | 0.000 | 2.0 |
| BLA | intron excision ratio | 0 | 0.000 | 2.1 |
| BLA | mRNA stability | 0 | 0.000 | 2.0 |
| Brain | alternative polyA | 0 | 0.000 | 1.9 |
| Brain | alternative TSS | 0 | 0.000 | 1.9 |
| Brain | gene expression | 0 | 0.000 | 1.9 |
| Brain | isoform ratio | 0 | 0.000 | 1.9 |
| Brain | intron excision ratio | 0 | 0.000 | 2.0 |
| Brain | mRNA stability | 1 | 0.023 | 1.9 |
| Eye | alternative polyA | 0 | 0.000 | 2.4 |
| Eye | alternative TSS | 0 | 0.000 | 2.5 |
| Eye | gene expression | 0 | 0.000 | 2.0 |
| Eye | isoform ratio | 0 | 0.000 | 2.1 |
| Eye | intron excision ratio | 0 | 0.000 | 2.2 |
| Eye | mRNA stability | 0 | 0.000 | 2.2 |
| IL | alternative polyA | 0 | 0.000 | 2.3 |
| IL | alternative TSS | 0 | 0.000 | 2.1 |
| IL | gene expression | 0 | 0.000 | 2.1 |
| IL | isoform ratio | 0 | 0.000 | 2.3 |
| IL | intron excision ratio | 0 | 0.000 | 2.3 |
| IL | mRNA stability | 1 | 0.090 | 1.9 |
| LHb | alternative polyA | 0 | 0.000 | 2.3 |
| LHb | alternative TSS | 0 | 0.000 | 2.0 |
| LHb | gene expression | 0 | 0.000 | 2.1 |
| LHb | isoform ratio | 0 | 0.000 | 2.3 |
| LHb | intron excision ratio | 0 | 0.000 | 2.1 |
| LHb | mRNA stability | 0 | 0.000 | 1.9 |
| Liver | alternative polyA | 0 | 0.000 | 2.0 |
| Liver | alternative TSS | 0 | 0.000 | 2.0 |
| Liver | gene expression | 0 | 0.000 | 1.9 |
| Liver | isoform ratio | 0 | 0.000 | 1.9 |
| Liver | intron excision ratio | 0 | 0.000 | 1.8 |
| Liver | mRNA stability | 0 | 0.000 | 1.9 |
| NAcc | alternative polyA | 4 | 0.768 | 2.4 |
| NAcc | alternative TSS | 0 | 0.000 | 2.2 |
| NAcc | gene expression | 0 | 0.000 | 2.0 |
| NAcc | isoform ratio | 0 | 0.000 | 2.1 |
| NAcc | intron excision ratio | 0 | 0.000 | 2.4 |
| NAcc | mRNA stability | 0 | 0.000 | 2.0 |
| NAcc2 | alternative polyA | 0 | 0.000 | 1.9 |
| NAcc2 | alternative TSS | 0 | 0.000 | 1.8 |
| NAcc2 | gene expression | 1 | 0.019 | 1.9 |
| NAcc2 | isoform ratio | 0 | 0.000 | 2.0 |
| NAcc2 | intron excision ratio | 0 | 0.000 | 2.1 |
| NAcc2 | mRNA stability | 0 | 0.000 | 1.9 |
| OFC | alternative polyA | 0 | 0.000 | 2.2 |
| OFC | alternative TSS | 0 | 0.000 | 2.1 |
| OFC | gene expression | 1 | 0.027 | 2.0 |
| OFC | isoform ratio | 1 | 0.123 | 2.2 |
| OFC | intron excision ratio | 0 | 0.000 | 2.4 |
| OFC | mRNA stability | 1 | 0.093 | 2.0 |
| PL | alternative polyA | 0 | 0.000 | 2.2 |
| PL | alternative TSS | 0 | 0.000 | 1.9 |
| PL | gene expression | 0 | 0.000 | 2.1 |
| PL | isoform ratio | 0 | 0.000 | 2.2 |
| PL | intron excision ratio | 0 | 0.000 | 2.2 |
| PL | mRNA stability | 1 | 0.087 | 2.0 |
| PL2 | alternative polyA | 0 | 0.000 | 1.9 |
| PL2 | alternative TSS | 1 | 0.106 | 2.3 |
| PL2 | gene expression | 3 | 0.047 | 2.0 |
| PL2 | isoform ratio | 0 | 0.000 | 2.1 |
| PL2 | intron excision ratio | 0 | 0.000 | 2.3 |
| PL2 | mRNA stability | 0 | 0.000 | 1.9 |
avg chisq: Average Chi2 (squared Z-score) across all models in this panel for this trait.