Data summary for the AtMAD data repository in June 2020
| Data type | Details | Total numble of associations |
|---|---|---|
| cis-eQTL | eQTLs were defined if the SNP was within 1 Mb from the gene transcriptional start site (TSS) | 11,796 |
| trans-eQTL | eQTLs were defined if the SNP was beyond the region of 1 Mb from the gene transcriptional start site (TSS) | 10,119 |
| Environment-related eQTL | eQTLs that associated with at least one environmental factor | 68,837 |
| GWAS-related eQTL | eQTLs that related with known GWAS loci (collected from AraGWAS) | 149,622 |
| emQTL | emQTLs associated methylations and gene expression | 265,776 |
| Pathway-mQTL | Pathway-mQTLs connected methylations and pathways | 122,344 |
| Pathway-phenotype | Associations between pathways and phenotypes | 1,354 |
| GWAS | GWAS identified variant-trait associations. Phenotypes were collected from AraPheno, GWAS information was obtained from AraGWAS Catalog with bonferroni threshold | 44,636 |
| TWAS | TWAS identified associations between gene expression and phenotype | 62,754 |
| EWAS | EWAS identified associations between DNA methylation levels and phenotypes | 3,993,379 |