Additional file 1 of Genome- and Transcriptome-wide Association Studies to Discover Candidate Genes for Diverse Root Phenotypes in Cultivated Rice

Supplementary Material 1: Table S1. BIC values and the selected models for GWAS and TWAS. Table S2. Candidate genes for the GWAS peak identified at 6,199,732 bp on chromosome 8. Table S3. Candidate genes for the GWAS peak identified at 20,665,890 bp on chromosome 8. Table S4. Candidate genes for the GWAS peak identified at 17,902,506 bp on chromosome 11. Table S5. Summary of the top ten gene-phenotype associations for the 12 root phenotypes in TWAS. Table S6. Candidate gene selection from the 70 unique genes in the top-ten gene-phenotype associations in TWAS. Table S7. Summary of the six genes with a significant cis-eGWAS peak. Table S8. Summary of the filtering, GWAS, and eGWAS results for the 43 polymorphic variants from 2 kb upsteam to the end of the OsENT1 gene region. Table S9. Summary of the filtering, GWAS, and eGWAS results for the 24 polymorphic variants from 2 kb upsteam to the end of the OsDjA6 gene region. Table S10. SNP genotype of the 57 WRC acccessions at the putative TATA box-like motif, at the GWAS peak SNP, and at the eGWAS peak SNP