Additional file 2 of Genome wide association analysis of root hair traits in rice reveals novel genomic regions controlling epidermal cell differentiation
Creators: name: Hanlon, Meredith T.
name: Vejchasarn, Phanchita
name: Fonta, Jenna E.
name: Schneider, Hannah M.
name: McCouch, Susan R.
name: Brown, Kathleen M.
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 2: Supplemental Figures 1-32. Supplemental Figure 1. Genome- wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for ALL RHD. Supplemental Figure 2. ALL RHD chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 3. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for ALL RHL. Supplemental Figure 4. ALL RHL chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 5. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for aus RHD. Supplemental Figure 6. aus RHD chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 7. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for aus RHL. Supplemental Figure 8. aus RHL chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 9. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for ind RHD. Supplemental Figure 10. ind RHD chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gen blocks. Supplemental Figure 11. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for ind RHL. Supplemental Figure 12. ind RHL chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 13. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for JAPONICA RHD. Supplemental Figure 14. JAPONICA RHD chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 15. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for JAPONICA RHL. Supplemental Figure 16. JAPONICA RHL chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 17. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for tej RHD. Supplemental Figure 18. tej RHD chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 19. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for tej RHL. Supplemental Figure 20. tej RHL chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 21. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for trj RHD. Supplemental Figure 22. trj RHD chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 23. Genome-wide association analysis using the HDRA SNPs, HDRA LD blocks, or pruned sets of the RICE-RP SNPs (p1-p6) for trj RHD. Supplemental Figure 24. trj RHL chromosome-wide association analysis using the RICE-RP SNPs or the SNPs collapsed into gene blocks. Supplemental Figure 25. Haplotype exploration of the region on chromosome 5 associated with RHL in ALL. Supplemental Figure 26. Region D4 from ind for RHD on chromosome 5 lacks support across multiple association runs. Supplemental Figure 27. Region D7 associated with RHD from ALL and JAPONICA lines. Supplemental Figure 28. Region D9 associated with RHD in trj on chromosome 8. Supplemental Figure 29. Region D10 associated with RHD in ALL on chromosome 9. Supplemental Figure 30. Haplotype exploration of the region on chromosome 1 associated with RHD in aus. Supplemental Figure 31. Haplotype exploration of the region on chromosome 10 associated with RHD in ALL and JAPONICA. Supplemental Figure 32. Haplotype exploration of region D14 on chromosome 12 associated with RHD in ALL and JAPONICA.