Phenotype and GWAS Information:

Agronomic Traits

Note: All the agronomic trait is from the article Breeding signatures of rice improvement revealed by a genomic variation map from a large germplasm collection.

Metabolic Traits

Note: All the metabolic trait is from the article Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism. Some metabolics have two replications, the second replication is end with '_2', like 'mr1002_2'.

Search Results:

The detailed information about mr1092 can be find at here.

GWAS Results:

Note: If the P-value of Linear Regression (LR) or Linear Mixed Model (LMM) ≤ 1e-5 or the rank ≤ 20000, the results are saved. Only the LMM results are plotted below.

Significant Candidate Loci (Lead SNP):

Variation IDVariation ID V6ChromosomePositionLR P-value LMM P-value
vg0626678989 sf0626677992 6 26678989 1.85E-07 4.83E-06
vg1209055808 sf1209053217 12 9055808 3.22E-07 9.62E-07
vg0801235869 sf0801234871 8 1235869 1.90E-06 NA
vg0118808106 sf0118807061 1 18808106 2.04E-06 2.90E-06
vg0914763138 sf0914762137 9 14763138 7.13E-06 NA
vg0317749929 sf0317748711 3 17749929 7.82E-06 NA