Detection of Epistatic and Gene-Environment Interactions Underlying Three Quality Traits in Rice Using High-Throughput Genome-Wide Data

Table 1

Estimates of SNP additive effects and interaction effects with the environments under three different population structures (70%).

Chr	SNP ID	Pop	a		ae1		ae2		Power
			Par.	Est.	Par.	Est.	Par.	Est.
1	28	100	−3.24	−3.32	2.65	2.67	−2.65	−2.46	99.00
		150		−3.39		2.81		−2.51	100.00
		200		−3.42		2.81		−2.45	100.00
2	100	100	−2.65	−2.79	4.05	4.16	−4.05	−3.79	100.00
		150		−2.90		4.26		−3.75	100.00
		200		−2.94		4.34		−3.73	100.00
3	93	100	−1.77	−1.86	3.24	3.34	−3.24	−3.17	87.00
		150		−1.84		3.34		−3.14	98.50
		200		−1.90		3.34		−3.09	100.00

Chr: the ordinal number for simulated chromosome; Pop: the population size; Power: the percentage of the detected SNP with significant effect at 0.05 levels; Par.: the true value of parameter in simulations; Est.: the estimate of parameter; a: additive effect; ae₁ and ae₂: the interaction effect of additive with environment 1 and 2, respectively.