A note on the rationale for estimating genealogical coancestry from molecular markers

Table 1 Features of the regression of genealogical coancestry f on molecular coancestry (f_M) and molecular covariance (Cov_M)

Nb SNP	Nb replicates	Regression on coancestry			Regression on covariance
		a	b	R²	a	b	R²
p = 0.50
100	1000	-0.66 (0.03)	1.38 (0.06)	0.69 (0.03)	0.03 (0.00)	2.77 (0.12)	0.69 (0.03)
10000	50	-0.99 (0.00)	1.99 (0.01)	1.00 (0.01)	0.00 (0.00)	3.98 (0.03)	1.00 (0.01)
Expected values					0
p_i~Beta(1, 1)
100	1000	-1.01 (0.08)	1.58 (0.10)	0.52 (0.06)	-0.22 (0.04)	3.17 (0.21)	0.52 (0.06)
10000	50	-1.98 (0.02)	2.97 (0.03)	0.99 (0.02)	-0.50 (0.00)	5.95 (0.06)	0.99 (0.00)
Expected values

Intercept (a), slope (b) and coefficient of determination (R²), with standard deviations across replicates, of the regression equation of genealogical coancestry f on molecular coancestry (f_M) and molecular covariance (Cov_M), based on simulated data, when the distribution of allele frequencies in the founders (p) is known and fixed (p = 0.5) or variable (p_i ~ Beta(1,1)).

ISSN: 1297-9686