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Table 1 Explained variance in different models for Body Weight (BW), Feed Intake (FI), and Feed Efficiency (FE)

From: Inferring genetic architecture of complex traits using Bayesian integrative analysis of genome and transcriptome data

Trait

Explained variances

PED

SNP

GEX

PED + SNP

PED + GEX

SNP + GEX

PED + SNP + GEX

Body Weight

E

9.96(1.93) 58%

9.82(0.94) 64%

3.57(0.9) 21%

7.07(1.77) 41%

2.43(1.01) 14%

3.08(0.77) 19%

2.06(1) 12%

 

P

7.26(3.42) 42%

-

-

5.04(3.15) 29%

2.45(1.41) 14%

-

2.08(1.47) 12%

 

S

-

5.63(0.9) 36%

-

5.14(1.08) 30%

-

2.9(0.67) 18%

2.82(0.73) 17%

 

G

-

-

13.45(1.57) 79%

-

12.37(1.56) 72%

10.29(1.6) 63%

9.93(1.44) 59%

 

Total

17.22

15.45

17.02

17.25

17.25

16.27

16.89

Feed Intake

E

155.59(42) 47%

202.89(22) 72%

151.89(27) 51%

137.63(40) 42%

95.48(36) 30%

125.91(24) 43%

80.41(34) 25%

 

P

174.89(82) 53%

-

-

131.88(79) 40%

99.74(57) 31%

-

89.97(53) 28%

 

S

-

79.53(22) 28%

-

56.32(22) 18%

-

56.05(19) 19%

45.09(18) 14%

 

G

-

-

150.24(41) 49%

-

125.33(35) 39%

111.84(33) 38%

104.9(33) 33%

 

Total

330.48

282.42

302.13

325.83

320.55

293.8

320.37

Feed Efficiency (×10,000)

E

1.59(0.44) 42%

2.40(0.26) 76%

2.23(0.3) 69%

1.53(0.44) 42%

1.09(0.48) 30%

1.88(0.3) 58%

1.07(0.46) 29%

 

P

2.17(0.92) 58%

-

-

1.73(0.86) 47%

1.87(0.78) 51%

-

1.61(0.77) 44%

 

S

-

0.76(0.24) 24%

-

0.39(0.22) 11%

-

0.61(0.23) 19%

0.33(0.2) 9%

 

G

-

-

1.01(0.34) 31%

-

0.71(0.28) 19%

0.73(0.32) 23%

0.66(0.27) 18%

 

Total

3.76

3.16

3.24

3.65

3.67

3.22

3.67

  1. Explained variances are for residuals (E), polygenic effects (P), SNPs (S), and gene expressions (G). The table shows estimates as the posterior mean with posterior standard deviation in parentheses and the proportion of explained variance as percentage of the total.