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Table 2 Number of lines, number of groups and compression level of the full 2480 × 2480 kinship matrix, and proportion of total line mean variance explained by additive relationship matrix from the four mixed-linear model (MLM) analyses

From: Genome-wide association study of Fusarium ear rot disease in the U.S.A. maize inbred line collection

 

N a

Groups b

Compression c

σ ̂ G 2 σ ̂ G 2 + σ ̂ 2 d

Full inbred panel

1687

2100

1.18

0.31

Filtered inbred panel

734

2000

1.24

0.42

B47 topcrosses

243

1760

1.41

0.31

PHZ51 topcrosses

313

1770

1.40

0.39

  1. aTotal number of entries included in the analysis.
  2. bNumber of groups determined by optimum compression (note that the complete kinship matrix for 2480 lines was used for all analyses).
  3. cCompression level is the average number of individuals per group.
  4. dPolygenic additive background genetic variance divided by total phenotypic variance. This ratio was estimated in GAPIT by fitting the kinship matrix (K) in the mixed linear model without any SNP marker effects.