|
Method
|
Nsp
|
Sty
|
|---|
| | |
(Sty1
| |
Sty2)
|
|---|
|
Present
|
68
|
81
| |
50
|
|
Pearson
|
49
| |
14
| |
|
Spearman
|
39
| |
18
| |
|
PLS
|
7
| |
13
| |
|
Stepclass
|
--
| |
--
| |
|
lasso
|
--
| |
--
| |
- The number of SNPs selected in common between the top-ranked 300 SNPs in genotype and DNA methylationusing various methods. Present, this study; Pearson, Pearson correlation coefficients based method; Spearman, Spearman correlation coefficients based method; PLS, partial least squares based method; Stepclass, stepclass (R function that executes iterative feature selection) based method; and lasso: Lasso based method. Nsp and Sty are the microarray data sets used in the study. Sty1 and Sty2 correspond to the PC4 for genotype (Figures 4d and 6b)/PC3 for DNA methylation (Figures 5c and 6c) and the PC3 for genotype (Figures 4c and 6a)/PC4 for DNA methylation (Figures 5d and 6d) combinations of PCs.
