Table 1.

Summary of notations

Symbols	Description
K	Number of SNPs
N	Number of genes
D	Number of samples
$X\in {ℝ}^{K\times D}$	The SNP matrix data
$Z\in {ℝ}^{N\times D}$	The gene matrix data
$L\in {ℝ}^{N\times D}$	A low-rank matrix
$S_0\in {ℝ}^{K\times K}$	The input affinity matrices of the genetic-interaction network
$G_0\in {ℝ}^{N\times N}$	The input affinity matrices of the network of traits
$S\in {ℝ}^{K\times K}$	The refined affinity matrices of the genetic-interaction network
$G\in {ℝ}^{N\times N}$	The refined affinity matrices of the network of traits
$W\in {ℝ}^{N\times K}$	The coefficient matrix to be inferred
${\mathcal{R}}^{(S)}$	The graph regularizer from the genetic-interaction network
${\mathcal{R}}^{(G)}$	The graph regularizer from the PPI network
$\mathcal{D}(·,·)$	A non-negative distance measure