Table 3.

List with the notation used in Algorithm 2

Symbol	Definition
X	p × n matrix, corresponding to sample A with columns
	representing arrays and rows representing genes
Y	p × m matrix, corresponding to sample B with columns
	representing arrays and rows representing genes
UP	up-regulated genes list
DOWN	down-regulated genes list
X[i], Y[i]	indexes a gene (row of the matrix)
k1, k2, k3	arbitrary thresholds
k4, w
SA, SB	kernel density coordinates of subsamples of genes from
	samples A and B
SA[j]	indexes a gene of the subsample S from sample A
$S_y^{A\left[j\right]}\left[i\right]$	indexes a ordinate of a gene j of the subsample S from
	sample A
BimX[j]	indexes a gene with bimodal or multimodal kernel density
	from sample A
Bim[j]	indexes a gene with bimodal or multimodal kernel density
SPECIAL	special genes list

Symbols are listed in order of appearance.