Table 1.

Notations

Notation	Definition
n	Number of amino acid substitutions
m	Number of exomes
l	Number of genes
l D	Number of known Crohn’s disease genes
V	Exome matrix (n×m)
P	Pathogenicity of amino acid substitutions (n×l)
W	Disease-gene association matrix (l×2)
H	Disease-exome association matrix (2×m)
M	Gene-gene interaction network (l×l)
P 0	Pathogenicity prediction by PolyPhen-2 (n×l)
W 0	Annotated Crohn’s disease-gene association matrix (l×2)
v	Indicator vector for known Crohn’s disease genes (l)
r	Crohn’s disease association vector derived from W (l)