Prioritizing functional modules mediating genetic perturbations and their phenotypic effects: a global strategy

Table 2 Top GO CAN-processes ranked by the BN model or the HG enrichment test based on cancer genes from systematic sequencing of colorectal and breast cancer genomes

GO CAN-processes prioritized by the BN model			GO CAN-processes prioritized by the HG enrichment test
GO CAN-process	Total gene number	Cancer gene number	GO CAN-process	Total gene number	Cancer gene number
GO:0007016 cytoskeletal anchoring	10	3	GO:0007155 cell adhesion	689	34
GO:0030198 extracellular matrix organization and biogenesis	27	6	GO:0022610 biological adhesion	689	34
GO:0007185 transmembrane receptor protein tyrosine phosphatase signaling pathway	6	2	GO:0016043 cellular component organization and biogenesis	2,325	66
GO:0007155 cell adhesion	689	34	GO:0030198 extracellular matrix organization and biogenesis	27	6
GO:0007605 sensory perception of sound	116	9	GO:0048856 anatomical structure development	1,537	47
GO:0051318 G1 phase	18	2	GO:0007275 multicellular organismal development	1,797	52
GO:0006869 lipid transport	100	6	GO:0048731 system development	1,196	38
GO:0009112 nucleobase metabolic process	16	2	GO:0007519 striated muscle development	62	7
GO:0045661 regulation of myoblast differentiation	6	2	GO:0007605 sensory perception of sound	116	9
GO:0042593 glucose homeostasis	11	2	GO:0050954 sensory perception of mechanical stimulus	116	9
GO:0043534 blood vessel endothelial cell migration	6	2	GO:0016337 cell-cell adhesion	239	13
GO:0007183 SMAD protein complex assembly	4	2	GO:0032501 multicellular organismal process	3,128	73
GO:0060070 Wnt receptor signaling pathway through beta-catenin	5	2	GO:0007167 enzyme linked receptor protein signaling pathway	245	13
Median number	11	2	Median number	689	34

ISSN: 1474-760X