Table 1. The top 20 ranked pathways associated with BRAF V600E status based on systematic TCGA gene expression analyses presented with those derived from the independent PETACC3-based analyses.

The table is ordered by the overall rank of each pathway where the overall rank represents an average rank across both the TCGA- and PETACC-derived analyses. P-values and ranks for pathways associated for both the TCGA- and PETACC-derived analyses are shown. These pathways are consistently related to CRC biology such as the top-ranked pathway “Colorectal Cancer” and the “TGF Beta Signaling Pathway” in addition to the “MAPK Signaling Pathway” which is known to play a role in BRAF-mutant CRC.

Pathways	TCGA P-value	PETACC3 P-value	TCGA rank	PETACC3 rank	Average rank	Overall rank
Colorectal Cancer	0.021	0.003	9	4	6.5	1
Bladder Cancer	0	0.017	2	18	10	2
Pathways in Cancer	0.05	0.004	15	6	10.5	3
Chemokine Signaling Pathway	0.04	0.012	11	16	13.5	4
JAK-STAT Signaling Pathway	0.053	0.006	20	11	15.5	5
Axon Guidance	0.057	0.003	26	5	15.5	6
FC Epsilon RI Signaling Pathway	0.021	0.05	7	27	17	7
TGF Beta Signaling Pathway	0.066	0.001	34	2	18	8
Dorso Ventral Axis Formation	0.057	0.006	25	12	18.5	9
Peroxisome	0.066	0.006	33	10	21.5	10
MAPK Signaling Pathway	0.057	0.032	24	23	23.5	11
ABC Transporters	0.068	0.018	37	19	28	12
ERBB Signaling Pathway	0.069	0.008	46	14	30	13
FC Gamma R Mediated Phagocytosis	0.062	0.069	30	31	30.5	14
Tryptophan Metabolism	0.037	0.16	10	52	31	15
B Cell Receptor Signaling Pathway	0.083	0	61	1	31	16
Prion Diseases	0.04	0.144	14	49	31.5	17
Epithelial Cell Signaling in Helicobacter Pylori Infection	0.068	0.039	39	24	31.5	18
T Cell Receptor Signaling Pathway	0.06	0.081	28	37	32.5	19
Neuroactive Ligand Receptor Interaction	0.021	0.234	3	67	35	20