Table 2.

Reactome gene set enrichment performed with WebGestalt.

Pathway	Reactome Gene Set	Description	# Genes (Total)	# Leading-Edge Genes	NES	p Value	FDR
Positively related Pathways	R-HSA-373076	Class A/1 (Rhodopsin-like receptors)	30	24	2.03	<0.001	0.0058
	R-HSA-375276	Peptide ligand-binding receptors	18	14	1.94	0.001	0.014
	R-HSA-500792	GPCR ligand binding	38	27	1.90	<0.001	0.01975
	R-HSA-1630316	Glycosaminoglycan metabolism	19	13	1.77	0.001	0.09927
	R-HSA-388396	GPCR downstream signaling	70	35	1.74	0.001	0.13397
	R-HSA-3560782	Diseases associated with glycosaminoglycan metabolism	6	6	1.70	0.005	0.15244
	R-HSA-1638091	Heparan sulfate/heparin (HS-GAG) metabolism	9	8	1.71	0.003	0.15294
	R-HSA-372790	Signaling by GPCR	99	45	1.68	<0.001	0.16662
	R-HSA-1296072	Voltage gated Potassium channels	6	4	1.66	0.003	0.19534
	R-HSA-112314	Neurotransmitter Receptor Binding And Downstream Transmission In The Postsynaptic Cell	17	10	1.65	0.014	0.19979
Negatively related Pathways	R-HSA-1640170	Cell Cycle	56	49	−2.83	<0.001	<0.001
	R-HSA-69242	S Phase	15	15	−2.53	<0.001	0.00088
	R-HSA-69278	Cell Cycle, Mitotic	41	37	−2.57	<0.001	0.00131
	R-HSA-2559583	Cellular Senescence	13	13	−2.46	<0.001	0.00162
	R-HSA-69239	Synthesis of DNA	14	14	−2.47	<0.001	0.00202
	R-HSA-69306	DNA Replication	14	14	−2.42	<0.001	0.00266
	R-HSA-69481	G2/M Checkpoints	18	17	−2.29	<0.001	0.00723
	R-HSA-73894	DNA Repair	29	28	−2.22	<0.001	0.00920
	R-HSA-5693538	Homology Directed Repair	16	15	−2.21	<0.001	0.01075
	R-HSA-5693532	DNA Double-Strand Break Repair	16	15	−2.18	<0.001	0.01076

In the red box are listed the top 10 positively related (enriched) pathways in D842V mutant Gastrointestinal Stromal Tumor (GIST), while the negatively related (depleted) pathways are listed in the green box. GPCR, G-protein-coupled receptor; NES, normalized enrichment score; FDR, false discovery rate.