Gastric Cancer Cell Lines Have Different MYC-Regulated Expression Patterns but Share a Common Core of Altered Genes
Table 3
Enriched hallmark gene sets for DEGs after MYC-siRNa in three GC cell lines.
Hallmark Name:
Process category
Description
Sizeā
ES
NES
Nom. P-value
FDR
Max. Rank
MYC_TARGETS_V1
Proliferation
MYC targets, variant 1
100/44
0.59
1.89
0.00
0.000
1368
REACTIVE_OXIGEN_SPECIES_PATHWAY
Pathway
Reactive oxygen species pathway
25/13
0.55
1.42
0.00
0.000
2316
UNFOLDED_PROTEIN_RESPONSE
Pathway
Unfolded protein response; ER stress
50/22
0.55
1.56
0.00
0.000
1891
PROTEIN_SECRETION
Pathway
Protein secretion
44/26
0.55
1.70
0.00
0.000
2376
G2M_CHECKPOINT
Proliferation
Cell cycle progression: G2/M checkpoint
97/40
0.52
1.67
0.00
0.000
1813
MTORC1_SIGNALING
Signaling
mTORC1 signaling
102/43
0.50
1.46
0.00
0.044
2021
E2F_TARGETS
Proliferation
Cell cycle progression: E2F targets
89/35
0.48
1.42
0.00
0.052
1607
OXIDATIVE_PHOSPHORYLATION
Metabolic
Oxidative phosphorylation and citric acid cycle
118/57
0.48
1.46
0.00
0.062
2284
CHOLESTEROL_HOMEOSTASIS
Metabolic
Cholesterol homeostasis
39/14
0.48
1.48
0.00
0.069
1671
DNA_REPAIR
DNA damage
DNA repair
80/38
0.46
1.42
0.00
0.077
2337
APOPTOSIS
Pathway
Programmed cell death; caspase pathway
66/29
0.42
1.31
0.20
0.190
2405
of genes found for each gene set after curating data. ES: enrichment score. NES: normalized enrichment score. Nom. P-value: nominal P-values for each gene set. FDR: false discovery rate. Max. rank: maximum rank numbers for each gene sets.