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Table 2 Gene Set Enrichment Analysis results

From: Transcriptomic profiles of aging in naïve and memory CD4+ cells from mice

Enriched in Naïve Young (vs. Naïve Old)

Hallmarks

SIZE

FDR

Enriched in Memory Young (vs. Memory Old) Hallmarks

SIZE

FDR

MYC_TARGETS_V1

155

0.001215

OXIDATIVE_PHOSPHORYLATION

163

0.001571

MYC_TARGETS_V2

40

0.002431

G2M_CHECKPOINT

128

0.011848

OXIDATIVE_PHOSPHORYLATION

162

0.002438

E2F_TARGETS

144

0.017543

DNA_REPAIRa

119

0.056895

MYC_TARGETS_V1

157

0.022091

  

ANDROGEN_RESPONSE

64

0.02355

Enriched in Naïve Young (vs. Naïve Old)

SIZE

FDR

Enriched in Memory Young (vs. Memory Young) GO terms

SIZE

FDR

REGULATION_OF_GENE_EXPRESSION_EPIGENETIC

19

0.040616

N/A

N/A

N/A

RIBONUCLEOPROTEIN_COMPLEXa

95

0.057685

   

Enriched in Naïve Old (vs. Naïve Young)

SIZE

FDR

Enriched in Memory Old (vs. Memory Young) Hallmarks

SIZE

FDR

IL2_STAT5_SIGNALING

128

0

TNFA_SIGNALING_VIA_NFKB

118

0.00186

TNFA_SIGNALING_VIA_NFKB

112

0

IL2_STAT5_SIGNALING

142

0.002496

INTERFERON_GAMMA_RESPONSE

130

0

INTERFERON_GAMMA_RESPONSE

135

0.010827

COMPLEMENT

92

2.19E-04

KRAS_SIGNALING_UP

80

0.029101

IL6_JAK_STAT3_SIGNALING

44

2.74E-04

IL6_JAK_STAT3_SIGNALING

52

0.035991

INFLAMMATORY_RESPONSE

92

7.16E-04

ALLOGRAFT_REJECTION

129

0.039874

KRAS_SIGNALING_UP

79

7.53E-04

INFLAMMATORY_RESPONSE

98

0.046285

ALLOGRAFT_REJECTION

126

0.001159

   

APOPTOSIS

100

0.012965

   

ESTROGEN_RESPONSE_EARLY

80

0.015578

   

EPITHELIAL_MESENCHYMAL_TRANSITION

53

0.030826

   

CHOLESTEROL_HOMEOSTASIS

40

0.045692

   

Enriched in Naïve Old (vs. Naïve Young)

SIZE

FDR

Enriched in Memory Old (vs. Memory Young) GO Terms

SIZE

FDR

IMMUNE_RESPONSE

122

0.002943

N/A

N/A

N/A

CYTOKINE_ACTIVITY

26

0.014125

   

CYTOKINE_BINDING

25

0.014879

   

VIRAL_REPRODUCTIVE_PROCESS

22

0.045368

   

PROTEIN_TYROSINE_KINASE_ACTIVITY

21

0.045902

   

TRANSMEMBRANE_RECEPTOR_ACTIVITY

70

0.046233

   

CYSTEINE_TYPE_ENDOPEPTIDASE_ACTIVITY

24

0.051925

   

POSITIVE_REGULATION_OF_CELL_PROLIFERATIONa

59

0.055409

   
  1. Association of a term with phenotype (i.e., Young or Old) indicates genes which comprise that term are more highly expressed within the phenotype (i.e., MYC_TARGETS_V1 are more highly expressed in young naive cells than in old naïve cells). Size indicates number of genes from each term that were enriched within phenotype. “Hallmarks” and “GO terms” indicate gene sets database used for analysis
  2. aindicates terms that were slightly above significance cutoff (FDR 0.05) but were included in results because of previously established relevance to T cell aging