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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