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Table 6 Enriched gene sets other than involved in energy production

From: Genome-wide analysis of primary CD4+ and CD8+ T cell transcriptomes shows evidence for a network of enriched pathways associated with HIV disease

Gene set name VvsB_CD8 VvsB_CD4 VvL_CD8 VvL_CD4 BvsL_CD4
Cell cycle and apoptosis related      
CHEMICALPATHWAY 0.1   0.1   
APOPTOSIS   0.1   0.1  
APOPTOSIS_GENMAPP   0.1    
CASPASEPATHWAY     0.1 0.05
SA_CASPASE_CASCADE      0.05
DNA_REPLICATION_REACTOME 0.05   0.05   0.1
G1_TO_S_CELL_CYCLE_REACTOME 0.05     
HSA04110_CELL_CYCLE 0.05     
CELL_CYCLE_KEGG 0.05     
CELLCYCLEPATHWAY 0.05     
G2PATHWAY 0.1     
G1PATHWAY 0.1     
P53PATHWAY 0.1     
MPRPATHWAY 0.1     
ST_GA12_PATHWAY   0.05    
Cytotoxicity, complement activation and cell signalling      
HSA04612_ANTIGEN_PROCESSING_AND_PRESENTATION 0.05 0.05 0.05   
HSA04650_NATURAL_KILLER_CELL_MEDIATED_CYTOTOXICITY 0.05 0.05   0.05  
COMPPATHWAY   0.05   0.05 0.05
HSA04610_Complement_and_coagulation-cascades   0.05   0.05  
INTRINSICPATHWAY   0.1   0.1  
HSA04620_TOLL_LIKE_RECEPTOR_SIGNALING_PATHWAY   0.05   0.1  
TOLLPATHWAY   0.05    
HSA04662_B_CELL_RECEPTOR_SIGNALING_PATHWAY   0.1    
SA_B_CELL_RECEPTOR_COMPLEXES   0.1    
Cytoskeleton and cell adhesion      
RHOPATHWAY 0.05   0.05 0.05 0.05
NDKDYNAMINPATHWAY 0.1     
SIG_REGULATION_OF_THE_ACTIN_CYTOSKELETON_BY_RHO_GTPASES   0.1   
INTEGRIN_MEDIATED_CELL_ADHESION_KEGG   0.1    
Interleukin      
IL12PATHWAY 0.1     
NO2IL12PATHWAY 0.1     
TIDPATHWAY   0.1    
IL6PATHWAY   0.1    
IL3PATHWAY   0.1    
Other      
SPPAPATHWAY   0.1    
HSA05120_EPITHELIAL_CELL_SIGNALING_IN_HELICOBACTER_PYLORI_INFECTION 0.05    
HSA05131_PATHOGENIC_ESCHERICHIA_COLI_INFECTION_EPEC   0.1    
HSA05130_PATHOGENIC_ESCHERICHIA_COLI_INFECTION_EHEC   0.1    
HSA04320_DORSO_VENTRAL_AXIS_FORMATION   0.1    
HSA05219_BLADDER_CANCER   0.1    
  1. VvsB_CD8: Gene sets enriched in the VIR group in the comparison of VIR versus BDL in CD8+ T cells
  2. VvsB_CD4: Gene sets enriched in the VIR group in the comparison of VIR versus BDL in CD4+ T cells
  3. VvL_CD8: Gene sets enriched in the VIR group in the comparison of VIR versus LTNP in CD8+ T cells
  4. VvL_CD4: Gene sets enriched in the VIR group in the comparison of VIR versus LTNP in CD4+ T cells
  5. BvsL_CD4: Gene sets enriched in the BDL group in the comparison of BDL versus LTNP in CD4+ T cells
  6. Gene sets significantly enriched are marked by the number 0.05 or 0.1 in the corresponding paired comparisons 0.05: FDR < or = 0.05; 0.1: FDR < or = 0.1
  7. Gene set information could be searched at the website http://www.broad.mit.edu/gsea/msigdb/search.jsp