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Table 3 Overrepresentation of biological processes in differential gene expression data of monocytes from therapy-naïve HIV patients

From: Transcriptome analysis of monocyte-HIV interactions

Class GO term GO ID1 z-score2 p-value33
Apoptosis/DNA damage    
  induction of apoptosis 6917 2.622 0.03
  response to radiation 9314 3.198 0.017
Cell cycle    
  cell maturation 48469 3.862 0.006
  positive regulation of cell proliferation 8284 3.062 0.009
Lipid Metabolism    
  Hs_Adipogenesis User 2.896 0.018
Proteasome activity    
  cysteine-type endopeptidase activity 4197 4.486 0.009
  Proteolysis 6508 1.996 0.044
  ubiquitin cycle 6512 2.271 0.041
  ubiquitin-protein ligase activity 4842 2.527 0.05
Protein trafficking    
  protein import into nucleus 6606 4.732 0.001
Transcriptional regulation    
  DNA binding 3677 2.929 0.003
  negative regulation of transcription 16481 3.207 0.012
  transcription regulator activity 30528 2.534 0.017
  negative regulation of transcription\, DNA-dependent 45892 2.422 0.038
  1. GO: Gene Ontology; 1: the official GO identification code for the process http://www.geneontology.org, "User" denotes a user contributed pathway; 2: the score for the standard statistical test under the hypergeometrical distribution, as calculated by MAPPFinder; 3: the permute p-value as correction on the z-score, as calculated by MAPPFinder; GO terms shown in boldface were identified using both the stringent and less stringent criteria, other terms were only found using the less stringent criteria.
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