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Table 1 Pathways enriched for genes significantly expressed in response to arsenic

From: Integrating phenotypic and expression profiles to map arsenic-response networks

Category Differentially expressed genes Pathway size p-value Significant
KEGG pathway     
Cell cycle reference pathway 8 87 0.9072 False
Galcatose metabolism 5 15 0.0391 False
Glutathione metabolism 6 11 0.0014 True
MAPK signaling pathway 7 55 0.609 False
Methionine metabolism 8 11 1.07E-05 True
Proteasome 9 30 0.0127 False
Purine metabolism 14 139 0.8991 False
Pyrmidine metabolism 8 80 0.8515 False
Sulfur metabolism 7 7 7.15E-07 True
Serine, threonine and glycine metabolism 8 25 0.0125 False
Citrate cycle 4 22 0.3345 False
Starch and sucrose 9 31 0.0159 False
Pyruvate 4 25 0.4292 False
Reductive carboxylate 5 16 0.0508 False
Second messenger signaling 3 19 0.472 False
Valine, leucine, isoleucine 2 13 0.5313 False
Circadian rhythm 2 19 0.7398 False
Porphyrin and chlorophyll metabolism 7 74 0.8782 False
Selenoamino-acid metabolism 10 12 8.36E-08 True
Ubiquitin-mediated proteolysis 2 29 0.9133 False
Cysteine metabolism 2 4 0.088 False
Fructose and mannose 6 15 0.0093 False
Carbon fixation 3 15 0.3207 False
Alanine and aspartate 2 24 0.8477 False
Glutamate 3 19 0.472 False
Methane 2 4 0.088 False
Gene Ontology (biological process)     
Biological process 72 436 0.0244 False
Cell communication 72 270 <1.00E-008 True
Cell growth and maintenance 47 268 0.0231 False
Cell surface linked signal transduction 14 91 0.3197 False
Developmental processes 5 32 0.4233 False
Heat-shock response 14 22 5.40E-08 True
Intracellular signaling 9 47 0.1635 False
Serine threonine kinase signaling 5 38 0.5815 False
Signal transduction 26 172 0.2656 False
ATPase 3 78 0.9988 False
Cyclin 4 29 0.5499 False
  1. Transcript profiling reveals that arsenic affects glutathione, methionine, sulfur, selenoamino-acid metabolism, cell communication and heat-shock response. Genes were categorized by KEGG pathway and Simplified Gene Ontology. In total, 829 genes out of 6,240 had a significant alteration in expression in at least one experimental condition. Along with the size of each functional category, a statistical measure for the significance of the enrichment was calculated by using a hypergeometric test. The level of significance for this test (True-shown in bold, False) was determined using the Bonferroni correction, where the α value is set at 0.05 and 27 and 11 tests were done for KEGG pathway and Simplified Gene Ontology, respectively.