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Table 2 Functional analysis using GenMAPP of genes changed in response to the high sulforaphane diet in five week old PTEN null mice compared to the control diet.

From: The dietary isothiocyanate sulforaphane modulates gene expression and alternative gene splicing in a PTEN null preclinical murine model of prostate cancer

  Number Changed* Number Measured** Adjusted P-value***
Amino acid metabolism    
Mm_Metabolism-of-amino-acids-and-related-nitrogen-containing-molecules_Reactome-COREG 26 225 0.001
Mm_Valine-leucine-and-isoleucine-biosynthesis_KEGG-COREG 11 48 0.001
Mm_Glyoxylate-and-dicarboxylate-metabolism_KEGG-COREG 12 63 0.004
Mm_Glycine-serine-and-threonine-metabolism_KEGG-COREG 14 85 0.004
Mm_Catabolic-Pathways-for-Arginine-Histidine-Glutamate-Glutamine-and-Proline_BioCarta-COREG 12 67 0.004
Mm_Acetylcholine_Synthesis-COREG 11 57 0.004
Mm_Pyruvate-metabolism_KEGG-COREG 18 152 0.008
Mm_Urea-cycle-and-metabolism-of-amino-groups_KEGG-COREG 14 104 0.010
Mm_Urea_cycle_and_metabolism_of_amino_groups_KEGG-COREG 14 115 0.015
Mm_Butanoate-metabolism_KEGG-COREG 19 200 0.019
Mm_Oxidative-decarboxylation-of-pyruvate-and-TCA-cycle_Reactome-MEGINT 13 108 0.019
Mm_Propanoate_metabolism 4 13 0.02
Mm_Arginine-and-proline-metabolism_KEGG-COREG 17 176 0.02
Mm_Catabolic-Pathways-for-Methionine-Isoleucine-Threonine-and-Valine_BioCarta-COREG 5 22 0.026
Fatty acid metabolism    
Mm_Fatty_Acid_Beta_Oxidation_3_BiGCaT-COREG 18 69 < 0.001
Mm_Fatty_Acid_Beta_Oxidation_Meta_BiGCaT-COREG 26 174 < 0.001
Mm_Fatty_Acid_Beta_Oxidation_1_BiGCaT-COREG 19 140 0.003
Mm_Fatty_Acid_Beta_Oxidation_3_BiGCaT 4 8 0.004
Mm_Fatty_Acid_Beta_Oxidation_3_BiGCaT-MEGINT 7 24 0.004
Mm_Fatty_Acid_Beta_Oxidation_Meta_BiGCaT 8 32 0.004
Mm_Unsaturated_Fatty_Acid_Beta_Oxidation_BiGCaT 3 6 0.009
Mm_Fatty_Acid_Beta_Oxidation_2_BiGCaT 3 6 0.009
Mm_Fatty_Acid_Synthesis_BiGCaT-COREG 14 103 0.009
Mm_Fatty_Acid_Beta_Oxidation_2_BiGCaT-COREG 8 38 0.009
Mm_Fatty_Acid_Beta_Oxidation_Meta_BiGCaT-MEGINT 11 82 0.020
Glucose metabolism    
Mm_Glycolysis_and_Gluconeogenesis-COREG 22 204 0.008
Mm_Glutamate-metabolism_KEGG-COREG 19 165 0.008
Mm_Glycolysis-Gluconeogenesis_KEGG-COREG 20 217 0.019
Mm_Metabolism-of-glucose-other-sugars-and-ethanol_Reactome-COREG 21 248 0.020
Apoptosis    
Mm_Opposing-roles-of-AIF-in-Apoptosis-and-Cell-Survival_BioCarta-COREG 12 50 < 0.001
Mm_HSP70_and_Apoptosis-COREG 12 68 0.007
Mm_Role-of-Mitochondria-in-Apoptotic-Signaling_BioCarta-COREG 12 70 0.008
Mm_Apoptosis_Reactome-COREG 12 76 0.009
Mm_Apoptotic-Signaling-in-Response-to-DNA-Damage_BioCarta-COREG 12 87 0.015
Mm_Induction-of-apoptosis-through-DR3-and-DR4-5-Death-Receptors _BioCarta-COREG 11 75 0.015
Mm_Caspase-Cascade-in-Apoptosis_BioCarta-COREG 11 95 0.059
Krebs-TCA cycle    
Mm_Krebs-TCA_Cycle 11 29 < 0.001
Mm_Citrate-cycle-TCA-cycle_KEGG-COREG 26 167 < 0.001
Mm_Krebs-TCA_Cycle-COREG 30 216 < 0.001
Mm_Oxidative-decarboxylation-of-pyruvate-and-TCA-cycle_Reactome-COREG 20 124 < 0.001
Mm_Krebs-TCA_Cycle-MEGINT 17 153 0.011
Other    
Mm_Electron_Transport_Chain-COREG 42 298 < 0.001
Mm_Shuttle-for-transfer-of-acetyl-groups-from-mitochondria-to-the-cytosol_BioCarta-COREG 18 100 < 0.001
Mm_Ceramide-Signaling-Pathway_BioCarta-COREG 13 77 0.004
Mm_Reductive-carboxylate-cycle-CO2-fixation-_KEGG-COREG 13 74 0.004
Mm_Malate-aspartate-shuttle_BioCarta-COREG 9 41 0.007
Mm_Nitrogen-metabolism_KEGG-COREG 13 81 0.008
Mm_Ribosomal_Proteins 11 63 0.008
Mm_Electron_Transport_Chain 11 66 0.009
Mm_Stress-Induction-of-HSP-Regulation_BioCarta-COREG 11 67 0.009
Mm_D4-GDI-Signaling-Pathway_BioCarta-COREG 11 71 0.011
Mm_Carbon-fixation_KEGG-COREG 19 187 0.015
Mm_Nucleotide-metabolism_Reactome-COREG 34 517 0.019
  1. Only pathways with adjusted P-values ≤ 0.05 are shown.
  2. *Refers to the transcripts from the input 286 transcript list (adjusted P ≤ 0.1) that are present in the specific pathway. **Refers to the total number of transcripts that are present in the pathway.***P-values were calculated in GenMAPP using a non-parametric statistic based on 2000 permutations of the data and further adjusted for multiple testing by Westfall-Young adjustment.