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Table 3 Functional analysis using GenMAPP of eight week old PTEN null mice on different diets compared to WT mice on control diet

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

MAPP Name Number Changed* Number Measured** Adjusted P-value***
Control diet    
immune response 40 160 < 0.001
inflammatory response 22 85 < 0.001
Mm_Inhibition-of-Matrix-Metalloproteinases_BioCarta-COREG 6 13 0.025
Mm_mRNA_processing_binding_Reactome-COREG 46 1309 0.022
Low SF diet    
immune response 57 160 < 0.001
inflammatory response 36 85 < 0.001
Mm_Bile-acid-biosynthesis_KEGG-COREG 30 105 0.013
Mm_Carbon-fixation_KEGG-COREG 47 187 0.004
Mm_Electron_Transport_Chain-COREG 73 298 < 0.001
Mm_HSP70_and_Apoptosis-COREG 21 68 0.028
Mm_Metabolism-of-glucose-other-sugars-and-ethanol_Reactome-COREG 58 248 0.005
Mm_Monocyte-and-its-Surface-Molecules_BioCarta-MEGINT 9 19 0.028
Mm_Propanoate-metabolism_KEGG-COREG 23 77 0.027
Mm_Ribosomal_Proteins 29 63 < 0.001
response to chemical substance 26 93 0.029
response to wounding 42 152 0.001
High SF diet    
immune response 63 160 < 0.001
inflammatory response 40 85 < 0.001
intracellular signaling cascade 64 229 0.024
Mm_Adipogenesis 39 122 0.026
Mm_Adipogenesis-MEGINT.mapp-.mapp-.mapp-.mapp-.mapp-.mapp- 62 208 0.004
Mm_Apoptotic-DNA-fragmentation-and-tissue-homeostasis_BioCarta-COREG 25 66 0.024
Mm_ATM-Signaling-Pathway_BioCarta-COREG 30 77 0.003
Mm_B_Cell_Receptor_NetPath_12 48 137 0.001
Mm_cdc25-and-chk1-Regulatory-Pathway-in-response-to-DNA-damage_BioCarta-COREG 39 121 0.024
Mm_Cell_Cycle_KEGG 29 77 0.010
Mm_Cell-Cycle-Checkpoints_Reactome-COREG 54 157 < 0.001
Mm_Cyclin-E-Destruction-Pathway_BioCarta-COREG 23 53 0.003
Mm_E2F1-Destruction-Pathway_BioCarta-COREG 31 90 0.027
Mm_GPCRDB_Other 3 139 0.025
Mm_Hedgehog_Netpath_10-COREG 46 141 0.004
Mm_IL-3_NetPath_15 30 87 0.030
Mm_IL-5_NetPath_17 26 62 0.003
Mm_Influence-of-Ras-and-Rho-proteins-on-G1-to-S-Transition_BioCarta-COREG 27 72 0.018
Mm_NF-kB-Signaling-Pathway_BioCarta-MEGINT 16 34 0.018
Mm_RB-Tumor-Suppressor-Checkpoint-Signaling-in-response-to-DNA-damage_BioCarta-COREG 40 124 0.019
Mm_Ribosomal_Proteins 25 63 0.015
Mm_Role-of-BRCA1-BRCA2-and-ATR-in-Cancer-Susceptibility_BioCarta-COREG 30 79 0.004
response to wounding 49 152 0.003
  1. Only pathways with adjusted P-values ≤ 0.05 are shown. Pathway analysis was performed on transcript lists that were statistically significant (Benjamini and Hochberg adjusted P ≤ 0.05,) between the two groups. No fold cutoff was used.
  2. * Refers to the transcripts from the input transcript list identified for each diet 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.