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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.
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Molecular Cancer

ISSN: 1476-4598