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Table 2 Significantly induced pathways associated with the response of primary epithelia to stroma co-culture in 3D

From: Stromal upregulation of lateral epithelial adhesions: Gene expression analysis of signalling pathways in prostate epithelium

Rank Pathway Impact Factor no. genes/ genes in pathway Upregulated genes Downregulated genes
1 Cell adhesion molecules 246.278 9/133 CLDN22, CLDN6, HLA-DPB1, ITGB2, NRXN3, PTPRC CD22, CLDN7, ITGA6
2 Phosphatidyl inositol signalling 27.591 4/77 PRKCB1 DGKG, INPP4B, PLCD3
3 Antigen processing and presentation 20.271 6/88 HLADPB1, KLRC2,
KLRC4, IFNA21, KIR3DL2
NFYB
4 Adherens junction 10.67 2/75 ACVR1B PTPRB
5 Type II diabetes mellitus 7.677 2/44 CACNA1C,
CACNA1E
 
6 Long term depression 5.7 6/76 GRM1, NPR2, PRKCB1 CRHR1, HRAS, PLA2G6
7 Gap junction 5.297 8/96 GRM1, HTR2, NPR2, PRKCB1, TUBB6 HRAS,PRKACB
8 Tight junction 5.253 10/135 CLDN22, CLDN6, MYH10, MYH6, PRKCB1 CLDN7, HRAS, MYH14, PP2R4, PRKCQ
9 Melanoma 5.206 4/71 FGF11, FGF2, FGF18 HRAS
10 Basal cell carcinoma 5.174 1/55 FZD2  
11 TGF beta signalling 4.763 3/89 ACVR1B, DCN ZFYVE9
12 Glioma 4.756 4/64 PRKCB1 CAMK2D, HRAS, SHC2
13 MAPK signalling pathway 4.747 19/265 CACNA1C, CACNA1E, CACNA1S, CACNB2, ACVR1B, FGF11, FGF2,
FGF18, FOS, JUN, PAK1, PRKCB1
CRKL, HRAS, MAP3K7IP2, PLA2G6, PRKACB,
PRKX
  1. The 'primary 1.1 fold gene list' was loaded into Pathway Express to determine the significant epithelial pathways associated with co-culture with stroma in 3D. The 1.1 fold gene list was derived from all ten primary epithelial cell cultures. All significantly (p < 0.05) ranked pathways are shown (91 ranked in total).