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Table 4 Significant pathways associated with the response of BPH-1 cells to stroma in 3D culture

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

Rank Pathway Name Impact Factor no. genes/ genes in pathway Upregulated genes Downregulated genes
1 ECM-receptor interaction 14.5* 10/84 COL6A1, LAMB2 CD44, CD47, FN1, ITGA2, LAMB1, THBS1
2 Adherens junction 11.94 1/78   MET
3 Haematopoietic cell lineage 9.93* 8/87   CD44, CD55. CD59, IL1R2, IL4R, IL7R, ITGA2, ITGA6
4 Small cell lung cancer 7.96* 7/86 LAMB2 FN1, ITGA2, ITGA6, LAMB1, MYC
5 Basal cell carcinoma 7.83 2/55 WNT10A, WNT4  
6 Pathways in cancer 7.27* 13/330 DAPK2, LAMB2, WNT10A, WNT4 ETS1, FN1, ITGA2, ITGA6, LAMB1, MET, MYC, RUNX1
7 Focal adhesion 7.02* 10/203 COL6A1, LAMB2 FLNB, FN1, ITGA2, LAMB1, MET, THBS1
8 TGF-beta signalling pathway 6.61* 5/87 INHBB FST, MYC, THBS1, ID1
9 Axon guidance 6.48* 7/129 EFNB3, NFATC4, NTN1, SEMA3C MET, PLXNC1, SRGAP1
10 Jak-STAT signalling pathway 6.32* 7/155   IL13RA2, IL24, IL4R, IL7R, MYC, OSMR, SOCS3
11 Calcium signalling pathway 4.93 2/182   EDNRA, HRH1
12 Bladder cancer 4.74* 3/42 DAPK2 MYC, THBS1
13 B cell receptor signalling pathway 4.62 2/65 BLNK, NFATC4  
14 Complement and coagulation cascades 4.59* 4/69 C3 CD55, CD59, F3
15 Cytokine-cytokine receptor interaction 4.56* 9/263 INHBB CXCL5, IL1R2, IL24, IL4R, IL7R, MET, OSMR, PPBP
16 Regulation of actin cytoskeleton 4.37 5/217 CYFIP2 FN1, ITGA2, ITGA6, SSH1
17 Regulation of autophagy 4.32 1/35 GABARAPL1  
18 Melanoma 4.25 1/71   MET
19 Wnt signaling pathway 4.2 4/152 NFATC4, WNT10A, WNT4 MYC
20 Tight junction 4.11 2/135 JAM2, TJP3  
  1. The 'BPH1 1.1 fold gene list' was loaded into pathway express. All pathways with an impact factor > 4 are listed. * significant pathways, p < 0.05. The 1.1 fold gene list was derived from all three BPH-1 cultures.