Skip to main content

Table 6 The six major hub genes for the RNAseq, Bead and Oligo UC GRN

From: Urothelial cancer gene regulatory networks inferred from large-scale RNAseq, Bead and Oligo gene expression data

A) RNAseq UC GRN    
Gene Degree Locus Description/GO Cancer association Cancer Ref
HID1 (DMC1) 139 chr17q25.1 Transmembrane Downregulated Breast, cervix, liver, lung, [53]
      thyroid, stomach, kidney  
FER1L4 135 20q11.22 lncRNA Downregulated Stomach [54,81]
TTLL3 128 3p25.3 Tubulin-tyrosine Downregulated Colon [55,82]
    ligase activity    
RIF1 126 2q23.3 DNA repair Anti-apoptotic Breast [56]
KLHDC7A (FLJ38753) 116 1p36.13 Transmembrane - - -
SBNO1 110 12q24.31 DNA binding Proliferation Lung [57]
B) Bead UC GRN    
Gene Degree Locus Description/GO Cancer association Cancer Ref
MGC15885 119 15q22.2 ncRNA - - -
RNF17 (TDRD4) 107 13q12.12 Spermatid development Potential cancer CT antigen Liver [58]
OR6S1 105 14q11.2 G-protein coupled - - -
    receptor signaling pathway    
ACTR3BP5 104 10p11.1 Pseudogene - - -
TPTE2P3 98 13q14.3 Pseudogene - - -
TMED7 90 5q22.3 Protein transport Upregulated Nasopharynx carcinoma [59]
      cell line  
C) Oligo UC GRN    
Gene Degree Locus Description/GO Cancer association Cancer Ref
CYP4A11 184 1p33 Monooxygenase activity Promotes angiogenesis Lung [60]
     and metastasis   
GJC2 162 1q42.13 Gap junction channel - - -
    activity    
GPATCH4 147 1q23.1 Nucleic acid binding - - -
ADAM5 141 8p11.22 Metalloendopeptidase - - -
    activity, pseudogene    
DKFZP434A062 120 9q34.3 Uncharacterized protein - - -
SLC38A3 (SNAT3) 118 3p21.31 Symporter activity malignancy marker Glioma [61]
  1. Shown are the gene symbols of the hub genes of the (A) RNAseq, (B) Bead and (C) Oligo UC GRN, their number of interactors (Degree), chromosomal location (Locus), functional description when available from GO or gene description, literature-based evidence or property for a cancer association, cancer types (Cancer) and literature citation (Ref) when available.