Table 1

Candidate methylated genes in HNSCC

Genebank accession no.Gene nameGene expression*Methylation in cell linesMethylation in tissue
Before treatmentAfter treatmentPrimary ca§Normal
AB023211Arginine deiminase (PADI2)(+)(++)
M69199G0S2 protein(−)(+)(+)(+)(−)
D13891Inhibitor of DNA binding 2, ID-2(−)(−)(−)
M59287CDC-like kinase 1, CLK1(−)(+)(−)
AI743134Protease inhibitor 7, Nexin(+)(++)
X02761Fibronectin(+)(++)
Z81326Protease inhibitor 12(+)(++)
X04741PGP 9.5(−)(+)(+)(+)(−)
X76029Neuromedin U(−)(+)(+)(+)(−)
J02966Solute carrier family 25, Member 4(+)(++)
U03106p21(+)(++)
AL022723Major histocompatibility complex I(−)(+)(+)(+)(+)
Y10032Serine/threonine protein kinase(+)(++)
M73780Integrin β-8(−)(−)(+)(−)
AB001325Aquaporine 3(-)(+)(+)(−)
AB001928Cathepsin V(−)(+)(−)
X04412Plasma gelsolin(+)(++)
D87258Serin protease with IGF-binding motif(−)(−)(−)
U15932Dual-specificity phosphatase 5, DUSP5(+)(++)
U53831Interferon regulatory factor 7B(−)(+)(−)
M13755Interferon-induced 15-kDa protein (IFI-15k)(−)(+)(−)
AA883502Ubiquitin-conjugating enzyme (UBCH8)(+)(++)
X15675pTR7(+)(++)
AF095448Retinoic acid-inducible gene 1(RAIG1)(+)(++)
M26326Keratin 18(+)(++)
U50529BRCA2(+)(++)
U66838Cyclin A1(−)(+)(+)(+)(−)
M97935Interferon-stimulated gene factor 3 (ISGF-3)(+)(++)
AI670788Modulator of apoptosis 1(+)(++)
Y09568Synaptosomal-associated Protein 23-kDa(−)(−)(−)
D28364Annexin II(+)(++)
AB002305Aryl hydrocarbon receptor translocator 2(+)(++)
X04434Insulin-like growth factor I receptor(+)(++)
X69433Isocitrate dehydrogenase 2 (IDH2)(−)(+)(−)
J03910Metallothionein-IG (MT1G)(−)(+)(+)(+)(−)
AB014515Nedd 4 binding protein(+)(++)
AA224832Metallothionein 1L, MT1L(+)(++)
W26496SOCS box containing WD-protein(+)(++)
M62403Insulin-like growth factor binding protein 4(+)(++)
S69189Peroxisomal acyl-coenzyme A oxidase(+)(++)
U03398Tumor necrosis factor ligand 9(+)(++)
J03909γ-interferon-inducible protein (IP-30)(+)(++)
M92843Zing finger protein 36(+)(++)
U87947Epithelial membrane protein 3 (EMP3)(−)(+)(+)(+)(+)
AA152406Cytochrome c oxidase polypeptide VIIA-heart(−)(−)(+)(+)(+)
M22489Bone morphogenetic protein 2A (BMP2A)(−)(+)(+)(+)(−)
M55153Transglutaminase (TGase) 2(+)(++)
X63187HE4 (WAP four-disulfide core domain2)(−)(+)(+)(+)(+)
D79206Ryudocan, Syndecan 4(−)(+)(−)
L13286Cytochrome P450 superfamily XXIV(+)(++)
Y07593Coxsackievirus and adenovirus receptor(−)(−)(−)
AF049891Tyrosylprotein sulfotransferase-2(−)(+)(−)
AF063002LIM protein SLIMMER(+)(++)
  • * Gene expression in HNSCC cell lines by RT-PCR, if at least one of the cell lines showed little or no expression before 5Aza-dC treatment and reactivation after treatment, the expression pattern for the gene of interest was included.

  • Before and after 5Aza-dC treatment.

  • Methylation analysis by bisulfite sequencing.

  • § Primary HNSCC tissue.