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Table 1 Genes hypermethylated in OPSCC

From: Novel insights into epigenetic drivers of oropharyngeal squamous cell carcinoma: role of HPV and lifestyle factors

Pathway Gene Name Hypermethylated in Region analyzed Reference
Apoptosis DAPK Death-associated protein kinase 1 HPV-negative/positive Promoter region [39]
RASSF1 Ras association domain-containing protein 1 HPV-negative − 244 from TSSa [50]
Promoter region [45, 51]
STAT5 Signal transducer and activator of transcription 5 HPV-negative + 42 from TSS [50]
Cell cycle CCNA1 Cyclin A1 HPV-positive Promoter region [51]
+ 7 from TSS [50]
CDKN2A Cyclin-dependent kinase inhibitor-2A HPV-negative Promoter region [43,44,45, 51]
HPV-positive Three loci within the CpG island of CDKN2A gene [165]
  CHFRb Checkpoint with forkhead and ring finger domains HPV-negative Promoter region [39]
  TP73 Tumor protein p73 HPV-negative/positive Promoter region [39]
Cell fate determination APC Adenomatous polyposis coli HPV-negative/positive Promoter region [39]
DNA repair MGMT O6-methylguanine-DNA methyltransferases HPV-negative − 272 from TSS [50, 51]
Protein glycosylation TUSC3 Tumor suppressor candidate 3 HPV-positive + 29 from TSS [50]
Inflammation JAK3 Janus kinase 3 HPV-positive + 64 from TSS [50]
Invasion and metastasis CADM1 Cell Adhesion Molecule 1 HPV-positive Promoter region [39]
CDH11 Cadherin 11 HPV-positive − 354 from TSS [50]
CDH13a Cadherin 13 HPV-negative/positive Promoter region [39]
IGSF4 Immunoglobulin superfamily member 4 HPV-positive Promoter region [166]
SPDEF SAM pointed domain-containing Ets transcription factor HPV-negative + 116 from TSS [50]
TIMP3 TIMP metallopeptidase inhibitor 3 HPV-positive Promoter region [39, 51]
SYBL1 Synaptobrevin-like 1 HPV-positive − 349 from TSS [50]
Signaling ESR1 Estrogen receptor 2 HPV-negative/positive Promoter region [39]
ESR2 Estrogen receptor 2 HPV-negative + 66 from TSS [50]
GALR1 Galanin receptor type 1/2 HPV-positive Two loci within the CpG island of the GALR1 gene [165]
GRB7 Growth factor receptor-bound protein 7 HPV-positive − 160 from TSS [50]
RARβa Retinoic acid receptor β HPV-negative/positive Promoter region [39]
Transcription RUNX1T1 RUNX1 translocation partner 1 HPV-positive + 145 from TSS [50]
TCF21 Transcription factor 21 HPV-positive Promoter region [167]
WNT signaling SFRP1 Soluble frizzled receptor protein 1 Drinkers Promoter region [56]
SFRP4 Soluble frizzled receptor protein 4 HPV-positive Promoter region [56]
  WIF1 WNT inhibitory factor 1 NA Promoter region [54]
  1. NA not applicable
  2. a TSS transcription start site
  3. bHypermethylation of these genes is associated with development of radioresistance in other tumor types