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Table 2 List of the 42 most differentially methylated genes (37 more methylated in hmMSI-H and 5 in SAC) as obtained from the array analysis

From: Two histologically colorectal carcinomas subsets from the serrated pathway show different methylome signatures and diagnostic biomarkers

Gene symbol >methyl. in adj p val. Gene name Chr
PDCD2L hmMSI-H 0.00101 Programmed cell death 2-like 19
FGFR2 SAC 0.00147 Fibroblast growth factor receptor 2 10
CTSL2 hmMSI-H 0.00159 Cathepsin L2 9
TLR4 hmMSI-H 0.00159 Toll-like receptor 4 9
ANKRD10 hmMSI-H 0.00350 Ankyrin repeat domain 10 13
COPZ1 hmMSI-H 0.00420 Coatomer protein complex, subunit zeta 1 12
C17orf108 SAC 0.00420 Chromosome 17 open reading frame 108 17
CEP68 hmMSI-H 0.00580 Centrosomal protein 68 kDa 2
ZNF652 hmMSI-H 0.00580 Zinc finger protein 652 17
PCYOX1L hmMSI-H 0.00583 Prenylcysteine oxidase 1 like 5
GALNT11 hmMSI-H 0.00583 UDP-NADG:polypeptide N-acetylgalactosaminyltransferase 11 7
MICAL2 hmMSI-H 0.00583 Microtubule-associated monoxygenase, calponin and LIM domain 2 11
OSCP1 hmMSI-H 0.00583 Organic solute carrier partner 1 1
ACAD10 hmMSI-H 0.00583 Acyl-CoA dehydrogenase family, member 10 12
MELK hmMSI-H 0.00583 Maternal embryonic leucine zipper kinase 9
HLA-DOA hmMSI-H 0.00583 Major histocompatibility complex, class II, DO alpha 6
KRT20 hmMSI-H 0.00583 Keratin 20 17
TMEM45B hmMSI-H 0.00583 Transmembrane protein 45B 11
LOC285401 SAC 0.00641 Uncharacterized LOC285401 3
PPIL1 hmMSI-H 0.00650 Peptidylprolyl isomerase (cyclophilin)-like 1 6
CA13 hmMSI-H 0.00709 Carbonic anhydrase XIII 8
BCL7C hmMSI-H 0.00709 B cell CLL/lymphoma 7C 16
CD14 hmMSI-H 0.00850 CD14 molecule 5
PLA2G4C hmMSI-H 0.00905 Phospholipase A2, group IVC (cytosolic, calcium-independent) 19
LY6G6D hmMSI-H 0.00908 Lymphocyte antigen 6 complex, locus G6D 6
TCF7L2 hmMSI-H 0.00954 Transcription factor 7-like 2 (T-cell specific, HMG-box) 10
RP11-165H20.1 hmMSI-H 0.00954 CHIA-like pseudogene 1
CHD6 hmMSI-H 0.00954 Chromodomain helicase DNA-binding protein 6 20
PARN hmMSI-H 0.00954 Poly(A)-specific ribonuclease 16
KCNK15 hmMSI-H 0.00954 Potassium channel, subfamily K, member 15 20
TMEM209 hmMSI-H 0.01015 Transmembrane protein 209 7
GOLM1 hmMSI-H 0.01016 Golgi membrane protein 1 9
ARRDC1 hmMSI-H 0.01016 Arrestin domain containing 1 9
TRIM21 hmMSI-H 0.01016 Tripartite motif containing 21 11
PHAX hmMSI-H 0.01016 Phosphorylated adaptor for RNA export 5
NMT2 hmMSI-H 0.01016 N-myristoyltransferase 2 10
ATP12A hmMSI-H 0.01016 ATPase, H+/K+ transporting, nongastric, alpha polypeptide 13
ARHGAP30 SAC 0.01016 Rho GTPase-activating protein 30 1
WWP1 hmMSI-H 0.01055 WW domain-containing E3 ubiquitin protein ligase 1 8
GNAI3 hmMSI-H 0.01055 Guanine nucleotide binding (G protein), α inhibit polypeptide 3 1
CD48 SAC 0.01055 CD48 molecule 1
EXPH5 hmMSI-H 0.01070 Exophilin 5 11
  1. Genes chosen for validation by pyrosequencing, qPCR, and IHC are written in bold letters
  2. SAC serrated adenocarcinoma, hmMSI-H colorectal carcinoma showing molecular and histological features of microsatellite instability