Epigenetic clustering of gastric carcinomas based on DNA methylation profiles at the precancerous stage: its correlation with tumor aggressiveness and patient outcome

Carcinogenesis
Kazuhiro YamanoiYae Kanai

Abstract

The aim of this study was to clarify the significance of DNA methylation alterations during gastric carcinogenesis. Single-CpG resolution genome-wide DNA methylation analysis using the Infinium assay was performed on 109 samples of non-cancerous gastric mucosa (N) and 105 samples of tumorous tissue (T). DNA methylation alterations in T samples relative to N samples were evident for 3861 probes. Since N can be at the precancerous stage according to the field cancerization concept, unsupervised hierarchical clustering based on DNA methylation levels was performed on N samples (βN) using the 3861 probes. This divided the 109 patients into three clusters: A (n = 20), B1 (n = 20), and B2 (n = 69). Gastric carcinomas belonging to Cluster B1 showed tumor aggressiveness more frequently than those belonging to Clusters A and B2. The recurrence-free and overall survival rates of patients in Cluster B1 were lower than those of patients in Clusters A and B2. Sixty hallmark genes for which βN characterized the epigenetic clustering were identified. We then focused on DNA methylation levels in T samples (βT) of the 60 hallmark genes. In 48 of them, including the ADAM23, OLFM4, AMER2, GPSM1, CCL28, DTX1 and COL23A1 genes, βT was again signifi...Continue Reading

References

Aug 1, 1995·Proceedings of the National Academy of Sciences of the United States of America·K YoshiuraS Hirohashi
Mar 6, 2003·Human Mutation·C M Fenoglio-PreiserA Noffsinger
Mar 24, 2005·BMC Cancer·Vivian Sze Wing LiSuet Yi Leung
Sep 13, 2005·Cancer Cell International·Toni M RichterSteven B Scholnick
Jan 24, 2007·CA: a Cancer Journal for Clinicians·Ahmedin JemalMichael J Thun
Feb 3, 2007·Cancer Science·Daisuke KobayashiNaoki Watanabe
May 3, 2007·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Jacqueline BanyardBruce R Zetter
Jan 27, 2009·Journal of Surgical Oncology·Frederick L Greene, Leslie H Sobin
Mar 10, 2009·Human Pathology·Andreas H MarxGuido Sauter
Jun 25, 2009·Cancer Research·Newton V VerbisckAnamaria A Camargo
Oct 3, 2009·Japanese Journal of Clinical Oncology·Tomohiro MatsudaUNKNOWN Japan Cancer Surveillance Research Group
May 8, 2010·Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology·Kristin A SpiveyBruce R Zetter
Oct 1, 2010·Annals of Surgical Oncology·Kay Washington
Mar 15, 2011·International Journal of Cancer. Journal International Du Cancer·Bodil OsterClaus L Andersen
Mar 15, 2011·International Journal of Cancer. Journal International Du Cancer·Ryo NagashioYae Kanai
Mar 25, 2011·International Journal of Experimental Pathology·Chunyan HuJianhua Zhou
Jul 15, 2011·Nature·Andrea FacciabeneGeorge Coukos
Nov 30, 2011·Annales de pathologie·Jean-François Fléjou
Oct 1, 2009·Epigenomics·Marina BibikovaKevin L Gunderson
Dec 1, 2011·The Journal of Biological Chemistry·Astrid S PfisterJürgen Behrens
Dec 30, 2011·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Toshikazu Ushijima, Naoko Hattori
Jun 14, 2012·Epigenomics·Kavitha Ramachandran, Rakesh Singal
Jul 14, 2012·Cancer Cell·Jueng Soo You, Peter A Jones
Jan 24, 2013·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Giovanni CorsoCarla Oliveira
Aug 15, 2013·Cancer Prevention Research·Tomomitsu TaharaJean-Pierre J Issa
Aug 27, 2013·Epigenetics : Official Journal of the DNA Methylation Society·Hassan AshktorabHassan Brim
Dec 7, 2013·International Journal of Hematology·Shan ShaoChun Wang
Dec 24, 2013·Epigenetics : Official Journal of the DNA Methylation Society·Nicole BethgeGuro E Lind
Jun 11, 2014·World Journal of Gastroenterology : WJG·Bin Lu, Meng Li

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Citations

Jan 30, 2016·Genome Medicine·Naoko Hattori, Toshikazu Ushijima
Apr 12, 2016·The International Journal of Biochemistry & Cell Biology·Hai-Ying ZouEn-Min Li
Dec 9, 2017·Nature Reviews. Cancer·Kit CurtiusTrevor A Graham
Jun 6, 2020·Epigenetics : Official Journal of the DNA Methylation Society·Mao FujimotoYae Kanai
Jan 1, 2015·Microarrays·Kenichi InaokaShuji Nomoto
Aug 23, 2019·International Journal of Oncology·Takatsugu SuzukiTaisuke Mori
Jun 27, 2019·International Journal of Cancer. Journal International Du Cancer·Hongzhen LiGriffin P Rodgers
Sep 4, 2019·Seminars in Cancer Biology·Valerio IzziTaina Pihlajaniemi
Mar 27, 2019·Cellular and Molecular Gastroenterology and Hepatology·Koya SuzukiSachiko Tsukita

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Methods Mentioned

BETA
biopsy
PCR

Software Mentioned

GenomeStudio
R

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