Common genetic variants in epigenetic machinery genes and risk of upper gastrointestinal cancers

Hyuna Sung, Howard H. Yang, Han Zhang, Qi Yang, Nan Hu, Ze Zhong Tang, Hua Su, Lemin Wang, Chaoyu Wang, Ti Ding, Jin Hu Fan, You Lin Qiao, William Wheeler, Carol Giffen, Laurie Burdett, Zhaoming Wang, Maxwell P. Lee, Stephen J. Chanock, Sanford M. Dawsey, Neal D. FreedmanChristian C. Abnet, Alisa M. Goldstein, Kai Yu, Philip R. Taylor, Paula L. Hyland

Research output: Contribution to journalArticle

Abstract

Background: Populations in north central China are at high risk for oesophageal squamous cell carcinoma (ESCC) and gastric cancer (GC), and genetic variation in epigenetic machinery genes and pathways may contribute to this risk. Methods: We used the adaptive multilocus joint test to analyse 192 epigenetic genes involved in chromatin remodelling, DNA methylation and microRNA biosynthesis in 1942 ESCC and 1758 GC cases [1126 cardia (GCA) and 632 non-cardia adenocarcinoma (GNCA)] and 2111 controls with Chinese ancestry. We examined potential function of risk alleles using in silico and expression quantitative trait loci (eQTLs) analyses. Results: Suggestive pathway-based associations were observed for the overall epigenetic (P-valuePATH=0.034) and chromatin remodelling (P-valuePATH=0.039) pathways with risk of GCA, but not GC, GNCA or ESCC. Overall, 37 different epigenetic machinery genes were associated with risk of one or more upper gastrointestinal (UGI) cancer sites (P-valueGENE

Original languageEnglish (US)
Pages (from-to)1341-1352
Number of pages12
JournalInternational Journal of Epidemiology
Volume44
Issue number4
DOIs
StatePublished - Aug 1 2015
Externally publishedYes

Fingerprint

Gastrointestinal Neoplasms
Epigenomics
Stomach Neoplasms
Cardia
Chromatin Assembly and Disassembly
Genes
Adenocarcinoma
Quantitative Trait Loci
DNA Methylation
MicroRNAs
Computer Simulation
China
Joints
Alleles
Population

Keywords

  • Chromatin remodelling
  • DNA methylation
  • Epigenetics
  • Gastric cancer
  • Gastric cardia
  • Gastric non-cardia
  • Gene-based
  • MicroRNA
  • Oesophageal squamous cell carcinoma
  • Pathway-based
  • SNP

ASJC Scopus subject areas

  • Epidemiology

Cite this

Sung, H., Yang, H. H., Zhang, H., Yang, Q., Hu, N., Tang, Z. Z., ... Hyland, P. L. (2015). Common genetic variants in epigenetic machinery genes and risk of upper gastrointestinal cancers. International Journal of Epidemiology, 44(4), 1341-1352. https://doi.org/10.1093/ije/dyv050

Common genetic variants in epigenetic machinery genes and risk of upper gastrointestinal cancers. / Sung, Hyuna; Yang, Howard H.; Zhang, Han; Yang, Qi; Hu, Nan; Tang, Ze Zhong; Su, Hua; Wang, Lemin; Wang, Chaoyu; Ding, Ti; Fan, Jin Hu; Qiao, You Lin; Wheeler, William; Giffen, Carol; Burdett, Laurie; Wang, Zhaoming; Lee, Maxwell P.; Chanock, Stephen J.; Dawsey, Sanford M.; Freedman, Neal D.; Abnet, Christian C.; Goldstein, Alisa M.; Yu, Kai; Taylor, Philip R.; Hyland, Paula L.

In: International Journal of Epidemiology, Vol. 44, No. 4, 01.08.2015, p. 1341-1352.

Research output: Contribution to journalArticle

Sung, H, Yang, HH, Zhang, H, Yang, Q, Hu, N, Tang, ZZ, Su, H, Wang, L, Wang, C, Ding, T, Fan, JH, Qiao, YL, Wheeler, W, Giffen, C, Burdett, L, Wang, Z, Lee, MP, Chanock, SJ, Dawsey, SM, Freedman, ND, Abnet, CC, Goldstein, AM, Yu, K, Taylor, PR & Hyland, PL 2015, 'Common genetic variants in epigenetic machinery genes and risk of upper gastrointestinal cancers', International Journal of Epidemiology, vol. 44, no. 4, pp. 1341-1352. https://doi.org/10.1093/ije/dyv050
Sung, Hyuna ; Yang, Howard H. ; Zhang, Han ; Yang, Qi ; Hu, Nan ; Tang, Ze Zhong ; Su, Hua ; Wang, Lemin ; Wang, Chaoyu ; Ding, Ti ; Fan, Jin Hu ; Qiao, You Lin ; Wheeler, William ; Giffen, Carol ; Burdett, Laurie ; Wang, Zhaoming ; Lee, Maxwell P. ; Chanock, Stephen J. ; Dawsey, Sanford M. ; Freedman, Neal D. ; Abnet, Christian C. ; Goldstein, Alisa M. ; Yu, Kai ; Taylor, Philip R. ; Hyland, Paula L. / Common genetic variants in epigenetic machinery genes and risk of upper gastrointestinal cancers. In: International Journal of Epidemiology. 2015 ; Vol. 44, No. 4. pp. 1341-1352.
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AU - Yang, Howard H.

AU - Zhang, Han

AU - Yang, Qi

AU - Hu, Nan

AU - Tang, Ze Zhong

AU - Su, Hua

AU - Wang, Lemin

AU - Wang, Chaoyu

AU - Ding, Ti

AU - Fan, Jin Hu

AU - Qiao, You Lin

AU - Wheeler, William

AU - Giffen, Carol

AU - Burdett, Laurie

AU - Wang, Zhaoming

AU - Lee, Maxwell P.

AU - Chanock, Stephen J.

AU - Dawsey, Sanford M.

AU - Freedman, Neal D.

AU - Abnet, Christian C.

AU - Goldstein, Alisa M.

AU - Yu, Kai

AU - Taylor, Philip R.

AU - Hyland, Paula L.

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N2 - Background: Populations in north central China are at high risk for oesophageal squamous cell carcinoma (ESCC) and gastric cancer (GC), and genetic variation in epigenetic machinery genes and pathways may contribute to this risk. Methods: We used the adaptive multilocus joint test to analyse 192 epigenetic genes involved in chromatin remodelling, DNA methylation and microRNA biosynthesis in 1942 ESCC and 1758 GC cases [1126 cardia (GCA) and 632 non-cardia adenocarcinoma (GNCA)] and 2111 controls with Chinese ancestry. We examined potential function of risk alleles using in silico and expression quantitative trait loci (eQTLs) analyses. Results: Suggestive pathway-based associations were observed for the overall epigenetic (P-valuePATH=0.034) and chromatin remodelling (P-valuePATH=0.039) pathways with risk of GCA, but not GC, GNCA or ESCC. Overall, 37 different epigenetic machinery genes were associated with risk of one or more upper gastrointestinal (UGI) cancer sites (P-valueGENE

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