Epigenetic instability of imprinted genes in human cancers

Nucleic Acids Research
Joomyeong KimSuman Lee

Abstract

Many imprinted genes are often epigenetically affected in human cancers due to their functional linkage to insulin and insulin-like growth factor signaling pathways. Thus, the current study systematically characterized the epigenetic instability of imprinted genes in multiple human cancers. First, the survey results from TCGA (The Cancer Genome Atlas) revealed that the expression levels of the majority of imprinted genes are downregulated in primary tumors compared to normal cells. These changes are also accompanied by DNA methylation level changes in several imprinted domains, such as the PEG3, MEST and GNAS domains. Second, these DNA methylation level changes were further confirmed manually using several sets of cancer DNA. According to the results, the Imprinting Control Regions of the PEG3, MEST and GNAS domains are indeed affected in breast, lung and ovarian cancers. This DNA methylation survey also revealed that evolutionarily conserved cis-regulatory elements within these imprinted domains are very variable in both normal and cancer cells. Overall, this study highlights the epigenetic instability of imprinted domains in human cancers and further suggests its potential use as cancer biomarkers.

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Citations

Jul 2, 2016·MethodsX·Suman Lee, Joomyeong Kim
Apr 19, 2016·Genes·Anna K Knight, Alicia K Smith
Jun 7, 2016·The Journal of Pathology·Arnoud BootTom van Wezel
Sep 23, 2016·Human Reproduction Update·Julien BouckenheimerJohn De Vos
Oct 7, 2016·PloS One·Bambarendage P U Perera, Joomyeong Kim
Nov 9, 2016·Epigenetics : Official Journal of the DNA Methylation Society·An YeJoomyeong Kim
Nov 30, 2016·PloS One·Hongzhi HeJoomyeong Kim
Jun 14, 2017·PloS One·An YeJoomyeong Kim
Feb 1, 2017·Scientific Reports·R A R VillacisS R Rogatto
Jun 4, 2018·Human Molecular Genetics·Gabriel Cuellar PartidaDavid M Evans
May 16, 2019·The EMBO Journal·Shiran Bar, Nissim Benvenisty
Apr 21, 2017·Oncotarget·Nitish Kumar Mishra, Chittibabu Guda
Sep 1, 2017·Clinical Epigenetics·Corey L BretzJoomyeong Kim
Jan 7, 2017·World Journal of Gastroenterology : WJG·Orsolya GalambBéla Molnár
Jul 4, 2020·Signal Transduction and Targeted Therapy·Zhe ZhangCanhua Huang
Nov 30, 2019·Essays in Biochemistry·Simão Teixeira da Rocha, Anne-Valerie Gendrel
Oct 10, 2018·Nature Communications·Tine GoovaertsTim De Meyer
Mar 7, 2021·International Journal of Molecular Sciences·Joanna SobocińskaUrszula Oleksiewicz
Apr 4, 2021·Cancers·Yelyzaveta ShlyakhtinaMaximiliano M Portal
Mar 30, 2021·Frontiers in Oncology·Anna Lozano-UreñaSacri R Ferrón
Dec 29, 2020·Seminars in Cancer Biology·Urszula Oleksiewicz, Marta Machnik

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Methods Mentioned

BETA
GTPase
PCR
electrophoresis

Software Mentioned

BiQ Analyzer HT
ImageJ
BiQ Analyzer HT Tool
COBRA
PANCAN
Excel
Quantity One

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