Systematic identification of genes with a cancer-testis expression pattern in 19 cancer types

Nature Communications
Cheng WangZhibin Hu

Abstract

Cancer-testis (CT) genes represent the similarity between the processes of spermatogenesis and tumorigenesis. It is possible that their selective expression pattern can help identify driver genes in cancer. In this study, we integrate transcriptomics data from multiple databases and systematically identify 876 new CT genes in 19 cancer types. We explore their relationship with testis-specific regulatory elements. We propose that extremely highly expressed CT genes (EECTGs) are potential drivers activated through epigenetic mechanisms. We find mutually exclusive associations between EECTGs and somatic mutations in mutated genes, such as PIK3CA in breast cancer. We also provide evidence that promoter demethylation and close non-coding RNAs (namely, CT-ncRNAs) may be two mechanisms to reactivate EECTG gene expression. We show that the meiosis-related EECTG (MEIOB) and its nearby CT-ncRNA have a role in tumorigenesis in lung adenocarcinoma. Our findings provide methods for identifying epigenetic-driver genes of cancer, which could serve as targets of future cancer therapies.

References

Aug 1, 1993·Journal of Immunotherapy with Emphasis on Tumor Immunology : Official Journal of the Society for Biological Therapy·P G CoulieT Boon
Jul 22, 2005·Nature Reviews. Cancer·Andrew J G SimpsonLloyd J Old
Oct 8, 2008·Nucleic Acids Research·Luiz Gonzaga AlmeidaAna Tereza R Vasconcelos
Nov 19, 2008·Nature Reviews. Genetics·Zhong WangMichael Snyder
Dec 18, 2008·Proceedings of the National Academy of Sciences of the United States of America·Oliver HofmannWinston Hide
Jan 10, 2009·Nature Protocols·Da Wei HuangRichard A Lempicki
May 28, 2009·European Journal of Human Genetics : EJHG·Michaela WawrzikBernhard Horsthemke
Jun 2, 2009·Nature Genetics·Srinivas R ViswanathanGeorge Q Daley
Sep 15, 2010·Proceedings of the National Academy of Sciences of the United States of America·Peter Van LooVessela N Kristensen
Nov 29, 2011·Cell·Elena PiskounovaRichard I Gregory
Mar 23, 2012·Nature Reviews. Cancer·Matthew Vanneman, Glenn Dranoff
Aug 21, 2012·Cell·Martin M MatzukJames E Bradner
Sep 25, 2012·Nature·UNKNOWN Cancer Genome Atlas Network
Oct 9, 2012·Nature Genetics·Jan J MolenaarJohannes H Schulte
Jan 23, 2013·EMBO Molecular Medicine·Michael R Stratton
Feb 20, 2013·The International Journal of Biochemistry & Cell Biology·Jianbiao ZhouWee-Joo Chng
Mar 30, 2013·Science·Bert VogelsteinKenneth W Kinzler
May 3, 2013·Nature·Cyriac KandothDouglas A Levine
May 30, 2013·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Fernando Ulloa-MontoyaVincent G Brichard
May 30, 2013·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Johan VansteenkisteVincent G Brichard
Sep 28, 2013·Nature Genetics·UNKNOWN Cancer Genome Atlas Research NetworkJoshua M Stuart
Oct 2, 2013·Oncoimmunology·Chizuru Ogi, Atsushi Aruga
Oct 19, 2013·Nature Reviews. Genetics·Frédéric BaudatBernard de Massy
Oct 22, 2013·Genes & Development·Blair B MadisonAnil K Rustgi
Oct 29, 2013·Annual Review of Pharmacology and Toxicology·Angelique W Whitehurst
Dec 24, 2013·Trends in Pharmacological Sciences·Min HuangMeiyu Geng
Mar 22, 2014·Science·Alexandre OrthweinDaniel Durocher
May 30, 2014·Nature·Min-Sik KimAkhilesh Pandey
Aug 1, 2014·Nature·UNKNOWN Cancer Genome Atlas Research Network
Aug 1, 2014·Nature·UNKNOWN Cancer Genome Atlas Research Network
Sep 30, 2014·Nature Methods·Yassen AssenovChristoph Bock
Dec 24, 2014·Proceedings of the National Academy of Sciences of the United States of America·Cristian TomasettiBert Vogelstein
Jan 20, 2015·Nature Genetics·Matthew K IyerArul M Chinnaiyan
Feb 14, 2015·Cell·Carlos T PinedaPatrick Ryan Potts
May 9, 2015·Science·Marta MeléRoderic Guigó

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Citations

Jun 9, 2016·International Journal of Molecular Sciences·Aaraby Yoheswaran Nielsen, Morten Frier Gjerstorff
Jul 10, 2019·Journal of Experimental & Clinical Cancer Research : CR·Biswajit Das, Shantibhusan Senapati
Jan 22, 2020·Nucleic Acids Research·Koichi SatoAlex N Zelensky
May 27, 2016·International Journal of Cancer. Journal International Du Cancer·Kaipeng XieZhibin Hu
Apr 28, 2017·Molecular Cancer·Vicente Planells-PalopRamsay J McFarlane
Nov 22, 2018·Scientific Reports·Carter J BargerAdam R Karpf
Sep 5, 2019·Journal of Cellular and Molecular Medicine·Xuewei WangZhibin Hu
Jul 5, 2017·Frontiers in Oncology·Jean Piechowski
Oct 24, 2019·Journal of Hematology & Oncology·Yuan MaoQi Tang
Jan 6, 2019·Journal of Ovarian Research·Kaipeng XieJiangping Wu
Nov 6, 2018·Cancer Immunology, Immunotherapy : CII·Dmitri Loukinov
Jul 12, 2019·Molecular Cancer Research : MCR·Joanna C HillmanMichael J Higgins
Oct 27, 2020·Oncoimmunology·Ana María Hurtado LópezAndrés Jerez
Dec 23, 2020·Cancers·Jan Willem BruggemanGeert Hamer
Feb 27, 2021·Frontiers in Cell and Developmental Biology·Xiaofang TanKaipeng Xie
Apr 4, 2021·Cancers·Shailendra Kumar Dhar DwivediResham Bhattacharya
Apr 17, 2021·Journal for Immunotherapy of Cancer·Ana MarcuMarian Christoph Neidert
May 27, 2021·Molecular Genetics & Genomic Medicine·Faisal A AlzahraniLamjed Mansour
Jan 12, 2021·Molecular Oncology·Soazik P JaminMichael Primig

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Datasets Mentioned

BETA
MEIOB
-1119967
E-MTAB-4063

Methods Mentioned

BETA
exome sequencing
PCR
RNA-Seq
protein assay
flow cytometry

Software Mentioned

DAVID
GENCODE
Cell Quest
RnBeads
Cufflinks
Mod Fit LT
TopHat

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