Interaction analysis between germline susceptibility loci and somatic alterations in lung cancer

International Journal of Cancer. Journal International Du Cancer
Yuzhuo WangHongbing Shen

Abstract

Emerging evidence indicates that germline variations may interact with somatic events in carcinogenesis. However, the germline-somatic interaction in lung cancer remains largely unknown. We investigated whether lung cancer driver genes (CDGs) were more likely to locate within cancer susceptibility regions. Pathway analysis was performed to identify common pathways underlying CDGs and cancer susceptibility genes (CSGs). Next, we analyzed the associations between lung cancer risk SNPs and somatic alterations, including mutations and copy number alterations, in the level of genes, pathways, and overall burden of alterations. Enrichment analysis showed that lung CDGs are more likely to locate within cancer susceptibility regions (p = 8.40 × 10-3 ). Both of lung CSGs and CDGs showed significant enrichment in pathways such as cell cycle and p53 signaling pathway. Gene-based analysis showed that rs36600 (22q12.2) was associated with somatic mutations within ARID1A (OR = 2.45, 95%CI: 1.47-4.08, p = 5.78 × 10-4 ). Pathway-based analysis of somatic truncation mutations identified rs2395185 and rs3817963 at 6p22.1 was associated with cell cycle pathway (OR = 1.56, p = 3.61 × 10-4 for rs2395185; OR = 1.58, p = 4.15 × 10-4 for rs3817963), a...Continue Reading

References

Mar 3, 2004·Nature Reviews. Cancer·P Andrew FutrealMichael R Stratton
Oct 4, 2005·Proceedings of the National Academy of Sciences of the United States of America·Aravind SubramanianJill P Mesirov
May 27, 2006·Hepatology : Official Journal of the American Association for the Study of Liver Diseases·Marianne BonvinJobst Greeve
Dec 6, 2011·Nature Methods·Olivier DelaneauJean-François Zagury
Sep 8, 2012·Genome Research·Jennifer HarrowTim J Hubbard
Sep 11, 2012·Nature·UNKNOWN Cancer Genome Atlas Research Network
Dec 5, 2012·Cancer Discovery·Jennifer N Wu, Charles W M Roberts
Feb 8, 2013·Nature·Michael B BurnsReuben S Harris
Mar 30, 2013·Nature Methods·Vivien Marx
May 30, 2013·Nature Genetics·UNKNOWN GTEx Consortium
Jul 16, 2013·Nature Genetics·Steven A RobertsDmitry A Gordenin
Aug 16, 2013·Nature·Ludmil B AlexandrovMichael R Stratton
Sep 17, 2013·Nature Methods·Abel Gonzalez-PerezNuria Lopez-Bigas
Sep 28, 2013·Nature Genetics·Travis I ZackRameen Beroukhim
Oct 9, 2013·Proceedings of the National Academy of Sciences of the United States of America·P Sivaramakrishna RachakondaRajiv Kumar
Dec 10, 2013·Nucleic Acids Research·Danielle WelterHelen Parkinson
Aug 1, 2014·Nature·UNKNOWN Cancer Genome Atlas Research Network
Oct 16, 2014·Bioinformatics·Tune H PersJoel N Hirschhorn
Mar 3, 2015·Proceedings of the National Academy of Sciences of the United States of America·David W CesconTak W Mak
Mar 31, 2015·Trends in Molecular Medicine·Stephen Henderson, Tim Fenton
Jun 21, 2015·Cancer Discovery·Charles SwantonReuben S Harris
Jul 8, 2015·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Rongrong WeiWanqing Liu
Jul 28, 2015·Nature Genetics·Thomas G P GrünewaldOlivier Delattre
Sep 17, 2015·Genome Biology·Mitchell J MachielaStephen J Chanock
Sep 26, 2015·Science·Iñigo Martincorena, Peter J Campbell
May 12, 2016·The New England Journal of Medicine·Charles Swanton, Ramaswamy Govindan
Feb 12, 2017·Cancer Discovery·Hannah CarterTrey Ideker
Jun 16, 2017·Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology·Yohan Bossé, Christopher I Amos

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Citations

May 10, 2019·NPJ Precision Oncology·Hongbing ShenCheng Wang
Apr 23, 2019·Prostate Cancer·Tarun Karthik Kumar MamidiChindo Hicks
Apr 12, 2020·Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology·Yuzhuo WangHongbing Shen
May 28, 2019·Trends in Genetics : TIG·Johnny R RamroopAmanda Ewart Toland

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