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Genetic variants of PTPN2 are associated with lung cancer risk: a re-analysis of eight GWASs in the TRICL-ILCCO consortium.

dc.contributor.author Liu, Zhensheng
dc.contributor.author Wei, Qingyi
dc.contributor.author Feng, Yun
dc.contributor.author Wang, Yanru
dc.contributor.author Liu, Hongliang
dc.contributor.author Mills, Coleman
dc.contributor.author Han, Younghun
dc.contributor.author Hung, Rayjean J
dc.contributor.author Brhane, Yonathan
dc.contributor.author McLaughlin, John
dc.contributor.author Brennan, Paul
dc.contributor.author Bickeboeller, Heike
dc.contributor.author Rosenberger, Albert
dc.contributor.author Houlston, Richard S
dc.contributor.author Caporaso, Neil E
dc.contributor.author Teresa Landi, Maria
dc.contributor.author Brueske, Irene
dc.contributor.author Risch, Angela
dc.contributor.author Ye, Yuanqing
dc.contributor.author Wu, Xifeng
dc.contributor.author Christiani, David C
dc.contributor.author Amos, Christopher I
dc.date.accessioned 2019-02-01T15:01:05Z
dc.date.available 2019-02-01T15:01:05Z
dc.date.issued 2017-04-11
dc.identifier 10.1038/s41598-017-00850-0
dc.identifier.issn 2045-2322
dc.identifier.issn 2045-2322
dc.identifier.uri https://hdl.handle.net/10161/17961
dc.description.abstract The T-cell protein tyrosine phosphatase (TCPTP) pathway consists of signaling events mediated by TCPTP. Mutations and genetic variants of some genes in the TCPTP pathway are associated with lung cancer risk and survival. In the present study, we first investigated associations of 5,162 single nucleotide polymorphisms (SNPs) in 43 genes of this TCPTP pathway with lung cancer risk by using summary data of six published genome-wide association studies (GWAS) of 12,160 cases and 16,838 controls. We identified 11 independent SNPs in eight genes after correction for multiple comparisons by a false discovery rate <0.20. Then, we performed in silico functional analyses for these 11 SNPs by eQTL analysis, two of which, PTPN2 SNPs rs2847297 and rs2847282, were chosen as tagSNPs. We further included two additional GWAS datasets of Harvard University (984 cases and 970 controls) and deCODE (1,319 cases and 26,380 controls), and the overall effects of these two SNPs among all eight GWAS studies remained significant (OR = 0.95, 95% CI = 0.92-0.98, and P = 0.004 for rs2847297; OR = 0.95, 95% CI = 0.92-0.99, and P = 0.009 for rs2847282). In conclusion, the PTPN2 rs2847297 and rs2847282 may be potential susceptible loci for lung cancer risk.
dc.language eng
dc.publisher Springer Nature
dc.relation.ispartof Scientific reports
dc.relation.isversionof 10.1038/s41598-017-00850-0
dc.subject Humans
dc.subject Lung Neoplasms
dc.subject Polymorphism, Single Nucleotide
dc.subject Protein Tyrosine Phosphatase, Non-Receptor Type 2
dc.subject Genome-Wide Association Study
dc.title Genetic variants of PTPN2 are associated with lung cancer risk: a re-analysis of eight GWASs in the TRICL-ILCCO consortium.
dc.type Journal article
dc.date.updated 2019-02-01T15:01:03Z
pubs.begin-page 825
pubs.issue 1
pubs.organisational-group Staff
pubs.organisational-group Duke
pubs.organisational-group School of Medicine
pubs.organisational-group Duke Cancer Institute
pubs.organisational-group Institutes and Centers
pubs.organisational-group Population Health Sciences
pubs.organisational-group Basic Science Departments
pubs.organisational-group Medicine, Medical Oncology
pubs.organisational-group Medicine
pubs.organisational-group Clinical Science Departments
pubs.publication-status Published
pubs.volume 7
duke.contributor.orcid Wei, Qingyi|0000-0002-3845-9445


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