Genetic susceptibility variants for lung cancer: Replication study and assessment as expression quantitative trait loci

G Pintarelli, CE Cotroneo, S Noci, M Dugo, A Galvan, S Delli Carpini, L Citterio, P Manunta, M Incarbone, D Tosi, L Santambrogio, TA Dragani, F Colombo

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Abstract

Many single nucleotide polymorphisms (SNPs) have been associated with lung cancer but lack confirmation and functional characterization. We retested the association of 56 candidate SNPs with lung adenocarcinoma risk and overall survival in a cohort of 823 Italian patients and 779 healthy controls, and assessed their function as expression quantitative trait loci (eQTLs). In the replication study, eight SNPs (rs401681, rs3019885, rs732765, rs2568494, rs16969968, rs6495309, rs11634351, and rs4105144) associated with lung adenocarcinoma risk and three (rs9557635, rs4105144, and rs735482) associated with survival. Five of these SNPs acted as cis-eQTLs, being associated with the transcription of IREB2 (rs2568494, rs16969968, rs11634351, rs6495309), PSMA4 (rs6495309) and ERCC1 (rs735482), out of 10,821 genes analyzed in lung. For these three genes, we obtained experimental evidence of differential allelic expression in lung tissue, pointing to the existence of in-cis genomic variants that regulate their transcription. These results suggest that these SNPs exert their effects on cancer risk/outcome through the modulation of mRNA levels of their target genes. © The Author(s) 2017.
Original languageEnglish
Article number42185
JournalScientific Reports
Volume7
Issue number1-2
DOIs
Publication statusPublished - 2017

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Quantitative Trait Loci
Genetic Predisposition to Disease
Single Nucleotide Polymorphism
Lung Neoplasms
Genes
Lung
Survival
Messenger RNA
Neoplasms
Adenocarcinoma of lung

Cite this

Genetic susceptibility variants for lung cancer: Replication study and assessment as expression quantitative trait loci. / Pintarelli, G; Cotroneo, CE; Noci, S; Dugo, M; Galvan, A; Delli Carpini, S; Citterio, L; Manunta, P; Incarbone, M; Tosi, D; Santambrogio, L; Dragani, TA; Colombo, F.

In: Scientific Reports, Vol. 7, No. 1-2, 42185, 2017.

Research output: Contribution to journalArticle

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abstract = "Many single nucleotide polymorphisms (SNPs) have been associated with lung cancer but lack confirmation and functional characterization. We retested the association of 56 candidate SNPs with lung adenocarcinoma risk and overall survival in a cohort of 823 Italian patients and 779 healthy controls, and assessed their function as expression quantitative trait loci (eQTLs). In the replication study, eight SNPs (rs401681, rs3019885, rs732765, rs2568494, rs16969968, rs6495309, rs11634351, and rs4105144) associated with lung adenocarcinoma risk and three (rs9557635, rs4105144, and rs735482) associated with survival. Five of these SNPs acted as cis-eQTLs, being associated with the transcription of IREB2 (rs2568494, rs16969968, rs11634351, rs6495309), PSMA4 (rs6495309) and ERCC1 (rs735482), out of 10,821 genes analyzed in lung. For these three genes, we obtained experimental evidence of differential allelic expression in lung tissue, pointing to the existence of in-cis genomic variants that regulate their transcription. These results suggest that these SNPs exert their effects on cancer risk/outcome through the modulation of mRNA levels of their target genes. {\circledC} The Author(s) 2017.",
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AU - Galvan, A

AU - Delli Carpini, S

AU - Citterio, L

AU - Manunta, P

AU - Incarbone, M

AU - Tosi, D

AU - Santambrogio, L

AU - Dragani, TA

AU - Colombo, F

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