| Literature DB >> 34926279 |
Ye Lu1,2, Manuel Gentiluomo3, Angelica Macauda1, Domenica Gioffreda4, Maria Gazouli5, Maria C Petrone6, Dezső Kelemen7, Laura Ginocchi8, Luca Morelli9, Konstantinos Papiris10, William Greenhalf11, Jakob R Izbicki12, Vytautas Kiudelis13, Beatrice Mohelníková-Duchoňová14, Bas Bueno-de-Mesquita15, Pavel Vodicka16,17,18, Hermann Brenner19,20,21, Markus K Diener22, Raffaele Pezzilli23, Audrius Ivanauskas13, Roberto Salvia24, Andrea Szentesi25,26, Mateus Nóbrega Aoki27, Balázs C Németh28, Cosimo Sperti29, Krzysztof Jamroziak30, Roger Chammas31,32, Martin Oliverius33, Livia Archibugi6,34,35, Stefano Ermini36, János Novák37, Juozas Kupcinskas13, Ondřej Strouhal14,38, Pavel Souček39, Giulia M Cavestro40, Anna C Milanetto29, Giuseppe Vanella6,34,35, John P Neoptolemos22, George E Theodoropoulos41, Hanneke W M van Laarhoven42, Andrea Mambrini8, Stefania Moz43, Zdenek Kala44, Martin Loveček45, Daniela Basso43, Faik G Uzunoglu12, Thilo Hackert22, Sabrina G G Testoni6, Viktor Hlaváč39, Angelo Andriulli4, Maurizio Lucchesi8, Francesca Tavano4, Silvia Carrara46, Péter Hegyi25,26, Paolo G Arcidiacono6, Olivier R Busch47, Rita T Lawlor48, Marta Puzzono40, Ugo Boggi49, Feng Guo19, Ewa Małecka-Panas50, Gabriele Capurso6,34,35, Stefano Landi3, Renata Talar-Wojnarowska50, Oliver Strobel22, Xin Gao19, Yogesh Vashist51, Daniele Campa3, Federico Canzian1.
Abstract
Although 21 pancreatic cancer susceptibility loci have been identified in individuals of European ancestry through genome-wide association studies (GWASs), much of the heritability of pancreatic cancer risk remains unidentified. A recessive genetic model could be a powerful tool for identifying additional risk variants. To discover recessively inherited pancreatic cancer risk loci, we performed a re-analysis of the largest pancreatic cancer GWAS, the Pancreatic Cancer Cohort Consortium (PanScan) and the Pancreatic Cancer Case-Control Consortium (PanC4), including 8,769 cases and 7,055 controls of European ancestry. Six single nucleotide polymorphisms (SNPs) showed associations with pancreatic cancer risk according to a recessive model of inheritance. We replicated these variants in 3,212 cases and 3,470 controls collected from the PANcreatic Disease ReseArch (PANDoRA) consortium. The results of the meta-analyses confirmed that rs4626538 (7q32.2), rs7008921 (8p23.2) and rs147904962 (17q21.31) showed specific recessive effects (p<10-5) compared with the additive effects (p>10-3), although none of the six SNPs reached the conventional threshold for genome-wide significance (p < 5×10-8). Additional bioinformatic analysis explored the functional annotations of the SNPs and indicated a possible relationship between rs36018702 and expression of the BCL2L11 and BUB1 genes, which are known to be involved in pancreatic biology. Our findings, while not conclusive, indicate the importance of considering non-additive genetic models when performing GWAS analysis. The SNPs associated with pancreatic cancer in this study could be used for further meta-analysis for recessive association of SNPs and pancreatic cancer risk and might be a useful addiction to improve the performance of polygenic risk scores.Entities:
Keywords: genetic polymorphisms; genome-wide association study; pancreatic cancer; recessive model; susceptibility
Year: 2021 PMID: 34926279 PMCID: PMC8678088 DOI: 10.3389/fonc.2021.771312
Source DB: PubMed Journal: Front Oncol ISSN: 2234-943X Impact factor: 6.244
Characteristics of genotyped samples from PANDoRA after quality control.
| Cases | Controls | |
|---|---|---|
| Male, % | 55.0 | 51.6 |
| Median age, (25th-75th percentile) | 66 (58-73) | 60 (51-68) |
| Country, N | ||
| Czech Republic | 430 | 173 |
| Germany | 683 | 1018 |
| Greece | 109 | 16 |
| Hungary | 290 | 413 |
| Italy | 1298 | 1280 |
| Lithuania | 102 | 179 |
| Poland | 90 | 195 |
| Netherlands | 117 | 62 |
| United Kingdom | 93 | 134 |
| Total | 3212 | 3470 |
Figure 1Forest plot of the associations of the 6 SNPs with PDAC risk under recessive and additive genetic models. A forest plot for the 6 SNPs and risk of PDAC is shown by two genetic models using data from discovery and replication analyses combined. Population specific odds ratios (OR) and 95% confidence intervals (CI) are denoted by green boxes and black lines. The combined OR estimates are represented by purple diamonds, where diamond width corresponds to 95% CI bounds. The position information (hg38) and minor allele frequency (MAF) for each SNP are shown on the left.
Figure 2The expression level of CTSG and LEPROTL1 in PAAD patients. GEPIA2 generates box plot for comparing gene expression in pancreatic cancer and paired normal tissues (TCGA tumor versus TCGA normal + GTEx normal). (A, B) differential expression analysis. Peach and grey clusters represent tumor and normal samples; * genes with higher |log2FC| values (>1) and lower Q-values (<0.01) were considered differentially expressed genes.