ArticlePloS one2012
Pooled sample-based GWAS: a cost-effective alternative for identifying colorectal and prostate cancer risk variants in the Polish population.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 37 citations in OpenAlex.
- Genetic architecture differences between pediatric and adult-onset inflammatory bowel diseases in the Polish population.Scientific reports · 2016Trial
- A Swedish Haplotype GWAS in Familial and Sporadic Site-Specific Colorectal Cancer.International journal of molecular sciences · 2026Article
- Extreme trait GWAS (Et-GWAS): Unraveling rare variants in the 3,000 rice genome.Life science alliance · 2024Article
- Using pooled data for genomic prediction in a bivariate framework with missing data.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2022Article
- GWAS Links New Variant in Long Non-Coding RNABiology · 2021Article
- Genome-Wide Analysis of Sex Disparities in the Genetic Architecture of Lung and Colorectal Cancers.Genes · 2021Article
- High-Throughput Genome-Wide Genotyping To Optimize the Use of Natural Genetic Resources in the Grassland Species Perennial Ryegrass (G3 (Bethesda, Md.) · 2020Article
- Genomic prediction using pooled data in a single-step genomic best linear unbiased prediction framework.Journal of animal science · 2020Article
- Mutation Profiling of Premalignant Colorectal Neoplasia.Gastroenterology research and practice · 2019Article
- Identification of novel alleles associated with insulin resistance in childhood obesity using pooled-DNA genome-wide association study approach.International journal of obesity (2005) · 2018Article
- A novel approach to genome-wide association analysis identifies genetic associations with primary biliary cholangitis and primary sclerosing cholangitis in Polish patients.BMC medical genomics · 2017Article
- Genome-wide association studies and epigenome-wide association studies go together in cancer control.Future oncology (London, England) · 2016Article
- Comparative analysis of copy number variations in ulcerative colitis associated and sporadic colorectal neoplasia.BMC cancer · 2016Article
- The Immunogenetics of Autoimmune Cholestasis.Clinics in liver disease · 2016Review
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- Analysis of Prostate Cancer Susceptibility Variants in South African Men: Replicating Associations on Chromosomes 8q24 and 10q11.Prostate cancer · 2015Article
- DNA methylation levels are highly correlated between pooled samples and averaged values when analysed using the Infinium HumanMethylation450 BeadChip array.Clinical epigenetics · 2015Article
- A genome-wide association study of prostate cancer in West African men.Human genetics · 2014Article
- Histone H3 lysine 27 acetylation is altered in colon cancer.Clinical proteomics · 2014Article
Corrections and comments
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Authors and funding
17 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundProstate cancer (PCa) and colorectal cancer (CRC) are the most commonly diagnosed cancers and cancer-related causes of death in Poland. To date, numerous single nucleotide polymorphisms (SNPs) associated with susceptibility to both cancer types have been identified, but their effect on disease risk may differ among populations.
methodsTo identify new SNPs associated with PCa and CRC in the Polish population, a genome-wide association study (GWAS) was performed using DNA sample pools on Affymetrix Genome-Wide Human SNP 6.0 arrays. A total of 135 PCa patients and 270 healthy men (PCa sub-study) and 525 patients with adenoma (AD), 630 patients with CRC and 690 controls (AD/CRC sub-study) were included in the analysis. Allele frequency distributions were compared with t-tests and χ(2)-tests. Only those significantly associated SNPs with a proxy SNP (p<0.001; distance of 100 kb; r(2)>0.7) were selected. GWAS marker selection was conducted using PLINK. The study was replicated using extended cohorts of patients and controls. The association with previously reported PCa and CRC susceptibility variants was also examined. Individual patients were genotyped using TaqMan SNP Genotyping Assays.
resultsThe GWAS selected six and 24 new candidate SNPs associated with PCa and CRC susceptibility, respectively. In the replication study, 17 of these associations were confirmed as significant in additive model of inheritance. Seven of them remained significant after correction for multiple hypothesis testing. Additionally, 17 previously reported risk variants have been identified, five of which remained significant after correction.
conclusionPooled-DNA GWAS enabled the identification of new susceptibility loci for CRC in the Polish population. Previously reported CRC and PCa predisposition variants were also identified, validating the global nature of their associations. Further independent replication studies are required to confirm significance of the newly uncovered candidate susceptibility loci.
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