[HTML][HTML] Invited review: Good practices in genome-wide association studies to identify candidate sequence variants in dairy cattle
Genotype data from dairy cattle selection programs have greatly facilitated GWAS to identify
variants related to economic traits. Results can enhance the accuracy of genomic prediction …
variants related to economic traits. Results can enhance the accuracy of genomic prediction …
[HTML][HTML] Evaluating the effective numbers of independent tests and significant p-value thresholds in commercial genotyping arrays and public imputation reference …
Current genome-wide association studies (GWAS) use commercial genotyping microarrays
that can assay over a million single nucleotide polymorphisms (SNPs). The number of SNPs …
that can assay over a million single nucleotide polymorphisms (SNPs). The number of SNPs …
Use R!
RGKHG Parmigiani - 2009 - Springer
This book is intended to provide fundamental statistical concepts and tools relevant to the
analysis of genetic data arising from population-based association studies. Elementary …
analysis of genetic data arising from population-based association studies. Elementary …
A multiple testing correction method for genetic association studies using correlated single nucleotide polymorphisms
Multiple testing is a challenging issue in genetic association studies using large numbers of
single nucleotide polymorphism (SNP) markers, many of which exhibit linkage …
single nucleotide polymorphism (SNP) markers, many of which exhibit linkage …
Avoiding the high Bonferroni penalty in genome‐wide association studies
X Gao, LC Becker, DM Becker… - … Official Publication of …, 2010 - Wiley Online Library
A major challenge in genome‐wide association studies (GWASs) is to derive the multiple
testing threshold when hypothesis tests are conducted using a large number of single …
testing threshold when hypothesis tests are conducted using a large number of single …
[HTML][HTML] So many correlated tests, so little time! Rapid adjustment of P values for multiple correlated tests
KN Conneely, M Boehnke - The American Journal of Human Genetics, 2007 - cell.com
Contemporary genetic association studies may test hundreds of thousands of genetic
variants for association, often with multiple binary and continuous traits or under more than …
variants for association, often with multiple binary and continuous traits or under more than …
On multiple‐testing correction in genome‐wide association studies
V Moskvina, KM Schmidt - Genetic Epidemiology: The Official …, 2008 - Wiley Online Library
The interpretation of the results of large association studies encompassing much or all of the
human genome faces the fundamental statistical problem that a correspondingly large …
human genome faces the fundamental statistical problem that a correspondingly large …
Genome‐wide significance for dense SNP and resequencing data
The problem of multiple testing is an important aspect of genome‐wide association studies,
and will become more important as marker densities increase. The problem has been …
and will become more important as marker densities increase. The problem has been …
Common variation in COL4A1/COL4A2 is associated with sporadic cerebral small vessel disease
Objectives: We hypothesized that common variants in the collagen genes COL4A1/COL4A2
are associated with sporadic forms of cerebral small vessel disease. Methods: We …
are associated with sporadic forms of cerebral small vessel disease. Methods: We …
[HTML][HTML] An efficient multiple-testing adjustment for eQTL studies that accounts for linkage disequilibrium between variants
Methods for multiple-testing correction in local expression quantitative trait locus (cis-eQTL)
studies are a trade-off between statistical power and computational efficiency. Bonferroni …
studies are a trade-off between statistical power and computational efficiency. Bonferroni …