[PDF] Top 20 A framework for analyzing both linkage and association: an analysis of Genetic Analysis Workshop 16 simulated data
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A framework for analyzing both linkage and association: an analysis of Genetic Analysis Workshop 16 simulated data
... genome-wide association study data will require algorithmic ...genome-wide association study ...single framework may help detect marginal genetic ... See full document
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Association analysis of whole genome sequencing data accounting for longitudinal and family designs
... extend association studies to rare var- ...jointly analyzing rare variants within a ...regression framework that can accommodate complex study designs and pheno- types, thus remaining a competitive ... See full document
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Genetic Analysis Workshop 16: Strategies for genome wide association study analyses
... Genetic Analysis Workshop 16 focused its efforts on the evaluation of genome-wide association studies of large genomic chip datasets containing hundreds of thousands genotypes from ... See full document
5
Evaluation of gene based association tests for analyzing rare variants using Genetic Analysis Workshop 18 data
... the analysis. However, we note that the simulated causal variants in GAW18 were all in or near ...additional analysis with the real binary hypertension phenotype, we did not observe significant ... See full document
6
SNP set analysis for detecting disease association using exon sequence data
... incorporate both interac- tions among SNPs and gene-environment ...dently simulated data sets for unrelated individuals from Genetic Analysis Workshop 17 (GAW17) [9] to illus- ... See full document
6
Linkage and association analysis of GAW15 simulated data: fine mapping of chromosome 6 region
... performed linkage and family-based association analysis across chromosomes 1–22 in Replicates 1–5 of the Genetic Analysis Workshop 15 simulated ...data. ... See full document
6
An exploration of heterogeneity in genetic analysis of complex pedigrees: linkage and association using whole genome sequencing data in the MAP4 region
... In analysis of the original Genetic Analysis Workshop pedigree data (reported in detail in Chen et al [3]), we observed substantial between-pedigree heterogeneity and differences ... See full document
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A pathway analysis applied to Genetic Analysis Workshop 16 genome wide rheumatoid arthritis data
... genome-wide association studies have proven their ability to identify genetic contributors to ...(SNP) association analysis is the most widely used method of genome-wide association ... See full document
8
Rare variant analysis of blood pressure phenotypes in the Genetic Analysis Workshop 18 whole genome sequencing data using sequence kernel association test
... for analyzing rare variants because it is fast and because nonburden tests are shown to be more powerful when most variants are noncausal or the effects of causal variants are in different ...sequencing ... See full document
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Comparing gene set analysis methods on single nucleotide polymorphism data from Genetic Analysis Workshop 16
... set analysis (GSA) has been extended from use on gene expression data to use on single-nucleotide polymorphism (SNP) data in genome-wide association ...SNP data, two popular statistics ... See full document
5
Enriching rare variants using family specific linkage information
... Genome-wide association studies have been successful in identifying common variants for common complex traits in recent ...of linkage information to select families enriched for rare variants using the ... See full document
5
Identifying rare disease variants in the Genetic Analysis Workshop 17 simulated data: a comparison of several statistical approaches
... reasons. Both sequencing errors and population stratification can create these replicable false signals, especially in these data sets, where the genotype data are fixed across ...artificial ... See full document
5
An aggregating U Test for a genetic association study of quantitative traits
... multivariate analysis of multiple rare variants, these collap- sing methods could reduce the degrees of freedom by creating a single supervariant composed of multiple indivi- dual rare variants, thus improving the ... See full document
5
Confidence set of putative quantitative trait loci in whole genome scans with application to the Genetic Analysis Workshop 17 simulated data
... additive genetic variance of the trait and the allele frequencies of the ...the data themselves, usually with high accuracy, depending on the sample ...additive genetic var- ...of data ... See full document
5
Analysis of Genetic Analysis Workshop 18 data with gene based penalized regression
... imputed data, a possible strategy is to use the software package ProA- BEL [14] to construct the inverse variance-covariance matrix on the basis of the relationship matrix, which is made up of the kinship ... See full document
5
Comparison of parametric and machine methods for variable selection in simulated Genetic Analysis Workshop 19 data
... this analysis, we ran the above selection algorithm using RF on one of the simulated data sets for the sys- tolic blood pressure (SBP) and Q1 (permuted) ...The analysis took a total of 5 h (1 ... See full document
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Comparison of multiple single nucleotide variant association tests in a meta analysis of Genetic Analysis Workshop 19 family and unrelated data
... where association between a trait and the number of rare alleles a person carries is evaluated, and the sequence kernel association test (SKAT), which aggregates the evi- dence for association over ... See full document
5
Assessing the impact of missing genotype data in rare variant association analysis
... genome-wide association studies (GWAS) to identify novel loci that contribute to com- plex human traits has been well publicized ...the genetic component of these traits remains ...human genetic ... See full document
6
Gene based multiple trait analysis for exome sequencing data
... From Tables 1 and 3, it can be seen that the correc- tion for population stratification has a large effect on the power to detect some associations with Q1, D, and Q1+Q2+Q4+D. This phenomenon also was observed from the ... See full document
7
Replication of recently identified associated single nucleotide polymorphisms from six autoimmune diseases in Genetic Analysis Workshop 16 rheumatoid arthritis data
... We identified 16 different cytogenetic regions of shared autoimmunity between GAW16 data and at least one of the proposed autoimmune diseases. There were eight shared regions with SLE (1p13, 2q32.2-q32.3, ... See full document
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