[PDF] Top 20 Application of noncollapsing methods to the gene based association test: a comparison study using Genetic Analysis Workshop 18 data
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Application of noncollapsing methods to the gene based association test: a comparison study using Genetic Analysis Workshop 18 data
... traditional analysis methods have difficulties in detecting association signals for rare causal variants because of a lack of statistical ...two-stage, gene-based method for ... See full document
6
Comparison of multilevel modeling and the family based association test for identifying genetic variants associated with systolic and diastolic blood pressure using Genetic Analysis Workshop 18 simulated data
... empirical data exhibit a hierarchical ...family-based genetic association studies ...model analysis in family-based genetic association studies, especially for ... See full document
7
Rare variant analysis of blood pressure phenotypes in the Genetic Analysis Workshop 18 whole genome sequencing data using sequence kernel association test
... variant methods, is severely hindered by small sample sizes, and this data set was no ...a study per- formed by Daye et al [10] that showed at a sample size of 200, SKAT performs at or around the a = ... See full document
6
Genetic association analysis using weighted false discovery rate approach on Genetic Analysis Workshop 18 data
... genome-wide association study, association between disease trait and hundreds of thousands of genetic markers are ...Several methods have been proposed to control the false discovery ... See full document
5
Entropy based method for assessing the influence of genetic markers and covariates on hypertension: application to Genetic Analysis Workshop 18 data
... calculations based on the data provided by GAW18, we show that entropy-based methods might be useful in separating these two classes of ... See full document
6
Exploration and comparison of methods for combining population and family based genetic association using the Genetic Analysis Workshop 17 mini exome
... of data in isolation most often results in nonoptimal statistical power, investi- gators have proposed several methods for efficiently com- bining these ...three methods to be applied to the ... See full document
6
A LASSO penalized regression approach for genome wide association analyses using related individuals: application to the Genetic Analysis Workshop 19 simulated data
... further study the TDR of the LASSO method, we reanalyzed the data using a less-strict threshold, p <1E- 04, for declaring significant SNPs with the PLINK analysis in hopes of increasing the ... See full document
6
A comparison of whole genome sequencing with exome sequencing for family based association studies
... decreases, association studies based on whole genome sequencing are now becoming ...to study a variety of diseases. In this project, we performed a comparison between whole genome sequencing ... See full document
6
A goodness of fit association test for whole genome sequencing data
... sidered based on the limitations of the current ...weak genetic effects simulated in the ...these association methods by simulated and real data with much larger sample ...Second, ... See full document
6
Evaluation of gene based association tests for analyzing rare variants using Genetic Analysis Workshop 18 data
... pooled association tests for rare variants and assess the impact of different gene annotation methods and binning strategies on the analyses of rare variants under Genetic Analysis ... See full document
6
Accounting for relatedness in family based association studies: application to Genetic Analysis Workshop 18 data
... genome-wide association test statistics (l > ...All methods performed rea- sonably well for the mean residuals, controlling the l to ...longitudinal data, most methods also per- ... See full document
5
Analysis of Genetic Analysis Workshop 18 data with gene based penalized regression
... Genome-wide association studies have identified many common variants associated with complex diseases, yet these variants explain only a small proportion of the her- ...same gene can contribute to monogenic ... See full document
5
Case control association testing by graphical modeling for the Genetic Analysis Workshop 17 mini exome sequence data
... The second and third steps of the algorithm are also car- ried out for each chromosome individually. In these steps, the haplotype phase is fixed according to the results of the first stage, and model fitting proceeds ... See full document
5
A variance component based gene burden test
... the analysis of next-generation sequencing data. Our method is based on the detection of the proportion of the trait phenotypic variance that can be explained by the introduction of a new variance ... See full document
5
Family based Bayesian collapsing method for rare variant association study
... Bayesian methods endeavor to employ various optimization or approximation algo- rithms to obtain a point estimate, the loss of uncertainty information on the estimate means the significance of the estimate cannot ... See full document
7
Comparison of multiple single nucleotide variant association tests in a meta analysis of Genetic Analysis Workshop 19 family and unrelated data
... performed gene-based multi-SNV analyses to iden- tify regions of the genome associated with ...haplotype analysis revealed mul- tiple genome-wide significant results, some in genes that have been ... See full document
5
Association analysis of whole genome sequencing data accounting for longitudinal and family designs
... sequence data were provided by the T2D-GENES Consortium which is supported by NIH grants U01 DK085524, U01 DK085584, U01 DK085501, U01 DK085526, and U01 ...other genetic and phenotypic data for GAW18 ... See full document
7
Combining Gene Phenotype Association Matrix with KEGG Pathways to Mine Gene Modules Using Data Set in GAW17
... types were obtained from the sequence alignment files provided by the 1000 Genomes Project for their pilot3 study (http://www.1000genomes.org). There is a total of 24487 SNPs, all of which are autosomal. A total ... See full document
6
Whole genome sequence analysis of the simulated systolic blood pressure in Genetic Analysis Workshop 18 family data: long term average and collapsing methods
... family-based data, we extended the proportion test of Morris and Zeggini [6] to account for family struc- ...proportion test that models the phenotype, in a lin- ear regression framework, as a ... See full document
5
Using a Bayesian latent variable approach to detect pleiotropy in the Genetic Analysis Workshop 18 data
... single genetic factor influences multiple phenotypes, is present in many genetic studies of complex human ...family data, such as the Genetic Analysis Workshop 18 ... See full document
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