SNP-PRAGE: SNP-based parametric robust analysis of gene set enrichment
نویسندگان
چکیده
منابع مشابه
GSEA-SNP: applying gene set enrichment analysis to SNP data from genome-wide association studies
The power of genome-wide SNP association studies is limited, among others, by the large number of false positive test results. To provide a remedy, we combined SNP association analysis with the pathway-driven gene set enrichment analysis (GSEA), recently developed to facilitate handling of genome-wide gene expression data. The resulting GSEA-SNP method rests on the assumption that SNPs underlyi...
متن کاملeSNPO: An eQTL-based SNP Ontology and SNP functional enrichment analysis platform
Genome-wide association studies (GWASs) have mined many common genetic variants associated with human complex traits like diseases. After that, the functional annotation and enrichment analysis of significant SNPs are important tasks. Classic methods are always based on physical positions of SNPs and genes. Expression quantitative trait loci (eQTLs) are genomic loci that contribute to variation...
متن کاملGene Set Enrichment Analysis Using Non-parametric Scores
Gene Set Enrichment Analysis (GSEA) is a well-known technique used for studying groups of functionally related genes and their correlation with phenotype. This method creates a ranked list of genes, which is used to calculate an enrichment score. In this work, we introduce two different metrics for gene ranking in GSEA, namely the Wilcoxon and the Baumgartner-Weiß-Schindler tests. The advantage...
متن کاملTitle: Powerful SNP Set Analysis for Case-Control Genome Wide Association Studies Running Title: Powerful SNP Set Analysis
Genome wide association studies (GWAS) have emerged as popular tools for identifying genetic variants that are associated with disease risk. Standard analysis of a case-control GWAS involves assessing the association between each individual genotyped SNP and disease risk. However, this approach suffers from limited reproducibility and difficulties in detecting multi-SNP and epistatic effects. A...
متن کاملEnrichNet: network-based gene set enrichment analysis
MOTIVATION Assessing functional associations between an experimentally derived gene or protein set of interest and a database of known gene/protein sets is a common task in the analysis of large-scale functional genomics data. For this purpose, a frequently used approach is to apply an over-representation-based enrichment analysis. However, this approach has four drawbacks: (i) it can only scor...
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ژورنال
عنوان ژورنال: BMC Systems Biology
سال: 2011
ISSN: 1752-0509
DOI: 10.1186/1752-0509-5-s2-s11