WebeQTpLot is an intuitive and user-friendly R package developed for the visualization of colocalization between eQTL and GWAS data. eQTpLot takes as input standard GWAS and eQTL summary statistics, and optional pairwise LD information, to generate a series of plots visualizing colocalization, correlation, and enrichment between eQTL and GWAS … WebMar 30, 2024 · For the primary outcome, summary genetic association data were extracted from a GWAS meta-analysis of four cohorts of electronic health record-documented NAFLD with participants of European ancestry including 8434 cases with hepatic steatosis, NASH, or liver fibrosis and 770,180 controls. 28 It is the largest GWAS dataset for analyses of ...
31.2: eQTL Basics - Biology LibreTexts
WebNov 14, 2024 · To further confirm the SNPs associated with KD, an eQTL analysis was conducted to identify the cis eQTLs using FastQTL (v2.184) in 20 KD samples. If the SNP location was within 1 Mb upstream or downstream of a gene’ transcription starting site, this cis eQTL would be computed. FastQTL proposes an efficient permutation procedure to … WebJan 30, 2024 · Here we developed the multivariate multiple QTL (mmQTL) approach and applied it to perform a large-scale trans-ethnic eQTL meta-analysis to increase power … kratos analytical inc
Genetic Risk of Primary Aldosteronism and Its Contribution to ...
WebJan 8, 2024 · We first assessed how eQTLs used as instruments from this cohort compared to alternative brain eQTL datasets available for public download, specifically a meta-analysis across AMP, CMC and GTEx on pre-frontal cortex tissue (brain cortex meta-analysis), and a meta-analysis across 10 different brain tissues available in GTEx … WebThe eQTL analysis is restricted to sentinel meQTL SNPs. Following the snakemake workflow eqtl_sentinel_snp/Snakefile , eQTLs are calculated separately for each cohort (adjusting the expression for covariates and houseman groups before) and then the results are combined in a meta-analysis. WebJoint statistical fine-mapping of eQTL and GWAS identified 329 variant-trait pairs for 24 brain-related traits driven by 204 unique candidate causal variants for 189 unique genes. … kratos all father