Bayesian Genetic Colocalization Test of Two Traits Using coloc

D Rasooly, GM Peloso, C Giambartolomei - Current Protocols, 2022 - Wiley Online Library
Colocalization relies on a Bayesian framework that can integrate summary statistics, for …
code for performing a genetic colocalization analysis of two traits using summary statistic

[PDF][PDF] Probabilistic colocalization of genetic variants from complex and molecular traits: promise and limitations

A Hukku, M Pividori, F Luca, R Pique-Regi… - The American Journal of …, 2021 - cell.com
analysis in the Bayesian framework becomes a natural choice for SNP-level colocalization
analysis; … Informed by our real data analysis of 4,091 GWAS traits and the eQTL data from the …

A fast and efficient colocalization algorithm for identifying shared genetic risk factors across multiple traits

CN Foley, JR Staley, PG Breen, BB Sun… - Nature …, 2021 - nature.com
traits simultaneously (eg 100 traits can be jointly analysed in around 1 s). We perform a
genome-wide multi-trait colocalization analysisassociation signals using summary statistics on …

Estimating colocalization probability from limited summary statistics

EA King, F Dunbar, JW Davis, JF Degner - BMC bioinformatics, 2021 - Springer
… When applied to the full GWAS Catalog and GTEx eQTL, we find that colocalized trait-gene
pairs are enriched in tissues relevant to disease etiology and for matches to approved drug …

A more accurate method for colocalisation analysis allowing for multiple causal variants

C Wallace - PLoS genetics, 2021 - journals.plos.org
… We repeatedly simulated GWAS summary data for a single trait with one or two causal … data
for two traits, such that each trait had one or two causal variants and each pair of traits shared …

COLOCdb: a comprehensive resource for multi-model colocalization of complex traits

S Pan, H Kang, X Liu, S Li, P Yang, M Wu… - Nucleic Acids …, 2024 - academic.oup.com
summary statistics data curation and process We collected GWAS summary statistics for
complex traits … So far, we have curated a total of 3189 GWAS summary statistics datasets mainly …

Eliciting priors and relaxing the single causal variant assumption in colocalisation analyses

C Wallace - PLoS genetics, 2020 - journals.plos.org
Bayesian colocalisation analysis that hitherto have not received detailed attention. The ability
of Bayesian … single trait association, p 1 , p 2 , are well supported by data across a range of …

A powerful and versatile colocalization test

Y Deng, W Pan - PLoS computational biology, 2020 - journals.plos.org
summary statistics from genome-wide association studies for all the traits, which is important
for multi-trait analysis … applies to multiple traits with only summary statistics based on one or …

ezQTL: a web platform for interactive visualization and colocalization of QTLs and GWAS loci

T Zhang, A Klein, J Sang, J Choi… - Genomics, Proteomics …, 2022 - academic.oup.com
… We recognize that the colocalization results for two traits in the same locus might be …
interactively visualize and analyze genetic association data and perform colocalization between two …

[PDF][PDF] Probabilistic integration of transcriptome-wide association studies and colocalization analysis identifies key molecular pathways of complex traits

J Okamoto, L Wang, X Yin, F Luca, R Pique-Regi… - The American Journal of …, 2023 - cell.com
… correlation test results within a formal Bayesian framework. Specifically, we take the TWAS
… To analyze the simulated data, we perform eQTL and GWAS finemapping analysis using …