W. Craig Johnson

Systematic Integration of genomics with transcriptomics for the Study of Coronary Artery Disease and Subclinical Atherosclerosis

This study integrates CAD GWAS with transcriptomic data to identify genes and networks associated with CAD and subclinical atherosclerosis.

Proteome-Wide Association Studies for Blood Lipids and Comparison with Transcriptome-Wide Association Studies

The paper conducts proteome-wide and transcriptome-wide association studies for blood lipids, finding high-level consistency between proteome and transcriptome-lipid associations across tissues.

Interaction molecular QTL mapping discovers cellular and environmental modifiers of genetic regulatory effects

The paper maps interaction QTLs (iQTLs) for cell type, age, and other variables in blood multi-omic data to identify context-specific genetic regulatory effects.

The functional impact of rare variation across the regulatory cascade

The paper identifies impactful rare variants by integrating multi-omic data from MESA, showing that combining expression and protein data increases the detection of rare stop and frameshift variants.

Multiset correlation and factor analysis enables exploration of multi-omic data

This paper introduces MCFA, an unsupervised integration method for multi-omic data, and applies it to five omics types across 614 samples to infer shared and private factors.

Investigating gene-diet interactions impacting the association between macronutrient intake and glycemic traits

The paper identifies a gene-diet interaction modifying the association between macronutrient intake and glycemic traits, highlighting challenges in detecting such interactions due to measurement error and sample size.

Protein prediction for trait mapping in diverse populations

The paper develops genetic predictors of plasma protein abundance in diverse populations and demonstrates their utility in proteome-wide association studies (PWAS) for complex traits.

A system for phenotype harmonization in the NHLBI Trans-Omics for Precision Medicine (TOPMed) Program

The paper describes a system for harmonizing phenotype data across multiple studies in the TOPMed program, enabling reproducible and shared phenotype data for over 80 studies.

Novel genetic determinants of telomere length from a trans-ethnic analysis of 109,122 whole genome sequences in TOPMed

This study identifies 59 sentinel variants and two novel genes associated with telomere length using whole genome sequences from 109,122 trans-ethnic individuals.

Epigenome-wide association analysis of daytime sleepiness in the Multi-Ethnic Study of Atherosclerosis reveals African-American specific associations

The paper identifies DNA methylation sites associated with daytime sleepiness in African Americans using epigenome-wide association analysis in the Multi-Ethnic Study of Atherosclerosis.

Deep-coverage whole genome sequences and blood lipids among 16,324 individuals

The paper analyzes whole genome sequences from 16,324 individuals to identify genetic variants associated with blood lipid levels and develops a polygenic score for LDL-C.

Genetic architecture of gene expression traits across diverse populations

The paper investigates genetic architecture of gene expression across diverse populations, finding that predictive performance varies due to allele frequency differences and highlighting the need for diverse population sampling.

Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries

The paper uses whole genome sequencing to identify genetic variants associated with plasma lipoprotein(a) levels and finds high heritability and inter-ethnic differences in Lp(a) risk.