David Van Den Berg

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.

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.

Uncovering Cross-Cohort Molecular Features with Multi-Omics Integration Analysis

This paper improves multi-omics integration by enhancing orthogonality in canonical vectors and demonstrates transferability across cohorts for proteomics and methylomics data.

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.

Genome-wide association analyses identify variants in IRF4 associated with acute myeloid leukemia and myelodysplastic syndrome susceptibility

This study identifies IRF4 variants associated with increased risk of de novo AML and MDS through GWAS and TWAS analyses using the DISCOVeRY-BMT cohorts.

Genome-wide association studies identify 137 loci for DNA methylation biomarkers of ageing

This study identifies 137 genome-wide significant loci associated with DNA methylation biomarkers of ageing using DNAm and SNP data from over 41,000 individuals.