IGVF CAD perturbation screens
Parse Perturb-seq and TAP-seq CRISPRi screens of CAD genes and enhancers in human coronary artery SMCs, and in vivo AAV Perturb-seq in mouse aortic SMCs. Some datasets are still being processed and are not yet public.
Resources
Data, code & tools
We release our single-cell, epigenomic and CRISPR screening data openly. Browse interactive atlases, download raw data from GEO, or reuse our analysis code.
Open data
Datasets & portals
Human Arterial Atlas
Single-cell and spatial transcriptomes of healthy human arterial segments. Zhao et al., Cell Genomics 2025.
Atherosclerosis SMC timecourse
Single-cell RNA + ATAC timecourse of SMC lineage-traced mouse atherosclerosis. Li et al., Nat Commun 2026.
Vascular site single-cell epigenomes
scRNA-seq and scATAC-seq of ascending aorta, carotid and descending aorta. Weldy et al., Mol Syst Biol 2025.
SMC ADAR1 / MDA5 datasets
Single-cell and bulk RNA-seq from SMC-specific Adar and Ifih1 models. Weldy et al., Nat Cardiovasc Res 2025.
CAD enhancer CRISPRi screens
Genome-scale CRISPRi screens of CAD GWAS enhancers in HCASMC. Ramste et al., medRxiv 2025.
PDGFD locus & knockout scRNA-seq
Single-cell profiling of Pdgfd knockout atherosclerosis. Kim et al., Nat Commun 2023.
TCF21 molecular QTLs in HCASMC
Pooled bQTL / caQTL / clQTL maps in human coronary artery SMCs. Zhao et al., Genome Biol 2020.
SMC lineage-tracing scRNA-seq
Mouse SMC lineage-traced and human coronary artery single-cell data. Wirka et al., Nat Med 2019.
Collaborate
ATHENA Network Collaborative Laboratory
A shared platform to identify, prioritize and validate causal atherosclerosis genes — submit candidate loci for functional assays and CRISPR screens, or access screening data, spatial transcriptomics and protocols.
ATHENA Co-Lab portal
Open source
github.com/QuertermousLab →Code on GitHub
Pipelines and analysis code for our single-cell, epigenomic, Perturb-seq and GWAS integration work are shared on GitHub.