GREIN studies
Gene-level raw counts and study metadata are collected by GEO accession.
Current AtlasUpdated —
A continuously updated transcriptomic resource
Explore endothelial identity across tissues and studies.
The Endothelial RNA-seq Atlas brings manually reviewed mouse transcriptomes into one consistent framework for comparing endothelial cells with tissue-matched reference populations.
Atlas snapshot
—curated controls
—contributing studies
—shared genes
From public data to explorable evidence
One reproducible path through the atlas.
Adding an approved study updates the integrated expression matrix, metadata summaries, dimensionality reductions, gene signatures, and every affected count on the website.
Manual curation
Controls, biological replicates, cell identities, tissue, age, sex, and methods are audited.
Shared processing
Approved raw counts are harmonized and normalized together through one versioned pipeline.
Living atlas
Plots, PCA and UMAP views, reference scores, signatures, and downloads regenerate automatically.
Control-first
Comparable biological baselines
Only manually approved control samples enter atlas calculations; experimental cohorts remain documented in the historical metadata.
Traceable
Studies stay visible
Sample-level points, contributing-study counts, and downloadable values keep every result connected to its source.
Continuously updated
One dataset, many downstream views
The date stamp identifies the active atlas build while the manuscript remains the historical publication reference.
Why bulk RNA-seq?
Deep, interpretable profiles from defined cell populations.
Bulk RNA-seq provides strong gene-level coverage and stable expression estimates when the input population has been carefully isolated and annotated. That makes it especially useful for comparing endothelial programs across independent studies and for examining genes that may be difficult to measure consistently in sparse single-cell data.
The atlas does not treat every bulk sample as perfectly pure. Instead, it retains sample provenance, displays individual replicates, and uses reference-cell transcriptomes to evaluate endothelial identity and tissue context.
Future development
Where the atlas is going next.
The current control atlas is the foundation. New modules will be added only as suitable datasets are reviewed and harmonized.
More organs
Broader endothelial and tissue-matched reference coverage across additional vascular beds.
Endothelial disease states
Focused comparisons of how endothelial programs change in injury, inflammation, infection, and disease.
Human RNA-seq
A separately harmonized human atlas for cross-study exploration and eventual comparison with mouse programs.