Abdominal adiposity across cellular contexts
Compare abdominal-adiposity IC scores with its adipocyte associations in the Trait Browser.
Single-Cell Regulatory Elements And Traits Encyclopedia
SCREATE
Explore the regulatory landscape of human cells in the context of cell identity and traits.
Connect cell identity, genes and regulatory elements with thousands of human traits. One atlas, linking single cells to traits through the genome. Move seamlessly between UMAPs, lists, heatmaps and genome browsers, and ask AI agents to help interpret the cellular and molecular basis of human disease susceptibility.
34 cell types 152 subtypes 30 tissue contexts
The atlas at a glance
From cells to regulatory context- Human cells
- 1,237,504
- Across 30 tissue contexts
- tCREs
- 526,448
- Regulatory elements
- Cell states
- 688
- Within 34 major cell types
- Individual traits
- 12,313
- Combined into 5,288 meta traits
Explore SCREATE
Start with a question.
Follow a cell, a gene or a trait.
Move between connected views of the atlas.
01 / CELLS
Cell Browser
Explore gene expression and trait heritability across the cell atlas. Start with an overview of L1 cell types, then choose a cell or feature to explore.
Explore cells 02 / TRAITSTrait Browser
Explore how cells and genes are associated with traits, and how traits relate to one another. Start with the trait catalogue and choose your own focus.
Explore traits 03 / GENOMEGenome Browser
Explore regulatory elements and genetic associations in their genomic context. Choose a gene or trait from the welcome page to get started.
Explore the genome 04 / AUTOPLAYExplore with Autoplay
No specific trait or cell in mind? Play through the trait list and watch its cellular patterns unfold across the atlas.
Overview · L1S cell subtypes · Non-protein traits · Shuffle · 2 seconds per trait · Music off Start autoplayFrom patterns to interpretation
Interpret the contexts with AI
Open an example, then click the highlighted star.
SCREATE’s association contexts between traits, cells, and genes will be sent to AI for interpretation.
01 / A CELL’S ROLE
Hepatocytes in cholesterol metabolism
Interpret the roles of hepatocytes in cholesterol metabolism through their association with HDL cholesterol.
Use the star beside hepatocyte in the cell list. Explore this AI example 02 / A CELLULAR CONTEXTCell states contributing to osteoporosis
Explore how different cell states may contribute to osteoporosis, comparing the evidence across the joint tissue scope.
Use the star in the Cells panel’s title bar. Explore this AI example 03 / GENETIC EVIDENCEA fine-mapped gene for blood pressure
Interpret the top fine-mapped gene’s genetic credibility and physiological relevance to blood pressure.
Use the star beside the first gene in the table. Explore this AI exampleThe illustrations are schematic. Each example opens SCREATE first; only clicking its star sends the prepared prompt to Google AI Mode. AI interpretations should be checked against the evidence and cited sources.
Try an example
Connect cells, traits and genes.
Two complementary browsers for each example.
Explore more for new associations and perspectives.
Asthma and IL18R1
Explore the asthma–IL18R1 association alongside genomic regulatory evidence.
Parkinson disease and SNCA
Explore Parkinson-associated signals in neurons, then inspect the regulatory neighbourhood of SNCA.
Cardiomyocytes: traits in context
Browse traits associated with cardiomyocytes, using atrial fibrillation to explore genomic regulatory evidence.
Each card combines two of Cell Browser, Trait Browser and Genome Browser. Trait Browser examples open a trait–cell or trait–gene pair, or all traits associated with a cell or gene. Where available, use Cell scope to compare relevant cellular contexts. These are exploratory associations, not proof of causality. Protein-level/ratio traits are excluded. Both links open in new tabs.
Open resources
Take the atlas further.
Explore the underlying data,
methods and analysis code.
Download & analyze
Expression matrices, cell annotations, tCRE and distal-locus annotations, and module contributions and usage.
Code & workflows
Access the SCAFE 5′-end RNA-seq workflow and code used to generate and analyze the atlas.
Find your way around
Learn how to navigate cell types, compare traits and use the atlas’s interactive tools.
Read the cell-type annotations. Browse marker genes, biological rationales and functional descriptions for every type, subtype and state, without loading the interactive browsers.
Cell annotations