AlphaTissue

A virtual tissue model for multimodal spatial data.

AlphaTissue reads spatial transcriptomics and spatial proteomics together to predict how tissue goes wrong — cancer, inflammation, senescence — straight from the measured tissue.

In development Xenium CODEX HuBMAP · SenNet
Xenium spatial transcriptomics CODEX spatial proteomics AlphaTissue virtual tissue model Cancer Inflammation Senescence
Transcript and protein measurements from the same tissue go into one shared representation. Tissue state comes out.
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Applications

Disease state

Cancer

Spot malignant transformation and map the tumor microenvironment from molecular spatial structure, not morphology alone.

Disease state

Inflammation

Find where inflammation and immune infiltration are happening, and tell resolving states from chronic ones.

Altered state

Senescence

Pick out senescent cells and their neighborhoods in situ. There's no single marker for senescence — which is exactly why more than one modality helps.

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Data sources

HuBMAP
Human BioMolecular Atlas Program

An NIH Common Fund program building open molecular and spatial maps of the healthy human body, across many organs, donors and assay types.

SenNet
Cellular Senescence Network

An NIH Common Fund program mapping senescent cells across tissues and lifespan — the data you need to study senescence where it actually sits.

Built on open data. AlphaTissue uses publicly released data from the HuBMAP and SenNet consortia.