virtual-spatial-transcriptomics
TCGA_virtual_spatial_transcriptomics_atlas
TCGA virtual spatial transcriptomics atlas
This repository contains predicted spatial transcriptomics for TCGA H&E slides,
both fresh-frozen (FF) and formalin-fixed paraffin-embedded (FFPE), produced
with DeepSpot-M.
Authors: Kalin Nonchev, Sebastian Dawo, Karina Silina, Viktor Hendrik
Koelzer, and Gunnar Rätsch.
Model: ratschlab/DeepSpotM · Code: github.com/ratschlab/DeepSpotM · Paper: medRxiv 2026.06.19.26356060.
News
[09.2026] Introducing Aurora - a no-code… See the full description on the dataset page: https://huggingface.co/datasets/ratschlab/TCGA_virtual_spatial_transcriptomics_atlas.TCGA_virtual_spatial_transcriptomics
Dataset card for TCGA digital spatial transcriptomics data
This repository contains results from the paper "DeepSpot: Leveraging Spatial Context for Enhanced Spatial Transcriptomics Prediction from H&E Images".
Authors: Kalin Nonchev, Sebastian Dawo, Karina Selina, Holger Moch, Sonali Andani, Tumor Profiler Consortium, Viktor Hendrik Koelzer, and Gunnar Rätsch
The preprint is available here.
What is TCGA digital spatial transcriptomics?
We trained a model using… See the full description on the dataset page: https://huggingface.co/datasets/nonchev/TCGA_virtual_spatial_transcriptomics.HEST_Xenium_virtual_spatial_transcriptomics
HEST Xenium virtual spatial transcriptomics
This repository contains predicted spatial transcriptomics for HEST Xenium H&E
slides produced with DeepSpot-M.
Authors: Kalin Nonchev, Sebastian Dawo, Karina Silina, Viktor Hendrik
Koelzer, and Gunnar Rätsch.
Paper: DeepSpot-M: a multimodal foundation model for transcriptome-wide virtual spatial transcriptomics from histology (medRxiv, 2026; see the citation below).
Code: https://github.com/ratschlab/DeepSpotM.
News… See the full description on the dataset page: https://huggingface.co/datasets/ratschlab/HEST_Xenium_virtual_spatial_transcriptomics.