MLCB 2026 Oral
3D-Guided Scalable Flow Matching for Generating Volumetric Tissue Spatial Transcriptomics from Serial Histology
Mohammad Vali Sanian*, Arshia Hemmat*, Amirhossein Vahidi*, Jonas Maaskola, Jimmy Tsz Hang Lee, Stanislaw Makarchuk, Yeliz Demirci, Nana-Jane Chipampe, Muzlifah Haniffa, Omer Bayraktar, Lassi Paavolainen, Mohammad Lotfollahi
HoloTea imputes spot-level gene expression from H&E while looking at the neighbouring sections: morphologically matching spots on adjacent slides are retrieved and fused through a lightweight ControlNet, so the conditioning follows anatomical continuity rather than treating each slice as an island.
A longer write-up of this work is on its way. Until then the paper and the code are the best place to look.