Spatial Fuseseq EIC Project

Scalable, optical-free, 3D spatial transcriptomic profiling

Biology isn’t flat. So why is our research still stuck in two dimensions?

To truly understand human health, we must study biology as it exists in the body: complex, interconnected, and inherently 3D. Yet, current spatial tools forces us into a frustrating compromise:

  1. Sequencing: provides genomic depth but sacrifices the full 3D picture through thin-slice sectioning.

  2. Imaging: provides visual clarity but is hampered by limited markers and prohibitive equipment costs

To address this, we present a scalable, true 3D spatial transcriptomics technology based on DNA microscopy. This approach encodes spatial coordinates directly into DNA via an in situ reaction within the sample, which is subsequently decoded and reconstructed computationally from sequencing data.

With a €2 million non-dilutive grant from the European Innovation Council (EIC) Transition Program, CubaseBio aims to advance the technology from TRL 4 to TRL 6 by demonstrating the reproducibility of reagent kits and software at external user sites.

Project Team

  • Malte Kuhnemund

    CEO & Co-founder

  • Xiaoyan Qian

    CCSO & Co-founder

  • Toon Verheyen

    CTO & Co-founder

  • Paulius Mielinis

    CSO & Co-founder

  • Julian Ashby

    Sr. Product Marketing Manager

  • Gabriele Girelli

    Sr. Computational Biologist

  • Wenyu Li

    Scientist

  • Olivia Rudqvist

    Scientist

Let’s collaborate

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This project has received funding from the European Union's Horizon Europe research and innovation programme under grant agreement No. 101291956, Call: HORIZON-EIC-2025-TRANSITIONOPEN. Views and opinions expressed are however those of the author(s) only and do not necessarily reflect those of the European Union.