Johannes Hingerl

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PhD student

Computational Molecular Medicine

Technical University of Munich

I am a third year PhD student in computational biology under supervision of Julien Gagneur at the Technical University of Munich (TUM), working on decoding the regulatory grammar encoded in genomic sequences using deep learning. Last summer, I spent 3 months at Genentech, interning with the Regulatory Language Unterstanding team at BRAID.

Before my PhD, I studied computer science at TUM, and worked for one year at Robert Bosch GmbH, interning at the Bosch Center for AI.

latest posts

Dec 03, 2024 Optimizing Relative Positional Encodings in Enformer and Borzoi

selected publications

  1. scooby: modeling multimodal genomic profiles from DNA sequence at single-cell resolution
    Johannes C Hingerl, Laura D Martens*, Alexander Karollus, Trevor Manz, and 3 more authors
    Nature Methods, 2025
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  2. Flashzoi: an enhanced Borzoi for accelerated genomic analysis
    Johannes C Hingerl, Alexander Karollus, and Julien Gagneur
    Bioinformatics, 2025
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  3. Species-aware DNA language models capture regulatory elements and their evolution
    Alexander Karollus*, Johannes Hingerl*, Dennis Gankin*, Martin Grosshauser, and 2 more authors
    Genome Biology, 2024
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