Deep-learning-based gene perturbation effect prediction does not yet outperform simple linear baselines
Constantin Ahlmann-Eltze; Wolfgang Huber; Simon Anders · 2025 · Nature Methods
WASTE classifies this as Negative / Null Result Report · AI classification, approximate
The study found no significant effect — useful as a negative control or null benchmark for your own design.
Abstract (excerpt)
Abstract Recent research in deep-learning-based foundation models promises to learn representations of single-cell data that enable prediction of the effects of genetic perturbations. Here we compared five foundation models and two other…
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Metadata source: Crossref · DOI 10.1038/s41592-025-02772-6