BioinformaticsbioRxivPreprint
Protein novelty, sequence similarity, and negative sampling controls reveal benchmark specific discrimination in protein protein interactionprediction
Moruf Adedeji Adeagbo, Halimah A. Agbaje, Sabrina de Azevedo Silveira
The paper evaluates PPI predictors using controlled benchmarks and finds that performance varies with protein novelty and negative set characteristics, not generalizable to sequence-based models.
DOI 10.64898/2026.10.06.757125