Author

S. Silveira

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Open access Oct 2026

Protein-novelty, sequence-similarity, and negative-sampling controls reveal benchmark-specific discrimination in protein–protein interaction prediction

Protein–protein interaction (PPI) predictors are often evaluated with random pair splits that permit proteins to recur across training and test sets, while constructed negative pairs can introduce a separate source of benchmark-specific signal. We reassessed the Guo yeast benchmark using a matched protein-novelty curve...

Moruf A. Adeagbo, Halimah A. Agbaje, S. Silveira · bioRxiv · 0 citations

#graph neural networks Open access Oct 2026

NoiTox: A Machine Learning Strategy for Peptide Toxicity Prediction Reveals Label Noise in Benchmark Datasets

Motivation Peptide toxicity remains a major bottleneck in drug development, as small sequence variations can drastically alter cytotoxic profiles. Experimental assessment is costly and time-consuming, motivating computational predictors. Existing approaches often rely on single black-box architectures, limiting interpr...

Gustavo O. Almeida, Matheus C. Albuquerque, Bruno M. Silva et al. · bioRxiv · 0 citations