Protein Secondary Structure Prediction Using Transformers

Manzi Kevin Maxime

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arXiv · 2512.08613

Protein Secondary Structure Prediction Using Transformers

Manzi Kevin Maxime

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Abstract

Predicting protein secondary structures such as alpha helices, beta sheets, and coils from amino acid sequences is essential for understanding protein function. This work presents a transformer-based model that applies attention mechanisms to protein sequence data to predict structural motifs. A sliding-window data augmentation technique is used on the CB513 dataset to expand the training samples. The transformer shows strong ability to generalize across variable-length sequences while effectively capturing both local and long-range residue interactions.

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Manzi Kevin Maxime. 2025-12-09. Protein Secondary Structure Prediction Using Transformers. https://arxiv.org/abs/2512.08613

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