Biology
Research papers, repositories, and articles about biology
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PairSAE: Mechanistic Interpretability from Pair Representations in Protein Co-Folding
Adapts sparse autoencoders to the "pair" tensors in protein co-folding models by compressing them into token-level features first. Recovers features aligned with biological structure and binding signals. If you care about interpretability beyond plain transformers, this is a useful template. ([arxiv.org](https://arxiv.org/list/cs.LG/new))
Multi-Objective Molecular Generation with Frequency-Controlled Evolutionary Dynamics
Represents molecules in a Fourier basis and evolves them with a multi-objective evolutionary algorithm. Separates coarse scaffold changes from fine local tweaks in a clean way. If you care about drug discovery or interpretable molecule search, this offers a training-free alternative to diffusion models. ([arxiv.org](https://arxiv.org/list/cs.NE/new))