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Kiwoong Yoo

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#machine learning Preprint Oct 2026

Learning Rate Transfer for Hybrid Transformer-SSM Architectures

We study learning rate (LR) scaling for hybrid architectures combining Transformer and State-Space Model (SSM) blocks, a class adopted by several recent production language models. In particular, we focus on the gap between the theoretical scaling rules derived for SSMs under zero-order-hold (ZOH) discretization at inf...

Jimin Seo, Gyubok Lee, Yeonsik Jo et al. · 0 citations
Preprint Aug 2026

Natural-Language-Guided Generator-Agnostic Shortlisting for Protein Binder Design

It is suggested that LLM-generated ranking policies can act as an interpretable post-generation decision layer for combining heterogeneous proxy metrics to prioritize binders from large candidate pools.

Gyubok Lee, Kiwoong Yoo, Jimin Seo et al. · 0 citations
Open access Aug 2026

PreFold-dG: estimating binding affinity of protein–protein interaction from intermediate representations of protein folding model

PreFold-dG is presented, a model that estimates binding affinities of protein complexes utilizing intermediate embeddings from Boltz-2, an open-source foundation model for protein structure prediction and achieved state-of-the-art performance on well-established binding affinity prediction benchmarks and demonstrated r...

Sungjoon Park, Soorin Yim, Dongyun Kim et al. · 0 citations

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