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20242026
most citedDNABERT-S: Pioneering Species Differentiation with Species-Aware DNA Embeddings

11 citations · 11 across the 11 of their papers we have counts for

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5 papers · 1 filter

cs.LG2025

On Structured State-Space Duality

Jerry Yao-Chieh Hu, Xiwen Zhang, Ali ElSheikh +2

Structured State-Space Duality (SSD) [Dao & Gu, ICML 2024] is an equivalence between a simple Structured State-Space Model (SSM) and a masked attention mechanism. In particular, a…

cs.LG2025

POLO: Preference-Guided Multi-Turn Reinforcement Learning for Lead Optimization

Ziqing Wang, Yibo Wen, William Pattie +6

Lead optimization in drug discovery requires efficiently navigating vast chemical space through iterative cycles to enhance molecular properties while preserving structural similar…

cs.CE2025

Sci2Pol: Evaluating and Fine-tuning LLMs on Scientific-to-Policy Brief Generation

Weimin Wu, Alexander C. Furnas, Eddie Yang +5

We propose Sci2Pol-Bench and Sci2Pol-Corpus, the first benchmark and training dataset for evaluating and fine-tuning large language models (LLMs) on policy brief generation from a…

q-bio.GN2025

Genome-Factory: A Library for Tuning, Deploying, and Interpreting Genomic Foundation Models

Weimin Wu, Xuefeng Song, Yibo Wen +5

We introduce Genome-Factory, the first integrated Python library for tuning, deploying, and interpreting genomic foundation models. Our core contribution is to simplify and unify t…

cs.LG2025

Universal Approximation with Softmax Attention

Jerry Yao-Chieh Hu, Hude Liu, Hong-Yu Chen +2

We prove that with linear transformations, both (i) two-layer self-attention and (ii) one-layer self-attention followed by a softmax function are universal approximators for contin…