Search Results for author: Sizhe Liu

Found 7 papers, 4 papers with code

DrugAgent: Automating AI-aided Drug Discovery Programming through LLM Multi-Agent Collaboration

no code implementations24 Nov 2024 Sizhe Liu, Yizhou Lu, Siyu Chen, Xiyang Hu, Jieyu Zhao, Tianfan Fu, Yue Zhao

Recent advancements in Large Language Models (LLMs) have opened new avenues for accelerating drug discovery processes.

Drug Discovery

FlexMol: A Flexible Toolkit for Benchmarking Molecular Relational Learning

1 code implementation19 Oct 2024 Sizhe Liu, Jun Xia, Lecheng Zhang, Yuchen Liu, Yue Liu, Wenjie Du, Zhangyang Gao, Bozhen Hu, Cheng Tan, Hongxin Xiang, Stan Z. Li

Molecular relational learning (MRL) is crucial for understanding the interaction behaviors between molecular pairs, a critical aspect of drug discovery and development.

Benchmarking Drug Discovery +1

Multilingual Contrastive Decoding via Language-Agnostic Layers Skipping

1 code implementation15 Jul 2024 Wenhao Zhu, Sizhe Liu, ShuJian Huang, Shuaijie She, Chris Wendler, Jiajun Chen

Decoding by contrasting layers (DoLa), is designed to improve the generation quality of large language models (LLMs) by contrasting the prediction probabilities between an early exit output (amateur logits) and the final output (expert logits).

NovoBench: Benchmarking Deep Learning-based De Novo Peptide Sequencing Methods in Proteomics

no code implementations16 Jun 2024 Jingbo Zhou, Shaorong Chen, Jun Xia, Sizhe Liu, Tianze Ling, Wenjie Du, Yue Liu, Jianwei Yin, Stan Z. Li

In this work, we present the first unified benchmark NovoBench for \emph{de novo} peptide sequencing, which comprises diverse mass spectrum data, integrated models, and comprehensive evaluation metrics.

Benchmarking de novo peptide sequencing

kNN-BOX: A Unified Framework for Nearest Neighbor Generation

1 code implementation27 Feb 2023 Wenhao Zhu, Qianfeng Zhao, Yunzhe Lv, ShuJian Huang, Siheng Zhao, Sizhe Liu, Jiajun Chen

Augmenting the base neural model with a token-level symbolic datastore is a novel generation paradigm and has achieved promising results in machine translation (MT).

Machine Translation Paraphrase Generation +4

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