Papers by Xiaotong Chen
SEP-MLDC: A Simple and Effective Paradigm for Multi-Label Document Classification (2025.findings-naacl)
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| Challenge: | Existing methods focus on optimizing document features, overlooking the potential of high-quality label features to enhance classification performance. |
| Approach: | They propose a multi-label document classification paradigm that utilizes large language models to expand the label content and generate pseudo-samples for the tail categories. |
| Outcome: | The proposed method significantly outperforms state-of-the-art models. |
ACECODER: Acing Coder RL via Automated Test-Case Synthesis (2025.acl-long)
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| Challenge: | Recent coder models have been driven by supervised fine-tuning, but the potential of reinforcement learning remains unexplored due to the lack of reliable reward data/model in the code domain. |
| Approach: | They propose a pipeline that generates extensive test-case pairs from existing code data and constructs preference pairs based on pass rates over sampled programs. |
| Outcome: | The proposed pipeline generates extensive (question, test-cases) pairs from existing code data and trains them with Bradley-Terry loss. |
Enhancing Safe and Controllable Protein Generation via Knowledge Preference Optimization (2025.acl-long)
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| Challenge: | Protein language models pose significant risks of generating harmful sequences, e.g., viral transmissibility, drug resistance, environmental imbalances, public health crises, etc. |
| Approach: | They propose a protein-based model that integrates prior knowledge via a Protein Safety Knowledge Graph to minimize the risk of generating harmful sequences. |
| Outcome: | The proposed framework reduces the likelihood of producing hazardous sequences while maintaining high functionality. |
Boosting LLM’s Molecular Structure Elucidation with Knowledge Enhanced Tree Search Reasoning (2025.acl-long)
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Xiang Zhuang, Bin Wu, Jiyu Cui, Kehua Feng, Xiaotong Li, Huabin Xing, Keyan Ding, Qiang Zhang, Huajun Chen
| Challenge: | Molecular structure elucidation involves deducing a molecule’s structure from various types of spectral data, which is crucial in chemical experimental analysis. |
| Approach: | They propose a Knowledge-enhanced reasoning framework for Molecular Structure Elucidation that leverages Monte Carlo Tree Search for test-time scaling as a plugin to extend the LLMs’ coverage of the chemical structure space. |
| Outcome: | The proposed framework significantly improves on both GPT-4o-mini and GPT4o, and a specialized molecule-spectrum scorer improves performance. |
InstructProtein: Aligning Human and Protein Language via Knowledge Instruction (2024.acl-long)
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| Challenge: | Large Language Models (LLMs) are a promising new approach to understanding biological sequences such as proteins. |
| Approach: | They propose an LLM that can generate protein sequences in human and protein languages by pre-training an Lm on protein and natural language corpora and supervised instruction tuning to facilitate alignment. |
| Outcome: | The proposed model outperforms state-of-the-art LLMs on protein-text generation tasks by a large margin. |