Papers by Qizhi Pei
REST: Stress Testing Large Reasoning Models by Asking Multiple Problems at Once (2026.acl-long)
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| Challenge: | Recent Large Reasoning Models (LRMs) lack a narrow evaluation paradigm . a single-question evaluation setup suffers from two major limitations . |
| Approach: | They propose a stress-testing framework that exposes LRMs to multiple problems simultaneously. |
| Outcome: | The proposed framework outperforms existing models on reasoning benchmarks and state-of-the-art models. |
Tracing the Roots: A Multi-Agent Framework for Uncovering Data Lineage in Post-Training LLMs (2026.acl-long)
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Yu Li, Xiaoran Shang, Qizhi Pei, Yun Zhu, Xin Gao, Honglin Lin, Zhanping Zhong, Zhuoshi Pan, Zheng Liu, Xiaoyang Wang, Conghui He, Dahua Lin, Feng Zhao, Lijun Wu
| Challenge: | High-quality post-training data is the primary engine driving LLM capabilities . datasets are often treated as isolated artifacts, overlooking their true developmental context . |
| Approach: | They propose a framework to reconstruct the evolutionary graph of dataset development using data lineage. |
| Outcome: | The proposed framework characterizes domain-specific structural patterns in Math-oriented datasets and general-domain corpora. |
CAT: Confidence-Adaptive Thinking for Efficient Reasoning of Large Reasoning Models (2026.acl-industry)
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| Challenge: | Existing compression methods for large reasoning models rely on uniform length reduction or coarse-grained difficulty estimation, often leading to performance degradation on difficult problems. |
| Approach: | They propose a framework that incorporates model’s intrinsic self-certainty signals as confidence into the preference optimization process, which autonomously modulates reasoning lengths based on problem difficulty. |
| Outcome: | The proposed framework outperforms state-of-the-art models on reasoning accuracy across multiple benchmarks on different base models. |
ChartVerse: Scaling Chart Reasoning via Reliable Programmatic Synthesis from Scratch (2026.acl-long)
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Zheng Liu, Honglin Lin, Xiaoyang Wang, Xin Gao, Yu Li, Mengzhang Cai, Yun Zhu, Zhanping Zhong, Qizhi Pei, Zhuoshi Pan, Xiaoran Shang, Conghui He, Bin Cui, Wentao Zhang, Lijun Wu
| Challenge: | Existing open-source vision language models lack high-quality training data for chart reasoning . current models are simplistic and repetitive, while associated QA pairs are prone to hallucinations . |
| Approach: | They propose a framework to synthesize complex charts and reliable reasoning data from scratch. |
| Outcome: | Experimental results show that ChartVerse-8B surpasses existing models in QA and difficulty . lack of high-quality training data hampers development of open-source models . |
CipherBank: Exploring the Boundary of LLM Reasoning Capabilities through Cryptography Challenge (2025.findings-acl)
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| Challenge: | Large language models (LLMs) have demonstrated remarkable capabilities, but their capabilities in cryptographic decryption tasks remain underexplored. |
| Approach: | They propose a benchmark to evaluate the reasoning capabilities of large language models in cryptographic decryption tasks. |
| Outcome: | The proposed benchmark examines the reasoning capabilities of large language models in cryptographic decryption tasks. |
LEMMA: Learning from Errors for MatheMatical Advancement in LLMs (2025.findings-acl)
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Zhuoshi Pan, Yu Li, Honglin Lin, Qizhi Pei, Zinan Tang, Wei Wu, Chenlin Ming, H. Vicky Zhao, Conghui He, Lijun Wu
| Challenge: | Existing approaches focus on improving the quality of correct training data, neglecting the value contained in error data, thereby hindering the model’s reflective ability. |
| Approach: | They propose to improve LLM's reasoning ability by learning from error data and a grounded mistake augmentation method to collect representative errors. |
| Outcome: | The proposed model achieves significant performance improvements over other strong models with less than 90k data. |
Data Pollination: An Emergent Ecological Process Driving AI Population Evolution (2026.acl-long)
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| Challenge: | evidence from deployed systems suggests that language models interact through a shared data ecosystem. |
| Approach: | They propose to use data pollination to investigate stability dynamics under synthetic data training to investigate model collapse. |
| Outcome: | The proposed model can mitigate model collapse observed in recursive training, and improve performance across benchmarks. |
BioT5: Enriching Cross-modal Integration in Biology with Chemical Knowledge and Natural Language Associations (2023.emnlp-main)
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| Challenge: | et al., 2022) argue that the current models for drug discovery lack the ability to integrate molecules, proteins, and natural language. |
| Approach: | They propose a framework that integrates biological knowledge with chemical knowledge and natural language associations. |
| Outcome: | The proposed framework shows superior performance across a wide range of tasks. |
R3: End-to-End Reasoning-based Planning for Multi-step Retrosynthesis via Reinforcement Learning (2026.acl-long)
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YiFei Wang, Qizhi Pei, Jiangtao Feng, Yuntian Shi, Yi Duan, Lihao Wang, Lei Bai, Lijun Wu, Wei-Ying Ma, Hao Zhou
| Challenge: | Experimental results show that R3 is a superior alternative to traditional search algorithms for multistep retrosynthesis planning. |
| Approach: | They propose a framework that reformulates multistep retrosynthetic planning as a generative reasoning task. |
| Outcome: | The proposed framework achieves state-of-the-art Top-1 accuracy of 43.7% on retrobench . it leverages Large Language Models to reformulate multistep retrosynthesis as a generative reasoning task. |
A Strategic Coordination Framework of Small LMs Matches Large LMs in Data Synthesis (2025.acl-long)
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| Challenge: | Large Language Models suffer from high computational costs and environmental inefficiency . smaller LMs are more accessible and sustainable, but their individual capabilities often fall short . a collaborative framework for small LM combines specialized roles to iterative refinement and quality control . |
| Approach: | They propose a framework that aggregates specialized roles across small LMs to iterative refinement and quality control typically achieved by a single large LM. |
| Outcome: | The proposed framework aggregates specialized roles across small LMs to iterative refinement and quality control typically achieved by large LM. |
Middo: Model-Informed Dynamic Data Optimization for Enhanced LLM Fine-Tuning via Closed-Loop Learning (2025.emnlp-main)
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| Challenge: | Existing approaches to improve data quality face limitations in static dataset curation that fail to adapt to evolving model capabilities. |
| Approach: | They propose a self-evolving framework that uses model-aware data selection and context-preserving data refinement to improve LLM performance. |
| Outcome: | The proposed framework improves the quality of seed data and boosts LLM’s performance with improving accuracy by 7.15% on average while maintaining the original dataset scale. |
MathFusion: Enhancing Mathematical Problem-solving of LLM through Instruction Fusion (2025.acl-long)
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| Challenge: | Large Language Models (LLMs) have shown impressive progress in mathematical problem-solving . current approaches to enhance mathematical reasoning focus on instance-level modifications . |
| Approach: | They propose a framework that enhances mathematical reasoning through cross-problem instruction synthesis. |
| Outcome: | The proposed framework boosts mathematical reasoning by 18.0 points while maintaining high data efficiency. |
MetaLadder: Ascending Mathematical Solution Quality via Analogical-Problem Reasoning Transfer (2025.findings-emnlp)
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| Challenge: | Current paradigms generate CoT and answers directly for a given problem, diverging from human problem-solving strategies to some extent. |
| Approach: | They propose a framework that explicitly prompts LLMs to recall and reflect on meta-problems alongside their CoT solutions before addressing the target problem. |
| Outcome: | The proposed framework outperforms standard CoT-based methods on mathematical benchmarks and significantly improves their reasoning accuracy. |
BioT5+: Towards Generalized Biological Understanding with IUPAC Integration and Multi-task Tuning (2024.findings-acl)
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Qizhi Pei, Lijun Wu, Kaiyuan Gao, Xiaozhuan Liang, Yin Fang, Jinhua Zhu, Shufang Xie, Tao Qin, Rui Yan
| Challenge: | BioT5+ is an extension of the BioT5, but lacked a nuanced understanding of molecular structures. |
| Approach: | They propose a new bio-entity modeling framework, BioT5+, which integrates IUPAC names and molecule data. |
| Outcome: | The proposed model bridges the gap between molecular representations and textual descriptions and improves the grounded reasoning of bio-text and bio-sequences. |