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Li, Yu
Dexterous Non-Prehensile Manipulation for Ungraspable Object via Extrinsic Dexterity
Wang, Yuhan, Li, Yu, Yang, Yaodong, Chen, Yuanpei
Objects with large base areas become ungraspable when they exceed the end-effector's maximum aperture. Existing approaches address this limitation through extrinsic dexterity, which exploits environmental features for non-prehensile manipulation. While grippers have shown some success in this domain, dexterous hands offer superior flexibility and manipulation capabilities that enable richer environmental interactions, though they present greater control challenges. Here we present ExDex, a dexterous arm-hand system that leverages reinforcement learning to enable non-prehensile manipulation for grasping ungraspable objects. Our system learns two strategic manipulation sequences: relocating objects from table centers to edges for direct grasping, or to walls where extrinsic dexterity enables grasping through environmental interaction. We validate our approach through extensive experiments with dozens of diverse household objects, demonstrating both superior performance and generalization capabilities with novel objects. Furthermore, we successfully transfer the learned policies from simulation to a real-world robot system without additional training, further demonstrating its applicability in real-world scenarios. Project website: https://tangty11.github.io/ExDex/.
LEMMA: Learning from Errors for MatheMatical Advancement in LLMs
Pan, Zhuoshi, Li, Yu, Lin, Honglin, Pei, Qizhi, Tang, Zinan, Wu, Wei, Ming, Chenlin, Zhao, H. Vicky, He, Conghui, Wu, Lijun
Large language models (LLMs) have demonstrated remarkable reasoning capability in solving mathematical problems. However, existing approaches primarily focus on improving the quality of correct training data, e.g., distilling high-quality correct solutions from advanced models, neglecting the value contained in error data, potentially hindering the model's reflective ability. Though some studies attempt to leverage error data, they often involve complex mechanisms, such as Monte Carlo Tree Search (MCTS) to explore error nodes. In this work, we propose to enhance LLMs' reasoning ability by Learning from Errors for Mathematical Advancement (LEMMA). LEMMA constructs data consisting of an incorrect solution with an erroneous step and a reflection connection to a correct solution for fine-tuning. Specifically, we systematically analyze the model-generated error types and introduce an error-type grounded mistake augmentation method to collect diverse and representative errors. Correct solutions are either from fixing the errors or generating a fresh start. Through a model-aware smooth reflection connection, the erroneous solution is transferred to the correct one. By fine-tuning on the constructed dataset, the model is able to self-correct errors autonomously within the generation process without relying on external critique models. Experimental results demonstrate that LEMMA achieves significant performance improvements over other strong baselines.
MathFusion: Enhancing Mathematic Problem-solving of LLM through Instruction Fusion
Pei, Qizhi, Wu, Lijun, Pan, Zhuoshi, Li, Yu, Lin, Honglin, Ming, Chenlin, Gao, Xin, He, Conghui, Yan, Rui
Large Language Models (LLMs) have shown impressive progress in mathematical reasoning. While data augmentation is promising to enhance mathematical problem-solving ability, current approaches are predominantly limited to instance-level modifications-such as rephrasing or generating syntactic variations-which fail to capture and leverage the intrinsic relational structures inherent in mathematical knowledge. Inspired by human learning processes, where mathematical proficiency develops through systematic exposure to interconnected concepts, we introduce MathFusion, a novel framework that enhances mathematical reasoning through cross-problem instruction synthesis. MathFusion implements this through three fusion strategies: (1) sequential fusion, which chains related problems to model solution dependencies; (2) parallel fusion, which combines analogous problems to reinforce conceptual understanding; and (3) conditional fusion, which creates context-aware selective problems to enhance reasoning flexibility. By applying these strategies, we generate a new dataset, \textbf{MathFusionQA}, followed by fine-tuning models (DeepSeekMath-7B, Mistral-7B, Llama3-8B) on it. Experimental results demonstrate that MathFusion achieves substantial improvements in mathematical reasoning while maintaining high data efficiency, boosting performance by 18.0 points in accuracy across diverse benchmarks while requiring only 45K additional synthetic instructions, representing a substantial improvement over traditional single-instruction approaches. Our datasets, models, and code are publicly available at https://github.com/QizhiPei/mathfusion.
MetaLadder: Ascending Mathematical Solution Quality via Analogical-Problem Reasoning Transfer
Lin, Honglin, Pan, Zhuoshi, Li, Yu, Pei, Qizhi, Gao, Xin, Cai, Mengzhang, He, Conghui, Wu, Lijun
Large Language Models (LLMs) have demonstrated promising capabilities in solving mathematical reasoning tasks, leveraging Chain-of-Thought (CoT) data as a vital component in guiding answer generation. Current paradigms typically generate CoT and answers directly for a given problem, diverging from human problem-solving strategies to some extent. Humans often solve problems by recalling analogous cases and leveraging their solutions to reason about the current task. Inspired by this cognitive process, we propose \textbf{MetaLadder}, a novel framework that explicitly prompts LLMs to recall and reflect on meta-problems, those structurally or semantically analogous problems, alongside their CoT solutions before addressing the target problem. Additionally, we introduce a problem-restating mechanism to enhance the model's comprehension of the target problem by regenerating the original question, which further improves reasoning accuracy. Therefore, the model can achieve reasoning transfer from analogical problems, mimicking human-like "learning from examples" and generalization abilities. Extensive experiments on mathematical benchmarks demonstrate that our MetaLadder significantly boosts LLMs' problem-solving accuracy, largely outperforming standard CoT-based methods (\textbf{10.3\%} accuracy gain) and other methods. Our code and data has been released at https://github.com/LHL3341/MetaLadder.
Prada: Black-Box LLM Adaptation with Private Data on Resource-Constrained Devices
Wang, Ziyao, He, Yexiao, Shen, Zheyu, Li, Yu, Sun, Guoheng, Lee, Myungjin, Li, Ang
In recent years, Large Language Models (LLMs) have demonstrated remarkable abilities in various natural language processing tasks. However, adapting these models to specialized domains using private datasets stored on resource-constrained edge devices, such as smartphones and personal computers, remains challenging due to significant privacy concerns and limited computational resources. Existing model adaptation methods either compromise data privacy by requiring data transmission or jeopardize model privacy by exposing proprietary LLM parameters. To address these challenges, we propose Prada, a novel privacy-preserving and efficient black-box LLM adaptation system using private on-device datasets. Prada employs a lightweight proxy model fine-tuned with Low-Rank Adaptation (LoRA) locally on user devices. During inference, Prada leverages the logits offset, i.e., difference in outputs between the base and adapted proxy models, to iteratively refine outputs from a remote black-box LLM. This offset-based adaptation approach preserves both data privacy and model privacy, as there is no need to share sensitive data or proprietary model parameters. Furthermore, we incorporate speculative decoding to further speed up the inference process of Prada, making the system practically deployable on bandwidth-constrained edge devices, enabling a more practical deployment of Prada. Extensive experiments on various downstream tasks demonstrate that Prada achieves performance comparable to centralized fine-tuning methods while significantly reducing computational overhead by up to 60% and communication costs by up to 80%.
Learning Cascade Ranking as One Network
Wang, Yunli, Zhang, Zhen, Wang, Zhiqiang, Yang, Zixuan, Li, Yu, Yang, Jian, Wen, Shiyang, Jiang, Peng, Gai, Kun
Cascade Ranking is a prevalent architecture in large-scale top-k selection systems like recommendation and advertising platforms. Traditional training methods focus on single-stage optimization, neglecting interactions between stages. Recent advances such as RankFlow and FS-LTR have introduced interaction-aware training paradigms but still struggle to 1) align training objectives with the goal of the entire cascade ranking (i.e., end-to-end recall) and 2) learn effective collaboration patterns for different stages. To address these challenges, we propose LCRON, which introduces a novel surrogate loss function derived from the lower bound probability that ground truth items are selected by cascade ranking, ensuring alignment with the overall objective of the system. According to the properties of the derived bound, we further design an auxiliary loss for each stage to drive the reduction of this bound, leading to a more robust and effective top-k selection. LCRON enables end-to-end training of the entire cascade ranking system as a unified network. Experimental results demonstrate that LCRON achieves significant improvement over existing methods on public benchmarks and industrial applications, addressing key limitations in cascade ranking training and significantly enhancing system performance.
Biological Sequence with Language Model Prompting: A Survey
Jiang, Jiyue, Wang, Zikang, Shan, Yuheng, Chai, Heyan, Li, Jiayi, Ma, Zixian, Zhang, Xinrui, Li, Yu
Large Language models (LLMs) have emerged as powerful tools for addressing challenges across diverse domains. Notably, recent studies have demonstrated that large language models significantly enhance the efficiency of biomolecular analysis and synthesis, attracting widespread attention from academics and medicine. In this paper, we systematically investigate the application of prompt-based methods with LLMs to biological sequences, including DNA, RNA, proteins, and drug discovery tasks. Specifically, we focus on how prompt engineering enables LLMs to tackle domain-specific problems, such as promoter sequence prediction, protein structure modeling, and drug-target binding affinity prediction, often with limited labeled data. Furthermore, our discussion highlights the transformative potential of prompting in bioinformatics while addressing key challenges such as data scarcity, multimodal fusion, and computational resource limitations. Our aim is for this paper to function both as a foundational primer for newcomers and a catalyst for continued innovation within this dynamic field of study.
Large Language Models in Bioinformatics: A Survey
Wang, Zhenyu, Wang, Zikang, Jiang, Jiyue, Chen, Pengan, Shi, Xiangyu, Li, Yu
Large Language Models (LLMs) are revolutionizing bioinformatics, enabling advanced analysis of DNA, RNA, proteins, and single-cell data. This survey provides a systematic review of recent advancements, focusing on genomic sequence modeling, RNA structure prediction, protein function inference, and single-cell transcriptomics. Meanwhile, we also discuss several key challenges, including data scarcity, computational complexity, and cross-omics integration, and explore future directions such as multimodal learning, hybrid AI models, and clinical applications. By offering a comprehensive perspective, this paper underscores the transformative potential of LLMs in driving innovations in bioinformatics and precision medicine.
Benchmarking Large Language Models on Multiple Tasks in Bioinformatics NLP with Prompting
Jiang, Jiyue, Chen, Pengan, Wang, Jiuming, He, Dongchen, Wei, Ziqin, Hong, Liang, Zong, Licheng, Wang, Sheng, Yu, Qinze, Ma, Zixian, Chen, Yanyu, Fan, Yimin, Shi, Xiangyu, Sun, Jiawei, Wu, Chuan, Li, Yu
Large language models (LLMs) have become important tools in solving biological problems, offering improvements in accuracy and adaptability over conventional methods. Several benchmarks have been proposed to evaluate the performance of these LLMs. However, current benchmarks can hardly evaluate the performance of these models across diverse tasks effectively. In this paper, we introduce a comprehensive prompting-based benchmarking framework, termed Bio-benchmark, which includes 30 key bioinformatics tasks covering areas such as proteins, RNA, drugs, electronic health records, and traditional Chinese medicine. Using this benchmark, we evaluate six mainstream LLMs, including GPT-4o and Llama-3.1-70b, etc., using 0-shot and few-shot Chain-of-Thought (CoT) settings without fine-tuning to reveal their intrinsic capabilities. To improve the efficiency of our evaluations, we demonstrate BioFinder, a new tool for extracting answers from LLM responses, which increases extraction accuracy by round 30% compared to existing methods. Our benchmark results show the biological tasks suitable for current LLMs and identify specific areas requiring enhancement. Furthermore, we propose targeted prompt engineering strategies for optimizing LLM performance in these contexts. Based on these findings, we provide recommendations for the development of more robust LLMs tailored for various biological applications. This work offers a comprehensive evaluation framework and robust tools to support the application of LLMs in bioinformatics.
Developing and Utilizing a Large-Scale Cantonese Dataset for Multi-Tasking in Large Language Models
Jiang, Jiyue, Truong, Alfred Kar Yin, Chen, Yanyu, Bao, Qinghang, Wang, Sheng, Chen, Pengan, Wang, Jiuming, Kong, Lingpeng, Li, Yu, Wu, Chuan
High-quality data resources play a crucial role in learning large language models (LLMs), particularly for low-resource languages like Cantonese. Despite having more than 85 million native speakers, Cantonese is still considered a low-resource language in the field of natural language processing (NLP) due to factors such as the dominance of Mandarin, lack of cohesion within the Cantonese-speaking community, diversity in character encoding and input methods, and the tendency of overseas Cantonese speakers to prefer using English. In addition, rich colloquial vocabulary of Cantonese, English loanwords, and code-switching characteristics add to the complexity of corpus collection and processing. To address these challenges, we collect Cantonese texts from a variety of sources, including open source corpora, Hong Kong-specific forums, Wikipedia, and Common Crawl data. We conduct rigorous data processing through language filtering, quality filtering, content filtering, and de-duplication steps, successfully constructing a high-quality Cantonese corpus of over 2 billion tokens for training large language models. We further refined the model through supervised fine-tuning (SFT) on curated Cantonese tasks, enhancing its ability to handle specific applications. Upon completion of the training, the model achieves state-of-the-art (SOTA) performance on four Cantonese benchmarks. After training on our dataset, the model also exhibits improved performance on other mainstream language tasks.