Wenjie Du


2025

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Time-MQA: Time Series Multi-Task Question Answering with Context Enhancement
Yaxuan Kong | Yiyuan Yang | Yoontae Hwang | Wenjie Du | Stefan Zohren | Zhangyang Wang | Ming Jin | Qingsong Wen
Proceedings of the 63rd Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers)

Time series data are foundational in finance, healthcare, and energy domains. However, most existing methods and datasets remain focused on a narrow spectrum of tasks, such as forecasting or anomaly detection. To bridge this gap, we introduce Time Series Multi-Task Question Answering (Time-MQA), a unified framework that enables natural language queries across multiple time series tasks - numerical analytical tasks and open-ended question answering with reasoning. Central to Time-MQA is the TSQA dataset, a large-scale dataset containing ~200k question-answer pairs derived from diverse time series spanning environment, traffic, etc. This comprehensive resource covers various time series lengths and promotes robust model development. We further demonstrate how continually pre-training large language models (Mistral 7B, Llama-3 8B, and Qwen-2.5 7B) on the TSQA dataset enhanced time series reasoning capabilities, moving beyond mere numeric tasks and enabling more advanced and intuitive interactions with temporal data. The complete TSQA dataset, models, user study questionnaires for evaluation, and other related materials have been open-sourced here.

2024

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MolTC: Towards Molecular Relational Modeling In Language Models
Junfeng Fang | Shuai Zhang | Chang Wu | Zhengyi Yang | Zhiyuan Liu | Sihang Li | Kun Wang | Wenjie Du | Xiang Wang
Findings of the Association for Computational Linguistics: ACL 2024

Molecular Relational Learning (MRL), aiming to understand interactions between molecular pairs, plays a pivotal role in advancing biochemical research. Recently, the adoption of large language models (LLMs), known for their vast knowledge repositories and advanced logical inference capabilities, has emerged as a promising way for efficient and effective MRL. Despite their potential, these methods predominantly rely on textual data, thus not fully harnessing the wealth of structural information inherent in molecular graphs. Moreover, the absence of a unified framework exacerbates the issue of insufficient data exploitation, as it hinders the sharing of interaction mechanism learned across various datasets. To address these challenges, this work proposes a novel LLM-based multi-modal framework for molecular interaction modeling following Chain-of-Thought (CoT) theory, termed MolTC, which effectively integrate graphical information of two molecules in pair. To train this integrated framework efficiently, we introduce a *multi-hierarchical CoT theory* to refine its training paradigm, and conduct a comprehensive *Molecular Interactive Instructions* dataset for the development of biochemical LLMs involving MRL.Our experiments,conducted across various datasets involving over 4,000,000 molecular pairs, exhibit the superiority of our method over current GNN and LLM-based baselines. Code is available at https://github.com/MangoKiller/MolTC.