Xiangyu Wen

Xiangyu Wen

ECE Ph.D. Student
North Carolina State University

Hello, I'm

Xiangyu Wen

Ph.D. Student @ North Carolina State University

About

Hi! I am Xiangyu Wen温翔宇, a first-year Ph.D. student in Computer Engineering at North Carolina State University. My research focuses on reliable learning and decision-making, especially long-horizon reasoning, agentic systems, and self-improving learning, for scientific discovery and real-world applications. Previously at Shanghai AI Lab, Tsinghua, IMPERIAL, SYSU.

LLM and Agent Evaluation

I am interested in evaluating AI agents beyond static question answering, especially in executable, interactive, and long-horizon environments. My work studies tool use, multi-step planning, state tracking, constraint satisfaction, and artifact-level verification, with the goal of understanding when seemingly reasonable local decisions lead to globally incorrect or infeasible outcomes.

Agentic AI for Scientific Discovery

I build AI agents that can operate across complex scientific workflows involving heterogeneous tools, interacting constraints, and iterative verification. I am particularly interested in coding and biomedical settings, including RNA, proteins, DNA, molecular design, single-cell biology, and healthcare, where agent behavior can often be evaluated through executable tools and verifiable scientific artifacts.

Education

North Carolina State University

Ph.D. in Computer Engineering

Advisor: Prof. Kaixiong Zhou

2026 — Present

Sun Yat-sen University

B.Eng. in Telecommunication Engineering

Advisor: Prof. Xiang Chen · Outstanding Undergraduate Thesis

2022 — 2026

Experience

North Carolina State University

Department of Electrical and Computer Engineering

Advisor: Prof. Kaixiong Zhou

  • Graduate Research Assistant

    08/2026 — Present
  • Undergraduate Researcher

    06/2025 — 07/2026

Shanghai Artificial Intelligence Laboratory

Research Intern · AI4Science Center

Supervised by Dr. Zhangyang Gao and Prof. Siqi Sun

11/2025 — 04/2026

Tsinghua University

Visiting Researcher · Tomorrow Space Network Interdisciplinary Innovation Group

Supervised by Dr. Ming Zhao

02/2025 — 05/2025

Imperial College London

Undergraduate Researcher · Department of Bioengineering

Supervised by Prof. Neal Bangerter

12/2024 — 04/2025

Publications

* indicates equal contribution.

Benchmarking Virtual Cell Models for In-the-Wild Perturbation Response

Xinjie Mao*, Songming Zhang*, Qianhong Wen*, Xiangyu Wen*, Kedu Jin, Hao Wu, Shuizhou Chen, Yuqiang Li, Lei Bai, Qi Liu, Ning Ding, Siqi Sun, Zhangyang Gao

Under revision at a Nature Portfolio journal · paper · code · page

Abstract

A standardized benchmarking framework for single-cell perturbation prediction, harmonizing datasets, model interfaces, and evaluation protocols. It covers three out-of-distribution scenarios — unseen cell contexts, unseen perturbations, and cross-dataset generalization — revealing that task design strongly influences model ranking and that cross-dataset generalization remains the key challenge.

GALS-Fold: Geometry-Aware Long-Short RNA Inverse Folding with Linear Scaling

Xiangyu Wen, Yujing Bian, Hengrui Gu, Kaixiong Zhou

KDD 2026 · paper · code

Abstract

RNA inverse folding designs sequences that fold into a target 3D backbone. We address the "Long RNA Dilemma": GNNs capture local geometry but miss long-range couplings, while global attention incurs O(N²) cost. GALS-Fold combines an SE(3)-equivariant short-range GNN with linear-time anchor attention and length-aware gating, achieving 52.2% recovery (SOTA) and 62.4% on long sequences (>200 nt).

Removal of Ocular and Myogenic Artifacts from EEG Signal Using a Deep-Learning Method

Qian Chen*, Xiangyu Wen*, Kangcheng Zou, Yichen Mao

Applied and Computational Engineering, 165, 86–92, 2025 · paper

Abstract

A CNN-BiGRU-Attention network for suppressing ocular and myogenic artifacts in EEG signals. CNN extracts spatial features, BiGRU models temporal dependencies, and attention adaptively localizes artifacts, outperforming conventional baselines across multiple metrics.

Honors & Awards

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