Yinuo Xu

She/Her
Incoming Ph.D. Student in Computer and Information Science at Penn

I am an incoming Ph.D. student in CIS at the University of Pennsylvania, where I will be advised by Prof. Qi Long. During my M.S. at Penn in Prof. Zhi Huang's lab, my research focused on computational pathology and machine learning methods for cell-level analysis in histopathology and spatial imaging data.

I am interested in foundation models that integrate spatial omics and biomedical semantics, as well as world models for simulating cell states, microenvironmental perturbations, and gene and protein dynamics.

Cell-centric multimodal foundation models Cell-level world models Xenium / Visium / CosMX supervision Computational pathology
Email: xuyinuo@cis.upenn.edu
iD CV
Photo of Yinuo Xu

Recent Highlights🌟

Earlier updates

Education🏫

University of Pennsylvania Aug 2026 – Incoming
Ph.D. in Computer and Information Science
University of Pennsylvania Aug 2024 – May 2026
M.S. in Computer and Information Science

Research assistant in the Zhi Huang Lab working on multimodal cell annotation, spatial omics, and computational pathology.

New York University Feb 2021 – May 2024
B.A. in Computer Science and Mathematics, Courant Institute

Cum Laude, University Golden Scholar and Dean's List honoree with training across machine learning, algorithms, systems, graphics, and analysis.

Research Projects and Publications📚

Selected papers and projects.

TissueLab project preview
NuClass v2 Cell annotation across histopathology and spatial imaging data.
2025

NuClass v2: Adaptive Multi-Scale Integration Unlocks Robust Cell Annotation in Histopathology Images

Yinuo Xu, Yan Cui, Mingyao Li, Zhi Huang
Preprint, 2025
Website Preprint
NuClass workshop preview
NuClass Ontology-guided zero-shot nuclei understanding.
2024–2025

NuClass: Ontology-Driven Zero-Shot Nuclei Classification

Yinuo Xu, Jina Kim, Zijie Zhao, Zhi Huang
CVPR 2025, MMFM-BIOMED Workshop
Poster
Nature News and Views preview
Nature News & Views Perspective on AI for imaging and assessing clinical cell samples.
2026

AI offers way to image and assess clinical cell samples

Yinuo Xu, Zhi Huang
Nature, News & Views, 2026
Article
Nature News and Views preview
Tissuelab An agentic AI platform for medical image analysis.
2025

A co-evolving agentic AI system for medical imaging analysis

Songhao Li, Jonathan Xu, Tiancheng Bao, Yuxuan Liu, Yuchen Liu, Yihang Liu, Lilin Wang, Wenhui Lei, Sheng Wang, Yinuo Xu, Yan Cui, Jialu Yao, Shunsuke Koga, Zhi Huang
Under revision at Nature
Preprint Website
DeepTraceReward project preview
DeepTraceReward Localized reward modeling for AI-generated video fakeness.
2024–2025

DeepTraceReward for AI-Generated Video Fakeness

Xingyu Fu, Siyi Liu, Yinuo Xu, Pan Lu, Guangqiuse Hu, Tianbo Yang, Taran Anantasagar, Christopher Shen, Yikai Mao, Yuanzhe Liu, Keyush Shah, Chung Un Lee, Yejin Choi, James Zou, Dan Roth, Chris Callison-Burch
Preprint, 2025
Preprint Website

Service💜

STEM Outreach and Mentorship Coordinator, NYU Women in Science (WINS)

From 2022 to 2024, I mentored NYC high school students in STEM learning and competitions, organized events connecting students with scientists, and supported WINS Scholars in academics and research. Learn more about WINS.

Life Outside Research

Qingdao coastline and city view

Qingdao

I grew up in Qingdao, a coastal city in China. Living near the ocean shaped many of my habits, and I still love walking by the water and enjoying slower moments outside work.

Lana Del Rey vinyl collection

Lana Del Rey

I love Lana Del Rey's music and have collected many of her vinyl records. I like listening to them when I want something calm, soft, and atmospheric.

A collection of film cameras

Film Photography

I enjoy shooting with film cameras. The process is slower than digital photography, but that slower pace is part of the charm for me.

Climbing at a gym

Rock Climbing

I recently started indoor rock climbing and bouldering. It is a good way to exercise, clear my mind, and spend time away from research.