Rui Yan

Rui (Rachel) Yan

Research Scientist @ Meta | Stanford Ph.D.

About

I am a Research Scientist at Meta, where I develop and deploy LLMs for recommendation systems at scale.

I obtained my Ph.D. in Computational and Mathematical Engineering from Stanford University (ICME), receiving the Gene Golub ICME Doctoral Dissertation Award. My research developed scalable deep learning methods for multimodal data representation and interpretation, with applications in healthcare.

I received my B.S. in Applied Mathematics and Computer Science from UCLA. Prior to joining Meta full-time, I completed research internships at Meta, Microsoft Research, and Uber AI.

Research Interests
Large Language Models Representation Learning Multimodal AI Recommendation Systems

News

December 2025
Co-authored work on uncovering neurocognitive patterns via unsupervised manifold learning on dynamic brain data has been accepted at Nature Computational Science.
June 2025
Joined Meta as a Research Scientist working on LLM for recommendation.
June 2025
Graduated with Ph.D. from Stanford! Check out our commencement album.
May 2025

Selected Publications

DNE Publication
Deep Representation Learning of Protein-Protein Interaction Networks
Rui Yan, Md Tauhidul Islam, Lei Xing
Science Advances, 2024
TabMap Publication
Interpretable Discovery of Patterns in Tabular Data via Spatially Semantic Topographic Maps
Rui Yan, Md Tauhidul Islam, Lei Xing
Nature Biomedical Engineering, 2024
SSL-FL Publication
Label-Efficient Self-Supervised Federated Learning for Tackling Data Heterogeneity in Medical Imaging
Rui Yan, Liangqiong Qu, Qingyue Wei, Mars Huang, Liyue Shen, Daniel Rubin, Lei Xing, Yuyin Zhou
IEEE Transactions on Medical Imaging, 2023
Inverse Learning Publication
Correlative Image Learning of Chemo-mechanics in Phase-transforming Solids
Haitao Deng, et al. (including Rui Yan)
Nature Materials, 2022

Experience

Industry

Research Scientist
Meta
Menlo Park, CA
2025 - Present

Internships

Software Engineer (Machine Learning) Intern
Meta
Menlo Park, CA
Summer 2024
Research Intern
Microsoft Research
Redmond, WA
Summer 2022
Machine Learning Engineer Intern
Uber AI
San Francisco, CA
Summer 2021
Research Data Scientist Intern
Facebook
Menlo Park, CA
Summer 2020

Teaching Experience

Teaching Assistant
ICME Data Science Summer Workshop
Stanford University
Summer 2023
Teaching Assistant
CS224N: Natural Language Processing with Deep Learning
Stanford University
Winter 2021