- UC Presidential Chair
- UCI Excellence in Teaching Chair
- Distinguished Professor of Mathematics and Systems Biology, University of California, Irvine.
- Director, UCI Center for Complex Biological Systems
- Director, The NSF-Simons Center for Multiscale Cell Fate Research
- Ranked #1 by Highly Ranked Scholar (ScholarGPS) in two areas for the Prior Five Years: a) Single-cell Transcriptomics and b) Transcriptomics Technologies, for 2025 and 2026.
- Curriculum Vitae
computational systems biology, cell fates, multiscale biology, and tools for analyzing single-cell RNA-seq data, scientific computing, and computational mathematics
We are interested in using novel computational tools and mathematical modeling to study complex biology systems. Our current research include methods for single-cell genomics, stem cell, development, multiscale biology, and spatial modeling. We closely collaborate with experimental laboratories on various animal models and diseases systems. We interrogate and integrate datasets from multiple different sources to dissect specific mechanisms and discover general principles.
Recent Publications
Qing Nie Google Scholar Website
Two popular methods for inference of cell-cell communication
- COMMOT: Cang Z, Y Zhao, A Almet, A Stabell, R Ramos, M Plikus, S Atwood, Q. Nie. Screening cell-cell communication in spatial transcriptomics via collective optimal transport. Nature Methods, 20, 218-228. 2023
- Cellhat: Jin S, C. Guerrero-Juarez, L. Zhang, I. Chang, R. Ramos, C. Kuan, P. Myung, K. Plikus, Q. Nie. Inference and analysis of cell-cell communication using CellChat. Nature Communications, 12(1088), 2021. Selected as Top 25 Life and Biological Sciences Article by the journal for 2021