Our Team

Fan Zhang, PhD

Fan Zhang, PhD‍ ‍Google Scholar | ORCID | Linkedin | Twitter | Bluesky
Assistant Professor and Principal Investigator (PI)
Department of Medicine Rheumatology and Department of Biomedical Informatics (DBMI) Center for Health AI

⭐️ Fan has received multiple NIH and foundation grants as PI, including an NIH NIAMS R01, the NIH AMP-AIM Team Science Leadership Scholars Program, support from the NIH Office of Women’s Health and the NIH Office of Data Science Strategy, and an NIAID P01 as a Project Lead, along with funding from the Arthritis Foundation, the Arthritis National Research Foundation, and PhRMA.

⭐️ Fan did her Postdoc research with Prof. Soumya Raychaudhuri on using computational single-cell multi-omics to study autoimmune diseases at Harvard Medical School, Brigham and Women’s Hospital, and Broad Institute of Harvard/MIT (2017 - 2021). In the NIH-funded Accelerating Medicines Partnership Rheumatoid Arthritis and Systemic Lupus Erythematosus (AMP RA/SLE) network, Fan leads on developing computational strategies to integrate single-cell multimodal across diseases to define phenotypes of tissue inflammation.

⭐️ Before that, Fan completed her Ph.D. (2013-2017) from Worcester Polytechnic Institute, Massachusetts. She developed novel statistical machine learning models in the fields of variational Bayesian inference and mixed-membership matrix factorization with Prof. Patrick Flaherty, Associate Professor at the UMass Amherst Dept. of Mathematics and Statistics, to characterize patient heterogeneity using large-scale genomic data.

Team Members

  • Lauren Vanderlinden, PhD

    Postdoc Fellow
    Github | Linkedin | ORCID
    Lauren earned her PhD in Epidemiology and a Master in Biostatistics from CU. She is interested in connecting genetics with single-cell phenotypes.

  • Shunsuke Uchiyama, MD/PhD

    Postdoc Fellow
    ORCID

    As a computational biologist and rheumatologist, Shunsuke’s work focuses on modeling proteomics and integration with genomics for disease progression.

  • Jade Young

    PhD Student

    CPBS PhD Program
    ORCID | LinkedIn

    Jade is interested in leveraging large omics to develop AI and foundation models for identifying targets in precision medicine.

  • Nanxi Guo

    PhD Student
    Biostatistics and Informatics
    ORCID | LinkedIn
    Nanxi focuses on developing statistical models for single-cell spatial transcriptomics to uncover disease-associated spatial niches.

  • Samantha Reynoso

    PhD Student
    CPBS PhD Program
    ORCID | LinkedIn

    Sam is interested in developing new machine learning tools for spatial transcriptomics using spatial information.

  • Breanna Remigio

    PhD student
    CPBS PhD program
    LinkedIn

    Breanna’s research focuses on developing tensor decomposition methods for single-cell spatial omics.

  • Christian Anderson

    PhD Student
    CPBS PhD program
    LinkedIn

    Christian is interested in developing computational approaches for trajectory inference for omics data.

  • Revanth Krishna, MS

    Software Engineer

    LinkedIn | Github | ORCID

    Master in Data Science. Co-supervised with Chuangqi Wang’s lab. Revanth builds user-friendly software tools for single-cell omics.

  • Juan Vargas, MPH

    Bioinformatician

    Github

    Juan focuses on developing computational pipelines and software to analyze and interpret complex datasets.

Alumni

  • Jun Inamo, MD/PhD

    Postdoc Fellow
    Twitter | ORCID | Google Scholar
    Jun’s research focuses on integrating single-cell data to identify predictive markers for autoimmune disease progression.

  • Courtney Schiebout, PhD

    Bioinformatician

    Courtney graduated from Dartmouth College in the Quantitative Biomedical Sciences.

  • Helen Wolde, BS

    Computational Bioscience (CPBS) Summer student (2022)

    Biostatistics MS program (2023-2025)

  • Yonatan Wolde, BS

    Computational Bioscience (CPBS) Summer student (2022)

    Biostatistics MS program (2023-2025)

  • Kewalin Samart

    PhD Rotating Student 2023
    Computational Bioscience (CPBS) PhD Program
    CU School of Medicine

  • Hope Townsend

    PhD Rotating Student 2023

    Interdisciplinary Quantitative Biology Program CU Boulder

  • Douglas Fritz

    MSTP Rotating Student 2022

    Interested in ML for complex immunology system. He is now in NIH Oxford-Cambridge Scholars Program.

  • Hannah Wang

    Research Intern (2022)
    Hannah was a talented local Colorado high school student. Now she is an undergraduate student at MIT.

  • Jessica Lee

    PhD Rotating Student 2024
    Immunology PhD Program
    CU School of Medicine

  • Grace Akatsu

    MSTP Rotating Student 2023

    CU School of Medicine

  • Nicholas Cordaro

    MSTP Rotating Student 2023

    CU School of Medicine

Collaborators

  • Dr. A. Helena Jonsson: University of Colorado Anschutz Medical Campus

  • Dr. Kevin Deane: University of Colorado Anschutz Medical Campus

  • Dr. Michael Holers: University of Colorado Anschutz Medical Campus

  • Dr. Kristi Kuhn: University of Colorado Anschutz Medical Campus

  • Dr. Laura Donlin: Hospital for Special Surgery (HSS) and Weill Cornell Medicine

  • Dr. Deepak Rao: Brigham and Women’s Hospital and Harvard Medical School

  • Dr. Michael Brenner: Brigham and Women’s Hospital and Harvard Medical School

  • Dr. Edy Kim: Brigham and Women’s Hospital and Harvard Medical School