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Ziyuan He headshot

Ziyuan He, Ph.D

Bioinformatics Scientist II


Ziyuan is a bioinformatic scientist in the Informatics & Computational Biology group at the Allen Institute for Immunology. His work at the institute focuses on generate mechanistic insights to the immune system by analyzing single cell multi-omics immunological data in various immunological healthy and disease conditions.

Ziyuan got his PhD in Biomedical Sciences (Immunology and Microbiology track) from at Tulane University. His dissertation work in Dr. Marcelo Kuroda’s lab at Tulane National Primate Center and California National Primate Center focused on myeloid cells immunology in rhesus macaque and aging. He developed the mathematical models and estimated the in vivo half-lives of neutrophils, basophils, and classical monocytes in rhesus macaques and investigated the effects of aging on neutrophil development and kinetic in elderly rhesus macaques. He received his postdoctoral training in Dr. Kari Nadeau’s lab at Stanford University where he worked on microbiome changes and cross-reactive allergens in oral immunotherapy clinical trials for food allergy. Upon COVID-19 pandemic, he worked on the electronic heath record data analysis to understand the risk factors towards COVID-19 and also involved in multiple clinical trial efforts at Stanford to combat COVID-19.

Research Focus:

Ziyuan’s long-term research interests lay at the intersection of immunology and data science and apply the computational analytical approaches to comprehensive understand the human immune system in healthy and diseases.