Ragon Institute

Sun Lab

Aging, Machine learning, Multi-scale interactions

Lab Overview

Aging is the greatest risk factor for a broad range of chronic diseases. We have a long-standing interest in understanding the complex biology of aging from the level of the fundamental biological unit (the cell) to the level of the whole system (the organism). Such an understanding can be leveraged to discover and engineer interventions for broadly improving human health and staving off disease. To that end, we develop computational and machine learning tools to (1) measure biological aging from cell to organism, (2) predict and simulate the effects of interventions, including genetic and immune perturbations, on cells and tissues, and (3) design new interventions against aging and optimize their parameters for improved efficacy. We integrate computational frameworks for model building with experimental approaches for biological data generation and model validation.

Lab Website

Eric Sun, PhD

Affiliation

  • Member, Ragon Institute of Mass General, MIT, and Harvard
  • Assistant Professor, MIT Department of Biological Engineering

About

Eric obtained an A.B. in Chemistry and Physics and S.M. in Applied Mathematics from Harvard University in 2020. He completed his Ph.D. in Biomedical Informatics at Stanford University in 2025, where his research involved building computational methods for the analysis of spatial and single-cell omics and machine learning tools to track cellular and neuroimmune aging in the brain. Eric joined the Ragon Institute and MIT Biological Engineering in 2026.

Related Research Foci

  • Computational Science
  • AI / ML
  • Environmental Drivers of Health

Related Areas of Study

  • Aging
  • Neuroimmune

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Selected Publications

Spatial transcriptomic clocks reveal cell proximity effects in brain ageing

Eric D. Sun, Olivia Y. Zhou, Max Hauptschein, Nimrod Rappoport, Lucy Xu, Paloma Navarro Negredo, Ling Liu, Thomas A. Rando, James Zou, Anne Brunet

Nature volume 638, pages 160–171 (2025)

TISSUE: uncertainty-calibrated prediction of single-cell spatial transcriptomics improves downstream analyses

Eric D. Sun, Rong Ma, Paloma Navarro Negredo, Anne Brunet, James Zou

Nature Methods volume 21, pages 444–454 (2024)

Dynamic visualization of high-dimensional data

Eric D. Sun, Rong Ma, James Zou

Nature Computational Science volume 3, pages 86–100 (2023)

Cell-type-specific aging clocks to quantify aging and rejuvenation in neurogenic regions of the brain

Matthew T. Buckley, Eric D. Sun, Benson M. George, Ling Liu, Nicholas Schaum, Lucy Xu, Jaime M. Reyes, Margaret A. Goodell, Irving L. Weissman, Tony Wyss-Coray, Thomas A. Rando, Anne Brunet

Nature Aging volume 3, pages 121–137 (2023)

Optimal control of aging in complex networks

Eric D. Sun, Thomas C. T. Michaels, L. Mahadevan

PNAS volume 117(34), pages 20404–20410

Lab Team

Andrew Ding

Graduate Student

Yinuo Cheng

Graduate Student

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