Jin Chen Lab · Altos Labs

Functional genomics of rejuvenation

We build large-scale functional genomics technologies to find the causal regulators of cell state — the programs that drive aging and disease, and the programs that can reverse them.

Altos Labs, Bay Area Institute of Science Redwood City, California
Previously at University of Texas Southwestern Medical Center Dallas, Texas
Our mission Restoring cell health and resilience to reverse disease, injury, and the disabilities that occur throughout life.
What we do

Cells move between states — the transitions that define development, and that go wrong in aging and disease. We ask what causally controls those trajectories, from the “dark proteome” of uncharacterized microproteins to genome-wide regulatory networks, and we build the high-throughput tools needed to read and rewrite them.

The Waddington epigenetic landscape A dome-shaped surface drawn with stacked fine contour lines; a pluripotent cell sits at the peak; two intermediate progenitor cells sit in mid valleys; three differentiated cells sit in the deepest valleys. Green arrows trace differentiation paths downward and a single transdifferentiation arrow moves between two lower cells. Vertical arrows on the left (Development, pointing down) and right (Reprogramming, pointing up) frame the figure. PluripotentIntermediate (progenitor)Differentiated DEVELOPMENT REPROGRAMMING
The Waddington epigenetic landscape. A pluripotent cell descends through intermediate (progenitor) states into differentiated cell types; reprogramming and transdifferentiation move cells the other way. Our tools map the regulatory forces that shape these transitions.
Research areas

What controls cell state?

healthy aged aging rejuvenation
01

Rejuvenation and disease reversal

Aging and many diseases share a common signature: cells occupy states they could once return from but no longer do. We ask what minimum perturbation restores a cell to a younger, more functional state.

rejuvenationdisease reversalreprogramming
A B C
02

Cell states in development and disease

Cell state — not just cell type — is the level at which biology operates. We build a quantitative grammar of states: how they are defined, how they transition, and which transitions are reversible.

single-celltrajectoriesregulatory networks
5′ 3′ ORF canonical CDS microprotein
03

The dark proteome — microproteins as state regulators

Thousands of small proteins are translated from regions once thought non-coding. We ask systematically which microproteins control cell-state transitions during aging, rejuvenation, and disease reversal.

non-canonical ORFsribosome profilingmass spec
cells genes perturbed
04

High-throughput technology development

Answering the above at scale requires new tools. We develop CRISPR, sequencing, and imaging methods that let us interrogate microproteins, translation, and state transitions in millions of cells in parallel.

CRISPR screensPerturb-seqvirtual cell
Selected publications
All publications →
  1. 2026
    Functional landscape of non-canonical open reading frames in coordinating cell fate.
    Zhu K, Li WC, Liu J, … Chen J Molecular Cell
  2. 2025
    Large-scale CRISPR screening in primary human 3D gastric organoids enables comprehensive dissection of gene-drug interactions.
    Lo YH, … Chen J*, Kuo CJ* Nature Communications * co-corresponding
  3. 2022
    The dark proteome: translation from noncanonical open reading frames.
    Wright BW, Yi Z, Weissman JS, Chen J Trends in Cell Biology
  4. 2021
    Genome-wide programmable transcriptional memory by CRISPR-based epigenome editing.
    Nuñez JK, Chen J, … Weissman JS Cell
  5. 2020
    Pervasive functional translation of noncanonical open reading frames.
    Chen J, Brunner A-D, … Weissman JS Science
Latest news
All news →
March 19, 2026

Our paper on the functional landscape of non-canonical ORFs in coordinating cell fate is out in Molecular Cell.

Mar 5, 2026

Jin gave an invited talk at Perturb2026 (Vienna) — the first public airing of the lab’s virtual-cell effort.

August 14, 2025

Yuan-Hung Lo’s paper on large-scale CRISPR screening in primary human 3D gastric organoids is out in Nature Communications.

Honors & support
2022 NIH Director’s New Innovator Award 2022 Searle Scholar Award 2020 UT Southwestern Endowed Scholar 2020 CPRIT First Time Faculty Award 2019 NIH K99/R00 Pathway to Independence 2016 Jane Coffin Childs Postdoctoral Fellowship 2012 Stanford Bio-X Interdisciplinary Fellowship 2010 Henry Prentiss Becton Prize (Yale)