Editing biology to understand life

We work at the intersection of synthetic biology and genomics to invent new biotechnologies for improving human health

Hsu Lab

Research Focus

1

Molecular Technologies

To invent new biotechnologies, we develop computational platforms to survey the natural metagenomic diversity and mine for novel enzyme mechanisms. Upon discovering evolutionary innovations from the phage-host arms race, we leverage microbial genomics, functional biochemistry, and ML-guided effector engineering to create new bioengineering tools. Recent work from the lab uncovered highly efficient systems for programmable transcriptome engineering (Cas13) and targeted genomic integration of large payloads (DNA integrases).

screens

Human Synthetic Biology

We aim to push the boundaries of synthetic biology in human cells via genome, epigenome, transcriptome, and protein engineering. First, we think backwards from major unmet therapeutic needs and then develop platform solutions that enable new kinds of genetic manipulations. Current areas of interest include cell type-specific control of biological perturbations, turning the dial on epigenetic memory, and manipulation of RNA splicing.

genome

High-Throughput Functional Genomics

High-throughput genetic perturbations enable us to screen thousands of genes for their contributions to phenotypes of interest: from viral infection to neurodegenerative disease processes to transcriptional regulation. We are excited about the potential of systematic mapping of genetic, cellular, and systems interactions to drive mechanistic hypotheses, new therapeutic targets, and machine learning models.

Publications

Genome-wide bidirectional CRISPR screens identify mucins as host factors modulating SARS-CoV-2 infection

Scott B. Biering, Sylvia A. Sarnik, Eleanor Wang, James R. Zengel, Sarah R. Leist, Alexandra Schäfer, Varun Sathyan, Padraig Hawkins, Kenichi Okuda, Cyrus Tau, Aditya R. Jangid, Connor V. Duffy, Jin Wei, Rodney C. Gilmore, Mia Madel Alfajaro, Madison S. Strine, Xammy Nguyenla, Erik Van Dis, Carmelle Catamura, Livia H. Yamashiro, Julia A. Belk, Adam Begeman, Jessica C. Stark, D. Judy Shon, Douglas M. Fox, Shahrzad Ezzatpour, Emily Huang, Nico Olegario, Arjun Rustagi, Allison S. Volmer, Alessandra Livraghi-Butrico, Eddie Wehri, Richard R. Behringer, Dong-Joo Cheon, Julia Schaletzky, Hector C. Aguilar, Andreas S. Puschnik, Brian Button, Benjamin A. Pinsky, Catherine A. Blish, Ralph S. Baric, Wanda K. O’Neal, Carolyn R. Bertozzi, Craig B. Wilen, Richard C. Boucher, Jan E. Carette, Sarah A. Stanley, Eva Harris, Silvana Konermann & Patrick D. Hsu

Nature GeneticsJuly 2022

All Publications

Team

Patrick Hsu
COFOUNDER AND CORE INVESTIGATOR

Patrick Hsu

Patrick Hsu is Co-Founder of the Arc Institute and Assistant Professor of Bioengineering and Deb Faculty Fellow at the University of California, Berkeley. The Hsu lab develops biotechnologies to improve human health through next-generation diagnostics and therapeutics, recently reporting platforms for gene writing with DNA integrases, programmable RNA targeting, and point-of-care CRISPR diagnostics. Patrick received A.M. and Ph.D. degrees from Harvard University and the Broad Institute, where he was an early pioneer of CRISPR-Cas9 technologies for genome editing. His research has been recognized by MIT Technology Review's Innovators Under 35, the Amgen Young Investigator Award, Forbes' 30 Under 30, the NIH Early Independence Award, and the Rainwater Prize for Innovative Early Career Scientist.

Current Members

Kiki Chu
Lab Manager

Kiki Chu

Massachusetts General Hospital/Harvard Medical School (Postdoc) & University of Wisconsin-Madison (PhD in Biochemistry)

Alessandra Sclip
Senior Scientist

Alessandra Sclip

Stanford University (Postdoc) and Open University of London, UK (PhD in Life Science)

Jay Salvi
Senior Scientist

Jay Salvi

Stanford University (Postdoc) & University of Toronto (PhD in Pathobiology)

Matthew Durrant
Senior Scientist

Matthew Durrant

UC Berkeley (Postdoc) & Stanford University (PhD in Genetics)

John McSpedon
Machine Learning Engineer

John McSpedon

B.S. Computer Science, Princeton University

Chad Moon
Postdoctoral Researcher

Chad Moon

Seoul National University (PhD in Biophysics)

Vincent Tran
Graduate Student

Vincent Tran

UC Berkeley Chemistry PhD Program

Sita Chandrasekaran
Graduate Student

Sita Chandrasekaran

Soros Fellow, UC Berkeley-UCSF Joint PhD Program in Bioengineering

Alison Fanton
Graduate Student

Alison Fanton

NSF Fellow, UC Berkeley-UCSF Joint PhD Program in Bioengineering

Nicholas Perry
Graduate Student

Nicholas Perry

UC Berkeley-UCSF Joint PhD Program in Bioengineering

Michael Herschl
Graduate Student

Michael Herschl

UC Berkeley-UCSF Joint PhD Program in Bioengineering

Juliana Martins
Graduate Student

Juliana Martins

UC Berkeley Molecular and Cell Biology PhD Program

Aditya Jangid
Research Associate

Aditya Jangid

M.S. Computer Science, University of Pennsylvania

Liam Bartie
Research Associate

Liam Bartie

B.S.E Chemical and Biomolecular Engineering, University of Pennsylvania

James Pai
Research Associate

James Pai

B.S. Biochemistry, M.S. Cell & Molecular Biology, UCSD

Matthew Nemeth
Research Associate

Matthew Nemeth

B.S. Bioengineering, B.S. EECS, UC Berkeley

Cyrus Tau
Undergraduate

Cyrus Tau

UC Berkeley Bioengineering

Alumni

Eleanor WangPhD Student at UC Berkeley
Sylvia SarnikPhD Student at UC Boulder
Peter LotfyPhD Student at Harvard
Kian FaiziPhD Student at Caltech
Jennifer OkiData Scientist at Metagenomi
Nick Brideau, Ph.D.Senior Scientist at Debut Biotech
Tom Alsaigh, M.D.Resident Physician at Scripps Health
Nick HernandezMedical Student at Tufts University
Aman SharmaResearch Assistant, Salk Institute

Out and about

See More

Contact Us

Please visit Arc Institute’s Open Jobs for current posted positions or reach out to Patrick if you’re interested in joining us!

Address

Arc Institute
3160 Porter Dr
Palo Alto, CA 94304
info@arcinstitute.org
Arc Institute Location