Skip To Main Content
Zachary Barsdale on Muck Rack

Zachary Barsdale

As seen in: Nature
Is this you? As a journalist, you can create a free Muck Rack account to customize your profile, list your contact preferences, and upload a portfolio of your best work. Claim your profile

Get in touch with Zachary

Contact Zachary, search articles and posts on X, monitor coverage, and track replies from one place.

Learn more about Muck Rack

Actions

Share this page

Is this you?

As a journalist, you can create a free Muck Rack account to customize your profile, list your contact preferences, and upload a portfolio of your best work.
Claim your profile

Articles

Mechanistic machine learning for prediction of prime editing outcomes

|
By Alvin Hsu, Peter Chen, Angus H. Li, Colin Hemez, Xin Gao, Markus Terrey, Charlie Nelson, Vijay Selvam, Ana Cristian, Amber N. McElroy, Benjamin J. Steinbeck, Gandhar Mahadeshwar, Smriti Pandey, Zachary Barsdale, Paul Chen, Alexander A. Sousa, Holt A. Sakai, Rachel Silverstein, Ryan Krueger, Max Shen, Benjamin P. Kleinstiver, Cathleen M Lutz, Jakub Tolar, Bruce R Blazar, Mark Osborn, David R. Liu, Ilias Morad
| Nature Verified
Abstract Prime editing (PE) can make specific local changes to genomic DNA in living systems but its efficient application currently requires extensive optimization of PE guide RNA (pegRNA) sequences. Here we present OptiPrime, a machine learning model of PE efficiency based on current understanding of PE mechanisms. OptiPrime achieves state-of-the-art accuracy on PE efficiency prediction and enables prediction of nicking guide RNA (PE3) and dual pegRNA (twinPE) outcomes.
Open in Who Shared Issue with article?

AI-guided redesign of laboratory-evolved reverse transcriptases enhances prime editing

|
By Y. Tao, Holt A. Sakai, Allen Jiang, Nicholas A. Krasnow, Smriti Pandey, Nouraiz Ahmed, Ting-Wei Liao, Ana Cristian, Emily Zhang, Joy Xu, Mattijs Bulcaen, David R. Liu, Vasilii S. Vaganov, Brian Shim, Zachary Barsdale, Keyede Oye
| Nature Verified
Abstract Although protein engineering and laboratory evolution have been used to optimize prime editors, we show that previous changes that improve prime editor efficiency also compromise protein stability and expression level, limiting performance.
Open in Who Shared Issue with article?
See all 2 articles