New preprint from Shendure Lab on Locus-Scale aka Long-@$$ MPRAs led by the amazing Abby McGee & @carinabiar.bsky.social Most MPRAs test ~300 bp fragments next to a promoter. But real enhancers are bigger, act combinatorially and from a distance. 1/n www.biorxiv.org/content/10.6...

We have significantly improved the protocol for recording CRE activities and orders with ENGRAM. We also designed new plasmids for easier cloning. Great work with @jennynathans.bsky.social, @troymcdiarmid.bsky.social and @jshendure.bsky.social . Happy recording!!

Jenny Nathans@jennynathans.bsky.social · 6mo ago

Super happy to share our protocol for ENGRAM is out in Nature Protocols! This was fun to write with @chenomics.bsky.social @troymcdiarmid.bsky.social @jshendure.bsky.social. In it we describe how to record CRE identity, activity, and order in mammalian cells.

Our work developing a parts list of promoters and gRNA scaffolds for mammalian genome engineering and molecular recording is now out @natbiotech.nature.com

Nature Biotechnology@natbiotech.nature.com · 9mo ago

A parts list of promoters and gRNA scaffolds for mammalian genome engineering and molecular recording - @jshendure.bsky.social @troymcdiarmid.bsky.social @uwgenome.bsky.social go.nature.com/49eTPCu

Molecular recording is a exciting and rapidly evolving field. In this perspective, @choijunhong.bsky.social and I delve into the key challenges in the field and highlight a few exciting frontiers that worth more attention.

Trends in Genetics@cp-trendsgenetics.bsky.social · last yr.

Online now -- a new Review: "Molecular circuits for genomic recording of cellular events" by Wei Chen & Junhong Choi (@choijunhong.bsky.social) FREE to read till June 25th using this link: authors.elsevier.com/a/1l2gMcQbJF...

Interested in #Bayesian #phylogenetics? 🧬 Join the Taming the BEAST workshop — theory + hands-on tutorials incl. #singleCell, #devBio & #lineageTracing! 📍Beijing, July 14–18, 2025 📅 Apply by April 25 I'll teach on TiDeTree & cell trees 🔗 taming-the-beast.org/news/Deadlin...

The latest from our group, led by Megan Ostrowski and @martyyang.bsky.social, is now published in final form (www.cell.com/cell/fulltex...! Many thanks to our excellent peer reviewers for suggesting several experiments (including CAF-1 perturbation) to really improve the study =) #epigenetics

The single-molecule accessibility landscape of newly replicated mammalian chromatin

By developing a long-read sequencing method to simultaneously map replication status and protein-DNA contacts in cells, Ostrowski, Yang, et al. show that newly replicated chromatin is enriched for unw...

cell.com

Another Monday hype! super excited to see the review + DNA Typewriter/ENGRAM got covered in this nice story.

Carl Zimmer@carlzimmer.com · 2y ago

Imagine a mouse in which all 10 billion cells keep a diary from fertilization. Imagine sentinel cells recording your experiences and sending out dispatches in the form of DNA. Here's a story I wrote about cell recorders 🧪 Gift link: nyti.ms/3Z3Mqza

"The lives of cells, recorded"--our new review on genomic recording systems and how they can reveal the dynamics of multicellular development. A pleasure to work on this with amazing colleagues from the Allen Discovery Center for Cell Lineage Tracing. www.nature.com/articles/s41...

The lives of cells, recorded - Nature Reviews Genetics

Recent advances in genome engineering are enabling the recording of cellular histories into genomes, with single-cell and spatial omics technologies enabling their reconstruction into cellular lineage...

nature.com