A foundation model for enzyme retrieval and function prediction is released. EnzymeCAGE is trained on ~1M enzyme-reaction pairs via CLIP, and can be used to annotate unseen enzymes or orphan reactions. We open-source it before releasing the manuscript: github.com/GENTEL-lab/Enz…

Have you ever wondered how your back formed? The human embryo makes a neural tube (future spinal cord) and somites (trunk muscle/bone) from ~d20. They’re formed at the same time and place, so we used human Trunk-like Structures (hTLS) to investigate their ‘co-development’… (1/7)

Congratulations!

WHY DOES THE EPIGENETIC CLOCK TICK? While money has been poured into developing therapies to reverse the epigenetic clock (Altos Labs 🤑), why the epigenome changes with age at all is unclear. In Nature Aging today, we suggest a potential driver: somatic mutations.

.Lan Jiang and colleagues developed droplet-based UDA-seq by incorporating a post-indexing step into two-round combinatorial indexing, enhancing throughput for large-scale single-cell analysis. nature.com/articles/s4159…

New #preprint from our lab at IMBA imbavienna.bsky.social ! How do DNA breaks locate homology sites in the vast space of the human genome? We show how #cohesin guides homology search for faithful repair! Read more 👉 tinyurl.com/DSBcohesin Follow along for key insights! 🧵1/12

Did you know cancer cells can be electrically active, just like neurons? This electrical activity plays a key role in tumor progression. Excited to share my first postdoc paper at The Crick (and first paper from Leanne Li Lab), published in nature! nature.com/articles/s4158…

Sequencing by Expansion (SBX) -- a novel, high-throughput single-molecule sequencing technology biorxiv.org/content/10.110… #biorxiv_genomic

We are excited to report the discovery of TIGRs, a widely-occurring RNA-guided system found in bacteria and their viruses. TIGRs consist of a peculiar repeat region which is transcribed into RNA and processed into multiple guide RNAs to direct TIGR-associated proteins to their

Introducing RAEFISH, our lab's new flagship image-based spatial transcriptomics technology that simultaneously enables single-molecule spatial resolution and whole-genome level coverage of long and short, endogenous and engineered RNA species in cell cultures and intact tissues.

🔥🔥🔥OUR NEW PREPRINT: Slowing and reversing aging? Nature does it, here we show how! Age deceleration and reversal gene patterns in dauer diapause. Huge congrats to Kristy Totska, João Barata, Walter Sandt and David Meyer biorxiv.org/content/10.110…

In @nature we describe the use of scalable #proteinengineering & #machinelearning to predict millions of bespoke CRISPR-Cas9 enzymes, offering safer & more genome editing tools. 🧬🖥️ Rachel Silverstein CGM at MGH @MGH_RI MassGeneral News Harvard Medical School nature.com/articles/s4158…

Ironman. Maternal iron deficiency causes male-to-female sex reversal in mouse embryos nature.com/articles/s4158… nature

Our scMicro-C paper is out in Nature Genetics! Huge thanks to the reviewers for their valuable insights, to SunneyXie for unwavering support, and to fantastic collaborators Jiankun Zhang & Longzhi Tan. Thrilled to share this work!

Spatial methylome + transcriptome.

Whole-genome single-cell multimodal history tracing to reveal cell identity transition biorxiv.org/content/10.110… #biorxiv_genomic

🤔 “Here we present evidence that eukaryotic circular RNAs (circRNAs) can serve as templates for 3' to 5' backward translation (BT), yielding polypeptides with distinct sequence and structural features not found in canonical proteomes.” biorxiv.org/content/10.648…