We now know the locations of cell types in a full mammalian brain. Our work reveals the brainstem’s absolutely stunning cellular complexity. How and why does it arise? Visit braincelldata.org to plot genes, localize types, and get markers. nature.com/articles/s4158…

How does alternative splicing regulate protein structure to enable cell-type-specific protein functions? With Matthew O’Meara, we used AlphaFold2 + scRNA-seq to investigate this question in our latest preprint. biorxiv.org/content/10.110…🧵

Presenting DOJO WRAPPED! Since 2021, we've transformed from a humble Facebook group into a vibrant, worldwide community of undergrad innovators shaping the future of biotech. We have big plans for 2024 & beyond - here's a snapshot of our impact so far: (1/n)

Sunday Essay #3 This one is perhaps a bit out there, but I hope it will trigger the start of something useful; conversations or otherwise.

Very excited to finally show off my first neuro paper that I worked on at mark cembrowski's lab over the last two years!! Had a blast mapping a brain region called the ATN at a single-cell and spatial scale - check it out :) cell.com/cell-reports/f…

Join us at Nucleate Dojo's DojoHouse, a unique biotech co-living experience, running from June 1st to August 11th! We're seeking undergraduates eager to immerse themselves in the world of biotech. No prior biotech experience necessary. Apply at bit.ly/DojoHouse2024.

Our immune system is amazing, but faces pandemics, cancer and aging. It's also wired to reject what we need to extend our healthspans & minds: organs, implants, new genes. It's time to radically augment it. We need to build an immune-computer interface (ICI). A manifesto🧵!

I'm late to the party, but this recent post by @maggie_1i is really good. A broad framework for aging that is accessible in the first pass, but full of links and ideas worth returning to. librariesforthefuture.bio/p/lff

- Compile RNA sequences and growth temperatures - Train a generative GNN for 23s ribosomal RNA - Train a mini-GPT for 23s ribosomal RNA - Experimentally verify stabilizing mutations Hunter Nisonoff Seyone Chithrananda

How to pick a problem. Today in Cell. 1/53 cell.com/cell/fulltext/…

Its been a blast setting up and organizing the BioML seminar this year w/ Samarth Jajoo stacy 🌤! We've uploaded the recorded seminars with Sam Rodriques, Das Lab and Aakarsh Vermani's excellent primer on ML methods in protein engineering! Check 'em out: youtube.com/watch?v=opeKuk…

When Ayush Noori was young, his grandma was diagnosed w/ progressive supranuclear palsy. Unsatisfied w/ the lack of treatments, Ayush began his scientific career at the age of 12. Read & listen to Ayush's story and find out how he would #ReimagineTheWorld. wyss.harvard.edu/news/reimagini…

Towards the end of the presentation I went down a bit of a rabbit hole trying to demonstrate that AF3 may still be learning to invert the convariance matrix, which is needed to extract the coevolution signal from input multiple sequence alignment (MSA) (1/9).

It was super fun exploring the world of conformal prediction and uncertainty quantification for providing robust guarantees across protein annotation tasks! Really excited to see how far we can take these methods for metagenomic mining, structural search and beyond.

How do genetic perturbations change cells? How are these effects shaped by cell type and dosage? How do we best extract insight from modern massive perturbation atlases? Im pleased to share a new preprint where we develop a suite of statistical approaches to these Qs (link below)

Two students from the Waterloo Science and Waterloo Mathematics are exploring new ways to bring cultivated seafood to the table. Kevin Shen and Rikard Saqe apply computational modelling to understand how fish cells grow and transform. 🔗More: uwaterloo.ca/news/leveragin…

Our latest, from the brilliant Will Chen and Junhong Choi, out in nature , is ENGRAM, a multiplex method for symbolic recording of signaling and cis regulatory activity to DNA. Final version (not in preprint) includes integration w/ DNA Typewriter. rdcu.be/dN62L

Hosting a biotech mixer in Boston with Pillar VC! Looking forward to bringing the community together — Thurs, Aug 8 @ 6:00PM lu.ma/xqqn0kw3

cool boston co-working experiment!! Satvik Dasariraju & I hosted a co-work night last week w/ Harvard/MIT founders & PhDs We hope to do this on a weekly basis. Apply to join! Might even have an impromptu crew co-work this weekend :) forms.gle/czwXu8sPyKdGqg…

My favourite discovery ever has just come online. Can I please tell you about some seriously wacky molecular biology? The story starts with a reverse transcriptase that SOMEHOW defends bacteria from viruses. (👇 I recommend sound ON for the video 🎹) 1/