Delighted to share a landmark preprint from our lab, using genome language models and AI agents for biological discovery and genome mining!
The stretches of DNA between protein-coding genes are often called the genome’s “dark matter,” but they are far from empty. They encode RNA molecules that sense metabolites, regulate genes, and control some of molecular biology's most important tools (such as programmable genome editors e.g. CRISPR/bridge)
Much of this biology is unexplored. One reason is that RNAs can retain similar structures and functions even as their DNA sequences change dramatically, making their relationships difficult to recognize with conventional computational tools
Teaching synthetic biology?
This Article about the @ElowitzLab repressilator features an interactive chart, and allows you to play around with the circuit's parameters.
https://t.co/ALOICcoOjM
Meet 𝐋𝐢𝐥𝐚 - an Automated Scientist built by the Amyris crew to do E.coli and Yeast metabolic engineering by DBTL cycles. Lila has made 100s of biosynthesis strains. Perhaps she is going to make your PhD students feel a bit sad
https://t.co/QHKw55jILh
If you love #biochemistry like me and enjoy learning biochemical pathways... Well, this is for you!
#Science#biology
Thanks to @Roche
⏯️Metabolic Pathways
https://t.co/opi1aCy75y
⏯️Cellular and Molecular Processes
https://t.co/cB3wlpnGaH
DALL-E’s amazing images are popping up all over the web. That software uses something called a diffusion model, which is trained to remove noise from static until a clear picture is formed.
Turns out diffusion models can design proteins too!
1/n PAPER ALERT: In collaboration with @davidrliu, we combined eVOLVER + PACE (= ePACE) to facilitate the evolution of compact Nme2Cas9 variants that can target single-nucleotide (previously-inaccessible) PAM sequences for precision genome editing.
https://t.co/mcbWaB199Q
Work by @simonsnitz, @alperlab, Andy Ellington & colleagues evolves a general transcription factor into specific biosensors for various alkaloids, enabling streamlined production of tetrahydropapaverine. Free to read link at https://t.co/gwnzQl9An3