David Rubert, PhD
@David__Rubert
SynBio and Tech | Dir. Activator @NucleateGermany | Prev. @mutschlerlab at @maxplanckpress & @TU_Dortmund | 🇮🇹 in 🇩🇪 | he/him
Cyanobacteria as dye factories? Engineered Synechocystis sp. PCC6803 uses light to convert indole into indigo dye with an 86% yield via flavin monooxygenase. A new sustainable production process and efficient dye recovery. Promising biotech leap! doi.org/10.1111/1751-7…
What if we had organisms with only one stop codon (not 3)? New innovations from Farren Isaacs @Yale nature.com/articles/s4158…
Quantifying metabolites using structure-switching aptamers coupled to DNA sequencing go.nature.com/42BbXTQ
Every synthetic biologist, every biochemist, when they dream, will sometimes hear a voice calling A whisper on the wind, as impossible as infinity, as sweet as the ambrosia of the very Gods "Engineer RuBisCo" And this paper takes us one step closer nature.com/articles/s4158…
nature.com
A map of the rubisco biochemical landscape
Nature - A massively parallel assay developed to map the essential photosynthetic enzyme rubisco showed that non-trivial biochemical changes and improvements in CO2 affinity are possible,...
Out now in @NAR_Open! A #ribozyme can self-integrate into and hydrolyze ss- & dsDNA, offering a new avenue for the development of protein-free genome editing tools, and hinting at the possibility of a pre-translation origin of group II introns (G2Is).🧵1/7 academic.oup.com/nar/advance-ar…
Preprint alert 🚨 Cautions in the use of @nanopore sequencing to map DNA modifications: officially reported “accuracy” ≠ reliable mapping in real applications. We performed a critical assessment of nanopore sequencing (across different versions of models) for the detection of…
Really excited to share work from our team at @Ginkgo, led by @AlyssaKMorrow, on ML guided 3’ UTR design. biorxiv.org/content/10.110… It's a great story of dataset generation, model training, generative design, in-vivo validation, and model release. More details in thread!
Last Chance to Apply for the Activator: Submit Today! 📅 Application Deadline: Nov 6th, 2024 🔗 Apply: apply.nucleate.org 🌐 Learn more: nucleate.org/activator
Are you an academic trainee eager to build a life science startup? Whether you're passionate about therapeutics, diagnostics, medtech, synthetic biology, climate, or consumer products, this is your opportunity to transform your research into a groundbreaking venture!
Tools such as Rosetta and AlphaFold have redefined the protein-engineering landscape. But some problems remain out of reach — for now go.nature.com/3YT7zgN
Operate a Cell-Free Biofoundry using Large Language Models by @jeanloupfaulon Lab doi.org/10.1101/2024.1…
How To Choose a Good Scientific Problem @CellCellPress sciencedirect.com/science/articl…
BREAKING NEWS The 2024 #NobelPrize in Physiology or Medicine has been awarded to Victor Ambros and Gary Ruvkun for the discovery of microRNA and its role in post-transcriptional gene regulation.
Chemists at Hokkaido University have experimentally confirmed the existence of a single-electron carbon-carbon bond for the first time: cen.acs.org/synthesis/Sing… .
Happy to share this new work describing a high-throughput assay that identifies engineered TdT mutants with altered biases for de novo DNA synthesis and molecular recording applications. Congrats to @CourtneyCarls_n, @TheresaLovele12, and the whole team! pubs.acs.org/doi/10.1021/ac….
The genetic architecture of protein stability by @aj4re @ainamartiaranda @cristonah @ToniBeltran13 @JoernSchmiedel nature.com/articles/s4158… @CRGenomica @sangerinstitute @ALLOXbio
Imagine bacteria mining cryptocurrencies. We moved a step closer by encoding a 2-bit MD5 cryptographic hash algorithm – a precursor of SH256 used for Bitcoin - across 66 E. coli strains. It required over 1 megabase of DNA, the size of a small genome. nature.com/articles/s4158…
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Reconstruction of ancestral protein sequences using autoregressive generative models 🧬 An exciting leap in ancestral sequence reconstruction (ASR)! This paper presents a novel autoregressive generative model designed to infer protein sequences of extinct ancestors more…
Chemical and topological design of multicapped mRNA and capped circular RNA to augment translation go.nature.com/47EXbfq
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