Raphael Eguchi
@ryuichirapha
Stanford University, Possu Huang Group Alumnus.
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I'm happy to present Sculptor, a new epitope-specific generative protein design algorithm from @PossuHuangLab! Many thanks to our collaborators at the Bowman group @drGregBowman and IAVI for all their hard work! biorxiv.org/content/10.110…
Shunpo: Minimalist bash tool to make directory navigation a little bit faster #HackerNews github.com/egurapha/Shunpo
Changing protein-DNA interactions promote ORC binding site exchange during replication origin licensing. biorxiv.org/cgi/content/sh… #biorxiv_molbio
A very cool study from MIT Bell lab that studies the role of DNA bending in helicase loading! Congrats to Annie! biorxiv.org/content/10.110…
How generative AI is building better antibodies nature.com/articles/d4158…
I just learned that the first formula for calculating the n-th decimal digit of pi (without calculating all the preceding digits) has been found by Simon Plouffe in 2022 😲
Deep Generative Design of Epitope-Specific Binding Proteins by Latent Conformation Optimization biorxiv.org/cgi/content/sh… #bioRxiv
Berkeley's wildly popular Third Culture Bakery's success has been driven by its cult favorite mochi muffins. It trademarked the term in 2018. The bakery has been quietly sending cease-and-desist to stop businesses from using the term. trib.al/JjVkM76
If you're looking to donate to Ukraine, this is a link shared by the official government twitter: savelife.in.ua/en/donate/ 1. Click the fondy link on the page. 2. Change the language to english with the upper right menu. 3. Check the exchange rate and donate.
2. Donate money to support the Ukrainian Army. You can transfer money to the following accounts: 🇺🇦 bank.gov.ua/en/news/all/na… 🇺🇦 savelife.in.ua/en/donate/ 3. Organize street protests in your city to support Ukraine and condemn Russian aggression
New preprint! We came up with 2 methods to design de novo scaffold proteins to hold arbitrary functional motifs: hallucination (optimizing a seq against predictions of RoseTTAFold (RF)) and inpainting (recover masked regions of seq+struc.) 1/n biorxiv.org/content/10.110…
I've never seen an antibody structure in the PDB where the authors were allowed to hide the sequence of all of the CDRs. PDB 6JMR, 6JMQ. All CDRs are "UNK" in sequence. I don't think this should be allowed. @buildmodels @PDBeurope @PDBj_en
Just @sokrypton doing great stuff as usual: github.com/sokrypton/Cola…
ForceNet: A Graph Neural Network for Large-Scale Quantum Calculations deepai.org/publication/fo… by @weihua916 et al. including @mshuaibii, @sidgoyal78 #MachineLearning #Estimator
deepai.org
ForceNet: A Graph Neural Network for Large-Scale Quantum Calculations
03/02/21 - With massive amounts of atomic simulation data available, there is a huge opportunity to develop fast and accurate machine learnin...
Faculty fellow Soichi Wakatsuki & co-workers have uncovered the mechanism behind glucose-6-phosphate dehydrogenase deficiency which is connected with blood disorders: stanford.io/3qWIg9R
In 2016, AlphaGo was introduced. Two years later, its successor - AlphaZero - showed significant progress in Go, chess and shogi. Today in @Nature, our team describes MuZero, a significant step forward in the pursuit of general-purpose algorithms: go.nature.com/38qb2I8
Our article "Midtown splines: an optimal charge assignment for electrostatics calculations" was published online today in the Journal of Chemical Physics. doi.org/10.1063/5.0021…
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