Even though I probably spent more time in the lab playing chess than doing research, for some reason they gave me a PhD 🥳🥳
Yang Hsia@yhsia_ipd
Today we celebrate @PascalSturmfels on a successful thesis defense! Photo by @Hannahlhan
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Pascal Sturmfels
127 posts
Pascal Sturmfels
@PascalSturmfels
PhD student at @uwcse + @UWproteindesign working on machine learning for protein design, protein language models, etc.
Seattle, WA Katılım Aralık 2019
287 Takip Edilen406 Takipçiler
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I am pleased to share that I have accepted a position @Stanford to start as an assistant professor in the department of statistics, with an affiliation in @StanfordData, this fall!
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Pascal Sturmfels retweetledi
That's my designed protein on the cover of Science! Achievement unlocked!
Science Magazine@ScienceMagazine
Researchers in Science present a next-generation protein structure prediction and design tool, #RoseTTAFold All-Atom, that can accept a wide range of ligands and covalent amino acid modifications. Learn more in this week's issue: scim.ag/6Ea
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Pascal Sturmfels retweetledi
Researchers in Science present a next-generation protein structure prediction and design tool, #RoseTTAFold All-Atom, that can accept a wide range of ligands and covalent amino acid modifications.
Learn more in this week's issue: scim.ag/6Ea
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Pascal Sturmfels retweetledi
Specifying the input for cofolding models just got easier with my new gradio component "gradio_cofoldinginput".
Try it here to generate inputs for RoseTTAfold2 All Atom predictions including covalent modifications: huggingface.co/spaces/simondu…
Rohith Krishna@r_krishna3
Our work on modeling and designing biomolecular assemblies is now in @ScienceMagazine. science.org/doi/10.1126/sc… RFAA Code: github.com/baker-laborato… RFdiffusionAA Code: github.com/baker-laborato…
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Pascal Sturmfels retweetledi
Super excited to share our paper “Design of amyloidogenic peptide traps” is out now! 🧠
nature.com/articles/s4158…
Special thanks to @eaandrzejewska , Danny Sahtoe and David Baker
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Pascal Sturmfels retweetledi
We’re excited to share our preprint where we show, for the first time, the atomically accurate design of VHH antibodies!
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Pascal Sturmfels retweetledi
🧵(1/7) Excited to share that our work, EquiformerV2, has been accepted to #ICLR2024. EquiformerV2 is the state-of-the-art on large-scale atomistic benchmarks -- OC20, OC22, AdsorbML, and ODAC23.
Joint work with @bwood_m, @abhshkdz from @OpenCatalyst and @tesssmidt
Paper: arxiv.org/abs/2306.12059
Code: github.com/atomicarchitec…
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Pascal Sturmfels retweetledi
AlphaFold2 and RoseTTAFold are limited to predicting the 3D structure of proteins. A new all-atom method models complete biomolecular assemblies, including proteins, nucleic acids, small molecules, metals, and covalent modifications. #NBThighlight science.org/doi/10.1126/sc…
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Pascal Sturmfels retweetledi
Our work on modeling and designing biomolecular assemblies is now in @ScienceMagazine.
science.org/doi/10.1126/sc…
RFAA Code: github.com/baker-laborato…
RFdiffusionAA Code: github.com/baker-laborato…
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Pascal Sturmfels retweetledi
Excited to finally be able to share our ICLR work critically analyzing the capacity of deep learning docking methods to generalize and how to improve this (spoiler scaling, augmentation and RL)! With this, we release a new significantly improved version of DiffDock!
A thread! 🧵
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Pascal Sturmfels retweetledi
Our paper using ProteinMPNN redesign for improved properties is up on JACS! Huge thanks to Reyes, @ikalvet, Sam, and many others for their work. Shout out to @JustasDauparas for developing such a groundbreaking (and versatile!) tool. @UWproteindesign
pubs.acs.org/doi/full/10.10…
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Pascal Sturmfels retweetledi
looking for interns for two projects next summer, come work with me, @nc_frey and the rest of the @PrescientDesign team applying bleeding edge machine learning to fascinating biological data!
Nathan C. Frey@nc_frey
Come work with me, @samuel_stanton_ , and the fantastic @PrescientDesign @genentech team as a grad student intern this summer in NYC! careers.gene.com/us/en/job/2023… careers.gene.com/us/en/job/2023… 🧵1/
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Pascal Sturmfels retweetledi
Monday 11am Reading group: RosettaFold all-atom!
biorxiv.org/content/10.110…
Let us discuss with @r_krishna3 what protein design niceties we can achieve with this. And also the AlphaFold all-atom "glimpse" :)
Join on Zoom at 11am ET / 4pm UTC / 5pm CET:
portal.valencelabs.com/logg
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Pascal Sturmfels retweetledi
Soo, this is a big one :)
On Nov 20 we will have RosettaFold all-atom in the reading group with @r_krishna3!
Quite amazing protein design capabilities. But that is my naive evaluation - join us and let's discuss and hear your insights! Sign up here: portal.valencelabs.com/logg
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Pascal Sturmfels retweetledi
Thrilled to announce the opening of the Srivatsan Lab (srivatsan-lab.com) at the @fredhutch. The lab will be building new sequencing technologies to understand how our cells and bodies form over the course of development.
Hutch Basic Sciences@HutchBasicSci
The newest @FredHutch Basic Sciences lab opens its doors! The @SRsrivatsan Lab is developing new sequencing technologies to interrogate structure-function relationships during vertebrate development. The lab is growing and hiring at all levels: srivatsan-lab.com
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Pascal Sturmfels retweetledi
RFdiffusionAA generating a small molecule binding protein against an experimental FXIa inhibitor (OQO), a ligand which is significantly different than any in its training dataset.
Rohith Krishna@r_krishna3
Very excited to share RoseTTAFold All-Atom and RFdiffusion All-Atom, methods for structure prediction and design of biomolecular assemblies! biorxiv.org/content/10.110… 1/n
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Pascal Sturmfels retweetledi
RoseTTAFold updated to be All-Atom... biological assemblies containing proteins, nucleic acids, small molecules, metals, and covalent modifications ... and diffusion🤯biorxiv.org/content/10.110…
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Pascal Sturmfels retweetledi
All-atom version of RoseTTAFold looks quite exciting! biorxiv.org/content/10.110…
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