Ever wonder why our HLA specified cancer therapies are only for HLA02:01 thus far? @possuhuanglab.bsky.social presents the scope of the problem at the inaugural @stanford-cancer.bsky.social AI and Cancer Research Symposium 🧬
Possu Huang Lab
@possuhuanglab.bsky.social
Our lab uses experimental and computational methods to design de novo proteins | @Stanford
Introducing SLAE, our new framework to represent all-atom protein structures with residue local chemical environment tokens! SLAE reasons over atomic interactions to recover structures and residue pairwise energetics, yielding a generalizable, physics-informed latent space. (1/8)
💻 Sampling and training code for Protpardelle-1c is now available: github.com/ProteinDesig... Feedback and requests are welcome!
GitHub - ProteinDesignLab/protpardelle-1c: Updated Protpardelle models with more robust motif scaffolding and multichain support
Updated Protpardelle models with more robust motif scaffolding and multichain support - ProteinDesignLab/protpardelle-1c
github.com
Possu Huang Lab@possuhuanglab.bsky.social · last yr.We have a new collection of protein structure generative models which we call Protpardelle-1c. It builds on the original Protpardelle and is tailored for conditional generation: motif scaffolding and binder generation.
We have a new collection of protein structure generative models which we call Protpardelle-1c. It builds on the original Protpardelle and is tailored for conditional generation: motif scaffolding and binder generation.
SHAPES now published in Cell Systems!
Possu Huang Lab@possuhuanglab.bsky.social · 2y agoNew preprint from our group! We propose SHAPES, a set of metrics to quantify the distributional coverage of generative models of protein structures with embeddings at different structural hierarchies and quantify undersampling / extrapolation behaviors.
All-atom fixed backbone protein sequence design with FAMPNN @richardshuai.bsky.social Talal Widatalla @possuhuanglab.bsky.social @brianhie.bsky.social www.biorxiv.org/content/10.1...
I'm organizing a Keystone symposium, along with Liz Kellogg and @possuhuanglab.bsky.social, on machine learning and macromolecules. Mar 23-26 in Keystone, Colorado. We have a great lineup and deadlines are coming up soon!
Machine Learning Applied to Macromolecular Structure and Function | Keystone Symposia
Join us at the Keystone Symposia on Machine Learning Applied to Macromolecular Structure and Function, March 2025, in Keystone, with field leaders!
keystonesymposia.org
A framework for evaluating how well generative models of protein structure match the distribution of natural structures. @possuhuanglab.bsky.social www.biorxiv.org/content/10.1...
New preprint from our group! We propose SHAPES, a set of metrics to quantify the distributional coverage of generative models of protein structures with embeddings at different structural hierarchies and quantify undersampling / extrapolation behaviors.
This is a clever way to use synthetic biology: taking a toxin that overactivate the immune system (superantigen), rationally modify its core components and transform it into a platform of immunotherapy agents. Congratulations to @haotiandu.bsky.social and @possuhuanglab.bsky.social on the 2 papers!
Possu Huang Lab@possuhuanglab.bsky.social · 2y ago1/ In two back-to-back papers, we present our de novo TRACeR platform for targeting MHC-I and MHC-II antigens TRACeR for MHC-I: go.nature.com/4gcLzn5 TRACeR for MHC-II: go.nature.com/4gj5OQk
Checkout out these two bombshell papers from @possuhuanglab.bsky.social @stanfordmedicine.bsky.social, computational design of antigen-specific binders to MHC-I or -II, with applications to next gen targeted therapeutics 🤯
Possu Huang Lab@possuhuanglab.bsky.social · 2y ago1/ In two back-to-back papers, we present our de novo TRACeR platform for targeting MHC-I and MHC-II antigens TRACeR for MHC-I: go.nature.com/4gcLzn5 TRACeR for MHC-II: go.nature.com/4gj5OQk
Science in 60 Seconds: Haotian Du, PhD student with Possu Huang’s lab, explains her research on creating novel proteins that expands the possibilities for detecting more cancer types. @possuhuanglab.bsky.social @haotiandu.bsky.social
Incredible work from BioE Professor’s Possu Huang Lab @possuhuanglab.bsky.social @haotiandu.bsky.social - pioneering novel proteins with new structures and functions, unlocking new possibilities for detecting more cancer types. Congratulations!
Possu Huang Lab@possuhuanglab.bsky.social · 2y ago1/ In two back-to-back papers, we present our de novo TRACeR platform for targeting MHC-I and MHC-II antigens TRACeR for MHC-I: go.nature.com/4gcLzn5 TRACeR for MHC-II: go.nature.com/4gj5OQk
A new system, TRACeR-I, targets peptides on MHC I molecules with high precision, enabling specific tumor and virus cell killing. It powers CAR-T and BiTE therapies, showing potential to transform cancer and infectious disease treatment. www.nature.com/articles/s41...
Targeting peptide antigens using a multiallelic MHC I-binding system - Nature Biotechnology
A protein platform rapidly develops peptide-focused major histocompatibility complex class I binders with high specificity.
nature.com
1/ In two back-to-back papers, we present our de novo TRACeR platform for targeting MHC-I and MHC-II antigens TRACeR for MHC-I: go.nature.com/4gcLzn5 TRACeR for MHC-II: go.nature.com/4gj5OQk