Ian Humphreys
@IanRHum
Computational structural biology. PhD from Baker lab @UWproteindesign
Here’s our human protein-protein interactome. We mined the SRA, devised a new distillation dataset for protein complexes, trained a new version of RF2 to screen millions of protein pairs, and identify > 18k binary interactions. biorxiv.org/content/10.110…
The #AlphaFold 3 model code and weights are now available for academic use. We @GoogleDeepMind are excited to see how the research community continues to use AlphaFold to address open questions in biology and new lines of research. github.com/google-deepmin…
We love the excitement & results from the community on AlphaFold 3 and are doubling the AF Server daily job limit to 20. Happy to also share that we're working on releasing the AF3 model (incl weights) for academic use, which doesn’t depend on our research infra, within 6 months.
A great thread from Paul that mirrored a lot of my experiences in the Baker lab!
With David and the Baker Lab in the spotlight today, I wanted to share some insights into the @UWproteindesign and how it operates, a glimpse behind the curtain. I had planned to write this post-graduation, but now seems as good a time as any. (Got twitter blue free trial so this…
BREAKING NEWS The Royal Swedish Academy of Sciences has decided to award the 2024 #NobelPrize in Chemistry with one half to David Baker “for computational protein design” and the other half jointly to Demis Hassabis and John M. Jumper “for protein structure prediction.”
A couple of weeks ago our work on predicting protein-protein interactions in 19 pathogenic bacteria came out in @NatureMicrobiol! Here we screened millions of potential pairs and identified ~1,300 presumed to be novel interactions. nature.com/articles/s4156…
Exciting new work from Qian Cong's group on predicting human protein interactome. Leveraging new eukaryotic genomes, new RoseTTAFold2 trained on +/- pairs of PPI and large distilled dataset of domain-domain interactions! 🤩 biorxiv.org/content/10.110…
Computing the Human Interactome biorxiv.org/content/10.110… Jing, @IanRHum, Qian, amazing work!
Happy to share our preprint on predicting human protein interactome! We've trained RoseTTAFold2-PPI on both positive/negative PPI pairs. We also extended the training set by utilizing domain-domain interactions from predicted structures. biorxiv.org/content/10.110…
Excited to share our latest research on human PPI now available on bioRxiv! Check it out: biorxiv.org/content/10.110… #Bioinformatics #Research #ScientificPaper"
Our "Protein interactions in human pathogens revealed through deep learning" in Nature Micriobiology finally got online. 🎉🎉🎉Read here: nature.com/articles/s4156…
#MERS vaccines built on our two-component protein nanoparticle platform induce robust neutralizing antibody responses and protect mice against vaccine-matched challenge. This collaborative project was led by @chao_cara and is out now on @biorxivpreprint: biorxiv.org/content/10.110…
Excited to announce our new paper on designing allosterically regulated protein assemblies from scratch, now published in @Nature! This collaborative effort included key contributions from @FloPraetorius, Abbas Idris, @AnnikaPhilomin, @cweidle1 and others! nature.com/articles/s4158…
Super excited to share that ENGRAM is out today! ENGRAM cells are programmed to write their histories into the genome, recording the intensity, duration, and order of biological events simultaneously. nature.com/articles/s4158…
Now online: We developed novel oligomers and turned them into FGFR agonists via binder induced receptor clustering. #denovo_proteins sciencedirect.com/science/articl…
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
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
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…
Deeply honored to be selected. Huge thanks to my advisor Nir Hacohen, Darrell Irvine, and @MITBiology for all the support, and my mentors and collaborators for the fun journey. Multiple past awardees inspired me a lot during my career, I am grateful to have a chance to join them.
A huge congratulations to the recipients of the 2024 @FredHutch @WeintraubAward! These twelve exceptional graduate students exemplify the bold, creative, and pioneering spirit embodied by Dr. Hal Weintraub: fredhutch.org/en/news/releas…
Excited to share our @NatureBiotech paper on Ras sensors: nature.com/articles/s4158…! Matching sensor sensitivity to target's physiologically relevant concentration range is a long standing challenge in sensor development. (1/3)