Matthew O'Meara

Roche is hiring a small-molecule computer-aided drug design researcher in Basel, Switzerland. Go for it! #rdkit #compchem #chemsky www.linkedin.com/jobs/view/42...

@bmoore-beth.bsky.social We are delighted to announce that Dr. Teresa O'Meara ‪was awarded the Henry Russel award at U-M. Our highest honor for an early-mid career faculty member for her outstanding research and teaching! @teresaomeara.bsky.social ‬ @umichmicroimmuno.bsky.social

Deep homology and design of proteasome chaperone proteins in Candida auris A central tenet of biology is that protein structure mediates the sequence-function relationship. Recently, there has been excitement about the promise of advances in protein structure modeling to gen...

I'm so excited to share a new preprint on exploring sequence, structure, and function relationships and how we can use evolutionary information to help us design new proteins that work in the native context of a cell
www.biorxiv.org/content/10.1...

BREAKING: Harvard AAUP & the nat'l AAUP have jointly filed a lawsuit & TRO to block the Trump admin from demanding that Harvard restrict speech & undermine academic freedom or else lose $8.7 billion in federal funds. This action challenges the Trump admin's misuse of funds for coercion. Stay tuned.

Large crowd of peaceful protesters

Hands off protest in Canton MI

Inch worm!

For those curious about the impact of the 15% IDC rate, here's data on total NIH funding by institution: brimr.org/brimr-rankin... ... and here's a brief synopsis of hardest-hit: www.forbes.com/sites/michae...

The NIH’s drastic cut to indirect cost rates is a critical threat to U.S. research infrastructure The drastic reduction in indirect costs is not a path to innovation or cost savings — it’s a threat to U.S.’s position as global leader in medical research.

My #Yale colleague Harlan Krumholz explains why the cuts to indirect costs are a disaster for biomedical research in the United States. Want to do something about it? I'll list those who have to hear from us below. Share, recruit friends and family to help. 1/ www.statnews.com/2025/02/08/n....

NIH In Your State - United For Medical Research Select a state on the map to see the impact of NIH funding across America.

I just reached out to my senators about the NIH situation. If you need to find out how much impact NIH has in your state in terms of dollars in and their economic impact here's a link: www.unitedformedicalresearch.org/nih-in-your-...

DPH Press Release.docx FOR IMMEDIATE RELEASE January 13, 2025 Healthcare, Public Health, and Scientific Experts Call on the Senate to Reject RFK Jr. Nomination to Lead HHS CONTACT: Julie Scofield, 301-455-2558, jscofie...

@defendpublichealth.bsky.social, a new national coalition of more than 1500 public health experts, has led an effort to send >3500 letters to US Senators to oppose RFK Jr.’s nomination to HHS. Concerns include his unfounded beliefs about vaccines, raw milk and HIV. 1/ docs.google.com/document/d/1...

Molecular ML Reading Group The Molecular ML Reading Group aims to explore foundational and recent applications of machine learning models to modeling molecular system.

Prepping for class this spring, this playlist of videos on diffusion models for proteins are great! Series is led by @maom.bsky.social and Nick Randolph of UNC.

www.youtube.com/playlist?lis...

Hey #NeurIPS2023 folks - interested in protein design / computational biology? Check out Rosetta Commons labs. We have undergrad summer internships, post-baccalaureate gap-year positions, and PhD programs and postdocs at universities around the globe.
www.rosettacommons.org/about

^ Starting in 30 minutes!

Generating Novel, Designable, and Diverse Protein Structures by... Proteins power a vast array of functional processes in living cells. The capability to create new proteins with designed structures and functions would thus enable the engineering of cellular...

The Rosetta Commons Molecular ML Reading Group is hosting Yeqing Lin from Mohammed AlQuraishi's lab to present Genie, a diffusion model for protein structure.

GENIE:  doi.org/10.48550/arX...

Join us! Wed. 12/6 at 11am EST
Website and zoom link: maomlab.github.io/mol_ml_readi...

Yes, we'll put it up on our youtube channel: www.youtube.com/@maomlab

At our Rosetta Commons Molecular ML Reading group Patrick Bryant (patrickbryant1.github.io)
will present Umol, a method to predict protein ligand complexes from sequence and SMILES.
Umol: doi.org/10.1101/2023...

Tomorrow Wed. 11/22 11am EST
Website and zoom link: maomlab.github.io/mol_ml_readi...

You can join via the zoom link above

SE(3)-Stochastic Flow Matching for Protein Backbone Generation The computational design of novel protein structures has the potential to impact numerous scientific disciplines greatly. Toward this goal, we introduce $\text{FoldFlow}$ a series of novel...

The Rosetta Commons Molecular ML Reading group is hosting Joey Bose to present FoldFlow, a flow-matching model for protein backbone generation.
Join us!

When: Wed. 11/8 11am EST: zoom.us/j/9932387699...

FoldFlow: arxiv.org/abs/2310.02391

Website: maomlab.github.io/mol_ml_readi...

Not exactly double ML, but Maggie Makar in her second thesis chapter looked at bounding ranks in causal inference settings dspace.mit.edu/bitstream/ha...

Fred Dietrich's sac genome update is artisanal bioinformatics 😙👌 "It is the opinion of the authors that it is time to raise the bar and that published evidence that a gene is real should be necessary to keep questionable open reading frames from being relegated to dubious." doi.org/10.1101/2023...