@briantrippe.bsky.social
Assistant Professor at Stanford Statistics and Stanford Data Science | Previously postdoc at UW Institute for Protein Design and Columbia. PhD from MIT.
Surprise: A modern baseline (RFdiffusion) fails on motifs scaffolded into de novo enzymes 15 years ago 🤯
This suggests modern deep learning methods aren’t always better than past methods!
This suggests modern deep learning methods aren’t always better than past methods!
February 19, 2025 at 8:50 PM
Surprise: A modern baseline (RFdiffusion) fails on motifs scaffolded into de novo enzymes 15 years ago 🤯
This suggests modern deep learning methods aren’t always better than past methods!
This suggests modern deep learning methods aren’t always better than past methods!
MotifBench fixes this by providing:
🧪 A standardized evaluation pipeline
🏆 30 challenging motifs as test cases
📊Easy-to-use eval scripts and a leaderboard for method comparison
Now, results can be easily and consistently measured.
🧪 A standardized evaluation pipeline
🏆 30 challenging motifs as test cases
📊Easy-to-use eval scripts and a leaderboard for method comparison
Now, results can be easily and consistently measured.
February 19, 2025 at 8:50 PM
MotifBench fixes this by providing:
🧪 A standardized evaluation pipeline
🏆 30 challenging motifs as test cases
📊Easy-to-use eval scripts and a leaderboard for method comparison
Now, results can be easily and consistently measured.
🧪 A standardized evaluation pipeline
🏆 30 challenging motifs as test cases
📊Easy-to-use eval scripts and a leaderboard for method comparison
Now, results can be easily and consistently measured.
Motif scaffolding is a core challenge in protein design:
✅ Input: a motif (small functional substructure)
🎯 Goal: find a scaffolds (full proteins) that preserves the motif’s geometry.
But what's the state of methods for this problem?
✅ Input: a motif (small functional substructure)
🎯 Goal: find a scaffolds (full proteins) that preserves the motif’s geometry.
But what's the state of methods for this problem?
February 19, 2025 at 8:50 PM
Motif scaffolding is a core challenge in protein design:
✅ Input: a motif (small functional substructure)
🎯 Goal: find a scaffolds (full proteins) that preserves the motif’s geometry.
But what's the state of methods for this problem?
✅ Input: a motif (small functional substructure)
🎯 Goal: find a scaffolds (full proteins) that preserves the motif’s geometry.
But what's the state of methods for this problem?
🔥 Benchmark Alert! MotifBench sets a new standard for evaluating protein design methods in motif scaffolding.
Why does this matter? Reproducibility & fair comparison have been lacking—until now.
Paper: arxiv.org/abs/2502.12479 | Repo: github.com/blt2114/Moti...
A thread ⬇️
Why does this matter? Reproducibility & fair comparison have been lacking—until now.
Paper: arxiv.org/abs/2502.12479 | Repo: github.com/blt2114/Moti...
A thread ⬇️
February 19, 2025 at 8:50 PM
🔥 Benchmark Alert! MotifBench sets a new standard for evaluating protein design methods in motif scaffolding.
Why does this matter? Reproducibility & fair comparison have been lacking—until now.
Paper: arxiv.org/abs/2502.12479 | Repo: github.com/blt2114/Moti...
A thread ⬇️
Why does this matter? Reproducibility & fair comparison have been lacking—until now.
Paper: arxiv.org/abs/2502.12479 | Repo: github.com/blt2114/Moti...
A thread ⬇️