@jonathanziegler.bsky.social
ML researcher for protein engineering @Cradle
EuroMLSB at EurIPS is confirmed and the submission deadline is set to Oct 1st. This is **earlier than the EurIPS-suggested workshop deadline** for a reason: we have a shared submission process with MLSB in SanDiego for which the deadline is now also extended to Oct 1st!
🚨To accommodate the addition of EuroMLSB, we have extended the submission deadline to October 1, 2025 11:59pm AoE.
Find information on paper guidelines at mlsb.io. Submissions will be made through CMT.
Find information on paper guidelines at mlsb.io. Submissions will be made through CMT.
📢The submission portal for MLSB 2025 is live! Submissions are due September 26, 2025 11:59 pm AoE. cmt3.research.microsoft.com/MLSB2025
September 18, 2025 at 4:32 PM
EuroMLSB at EurIPS is confirmed and the submission deadline is set to Oct 1st. This is **earlier than the EurIPS-suggested workshop deadline** for a reason: we have a shared submission process with MLSB in SanDiego for which the deadline is now also extended to Oct 1st!
Reposted
Deadline extended - last chance, second edition!
Last chance to register for the 2025 European RosettaCon - we had a blast last year, and @ajasjaljubetic.bsky.social is putting together a great program. With Easter eggs 🥚 in the submission system!
September 18, 2025 at 3:53 PM
Deadline extended - last chance, second edition!
Reposted
You asked and we listened... @workshopmlsb.bsky.social is excited to be expanding to Copenhagen, DK at @euripsconf.bsky.social 🎉
Two workshops (San Diego & Copenhagen) will run concurrently to support broader attendance. You can indicate your location preference(s) in the submission portal💫
Two workshops (San Diego & Copenhagen) will run concurrently to support broader attendance. You can indicate your location preference(s) in the submission portal💫
September 12, 2025 at 12:43 PM
You asked and we listened... @workshopmlsb.bsky.social is excited to be expanding to Copenhagen, DK at @euripsconf.bsky.social 🎉
Two workshops (San Diego & Copenhagen) will run concurrently to support broader attendance. You can indicate your location preference(s) in the submission portal💫
Two workshops (San Diego & Copenhagen) will run concurrently to support broader attendance. You can indicate your location preference(s) in the submission portal💫
🧬 I'm looking for a new colleague (machine learning researcher) to work on exciting research projects around protein engineering with our ML team in Zurich. Speaking from experience, this is an amazing gig!
jobs.ashbyhq.com/cradlebio/92...
jobs.ashbyhq.com/cradlebio/92...
Machine Learning Researcher in Protein Design (f/m/*)
Join a scaleup researching and operating ML-guided lead optimization of proteins. This means developing a combination of protein language models, and multi-property prediction and generation.
jobs.ashbyhq.com
June 18, 2025 at 2:37 PM
🧬 I'm looking for a new colleague (machine learning researcher) to work on exciting research projects around protein engineering with our ML team in Zurich. Speaking from experience, this is an amazing gig!
jobs.ashbyhq.com/cradlebio/92...
jobs.ashbyhq.com/cradlebio/92...
Reposted
We trained a genomic language model on all observed evolution, which we are calling Evo 2.
The model achieves an unprecedented breadth in capabilities, enabling prediction and design tasks from molecular to genome scale and across all three domains of life.
The model achieves an unprecedented breadth in capabilities, enabling prediction and design tasks from molecular to genome scale and across all three domains of life.
February 19, 2025 at 4:42 PM
We trained a genomic language model on all observed evolution, which we are calling Evo 2.
The model achieves an unprecedented breadth in capabilities, enabling prediction and design tasks from molecular to genome scale and across all three domains of life.
The model achieves an unprecedented breadth in capabilities, enabling prediction and design tasks from molecular to genome scale and across all three domains of life.
Reposted
🚀 It's time for a new JAX ecosystem library!
This time quite a small one: ESM2quinox. A #JAX + Equinox implementation of the ESM2 protein language model.
GitHub: github.com/patrick-kidg...
SciML is obviously my whole jam. My open source has largely focused on the differential equations ...
[1/2]
This time quite a small one: ESM2quinox. A #JAX + Equinox implementation of the ESM2 protein language model.
GitHub: github.com/patrick-kidg...
SciML is obviously my whole jam. My open source has largely focused on the differential equations ...
[1/2]
GitHub - patrick-kidger/esm2quinox: An implementation of ESM2 in Equinox+JAX
An implementation of ESM2 in Equinox+JAX. Contribute to patrick-kidger/esm2quinox development by creating an account on GitHub.
github.com
February 11, 2025 at 2:40 PM
🚀 It's time for a new JAX ecosystem library!
This time quite a small one: ESM2quinox. A #JAX + Equinox implementation of the ESM2 protein language model.
GitHub: github.com/patrick-kidg...
SciML is obviously my whole jam. My open source has largely focused on the differential equations ...
[1/2]
This time quite a small one: ESM2quinox. A #JAX + Equinox implementation of the ESM2 protein language model.
GitHub: github.com/patrick-kidg...
SciML is obviously my whole jam. My open source has largely focused on the differential equations ...
[1/2]
Still at AMLD in Lausanne today. If you’re around, let’s have a coffee! Also, we (Cradle) and our collaborators from Adaptyv are hosting a little conference after party. Stop by!
February 13, 2025 at 7:26 AM
Still at AMLD in Lausanne today. If you’re around, let’s have a coffee! Also, we (Cradle) and our collaborators from Adaptyv are hosting a little conference after party. Stop by!
Real-world example on how targeted protein sequence engineering can significantly outperform structurally informed de novo design. I strongly believe both methods have their place. This challenge by #AdaptyvBio was a good example of optimization>design.
www.cradle.bio/blog/adaptyv...
www.cradle.bio/blog/adaptyv...
December 10, 2024 at 11:16 PM
Real-world example on how targeted protein sequence engineering can significantly outperform structurally informed de novo design. I strongly believe both methods have their place. This challenge by #AdaptyvBio was a good example of optimization>design.
www.cradle.bio/blog/adaptyv...
www.cradle.bio/blog/adaptyv...
Adaptyv Bio hosted an antibody engineering competition to design/engineer binders to EGFR. Super stoked that we came in first place with the Cradle team! We’ll be talking about the methods used at #NeurIPS this coming week!
Here are the full results
foundry.adaptyvbio.com/competition
Here are the full results
foundry.adaptyvbio.com/competition
December 8, 2024 at 3:44 PM
Adaptyv Bio hosted an antibody engineering competition to design/engineer binders to EGFR. Super stoked that we came in first place with the Cradle team! We’ll be talking about the methods used at #NeurIPS this coming week!
Here are the full results
foundry.adaptyvbio.com/competition
Here are the full results
foundry.adaptyvbio.com/competition