iiinova — where your digital self keeps evolving

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Valence Labs @valenceai.bsky.social · 20/05/2025

1/ At Valence Labs, @recursionpharma.bsky.social's AI research engine, we’re focused on advancing drug discovery outcomes through cutting-edge computational methods Today, we're excited to share our vision for building virtual cells, guided by the predict-explain-discover framework 🧵

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Valence Labs @valenceai.bsky.social · 17/04/2025

(1/5) The Molecular Machine Learning Conference (MoML) is back @mila-quebec.bsky.social this June 18th. Join researchers advancing machine learning, molecular modeling, and therapeutic design. Tickets are free for students. Register Today: portal.ml4dd.com/events/molec...

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Cas @caswognum.nl · 27/03/2025

Had a great time at the Ascona 2025 conference on benchmarking in biology! Thanks to @markrobinsonca.bsky.social and all other organizers. I’m grateful for the opportunity to present our @polarishub.io platform at the historic and beautiful Monte Verità (“Mount Truth”) venue. Look at that view! 😍

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Polaris @polarishub.io · 21/03/2025

🚀 Antiviral Challenge Results! 🚀 After weeks of competition, and nearly 400 submissions, the antiviral challenge has concluded! Thank you to all of our participants. Each submission came with a report — check out the full leaderboard and find more details 👇

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Conscience @conscience-network.bsky.social · 20/03/2025

✨ Symposium session reveal ✨ AI-assisted Drug Discovery: Benchmarking the Field - Gustavo Stolovitzky and @caswognum.nl will explore how benchmarking can drive better, more reliable AI tools for drug discovery and biomedicine. Learn more and register here: conscience.ca/symposium2025

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Peter Škrinjar @peterskrinjar.bsky.social · 24/02/2025

In case you missed it!

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Janani Durairaj (Jay) @ninjani.bsky.social · 20/02/2025

Join us tomorrow to hear @peterskrinjar.bsky.social talk about 🌹 Runs N' Poses 🌹! Curious to hear your thoughts on how to keep up with benchmarking in this field.

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Polaris @polarishub.io · 17/02/2025

⚡ The intermediate leaderboard for the antiviral challenge is now live! 👀 See how you placed: antiviral.polarishub.io The challenge officially ends on March 10th, but there's one last leaderboard update before the final results. Submit before midnight on Feb 26th! polarishub.io/competitions

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Polaris @polarishub.io · 13/02/2025

We’re hosting @peterskrinjar.bsky.social for a webinar to discuss his latest paper “Have protein co-folding methods moved beyond memorization?”! Join live on Feb 21st at 11 AM ET. Register here: us06web.zoom.us/webinar/regi... Explore Runs N’ Poses on Polaris today: polarishub.io/benchmarks/p...

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Cas @caswognum.nl · 11/02/2025

Endless views and impressive cloudscapes! #photography #lions #kenya #maasaimara #simba

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Polaris @polarishub.io · 10/02/2025

We’re extremely excited to host Runs N’ Poses on Polaris! The authors show how current co-folding methods struggle to generalize beyond ligand poses in their training data. Explore the benchmark: polarishub.io/benchmarks/p... Explore the dataset: polarishub.io/datasets/pli...

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Cas @caswognum.nl · 08/02/2025

New leaderboard on @polarishub.io for Runs 'N Poses! 🎸 Anyone has any protein-ligand co-folding methods laying around they would like to put to the test? polarishub.io/benchmarks/p... Great work @peterskrinjar.bsky.social @jeeberhardt.bsky.social @torstenschwede.bsky.social @ninjani.bsky.social

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Peter Škrinjar @peterskrinjar.bsky.social · 08/02/2025

Excited to share our latest preprint evaluating AlphaFold3, Boltz-1, Chai-1 and Protenix for predicting protein-ligand interactions, featuring our newly introduced benchmark dataset 🌹Runs N’ Poses🌹! www.biorxiv.org/content/10.1... 🧵👇 (1/n)

biorxiv.org

Have protein-ligand co-folding methods moved beyond memorisation?

Deep learning has driven major breakthroughs in protein structure prediction, however the next critical advance is accurately predicting how proteins interact with other molecules, especially small mo...

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Polaris @polarishub.io · 31/01/2025

🚨 Extension Alert: The intermediate leaderboard submission deadline for the antiviral challenge has been extended to midnight on February 7th! Don't miss this chance to see how you stack up against other participants! Submit your results today: polarishub.io/competitions

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Cas @caswognum.nl · 30/01/2025

With @polarishub.io we early on decided to purposefully restrict the flexibility of our datasets and benchmarks. We understand that this can be frustrating at times, but we believe it’s an important step to improve reproducibility. Our team is here to help if you need support! Reach out on Github.

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Polaris @polarishub.io · 27/01/2025

💡Have questions about the data behind the antiviral challenge?💡 This week, @asapdiscovery.bsky.social and @omsf.io are hosting 3 virtual office hour sessions with the experimentalists behind the data! RSVP here: docs.google.com/forms/d/e/1F...

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Cas @caswognum.nl · 28/01/2025

Only a few days left to submit your predictions for the first, intermediate leaderboard. We’ve got an incredibly passionate team on standby to help solve any issues you may run into and we’d love to hear your feedback. 🧑‍💻 Github: github.com/polaris-hub/... 💬 Discord: discord.gg/vBFd8p6H7u

discord.gg

Join the Polaris Discord Server!

Check out the Polaris community on Discord - hang out with 368 other members and enjoy free voice and text chat.

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Cas @caswognum.nl · 23/01/2025

If you have been waiting for the right time to start working on the ASAP Discovery challenge, this is it! 🏆 For all results submitted up until January 31st, we will publish an intermediate leaderboard. Get your first set of results in now and see how you stack up against your peers.

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Cas @caswognum.nl · 21/01/2025

The @polarishub.io discord is feeling very lively right now. I love learning with and from all of you!💡 If you haven't yet, join us and put your methods to the test to learn what is working and what's not in ADMET, potency and pose prediction. Get started in a few lines of code. Great video by Lu!

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John Chodera @jchodera.bsky.social · 17/01/2025

Incredibly excited to see how well ADMET, affinity, and pose prediction models *actually* perform in the ASAP x OpenADMET x PolarisHub blind challenge: polarishub.io/competitions

polarishub.io

Polaris

The benchmarking platform for drug discovery

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The ASAP Discovery Consortium @asapdiscovery.bsky.social · 15/01/2025

Working on predictive models for drug discovery? Here's your chance to see how well your models actually work! Together with @polarishub.io and OpenADMET, we've launched a blind prospective challenge to see how well predictive models for drug discovery can actually predict real drug discovery data!

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Cas @caswognum.nl · 14/01/2025

The @asapdiscovery.bsky.social x OpenADMET (@omsf.io) blind challenge is live! 🚀 You're free to use any publicly available training data, but the challenge provides 770 ligand poses, 1031 potency datapoints and 434 ADMET datapoints as a consistently generated training set. Come learn with us! 🏆

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Polaris @polarishub.io · 10/01/2025

🎥 At NeurIPS, we had the opportunity to chat with the authors of several dataset and benchmarking papers that are relevant to machine learning for drug discovery. First up—a quick interview with the team behind WelQrate! 🧵 youtu.be/pbatKLphJAE

youtu.be

NeurIPS 2024 Series - A Chat with the WelQrate Team

YouTube video by PolarisHQ

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Zarr @zarr.dev · 09/01/2025

🎉 Zarr-Python 3 is here! 🎉 - Full support for Zarr v3 spec - Chunk-sharding for more efficient data storage - Major performance boosts with async I/O & parallel compression 💻 pip install --upgrade zarr 💻 conda install --channel conda-forge zarr Blog post: buff.ly/3C3OwYw

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Zarr @zarr.dev · 04/01/2025

Hi, Zarr community! 👋 🚨 Big news: Zarr-Python 3.0 is dropping next week! 🚨 If your project depends on Zarr-Python, make sure to check out the migration guide to get ready for the update. Guide: buff.ly/3W0cLxd More updates soon! 🧑🏻‍💻

buff.ly

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Cas @caswognum.nl · 18/12/2024

To change benchmarking practices in ML for drug discovery, I've always felt strongly we need to go beyond publishing papers. Excited to share a first glimpse into what that could look like! 👀

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Cas @caswognum.nl · 17/12/2024

This is exactly our strategy with @polarishub.io! We want to provide ML-ready datasets that make it easy to do the right thing and hard to do the wrong thing.

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Polaris @polarishub.io · 15/12/2024

We’re at #NeurIPS2024! Catch @jonnyhsu.bsky.social at the BELKA Competition workshop with the @leashbio.bsky.social team, where he’ll give an overview of Polaris. Tune in at 3:00 PM in the West meeting rooms 215 and 216. Find the full schedule: neurips.cc/virtual/2024...

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Cas @caswognum.nl · 13/12/2024

@polarishub.io no longer just hosts small-molecule datasets! The release of RxRx3-Core is a testament to the work the team has done this last quarter to drastically improve the scalability of our platform. We're ready for a challenge! What XXL dataset (I'm talking TiBs!) should we host in 2025?

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Anna E. Clark @annaeclark.bsky.social · 11/12/2024

This is what's so baffling about so many suggestions for AI in the humanities classroom: they mistake the product for the point. Writing outlines and essays is important not because you need to make outlines and essays but because that's how you learn to think with/through complex ideas.

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Cas @caswognum.nl · 09/12/2024

Purple socks?! I didn’t even know we had these… Hope you can save me a pair, @jonnyhsu.bsky.social ! I unfortunately can’t be there myself this year, but have a chat with my colleagues at #NeurIPS! They’re all lovely and inspiring people! ✨

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Dominique Beaini @dom-beaini.bsky.social · 07/12/2024

My students @majhas.bsky.social and @jyoonlee.bsky.social are now on bluesky! They're new in the field, but they're assuming BIG! You should follow them to not miss out on their work. Already a @neuripsconf.bsky.social paper only a few months after they started.

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Cas @caswognum.nl · 06/12/2024

Pietra vecchia! 🪨 Bragging rights to those that recognize all locations! #rome #photography

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Dominique Beaini @dom-beaini.bsky.social · 05/12/2024

Hey 👋 I'm new here and I did my best to compile some starter packs to help other new people in the same community! I probably missed some people so please help me update my lists :) 1/6 Machine learning for drug discovery go.bsky.app/2PpxWLc More in the thread! 🧵

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John Parkhill @johnparkhill.bsky.social · 04/12/2024

Doing advent of code in rust as an excuse to warm up to rust, and oh jeez my rust is uggo. If anyone knows of someone doing it rust-idiomatically so I can see examples of good code send it my way.

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Polaris @polarishub.io · 05/12/2024

Happening in 40 minutes! Join us live: portal.valencelabs.com/events/post/...

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Polaris @polarishub.io · 04/12/2024

Looking to understand how we can better evaluate and compare models for drug discovery? Join us tomorrow at 11 AM ET to dive into the proposed guidelines for method comparison covering topics like performance sampling distribution, statistical significance, visualizations, and more!

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Cas @caswognum.nl · 03/12/2024

📢 Calling all ML practitioners! Have you been waiting for an opportunity to prove how well your model performs on a blind, newly generated and consistent test set? You now have the unique opportunity to! Super excited to launch a first competition on @polarishub.io!

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Cas @caswognum.nl · 29/11/2024

It’s late, but the #montreal winter is coming. A good excuse to share some pictures I took last year. #photography #winter

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Cas @caswognum.nl · 27/11/2024

Wow! 🤩 This may be the most carefully documented dataset on @polarishq.bsky.social. Great work by @roman-bushuiev.bsky.social! Do I have any #MassSpec researchers in my 🦋 network yet? I would love to hear what you think! github.com/polaris-hub/... #mass #spectrometry #dataset #benchmark

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Polaris @polarishub.io · 25/11/2024

The first paper from the Small Molecule Steering Committee at Polaris introduced practical guidelines for method comparison in ML-driven drug discovery. We'll be discussing this live on Dec 5th from 11 - 12 PM ET. Join the convo: portal.valencelabs.com/events/post/...

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Cas @caswognum.nl · 23/11/2024

Drug discovery datasets come in many shapes and forms. For example: RxRx3 by @recursionpharma.bsky.social (www.rxrx.ai/rxrx3) is 83TB in size. For @polarishq.bsky.social we set ourselves the goal of providing performant, off-the-shelf data loaders for ML on terabyte sized, cloud-native datasets! 🧵

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