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Parth Bibekar @parthbibekar.bsky.social · 05/11/2025

Update: We’ve now released the code for RISoTTo. I’ll also be presenting a poster at NeurIPS AI4D3 in San Diego on Dec 6, if you’re around and want to chat about RNA design, come say hi! 🧬 github: github.com/LBM-EPFL/RIS... Preprint: doi.org/10.1101/2025...

github.com

GitHub - LBM-EPFL/RISoTTo: Context-aware geometric deep learning for RNA sequence design

Context-aware geometric deep learning for RNA sequence design - LBM-EPFL/RISoTTo

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Reposted by Parth Bibekar

AI x Bio Discovery @aixbiobot.bsky.social · 05/11/2025

Context-aware geometric deep learning for RNA sequence design [2025-06-21] Leverages geometric deep learning to design RNA sequences, considering the 3D structure and surrounding molecular context for improved accuracy and function.

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Reposted by Parth Bibekar

bioRxivpreprint @biorxivpreprint.bsky.social · 22/06/2025

Context-aware geometric deep learning for RNA sequence design www.biorxiv.org/content/10.1101/202…

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Parth Bibekar @parthbibekar.bsky.social · 22/06/2025

Presenting RISoTTo, a molecular context-aware model for RNA sequence design, building on our work with PeSTo (for protein binding interface prediction) and CARBonAra (for protein design). 📄 Preprint: www.biorxiv.org/content/10.1... 💻 Code & more coming soon! #RNAdesign #RNAbiology #AI4Science

biorxiv.org

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Reposted by Parth Bibekar

Benedikt Singer @benediktsinger.bsky.social · 13/12/2024

Inspired by @simonduerr.bsky.social at ERC'24 I built and deployed our sequence redesign model called CARBonAra on @hf.co. The model is aware of any biomolecular context and performs on par with ProteinMPNN (see paper) Check it out here: huggingface.co/spaces/LBM-E... @lbm-epfl.bsky.social

huggingface.co

Carbonara - a Hugging Face Space by LBM-EPFL

Interactive demo of carbonara

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Reposted by Parth Bibekar

Kevin K. Yang 楊凱筌 @kevinkaichuang.bsky.social · 03/12/2024

Three BioML starter packs now! Pack 1: go.bsky.app/2VWBcCd Pack 2: go.bsky.app/Bw84Hmc Pack 3: go.bsky.app/NAKYUok DM if you want to be included (or nominate people who should be!)

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Reposted by Parth Bibekar

judewells.bsky.social @judewells.bsky.social · 06/12/2024

Great blog post from AdaptyvBio summarising submissions for round 2 of the protein design competition: including a few interesting methods I had never heard of. Results will be released tomorrow: www.adaptyvbio.com/blog/po103

adaptyvbio.com

Adaptyv Bio - Protein Optimization 103: Racing to the Top 100

What a close race this one was! In this blog post, we look at how submissions evolved throughout our latest EGFR binder design competition. We highlight the most widespread model and design choices, h...

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