iiinova — where your digital self keeps evolving

Reposted by Martiela Freitas

Finn Beruldsen @finnberuldsen.bsky.social · 17/03/2026

(1/4) I'm a 4th year Biochemistry PhD student and I made a tool to help researchers see when and where proteins move. MD generates a lot of data, but connecting where motion occurs with when it happens is surprisingly difficult. RMSX and Flipbook highlight both clearly. 🧵👇

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Reposted by Martiela Freitas

bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 29/01/2026

SCANBIT facilitates identification of tumor cell populations in scRNAseq data using pseudobulked SNV calls www.biorxiv.org/content/10.64898/20…

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Reposted by Martiela Freitas

The Company of Biologists @biologists.bsky.social · 28/01/2026

Our journals Development, Journal of Cell Science, Disease Models & Mechanisms and Biology Open are pleased to be media partners for a number of @embo.org and @embl.org conferences, workshops and courses during 2026. See the full calendar of events at www.embl.org/about/info/c....

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Reposted by Martiela Freitas

bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 29/03/2025

MDPath: Unraveling Allosteric Communication Paths of Drug Targets through Molecular Dynamics Simulations www.biorxiv.org/content/10.1101/202…

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Reposted by Martiela Freitas

bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 25/03/2025

AMULETY: A Python package to embed adaptive immune receptor sequences www.biorxiv.org/content/10.1101/202…

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Martiela Freitas @martiela.bsky.social · 25/03/2025

"Nothing says love like coffee." Now I get it.

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Reposted by Martiela Freitas

Diego del Alamo @delalamo.xyz · 16/10/2024

RFdiffusion seems to be incapable of sampling protein topologies that cannot be accurately modeled by its base model RosettaFold. This potential blind spot can (allegedly) be overcome by instead using protein backbone diffusion models trained from scratch www.nature.com/articles/s41...

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Reposted by Martiela Freitas

Diego del Alamo @delalamo.xyz · 25/10/2024

A failure Ive noticed w RFdiffusion w big proteins is distorted backbone torsions outside normal Ramachandran space, which ProteinMPNN designs as polyglycines that arent accurately refolded. Curious if others have also seen this & if reducing Gly insertion improves designability

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Martiela Freitas @martiela.bsky.social · 22/03/2025

Kubernetes, also known as K8s, is an open-source system for automating deployment, scaling, and management of containerized applications. -- The Kubernetes team

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Martiela Freitas @martiela.bsky.social · 21/01/2025

Installing mdanalysis on HPC? # Use conda, if Miniforge isn't explicitly available. module load miniforge # It’s good practice to use a separate environment for MDAnalysis conda create -n mdanalysis_env python=3.9 -y conda activate mdanalysis_env

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Martiela Freitas @martiela.bsky.social · 03/04/2024

Parar de dizer que não tenho tempo pra ler. Cada vez que falo, eu fico doente!

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