Burcu Aykac Fas

Delighted to announce the release of Boltz-2, which demonstrates unprecedented accuracy in predicting structure and binding affinity! Congrats to Sara Passaro, @gcorso.bsky.social + @jeremywohlwend.bsky.social on this stunning achievement!
📄Paper: bit.ly/boltz2-pdf
💻Code: github.com/jwohlwend/bo...

Boltz-2: democratising the future of drug design Open source structure prediction with binding affinity

Move over AlphaFold3. Boltz-2 has arrived, bringing affinity prediction for protein-small molecule interactions!

Can’t wait to see what this group does next. Congrats to all @gcorso.bsky.social

Was a pleasure writing this:
www.cancergrandchallenges.org/news/boltz-2...

MAVISp BioCurator Training 2025 Event Dates: 3rd to 5th of September 2025 (online) Check out details on the MAVISp website We can accommodate a maximum of 15 participants, on a first-come first-served basis If you have questions ...

We’re launching the 1st MAVISp BioCurator Training Workshop!
Learn to use MAVISp tools to assess structural impact of missense variants. Fully online | Free
Register by June 27, 2025:
docs.google.com/forms/d/e/1F...
See Events: services.healthtech.dtu.dk/services/MAV...
#bioinformatics #modeling

We are happy to announce the release of MassiveFold 1.5.0.

It is now possible to add post-translational modifications and to run ligand screening with AlphaFold3!

Phase Space Invaders (ψ) With the convergence of data, computing power, and new methods, computational biology is at its most exciting moment. At PSI, we're asking the leading researchers in the field to discover where we're headed for, and which exciting pathways will ta...

Phase Space Invaders' episode 27 is now online, featuring Kresten Lindorff-Larsen @lindorfflarsen.bsky.social! Listen to it on Spotify or other platforms: www.buzzsprout.com/2313153

Cell membranes sustain phospholipid imbalance via cholesterol asymmetry This work challenges a major assumption in cell biology by showing that lipid bilayers can have drastically different phospholipid abundances between their two leaflets. This lipid abundance asymmetry...

Groundbreaking study in Cell from @leventallab.bsky.social: phospholipid asymmetry is a defining feature of the plasma membrane and cholesterol fills the holes — major implications for how this membrane works. A #lipidtime must-read! www.cell.com/cell/abstrac...

The Journal of Physical Chemistry B Membrane Protein Simulations Special Issue. Membrane proteins play vital roles in cellular functions -- deciding how an individual cell interacts with its environment via signaling, transport, and mor...

JPhysChem's new Membrane Protein Simulations Special Issue. Read here:
pubs.acs.org/toc/jpcbfk/1...

Computational Methods for Modeling Lipid-Mediated Active Pharmaceutical Ingredient Delivery Lipid-mediated delivery of active pharmaceutical ingredients (API) opened new possibilities in advanced therapies. By encapsulating an API into a lipid nanocarrier (LNC), one can safely deliver APIs n...

Excellent review including a comprehensive section on what Martini can do in this field: "Computational Methods for Modeling Lipid-Mediated Active Pharmaceutical Ingredient Delivery | Molecular Pharmaceutics" pubs.acs.org/doi/10.1021/...

Awesome paper!
BioEmu from MSR: Scalable emulation of protein equilibrium ensembles with generative deep learning www.biorxiv.org/content/10.1...

Looking forward to hearing more explanainers in tomorrow's reading group session on zoom at 9am PT / 12pm ET / 6pm CET: portal.valencelabs.com/logg

The Human Cell Atlas: towards a first draft atlas In a collection of research articles and related content, the Human Cell Atlas consortium presents tools, data and ideas towards the generation of their first draft atlas of cells in the human body.

Many diseases have their origin in human development, so developmental studies are crucial in helping us understand disease in the human body. The #HCA2024NatureCollection in @natureportfolio.bsky.social reveals new developmental insights.

This is an illustration with slides and lines connecting them that is to represent the Human Cell Atlas

Join us for a webinar with Sarah Teichmann and Aviv Regev, co-founders of the Human Cell Atlas, who will discuss the latest research.
Register here: https://go.nature.com/3OKQRKG
Browse the collection: https://go.nature.com/4gnRFRj
#AcademicSky 🧪

Point of View: An annotated introductory reading list for neurodiversity A collaboratively developed annotated reading list expands upon core themes in neurodiversity, aiming to enhance understanding and to promote rigorous, destigmatizing, and inclusive practices in…

Whatever your starting point, learning about neurodiversity can be challenging thanks to a lack of well-curated and contextualised information.

This collaborative work presents an annotated introductory reading list to get you started.

That was a lot of fun! Listen to Milosz’s podcast Phase Space Invaders, lots of useful content for our community in a format we are not used to!

Keeping it in the family: using protein family templates to rescue low confidence AlphaFold2 models AbstractMotivation. High confidence structure prediction models have become available for nearly all protein sequences. More than 200 million AlphaFold2 mo

Excited to announce our latest publication: “Keeping it in the family: Using protein family templates to rescue low confidence AlphaFold2 models” where we explore plDDT variability in #AF2 models of @pfamdb.bsky.social
domains. doi.org/10.1093/bioa... 1/7

Reactive oxygen species control protein degradation at the mitochondrial import gate This work identifies reactive oxygen species released by the electron transport chain as sentinel molecules that regulate localized protein degradation at mitochondrial TOM complexes, a mechanism that controls mitochondrial protein import and adjusts the abundance of the electron transport chain to cellular needs.

Excited to reveal specific reactive oxygen species as sentinel molecules that control localized protein degradation at #mitochondria to adjust electron transport chain abundance, with many implications for the role of ROS in development and disease.

www.cell.com/molecular-ce...

Not thinking this will be a popular strategy for improving metabolic health ;-)
www.nature.com/articles/s42...
www.nature.com/articles/s42...

Super excited to preprint our work on developing a Biomolecular Emulator (BioEmu): Scalable emulation of protein equilibrium ensembles with generative deep learning from @msftresearch.bsky.social ch AI for Science.

www.biorxiv.org/content/10.1...

🫧🔍Key breakthrough in #autism: pivotal role of #CPEB4 condensates revealed.

💊The study opens new avenues for the development of targeted treatments for autism.

📰 Nature @natureportfolio.bsky.social

✍️ Carla Garcia-Cabau, Anna Bartomeu et al.

➡️ bit.ly/3BfEGlR

📌 DOI: 10.1038/s41586-024-08289-w

YouTube video by WEHImovies Electron Transport Chain (2019) Drew Berry wehi.tv

Incredible structures and detail! I'll have to update my Respirasome animation...

youtu.be/nmoLoiFakxY?...

Excited to see the final published form of this amazing @drewberry.bsky.social‬ animation of DNA repair go live! Watch your favourite friends BRCA1/2, RPA, RAD51, Exo1, BLM, PCNA, MRN, primase and DNA polymerase perform their recombination magic. Cool educational & scientific tool for our community.

Surely you have been using AlphaFold3 for your research project? If so, have you considered #AlphaBridge to analyze the output for macromolecule complexes prediction?

Web server: alpha-bridge.eu

Preprint: www.biorxiv.org/content/10.1...

New features coming soon!

Here are some free/open-source sites for the preparation of scientific illustrations, including icon libraries: bioicons.com, scidraw.io, bioart.niaid.nih.gov, inkscape.org, biogdp.com, reactome.org/icon-lib

Repurposing colforsin daropate to treat MYC-driven high-grade serous ovarian carcinomas A drug that treats acute heart failure may also be used to treat an aggressive subtype of ovarian cancer.

"A drug that treats acute heart failure may also be used to treat an aggressive subtype of ovarian cancer."
www.science.org/doi/10.1126/...