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Reposted by Alexandre Bonvin

Ezgi Karaca @ezgikaraca.bsky.social · 2d

And the legacy continues! 😊

@amjjbonvin.bsky.social @bioinfo.se @lindorfflarsen.bsky.social #EMBOIntegMod25 ! 🍀🧿

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Alexandre Bonvin @amjjbonvin.bsky.social · 10d

Almost on my way - Needed first to finish the second batch of “vendanges” 😀 see you soon!

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Alexandre Bonvin @amjjbonvin.bsky.social · 14d

Still time to register for the next CAPRI round and put your methods to the test for predicting the structure of four antibody-antigen complexes - prediction period opening on Sept. 29th.

Announcing CAPRI round 61 with four antibody-antigen targets - registration is open and the prediction period starts on Monday September 29th. Put your methods to the test! Visit… | Alexandre Bonvin

Announcing CAPRI round 61 with four antibody-antigen targets - registration is open and the prediction period starts on Monday September 29th. Put your methods to the test! Visit https://lnkd.in/ei68T...

www.linkedin.com

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Reposted by Alexandre Bonvin

CAPRI @capridock.bsky.social · 19d

A new CAPRI round is coming up with 4 antibody-antigen targets! The registration opens next Monday (Sept. 22nd). Check it out at www.ebi.ac.uk/pdbe/complex...

The European Bioinformatics Institute < EMBL-EBI

EMBL-EBI

www.ebi.ac.uk

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Reposted by Alexandre Bonvin

Marc Lensink @marclensink.bsky.social · 23d

Navigating the pre- and post-AlphaFold divide: CAPRI 8th evaluation meeting

www.authorea.com/users/348903...

Navigating the Pre- and Post-AlphaFold Divide: CAPRI 8th evaluation meeting, February 12-14, Grenoble, FR

Navigating the Pre- and Post-AlphaFold Divide: CAPRI 8th evaluation meeting, February 12-14, Grenoble, FRAlexandre M.J.J. Bonvin1 and M. F. Lensink21 Bijvoet Centre for Biomolecular Research, Faculty ...

www.authorea.com

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Reposted by Alexandre Bonvin

BioExcel CoE @bioexcelcoe.bsky.social · 26d

5️⃣ Featuring the fifth of our showcase projects

Our automated pipeline, built on BioBBs, uses #AlphaFold, MD simulations, and virtual screening to output a list of ligand poses ➡️ bioexcel.eu/1c1j

#DrugDiscovery #Workflows #CADD #VirtualScreening

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Reposted by Alexandre Bonvin

BioExcel CoE @bioexcelcoe.bsky.social · 26d

4️⃣ Featuring the fourth of our showcase projects

Upgrading GROMACS to handle billion-atom systems and enhancing I/O performance and precision, making the first-ever whole-cell simulation possible ➡️ bioexcel.eu/uw67

#MolecularDynamics #GROMACS #ComputationalBiology

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Reposted by Alexandre Bonvin

BioExcel CoE @bioexcelcoe.bsky.social · 29d

2⃣ Featuring the second of our showcase projects

Through a combination of AlphaFold2 and other tools we are bypassing the limits of traditional MD simulations ➡️ bioexcel.eu/dvy3

#Proteins #MolecularDynamics #GROMACS #AlphaFold2

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Alexandre Bonvin @amjjbonvin.bsky.social · Sep 3

Cafaggi! 😋

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Reposted by Alexandre Bonvin

Torsten Schwede @torstenschwede.bsky.social · Aug 27

Critical benchmarking of structure prediction methods has been crucial for measuring progress and detecting breakthroughs. But how will the future look like? Join the discussion at our workshop in Basel on September 8 - just before the [BC]2 conference.

@sib.swiss @biozentrum.unibas.ch

⬇️⬇️⬇️

CAMEO-3D @cameo3d.org · Aug 27

🔬 Workshop: Future of Structure Prediction Benchmarking
📅 Sept 8, 2025 | Basel
💡 Talks + breakout sessions on #CASP #CAPRI #CAMEO & benchmarking for drug discovery
🎟️ Free registration (limited spots): lu.ma/ws9nu1xf
Join us to explore how benchmarking can drive breakthroughs in structure prediction.

The future of structure prediction benchmarking: measuring progress and breakthroughs · Luma

Benchmarking has been a key driver of progress in protein structure prediction methods. As the field continues to evolve, several key questions prevail: How…

lu.ma

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Reposted by Alexandre Bonvin

pussyfullawasps 🗡️ (they/she) @pussyfullawasps.bsky.social · Aug 15

this seems like a very good idea actually

reddit screenshot r/technology
70 people here

Al's Biggest Threat: Young People W...
4.3k upvotes • 442 comments
SonofRodney • 6h
I recently heard about a teacher who instead of trying to circumvent students using ai, which is impossible, she made assignments by going "ask ChatGPT to write a report on this subject, and then research how and why it's wrong".
Not only did the students discover that chatGPT is extremely wrong a lot of the time, it also lead them to realize that they should not use it as a primary source.

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Reposted by Alexandre Bonvin

Magnetic Resonance News @nmr900.bsky.social · Jul 31

Alexandre Bonvin @amjjbonvin.bsky.social Empowering Structural Biology: Inside WeNMR’s Journey with EGI (European Grid Infrastructure) EGI Magazine - Issue 03 @egieinfra.bsky.social www.egi.eu/magazine/iss... #NMRchat #NMR 🧲

Empowering Structural Biology: Inside WeNMR’s Journey with EGI

Now serving over 66,000 users in 174 countries, WeNMR’s success is built on user-friendly tools like the HADDOCK server, strong support and training, and a commitment to scientific excellence.

www.egi.eu

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Alexandre Bonvin @amjjbonvin.bsky.social · Jul 30

Rounds are organised whenever we get a target. Very different from CASP. Sometimes the schedule is tight because of a publication coming out soon

Alexandre Bonvin @amjjbonvin.bsky.social · Jul 30

We are surely interested in those! Had a few targets in the past

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Alexandre Bonvin @amjjbonvin.bsky.social · Jul 29

Blind structure prediction experiments like CASP and CAPRI are catalysts of new developments

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Alexandre Bonvin @amjjbonvin.bsky.social · Jul 29

A small reminder to all structural biologists around working on biomolecular complexes: please consider sharing your complexes as targets for CAPRI - AI has not solved all structure prediction problems and there are still challenges! See www.capri-docking.org/contribute/

CAPRI Docking

www.capri-docking.org

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Reposted by Alexandre Bonvin

Bioinformatics Advances @bioinfoadv.bsky.social · Jul 28

💻 Code and input data are openly available with documentation and examples to support reproducible antibody modelling and docking workflows:

GitHub - haddocking/alphaflow-antibodies

Contribute to haddocking/alphaflow-antibodies development by creating an account on GitHub.

github.com

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Reposted by Alexandre Bonvin

Bioinformatics Advances @bioinfoadv.bsky.social · Jul 28

🧬 Now published in Bioinformatics Advances: "Improved prediction of antibody and their complexes with clustered generative modelling ensembles"

Full article available: https://doi.org/10.1093/bioadv/vbaf161

Authors include: @xiaotong-xu.bsky.social, @amjjbonvin.bsky.social

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Alexandre Bonvin @amjjbonvin.bsky.social · Jul 14

The result of a master student project by Miguel Sanchez-Marin supervised by Marco Giulini - well done both!

bioRxivpreprint @biorxivpreprint.bsky.social · Jul 4

Combining AI structure prediction and integrative modelling for nanobody-antigen complexes https://www.biorxiv.org/content/10.1101/2025.07.01.662355v1

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Reposted by Alexandre Bonvin

Marc Lensink @marclensink.bsky.social · Jul 14

Biomolecular interaction prediction in the pre and post alphafold era

onlinelibrary.wiley.com/doi/10.1002/...

Biomolecular Interaction Prediction in the Pre‐ and Post‐AlphaFold Era: The 8th CAPRI Evaluation

We report on the 8th CAPRI Evaluation period, capturing the assessment of CAPRI Rounds 47 to 55 (excluding the CASP and COVID-related Rounds), which have witnessed the transition to AI-driven predict...

onlinelibrary.wiley.com

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Alexandre Bonvin @amjjbonvin.bsky.social · Jun 26

Cheers to that (completing one week of farniente on Elba 😎)

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Reposted by Alexandre Bonvin

cojocarulab.bsky.social @cojocarulab.bsky.social · Jun 26

Very honored to feature on the @bioexcelcoe.bsky.social Newsletter as one of the ambassadors of the month together with Anela Ivanova for co-organizing the Bioexcel Balkan Workshop in May in Sofia. BioExcel links a very friendly and impactful community. bioexcel.eu/about/govern...

Featured Ambassador: Vlad Cojocaru

About Vlad Cojocaru was born in Arad, a city located at the western border of Romania and is a leading scientist in the field of computational biochemistry. His scientific career started when he met T...

bioexcel.eu

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Reposted by Alexandre Bonvin

Institut Pasteur Education @pasteuredu.bsky.social · Jun 20

🎶 Science meets creativity with TuberKiller! Yaëlle Wormser, PhD student featured in the My PhD at the Institut Pasteur series, raps her tuberculosis research.

Discover how music and science collide to make research unforgettable! 👏

🎧 TuberKiller is also available on Spotify!

@pasteur.fr

When science meets creativity: TuberKiller | My PhD at the Institut Pasteur

YouTube video by Institut Pasteur EDUCATION

youtube.com

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Reposted by Alexandre Bonvin

Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · Jun 22

TuberKiller 🤩 🧫🦠❄️🔬 #scicomm

Institut Pasteur Education @pasteuredu.bsky.social · Jun 20

🎶 Science meets creativity with TuberKiller! Yaëlle Wormser, PhD student featured in the My PhD at the Institut Pasteur series, raps her tuberculosis research.

Discover how music and science collide to make research unforgettable! 👏

🎧 TuberKiller is also available on Spotify!

@pasteur.fr

When science meets creativity: TuberKiller | My PhD at the Institut Pasteur

YouTube video by Institut Pasteur EDUCATION

youtube.com

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Reposted by Alexandre Bonvin

BioExcel CoE @bioexcelcoe.bsky.social · Jun 16

👏 Congratulations to the Summer School 2025 poster prize winners!

🏆 Zuzana Janáčková
🏆 Jan van Elteren
🏆 Gesa Laura Freimann

Join us for a special edition webinar where they will present their work

🗓️ 23 September 2025, 15:00 CET

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