🎉 Our paper “MIFA: Metadata, Incentives, Formats and Accessibility guidelines to improve the reuse of AI datasets for bioimage analysis” is out in @natmethods.nature.com! Community-driven standards to make bioimage data AI-ready & reusable. 👉 www.nature.com/articles/s41... #AI #Bioimaging #FAIRdata

🚨 Wow, that really sounds like an amazing opportunity… If I were a bit younger, I would start preparing my application already… 😮 www.scilifelab.se/news/ready-t...

I have some BIG NEWS to share today! Today I begin my next adventure as Chief Editor of Nature Biomedical Engineering!! (a thread) @natmethods.nature.com @natbiomedeng.nature.com @natureportfolio.nature.com

This week, we have Jörg Bewersdorf 🔬 visit us at @humantechnopole.bsky.social. He gave a fantastic talk on Monday and a very useful ad-hoc microscopy workshop today. The future of Pan-labeled Expansion Microscopy will be amazing! 🌟 Thanks, Jörg, for visiting & sharing! 🙏

$8 trillion lost.....

First day of #bobiac2025. Six days of intensive Python based #BioImageAnalysis. Intro by @fedegasparoli.bsky.social - "This will be a long week, but it will change your life". iac.hms.harvard.edu/bobiac/2025/

Submit your method to our denoising challenge!!! 👍

#CALIPERSv2 🚀 preprint is locked—journal submission next. Final polish, more hiPSC reference lines, and fresh light-sheet data. Still, a great collaboration led by @moisesdisante with the team @LabPhysiology and the amazing @berterolab.bsky.social and @florianjug.bsky.social group members! 1/N

🐾 The BioImage Model Zoo just got a major upgrade! It has been fully redesigned, offering a new backend, model uploader, community curation tools, and integrated browser-based test runs powered by BioEngine. 🧪 Explore now 👉 bioimage.io

Join the challenge, get the data, contribute your solution!!! 🎉

My guilty pleasure… every year… 🍿 + 🏃 This year will be craaazy!!! I feel it!!!

If unsupervised approaches are your thing, also check out the unsupervised denoising challenge and submit your solutions (the challenge is from last year, but we are still taking entries from everyone who is interested). 👉 ai4life-mdc24.grand-challenge.org

The 2nd AI4Life Challenge is live! Calling the AI & bioimaging community to tackle a key microscopy challenge: removing noise while preserving detail. 📦 Paired noisy/clean datasets 📈 Ground-truth evaluation 🧠 DL focus Build, test, compete 👉 ai4life.eurobioimaging.eu/challenge-2/

Come and work with us! Super exciting and relevant projects! Become an #AI pro and do something positive for the 🌍! 👩‍🎓 🧑‍🎓 If you know someone who might be interested… please repost and/or forward this! 🙏

Out today in @natmethods.nature.com : Spotiflow, our transcript localization method for imaging-based spatial transcriptomics. Led by amazing PhD student @albertdm.bsky.social, joint work w @gioelelamanno.bsky.social at EPFL / @scadsai.bsky.social www.nature.com/articles/s41... rdcu.be/epIB7

Spotiflow, our deep learning based spot detection method for microscopy, is now published in @natmethods.nature.com! Since the pre-print, we have added many features, notably native 3D detection! @maweigert.bsky.social @gioelelamanno.bsky.social @epfl-brainmind.bsky.social Paper: rdcu.be/epIB7 (1/N)

Another year, another #BIC Workshop! This year at #ICCV 2025 in Honolulu, 🌺 🏄‍♀️ 🍹 🌼 Check it here: www.bioimagecomputing.com Submission deadline: July 4th Hey, you have a month left to submit your work!!! 👍

The AI4Life Community Event comes to a close. We wrapped up with a big-picture discussion around the sustainability of services and the role that AI4Life plays in the EOSC. Thank you to everyone who joined us in Helsinki and online! 🦒 Stay connected 💚

Amaaazing talk by Sebi @sebi06.bsky.social Rhode from Zeiss (maybe @zeiss-microscopy.bsky.social) today at the @ai4life.bsky.social community meeting. Teasing us with great software solutions and good dev mindset! 👍

📘 Where science meets policy: Stefan Liebler (European Commission 🇪🇺) shares insights on Open Science, AI, EOSC, and how projects like AI4Life support the European research strategy. But also, he showcased notebooks running on the EOSC EU node! 🤖

GloBIAS @globias.bsky.social presents itself (via the one and only @mycroscopy.bsky.social) at the @ai4life.bsky.social communityevent in Helsinki! Join as a member and come to Japan this fall!!! 🎉

AI is an integral part of Fragment-Screen - great to be recognised at the @ai4life.bsky.social Community Meeting today! We are keen to interact with experts across Europe and beyond to advance the use of AI and Machine Learning for FBDD! @instruct-eric.bsky.social @eurobioimaging.bsky.social

Walking through streets of Helsinki. After-conference social events are the best way to finish the day. Sunny Helsinki summer night, good weather, good company, what else can one ask for? @florianjug.bsky.social @jwpylvanainen.bsky.social @turkubioimaging.bsky.social @ai4life.bsky.social

Did you know that Bioimage Archive has a specific database for people to share AI-ready imaging datasets? I did not until @yanlanmao.bsky.social told me! Please deposit! If people regularly submitted, it would have a huge collective impact on bioimage analysis. www.ebi.ac.uk/bioimage-arc...

First workshop is rolling! 🚀 We’re diving into the BioImage Model Zoo @bioimageIO — where life scientists meet powerful AI tools for bioimage analysis. Let’s explore what’s inside the Zoo! 🐾

🔧 Time for our tech-savvy crowd! The afternoon kicks off with a workshop for developers and image analysts: creating, uploading, containerising, and deploying models like a pro.

Want to host your own AI models without relying on external infrastructure? Enter BioEngine ai4life.eurobioimaging.eu/announcing-b... Your go-to for flexible, self-hosted bioimage analysis. Open source, scalable, and built for you!

Kick-starting the #neubiaspasteur2025 #BioImageAnalysis courses at @pasteur.fr and @pasteuredu.bsky.social

Great recipe from @cfusterbarcelo.bsky.social on how to train a DL model

Super excited that Julie Theriot will be our next speaker for the @humantechnopole.bsky.social External Seminar Series on May 15th. Thanks to @florianjug.bsky.social for hosting! For external people wanting to join, please see: forms.office.com/e/uGSKsG3ssS.

Little pitch for a great course… Apply before April 30 and join us @mblscience.bsky.social in August for an intense and intensely rewarding 2 weeks!!! 🤖 🤓 🏖️ 💻 🎉 🧬 🔬 If you did the course, if you want to help, please repost! 🙏

How can AI help you to analyze your microscopy images? Find out at the "Machine Learning for Microscopy Image Analysis" course at the @mblscience.bsky.social in Woods Hole from Aug 22-Sep 6! Applications are due 🚨 April 30 🚨 Read on for more! 👇 www.mbl.edu/education/ad...

Just ✌️ days to go! Join us for the next webinar "Towards FAIR and high-quality AI-ready data for bioimage analysis" Don’t miss it — register now 👉 bit.ly/registration...

🎤 AI4Life continues its presence at the @bioimagearchive.bsky.social course! Esti presents BioImage.IO, emphasizing the importance of keeping AI models accessible, reproducible, and interoperable. With so many image analysis tools out there, common model standards are the way forward!

Excited to announce that "Enabling Global Image Data Sharing in the Life Sciences" was published in Nature Methods by an international working group including members of #EuroBioImaging ERIC. 🎉 Don't miss the checklist towards an image data sharing ecosystem ! 🔽 www.nature.com/articles/s41...

An important Perspective on global image sharing in the life sciences out today. The piece urges the community and funders to support FAIR bioimage data sharing and offers clear, actionable guidance on what is needed. www.nature.com/articles/s41...

Great to see that many noise2void inspired denoising algorithms have been ported to @pytorch.org! Kudos to @florianjug.bsky.social and many others ... github.com/CAREamics/ca...

Love this place… 🥰 @qiatcshl.bsky.social @cshlaboratory.bsky.social

Now that looks like a great new course to check out! More python 🐍 heavy than other courses I know… which is great to have! 👍 Check it out, sign up, learn!!! 🤩

World happiness report (per country): happiness-report.s3.us-east-1.amazonaws.com/2025/WHR+25....

Finally the tides are starting to turn!! Cancer isn’t all about DNA mutations, nor even mRNA levels. We launched SyzOnc to map the proteins underlying deadly cancers that are not DNA-driven. journals.plos.org/plosbiology/...

🌟 Join us at the Neurogenomics Conference to explore neurodevelopment, brain evolution, neurodegeneration, stem cell and organoid disease modelling, and more! Register and submit your abstract by 31 Mar 👉 humantechnopole.it/en/trainings...

Big news for AI4Life! Our project is a success story by the European Commission! 🇪🇺 The Directorate-General for Research and Innovation (DG RTD) highlights our mission of making AI-powered bioimage analysis accessible to researchers everywhere 🌍 Read more: ai4life.eurobioimaging.eu/ai4life-high...

End-of-week news! The selected projects for the 3rd AI4Life Open Call are here: 🔹 Phase 1: Consultation – 10 projects received expert guidance 🔹 Phase 2: Deep Learning Support – 8 projects selected for in-depth AI-driven bioimage analysis 🔍 More at: ai4life.eurobioimaging.eu/third-ai4lif...

📢Our latest #preprint list is up on FocalPlane. This week we focus on bioimage analysis tools and their application in biology. focalplane.biologists.com/2025/03/07/m...

Calling the #bioimageanalysis community! Remember the #GatherIsland used during the online #I2K? Remember #Hebedas? #Woodstockbio2025 will be like this, in real life on a #YMCA #campsite in #Czech woods. Bioimage Geeks of the World - Unite and Register! woodstock.img.cas.cz/registration/

Look who joined 🦋! Welcome @paveltomancak.bsky.social! Good to have you among us! 💙

For whatever reason it was hard to find the original letter of Lech Walesa, the Polish president. (And I’m increasingly fond of full context and “zero moderation” raw materials and videos… almost like I want to form MY OWN opinion… 😉) If you are in a similar situation, here you go…

😮

Amazing news on thr #Fiji front. The new launcher holds beautiful promises for better bioimage analysis tools, and not only for Fiji!! See this summary thread by Curtis forum.image.sc/t/fiji-2024-...