Happy to share that ShapeEmbed has been accepted at @neuripsconf.bsky.social 🎉 SE is self-supervised framework to encode 2D contours from microscopy & natural images into a latent representation invariant to translation, scaling, rotation, reflection & point indexing 📄 arxiv.org/pdf/2507.01009 (1/N)

Thrilled to be speaking at #CBIAS2025! 🥳 CBIAS has been my scientific home since the beginning of my PhD, providing a welcoming space for early-career researchers. This year feels extra special, as I’ll be presenting my work in the final year of my PhD. Join us if you get the chance! 😃

Happy to share that ShapeEmbed has been accepted at @neuripsconf.bsky.social 🎉 SE is self-supervised framework to encode 2D contours from microscopy & natural images into a latent representation invariant to translation, scaling, rotation, reflection & point indexing 📄 arxiv.org/pdf/2507.01009 (1/N)

Thanks for all the trainers and attendees on this course, which was a lot of fun to run, and hopefully filled a gap in genomics/modelling training And especially co-organisers @leonielorenz.bsky.social @sonjalehtinen.bsky.social Joel Hellewell

It’s crucial that the bioimage community joins spaces long dominated by computer vision/CS to highlight challenges in microscopy data and how we tackle them. Brilliant talk from @aafkegros.bsky.social showing how biology is both exciting and challenging👩🏻‍💻🔬🧬🦠 #bioimage #microscopy #interdisciplinary

The abstract submission deadline for #CBIAS2025 has just closed and, for the first time, we have a near perfect gender-balance in our abstract submissions. In fact, we have slightly more submissions from women than men.

Snake-in-the-Box Problem xkcd.com/3125/

"i asked grok" "i asked chatgpt" yeah well i asked carl sagan and he said the greatest enemy of knowledge is not ignorance but the illusion of knowledge 🧪

Can robots in a swarm act like the cells of an organism? Thanks to Sedeer El-Showk for the new article in @nature.com, which highlights the work of a number of research groups, including our own, on how “Robots demonstrate principles of collective intelligence”. www.nature.com/articles/d41...

🔬API-first feature extraction for image-based profiling workflows If you need to obtain interpretable features from your segmented microscopy images, but want to do it in a fully automated way, we know the struggle. 1/6

And just like that @katharinaweins.bsky.social and Elvira Isenring managed to make us look cooler than we'll ever be: www.youtube.com/watch?v=8t8R...

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)

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

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!!! 👍

Very happy and proud to announce that the first preprint of my PhD is out: arxiv.org/abs/2504.20710 We developed an R package to translate mathematical models in SBML format into executable odin models and visualise models from @biomodels.bsky.social on our website Menelmacar biomodels.bacpop.org

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...

Bioimaging and bioimage analysis friends, some help if you have 2-3 mins; for a paper, we're trying to estimate the number of biologists trained in open source software or tools in the last ~5 years. (1/2) #bioimaging #microscopy #bioimageanalysis

📢 Just published! Introducing Isopeptor: a computational tool for detecting intramolecular isopeptide bonds in protein structures with high precision and recall. academic.oup.com/bioinformati...

Be a part of groundbreaking research! 🔬 Help us study immune cells & fight transplant rejection: www.zooniverse.org/projects/h-s... Together, we can make a difference! 💪 #CitizenScience #KidneyHealth #Zooniverse (6/6) ✅

Share this with everyone you know and help us hunt the immune cells!!!

Kudos to Matthew Hartley of the @bioimagearchive.bsky.social for his message of global collaboration in the #bioimaging community @ #TiM2025 👏👏👏

@virginieuhlmann.bsky.social talked @tlmcambridge.bsky.social online seminar series about: Turning morphology into numbers across microscopy scales and modalities; a perforce ride from imaging to image analysis to model generation to prediction. bio-mat-sketches-mor.blogspot.com/2025/03/virg...

The "E" in FEGA might stand for European, but FEGA is for Everyone! 🌐 Thrilled that Canada has officially joined the FEGA family with the first 7 national FEGA nodes. An important step towards a global network supporting secure human data sharing. Read about FEGA 👉 www.nature.com/articles/s41...

🚨Next week, Wed 05/03 | 16:00 UK - Online Seminar🚨 "Turning morphology into numbers across microscopy scales and modalities" by Dr Virginie Uhlmann. To attend online please register to our 📧 for the zoom link: lists.cam.ac.uk/sympa/subscr...

Congrats for such an amazing paper to my friend Lau!

It’s so cool to be at EMBL again to TA in the new Advanced Deep learning course 🙂🎉 #EMBLDeepLearning

🔬🎤 As pre-announced a few days ago... please let us proudly present to you: 𝑴𝒊𝒄𝒓𝒐𝕊𝒑𝒍𝒊𝒕 - your ticket to imaging more, imaging more gentle, and/or imaging more efficient. 🔬 doi.org/10.1101/2025... Like ❤️, repost 🔂, and most importantly... please send feedback ✉️ our way! 🙏

Different year, different conference, same vibe.

Today at the EMBL-EBI seminars @ebi.embl.org we hosted @alex-krull.bsky.social who talked about self-supervised learning and generative AI for image restoration. It was an absolute blast! Big thanks for sharing your cool work with us! 👩🏻‍💻👨🏻‍💻🔬🎤 #bioimageanalysis #statisticalearning