Loan Vulliard

EMBL-EBI-Sanger postdoctoral fellowships (ESPOD) The ESPOD fellowship builds on the collaborative relationship between EMBL-EBI and the Wellcome Sanger Institute, offering projects that combine experimental (wet-lab) and computational (dry-lab) appr...

Check out this opportunity to join my lab as a postdoc! www.ebi.ac.uk/research/pos...

Every year, faculty from EMBL-EBI and the Wellcome Sanger Institute co-develop projects that allow fellows to be part of ✨both✨ of these amazing research institutes.

This project has been in the making for quite some time. CORNETO not only integrates key concepts and methodologies in biological network inference, but also introduces a novel framework for multi-condition analysis. Congrats to the team, and especially to @pablormier.bsky.social for leading this.

𝗢𝗻𝗲 𝗪𝗲𝗲𝗸 𝗟𝗲𝗳𝘁: Abstract submission for oral presentations 🗣️ and hackathon registration 🧑‍💻 for CytoData 2025 Berlin close July 25!

Submit abstracts or register here: 🔗 cytodata25.eu-openscreen.eu/registration/

#Cytodata2025 #Hackathon #ImageBasedProfiling

🔬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

Exciting news! We've extended the deadline for oral submissions for Cytodata 2025. You now have until July 25 to submit oral presentations and register for the hackathon. Don't miss this chance! Poster submission closes September 10, and general registration ends October 1

🌟 𝗥𝗲𝗺𝗶𝗻𝗱𝗲𝗿 🌟
The deadline for abstract submissions for oral presentations at Cytodata 2025 in Berlin is approaching!

👉 𝗦𝘂𝗯𝗺𝗶𝘁 𝘆𝗼𝘂𝗿 𝗮𝗯𝘀𝘁𝗿𝗮𝗰𝘁 𝗯𝘆 𝗝𝘂𝗻𝗲 25!
cytodata25.eu-openscreen.eu/registration/

#BerlinConference #Imageanalysis #Microscopy

Join us in Berlin for CytoData 2025!
👉 Info & registration: cytodata25.eu-openscreen.eu

🔬 Hackathon: Nov 17–19
📢 Symposium: Nov 20–21

Explore advancements in image-based profiling & high-content screening and Tackle real-world challenges using EU-OPENSCREEN data.

Open Positions CeMM - Research Center for Molecular Medicine of the Austrian Academy of Sciences

🚨 3 days left to apply!
Join us at CeMM (Vienna) to work on AI + computational pathology projects like LazySlide.
Amazing team, H100 GPUs, real impact.
Apply now: cemm.at/join-cemm/op...

If you need to compare profiles across many conditions or perturbations, have a look!

Ever wondered which method to use to infer kinase activities from phosphoproteomics data? 💻💭Our revised comprehensive evaluation of kinase activity inference tools, done in collaboration with the Zhang lab @bcmhouston.bsky.social, is now out @natcomms.nature.com 🔬 tinyurl.com/4twuc6z4

If you're interested in finding recurrent spatial patterns in your tissues, now is a good time to check out Kasumi!

PhD/Postdoc in Spatial Omics for Cardiology Post a job in 3min, or find thousands of job offers like this one at jobRxiv!

We have an opening for a PhD/Postdoc in Spatial Omics for Cardiology in Heidelberg 🫀 #job #academicjob #phd #postdoc #cadiology 👇
jobrxiv.org/job/heidelbe...

Registrations are open for the best scientific event of the year!
Source: my very unbiased and authoritative opinion 😂

Join us in Berlin in November to discuss the best ways to go from images to biological insight and new treatments.

🚨 New preprint: Topography Aware Optimal Transport for Alignment of Spatial Omics Data

We present our new alignment framework TOAST www.biorxiv.org/content/10.1...

Congrats & Good luck to our @slobentanzer.bsky.social as he starts his group @diabresearch-dzd.bsky.social & @comphealthmunich.bsky.social - he is hiring 👇

Reprogramming site-specific retrotransposon activity to new DNA sites - Nature A study of retrotransposon activity repurposes a retroelement called R2Tocc to create a programmable system called STITCHR that enables diverse genome edits including efficient, scarless large pa...

So excited to share our new paper out today in @nature.com. We repurposed R2 retrotransposons to create STITCHR, a tool that can make virtually any kind of edit in mammalian genomes including the scarless multi-kilobase scale insertions 🧵

www.nature.com/articles/s41...

Interested in supporting the advancement of image-based profiling? Want to shape how large cell and tissue image datasets will be analyzed in the future? Please consider hosting CytoData!

Ask Erin, Dear Beth On Ask Erin/Dear Beth, bioimage analysis experts Beth Cimini and Erin Weisbart, of the Imaging Platform at the Broad Institute of MIT and Harvard, answer your image analysis questions! Whether it’s ab...

Delighted to announce that @erinweisbart.bsky.social and I have teamed up to create a new bioimage analysis video podcast called Ask Erin/Dear Beth - you can check it out at the link below! It will highlight common challenges in #bioimageanalysis, as well as our favorite solutions to them. (1/x)

Big news, you can now follow the CytoData society on BS and get even more image-based profiling in your timeline 🤓

Super excited to finally see this published! Our new method to use combinatorial staining and deep learning to push the multiplexing boundaries of spatial proteomics!

JXTX + GBCC 2025 Scholarships JXTX + GBCC 2025 Scholarships

The GBCC2025 Scholarships are here! Thanks to the JXTX Foundation and Galaxy Project, 4 genomics and data science graduate students will receive scholarships to attend GBCC2025 in person.
📅 Apply by April 1, 2025

👉 jxtxfoundation.org/news/2025-2-...

The first version of NetworkCommons is now published in Bioinformatics. Next, we’ll focus on involving more of the network biology community.
academic.oup.com/bioinformati...
In parallel, we’ll continue expanding benchmarks and developing new applications.
Interested in contributing? Reach out! ⬇️

Postdoctoral fellow - Saez-Rodriguez Group Your group Saez-Rodriguez Research Group Your supervisor Julio Saez-Rodriguez Your role As a postdoctoral fellow in the Saez Rodriguez group, you will develop and apply computational methods and tools...

Post-doc opening to join our lab @ebi.embl.org to develop&apply #bioinformatics and #machine-learning methods to study intra-/extra cellular networks to extract disease mechanisms from #single-cell and #spatial multiomic data - please share 🙏 : embl.wd103.myworkdayjobs.com/EMBL/job/Hin...

Graphical abstract of BioChatter

Applying LLMs to biomedical research today can go one of two ways: we either use a closed-source web app, or we get coding ourselves. Many researchers lack training for the latter, so their only choice is the former. We want to change that. www.nature.com/articles/s41...

For Maths fans, 2025 is a square.
45² = 45 x 45 = 2025
Also,
9² x 5² = 2025
40² + 20² + 5² = 2025
My favourite?
1³+2³+3³+4³+5³+6³+7³+8³+9³ = 2025
#Mathematics #teaching #education

GRETA graphical abstract

We present Gene Regulatory nETwork Analsyis (GRETA), a framework to infer, compare and evaluate gene regulatory networks #GRNs. With it, we have benchmarked multimodal and unimodal GRN inference methods. Check the results here 👇
Paper: doi.org/10.1101/2024.12.20.629764
Code: github.com/saezlab/greta

Method of the Year 2024: spatial proteomics - Nature Methods Approaches for profiling the spatial proteome in tissues are the basis of atlas-scale projects that are delivering on their promise for understanding biological complexity in health and disease.

I could not be more thrilled to announce the Nature Methods @naturemethods.bsky.social Method of the Year is Spatial Proteomics! Please see our editorial as a roadmap to the fantastic content in this special issue! www.nature.com/articles/s41...

A collage of book covers of new nature & science books. Featured here are Atlas Obscura Wild Life, Dinosaurs at the Dinner Party, Every Living Thing, Alien Earths, Becoming Earth, and Deep Water

A collage of book covers of new nature & science books. Featured here are Frostbite, The Inner Clock, How to Kill an Asteroid, The Great River, The Last Fire Season, and Hoof Beats

A collage of book covers of new nature & science books. Featured here are The Serviceberry, Not the End of the World, Nature's Ghosts, Meet the Neighbors, The Light Eaters, and Our Moon

A collage of book covers of new nature & science books. Featured here are Turning to Stone, The Weight of Nature, What If We Get It Right?, Waves in An Impossible Sea, The Tree Collectors, and Why We Remember

I was deeply disappointed by the lack of nature/science/climate/enviro on many major end-of-year book lists—so I decided to make my own!

Introducing: ✨🎁📚 The 2024 Holiday Gift Guide to Nature & Science Books ✨🎁📚

Please share: Let's make this go viral in time for Black Friday / holiday shopping!