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Gioele La Manno

@gioelelamanno.bsky.social
2.3K followers 441 following 59 posts

Professor at #EPFL - #RNAVelocity inventor - Laboratory of Brain Development and Biological Data Science. Single-cell and spatial biologist studying brain development and lipids. #ERCStg investigator

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Reposted by Gioele La Manno
Federation of European Neuroscience Societies - FENS @fens.org · 23/03/2026
🎉 Congratulations to the winner of the Boehringer Ingelheim FENS Research Award 2026! #FENS is proud to announce that Gioele La Manno has been awarded the Boehringer Ingelheim FENS Research Award 2026 in recognition of his outstanding scientific achievements. 🧠 🔬 👉 buff.ly/N0lEeUI
🎉 Congratulations to the winner of the Boehringer Ingelheim FENS Research Award 2026!

#FENS is proud to announce that Gioele La Manno has been awarded the Boehringer Ingelheim FENS Research Award 2026 in recognition of his outstanding scientific achievements. 🧠 🔬
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Gioele La Manno @gioelelamanno.bsky.social · 24/03/2026
Thrilled to receive the 2026 Boehringer Ingelheim FENS Research Award. Exciting to see our work on brain development recognized by the European neuroscience community. Grateful to my mentors, my lab, and my family. Award lecture at FENS Forum Barcelona in July! www.fens.org/news-activit...
fens.org
Winner of the Boehringer Ingelheim FENS Research Award 2026 announced - Federation of European Neuroscience Societies
The Federation of European Neuroscience Societies (FENS) and Boehringer Ingelheim are delighted to announce the recipient of the Boehringer Ingelheim FENS Research Award 2026: Gioele La Manno.
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Martin Weigert @maweigert.bsky.social · 02/03/2026
Excited to share our new paper (CVPR 2026 🚀): "MuViT: Multi-Resolution Vision Transformers for Learning Across Scales in Microscopy" which enables local predictions to use global context. Great work led by @albertdm.bsky.social & another fun collab w @gioelelamanno.bsky.social! @scadsai.bsky.social
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Albert Dominguez Mantes @albertdm.bsky.social · 02/03/2026
Very happy that MuViT, our (CVPR 2026!) work on learning across spatial scales in microscopy w transformers, is out! Check Martin's thread for a nice walkthrough :) Big thanks to my advisors @maweigert.bsky.social @gioelelamanno.bsky.social! 🖥️: github.com/weigertlab/muvit 📜: arxiv.org/abs/2602.24222
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Omaya Dudin 𓂆 ¦🍉¦🦠¦🔬¦ @dudinlab.bsky.social · 16/10/2025
Wow @gioelelamanno.bsky.social & @giodang.bsky.social
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Giovanni D’Angelo @giodang.bsky.social · 16/10/2025
This is a massive undertaking by a courageous group of experimentalists and computational scientists. I am honored to have contributed to this. #lipidtime chenges time zone today
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VIB.AI @vibai.bsky.social · 16/10/2025
We're very much looking forward to your talk!
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Gonçalo Castelo-Branco @gocastelobranco.bsky.social · 16/10/2025
Fantastic Gioele!
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Claudia Matthaeus @cmatthaeus.bsky.social · 16/10/2025
Wow!
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André Nadler @nadlerlab.bsky.social · 16/10/2025
This is truly great work -and will be a fantastic resource for the community!
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Dr Zeinab Rekad 🔬🧬🧪 @zeinabrekad.bsky.social · 16/10/2025
🎉🎉🎉🎉🎉
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Stein Aerts @steinaerts.bsky.social · 16/10/2025
Amazing work Gioele et al. Your talk about the lipid brain atlas and how it connects within a grand vision, this morning at VIB.ai, was truly spectacular. We were honoured to hear the story on the day of the preprint :)
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lauracapolupo.bsky.social @lauracapolupo.bsky.social · 16/10/2025
Happy to finally see The Lipid Brain Atlas out! Lipids are not boring at all so, check it out! Amazing team effort between computational and experimental work, led by @lucafusarbassini.bsky.social with @gioelelamanno.bsky.social and @giodang.bsky.social labs. Proud to be part of it. Lipids rule!
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Milena Schuhmacher @mschuhmacher.bsky.social · 16/10/2025
Fantastic story! Congratulations to everyone involved!
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VIB.AI @vibai.bsky.social · 16/10/2025
Such a treat to host @gioelelamanno.bsky.social (EPFL) today and be the first to hear more about his lab's latest work, posted just two days ago on bioRxiv. Missed the talk? Here's the preprint: www.biorxiv.org/content/10.1101/202…
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Gioele La Manno @gioelelamanno.bsky.social · 16/10/2025
🧠 The Lipid #Brain Atlas is out now! If you think #lipids are boring and membranes are all the same, prepare to be surprised. Led by @lucafusarbassini.bsky.social with Giovanni D'Angelo's lab, we mapped membrane lipids in the mouse brain at high resolution. www.biorxiv.org/cgi/content/...
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Gioele La Manno @gioelelamanno.bsky.social · 15/10/2025
I am boarding a plane headed to @vibai.bsky.social. Super excited to present the culmination of one of the most exciting projects of recent years, as well as introducing my new vision of an #AI-powered #Brain #Atlas
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Gioele La Manno @gioelelamanno.bsky.social · 04/09/2025
I am deeply honoured to have been recognized by the European Research Council with a #StartingGrant. @erc.europa.eu With this support, my team and I will launch #MOVIOLA. Our goal is to understand how human neural progenitors decide their fate during brain development.
actu.epfl.ch
Two life sciences ERC Starting Grants at EPFL
Milena Schuhmacher and Gioele La Manno at EPFL’s School of Life Sciences have received European Research Council (ERC) Starting Grants. Former EPFL researcher Can Aztekin (now at Max Planck), is also ...
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Nature Methods @natmethods.nature.com · 03/09/2025
uMAIA offers an analytical framework designed to enable construction of high-resolution metabolic atlases using mass spec imaging data. @gioelelamanno.bsky.social www.nature.com/articles/s41...
nature.com
Unified mass imaging maps the lipidome of vertebrate development - Nature Methods
uMAIA is an analytical framework designed to enable the construction of metabolic atlases at high resolution using mass spectrometry imaging data.
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Gioele La Manno @gioelelamanno.bsky.social · 03/09/2025
Excited to share #uMAIA, our method to create 4D lipidomic atlases, now published in @natmethods.nature.com We demonstrate that with uMAIA, the field is ready for atlas-level analyses capable of uncovering histological metabolic heterogeneity in both space and time. [1/2]
nature.com
Unified mass imaging maps the lipidome of vertebrate development - Nature Methods
uMAIA is an analytical framework designed to enable the construction of metabolic atlases at high resolution using mass spectrometry imaging data.
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Ignacio_Rubio-Somoza @ignaciorubiosomoza.bsky.social · 20/08/2025
And he made it again!...tour the force from JIa-Wei´s Wang lab using comparative sc-transcriptomes, and developing new analytical tools, to tackle evolutionary trajectories of plant cell types!. Amazing work as usual! www.cell.com/cell/abstrac...
cell.com
A unified cell atlas of vascular plants reveals cell-type foundational genes and accelerates gene discovery
A cross-species single-cell atlas highlights a core subset of cell-type foundational genes associated with major vascular plant cell types, enabling the identification of hidden cell types and the dev...
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Sten Linnarsson @sten.linnarsson.org · 15/08/2025
A little over two weeks to the deadline! 20 positions, generous startup funding, a great community and fantastic infrastructure. Come join us!
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Gonçalo Castelo-Branco @gocastelobranco.bsky.social · 12/08/2025
Join us at the FENS Single-Cell & Spatial Omics Winter School with: @sarabiz86.bsky.social @rongfan8.bsky.social @gokcegroup.bsky.social @gioelelamanno.bsky.social @sj-marzi.bsky.social @jplopez-atalaya.bsky.social Ana Falcão Florian Rosenberger Gabriel Baró Bosiljka Tasic Barbara Treutlein
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Nature Methods @natmethods.nature.com · 04/08/2025
An analysis shows that current deep learning models do not beat linear baselines in predicting gene perturbation effects, thus emphasizing the importance of further method development and evaluation. @const-ae.bsky.social @wkhuber.bsky.social @s-anders.bsky.social www.nature.com/articles/s41...
nature.com
Deep-learning-based gene perturbation effect prediction does not yet outperform simple linear baselines - Nature Methods
The analysis presented in this Brief Communication shows that, despite their complexity, current deep learning models do not outperform linear baselines in predicting gene perturbation effects, thus e...
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Nicolas Chiaruttini @nkiaru.bsky.social · 24/07/2025
Hey, it's out! doi.org/10.1016/j.ce... Aligning Big Brains and Atlases, ABBA in short, is published in Cell Reports @cp-cellreports.bsky.social . @biancasilvalab.bsky.social's lab added an analysis pipeline on top of it (BraiAn) and did all the relevant biological work. What is it ? Short thread:
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Rita Strack @ritastrack.bsky.social · 16/07/2025
Wowee! Super-resolution stimulated X-ray Raman spectroscopy | Nature share.google/Mdn4Z0ddIy2t...
share.google
Super-resolution stimulated X-ray Raman spectroscopy - Nature
A high-resolution spectroscopic tool is demonstrated using the stochastically fluctuating intensity spikes in time and energy domains of a self-amplified spontaneous emission X-ray free-electron laser...
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Anton Goloborodko @golobor.bsky.social · 15/07/2025
We found a new asymmetry in the large-scale chromosome structure: sister chromatids are systematically shifted by hundreds of kb in the 5′→3′ direction of their inherited strands! The work was led by Flavia Corsi, in close collaboration with the Daniel Gerlich lab. www.biorxiv.org/content/10.1... 1/
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Oded Rechavi @odedrechavi.bsky.social · 14/07/2025
I love the idea of "micropublications" www.micropublication.org (preparing one now)
micropublication.org
microPublication - Get Your Data Out, Be Cited
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DeepLabCut @deeplabcut.bsky.social · 01/07/2025
Super thrilled to give a full day #DeepLabCut Workshop in Okinawa today! We had a packed house and everyone got models trained 🚀 - even then used #CEBRA 🦓 and/or #DLC2Action on the outputs! Thank you #OIST for hosting us!! 🥳
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Waggoner Lab @labwaggoner.bsky.social · 30/06/2025
A major step forward in organoid technology–producing liver tissue that grows its own internal blood vessels #TakebeLab @cincyresearch.bsky.social @natbiomedeng.nature.com scienceblog.cincinnatichildrens.org/liver-organo... www.nature.com/articles/s41...
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Anshul Kundaje @anshulkundaje.bsky.social · 28/06/2025
There is absolutely no reason to think that such models are actually learning biology. So maximizing the perturbation prediction objective does not necessarily result in a "virtual cell". 3/
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Sten Linnarsson @sten.linnarsson.org · 25/06/2025
A major KI initiative to recruit new assistant professors with outstanding proposals in all areas of medicine, biomedicine and public health. We offer an amazing research environment, great colleagues and generous startup packages. Check it out and get working on your applications! (repost please!)
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Marc Robinson-Rechavi @marcrr.bsky.social · 24/06/2025
Call from 6 Swiss Fields Medal laureates to preserve science funding science-under-threat.com
science-under-threat.com
Swiss Science Under Threat
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BWJones @bwjones.bsky.social · 08/06/2025
Almost all Nobel Prizes are awarded for work that is exploratory, or absolutely basic science with no obvious commercial or medical benefit. You cannot predict where advancements come from, so you have to invest in science and scientists. Targeted (corporate) science investment will never do this.
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Gioele La Manno @gioelelamanno.bsky.social · 07/06/2025
Check out our Spotiflow to accurately identify any spot-like objects (and more)! First output of an amazing colaboration experience with @maweigert.bsky.social
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Albert Dominguez Mantes @albertdm.bsky.social · 06/06/2025
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)
rdcu.be
Spotiflow: accurate and efficient spot detection for fluorescence microscopy with deep stereographic flow regression
Nature Methods - Spotiflow uses deep learning for subpixel-accurate spot detection in diverse 2D and 3D images. The improved accuracy offered by Spotiflow enables improved biological insights in...
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Martin Weigert @maweigert.bsky.social · 06/06/2025
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
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Eric Kernfeld @ekernf01.bsky.social · 05/06/2025
Another case showing we must be wary of Gell-Mann amnesia in evaluating molecular bio applications of AI. rachel.fast.ai/posts/2025-0...
rachel.fast.ai
Rachel Thomas, PhD - Deep learning gets the glory, deep fact checking gets ignored
an AI researcher going back to school for immunology
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Ana Marija Jakšić @merianelion.bsky.social · 17/05/2025
The special thing about US labs and science was the huge amount of funding available for labs, top-notch infrastructure, & lab work culture. The scientists themselves came from a global pool, incl. Europe. Bringing the best scientists from US to the comparatively underfunded European academic…1/n
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Ana Marija Jakšić @merianelion.bsky.social · 15/05/2025
I’ve just spent a few days in Barcelona and the ALBA #synchrotron, where I’ve been imaging, studying and admiring complex structures of many sorts. I haven’t been this excited about a project in a very very long time! 🤩 🧠 🪰🔬🧪 #neuroskyence
Selfie of a woman with glasses in front of sagrada familia basilica in BarcelonaSelfie of a woman with glasses in rainbow-colored sweater in front of a complex machine in the synchrotron facility Selfie of a woman with glasses in front of a complex machine in the synchrotron facility
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Richard McElreath 🐈‍⬛ @rmcelreath.bsky.social · 13/05/2025
Since we are still talking about interactions, I worked with some ecologists a couple of years ago on measurement scale, interactions and interpretation issues. I think some problems arise from failure to distinguish prediction from inference, a chronic problem in ecology imo doi.org/10.1111/brv....
Three common inferential errors when investigating context dependence in ecology. Consider a test of context dependence in its most basic form: a 2 × 2 factorial experiment, measuring an ecological response Y, to the crossing of factors X and Z, each with two levels. The analyst fits a statistical model with an interaction term to the data: Y ~ X + Z + X × Z, to test for and quantify context dependence. Three inferential errors are possible when the measurement scale or symmetry of the interaction are overlooked: detection and magnitude (Type D), sign (Type S) and misidentification of underlying processes (Type A).
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EpiGN - Fides Zenk Lab @epign.bsky.social · 05/05/2025
🧠 Few spots left! Join us at Neuromics Approaches in Development and Disease, June 24–25 @EPFL. @graeffjohannes.bsky.social @gioelelamanno.bsky.social @sebastianwaszak.bsky.social ⏳ Register by May 31! 👉 www.epfl.ch/schools/sv/b... #BMISymposium2025 #Neuroscience #Genomics #EPFL
epfl.ch
Brain Mind Institute Symposium – June 2025
BMI
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Gioele La Manno @gioelelamanno.bsky.social · 05/05/2025
Join us this summer for the Neuromics Symposium, a truly exciting international lineup. Only few spots left!
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Camp Lab @graycamplab.bsky.social · 28/04/2025
It was fun to learn about blood vessel organoids together with @marinanikolova.bsky.social and Barbara Treutlein! Thanks to Reiner Wimmer and @penningerlab.bsky.social for introducing us to this system! www.cell.com/cell/fulltex... Great support from editors and reviewers @cellpress.bsky.social!
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Anshul Kundaje @anshulkundaje.bsky.social · 20/04/2025
The common argument is that we are the "GPT2" stage of these models. If so maybe we shouldn't pretend they are GPT10 stage in the papers & social media posts. Honest, self-critical accounts of science in papers & scicomm is essential for rapid progress.
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Dan Diamond @ddiamond.bsky.social · 28/03/2025
As a candidate last year, Trump promised “to unleash the power of American innovation” to super-charge U.S. scientific research.
 He’s instead unleashed cuts and chaos, researchers and scientists warn. Our look at the abrupt changes — and the consequences. With @dtkeating.bsky.social
washingtonpost.com
Trump promised scientific breakthroughs. Researchers say he’s breaking science.
NIH funding for biomedical research has abruptly fallen by billions of dollars, with many grant decisions on hold. Trump officials say they’re reviewing the agency.
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Nikolai Slavov @slavov-n.bsky.social · 01/02/2025
The success of LLMs has inspired their extension to genomics data. A preprints reports that such models lack understanding of genomics and provide minimal utility, even for basic tasks such as sequence classification. www.biorxiv.org/content/10.1...
biorxiv.org
Genomic Foundationless Models: Pretraining Does Not Promise Performance
The success of Large Language Models has inspired the development of Genomic Foundation Models (GFMs) through similar pretraining techniques. However, the relationship between pretraining performance ...
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Mike White @genologos.bsky.social · 17/01/2025
"Simulate, Don't Label": My WashU colleagues have put out a new spatial omics tool that automatically maps anatomical regions samples. Cool example of training a model with synthetic data inspired by biophysics. www.biorxiv.org/content/10.1...
biorxiv.org
Biophysical Simulation Enables Multi-Scale Segmentation and Atlas Mapping for Top-Down Spatial Omics of the Nervous System
Spatial omics (SO) has produced high-definition mapping of subcellular molecules (like transcripts or proteins) within tissue samples. Mapping transcripts to anatomical regions requires segmentation, ...
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Vadim Demichev @vadim-demichev.bsky.social · 16/01/2025
Yes, a couple of billion per year, out of which only 1/3rd goes to life science, is a very low figure Europe-wise. Compare to NIH's 47 billion... Of course there's a lot of country-specific funding, but I would love to see European funding for biomedical research match that in US.
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