Pyramidal cells in the cortex send a long apical dendrite to layer 1. What is its role? What happens when it's gone? ✂️ A causal spatial role for apical dendrites in the cortex Out today with @kenneth-harris.bsky.social, @carandinilab.net and @fedrossi.bsky.social www.biorxiv.org/content/10.6...

A causal spatial role for apical dendrites in the cortex

Cortical pyramidal neurons project a long apical dendrite to layer 1 (L1), to receive synaptic inputs that are thought to provide contextual and possibly suppressive modulation. In visual cortex, thes...

biorxiv.org

Hello, #fUSI users! We’re running a poll to rename the structural ultrasound imaging datatype in the fUSI-BIDS specification so it better reflects uses beyond angiography (e.g., including B-mode imaging). Join the fUSI Discord and share your opinion: discord.gg/5HFTcukKFt

Hi co-activation patterns people! I've been playing around with CAPs recently and wanted to sanity-check something. My understanding is that CAP vs. anti-CAP is usually interpreted not as "activation vs. no activation", but as two opposing configurations (two poles of the same fluctuation).

napari is such an incredible piece of scientific software! 🚀 And it's not just for visualizing static data. I've been using it for the past 6 months to drive a @verasonicsinc.bsky.social ultrasound system for #fUSI, and get a nice GUI for sequence control and live visualization! 🤩

napari@napari.org · 3w ago

napari 0.8.0 is out now on PyPI, conda-forge, and as a standalone bundle! napari.org/stable/

Struggling for something to do in a TWO DAY gap without ⚽? How about trying our pre-release of napari 0.8.0? napari.org/dev/release/... Of note, this release drops Py3.10 support and deprecates PyQt5 in favor of PyQt6. It also adds some neat new features and improvements! See below: 👇

Remember folks: you can ship some of the most advanced LLMs on Earth, but choosing distinguishable colors for a plot remains an open research problem. openai.com/index/previe...

Losing one side of Superior Colliculus is bad, but losing both sides seems fine. Wait, what? Flora & team discovered why: both sides press for contra actions and against inaction, obeying an incredibly simple additive rule. Out today in bioRxiv: www.biorxiv.org/cgi/content/...

Interesting article on something I think is very relevant to open science: several teams analyzed the same ephys dataset and got quite different answers. Not because the analyses were bad, but because this kind of work involves many analysis choices, and those choices can change the result.

The Transmitter @thetransmitter.bsky.social · 2mo ago

Differences stemmed from the way researchers defined concepts, to the algorithms they used to analyze the data, to the parameters they employed when implementing the algorithms, note @mattiachini.bsky.social and Gaelle Chapuis. #neuroskyence www.thetransmitter.org/reproducibil...

⚠️ One week left to apply to our postdoc opening at the Paris Brain Institute ! If you have a background in neuroscience 🧠 , looking for a vibrant interdisciplinary environment in the heart of Paris, come join us !! All details below ⬇️ ⬇️.

Antoine Bergel@antbergel.bsky.social · 4mo ago

⚠️ Postdoc Opportunity in System Neuroscience at the Paris Brain Institute ⚠️ Feel passionate about neuroscience and sleep 🧠? Want to learn cutting-edge techniques 🔬 to answer exciting basic science questions? Want to work in a multidisciplinary environment at the heart of Paris 🏨? Come join us !

How does blood flow relate to brain activity? We discovered that it reflects two neural populations affected oppositely by arousal. Together, they explain neurovascular coupling in all brain regions and brain states! Out today in Nature: rdcu.be/fdC2A @uclbrainscience.bsky.social

Want to explore connectivity & projection patterns yourself, like we do here? We released brain_street_view to let you pick any injection site in the Allen Connectivity Atlas and visualize where it projects in your favorite region of interest: github.com/Julie-Fabre/brain_street_view

Julie Fabre@juliefabre.bsky.social · 4mo ago

How do the basal ganglia turn what you see into what you do? New preprint w/ @kenneth-harris.bsky.social, @flickerfusion.bsky.social & @carandinilab.net: we recorded across striatum, GPe & SNr in a Go/NoGo task. Striatum encodes which stimulus, GPe & SNr encode action. 🧵 biorxiv.org/content/10.6...

1/8. New preprint! Using fUSi in head-fixed mice🐭, we found that arousal events trigger a brain-wide wave of activity 🌊🧠. Surprisingly, this pattern was preserved during opto manipulations of the locus coeruleus, pointing to a minor role for noradrenergic tone. www.biorxiv.org/content/10.6...

New paper out 🎉 Awake fUSI is powerful, but motion can strongly bias the data, even in head-fixed experiments. In this paper, we tried to systematically characterize those artifacts, benchmark denoising strategies, and turn that into practical recommendations for awake fUSI of mouse brains. 1/12

Imaging Neuroscience@imagingneurosci.bsky.social · 4mo ago

New paper in Imaging Neuroscience by Samuel Le Meur-Diebolt, Thomas Deffieux, et al: Robust functional ultrasound imaging in the awake and behaving brain: A systematic framework for motion artifact removal doi.org/10.1162/IMAG...

⚠️ Postdoc Opportunity in System Neuroscience at the Paris Brain Institute ⚠️ Feel passionate about neuroscience and sleep 🧠? Want to learn cutting-edge techniques 🔬 to answer exciting basic science questions? Want to work in a multidisciplinary environment at the heart of Paris 🏨? Come join us !

We have three neuroscience research software engineering jobs available at @sainsburywellcome.bsky.social, two joint with the Advanced Microscopy Facility. All positions start ASAP, funded until Sept 2028 in the first instance. Salary £54-64k. More details: neuroinformatics.dev/get-involved

Next #fUSI - #BIDS meeting is coming up! 🧠 📅 March 19, 5PM CET 🎯 Solving remaining spec remarks & moving toward official maintenance. Newcomers welcome! 🚀 Planning to BIDSify your data? Join us, we’re here to answer your questions. Details on the GDoc: docs.google.com/document/d/1...

fUSI-BIDS extension proposal v0.0.12

BIDS Extension Proposal 40 (BEP040): fUSI-BIDS version 0.0.12.dev Available under the CC-BY 4.0 International license. Extension moderators/leads: Jean-Charles Mariani <jean-charles.mariani@cri-paris...

docs.google.com

𝗞𝗶𝗰𝗸𝗶𝗻𝗴 𝗼𝗳𝗳 𝟮𝟬𝟮𝟲 𝘄𝗶𝘁𝗵 𝗮 𝗻𝗲𝘄 𝗽𝘂𝗯𝗹𝗶𝗰𝗮𝘁𝗶𝗼𝗻 𝗶𝗻 𝗖𝗲𝗹𝗹 𝗥𝗲𝗽𝗼𝗿𝘁𝘀 @felipecybis.bsky.social, postdoct in our lab, is the first author of the study "A vascular code for speed in the spatial navigation system", now published in Cell Reports: doi.org/10.1016/j.celrep.2025.116791 #Ultrasound #fUS #Research

Long-awaited #fUSI - #BIDS meeting scheduled! 🧠 📅 Nov 27, 5PM Paris time 🎯 Finalizing BEP for BIDS maintainer discussions Implemented fUSI-BIDS or planning to? We need your input to strengthen the spec. Join us! Details on the specification GDoc (docs.google.com/document/d/1...)

fUSI-BIDS extension proposal v0.0.11

BIDS Extension Proposal 40 (BEP040): fUSI-BIDS version 0.0.11 Available under the CC-BY 4.0 International license. Extension moderators/leads: Jean-Charles Mariani <jean-charles.mariani@cri-paris.org...

docs.google.com

Thrilled to share that our work is now published in Science! ✨ We found a preference for visual objects in the mouse spatial navigation system where they dynamically refine head-direction coding. In short, objects boost our inner compass! 🧭 www.science.org/doi/10.1126/... 🧵1/

Nicolas Zucker, PhD student at @physmedparis.bsky.social was featured last Friday on "Les chantiers de la recherche" @radiofrance.fr, where he presented his work on functional ultrasound microscopy (fULM). 🎙️🧠 Podcast available here 👉 www.radiofrance.fr/francecultur...

Parkinson, Alzheimer : l’imagerie médicale peut-elle nous aider à lutter contre les maladies cérébrales ?

Les progrès dans le domaine de l'imagerie médicale sont essentiels pour la médecine : en concevant des technologies de pointe pour mieux documenter le fonctionnement du cerveau, les scientifiques ouvr...

radiofrance.fr

This looks pretty cool: ultrasound can now see through the skull! 🧠🔊 The skull has long been a barrier to ultrasound. This reprint shows how to make it quickly transparent → enabling full-depth, high-res fUSI in mice (& humans! 🤯🤯) Huge congrats to the authors!!! www.biorxiv.org/content/10.1...

Today is the first day of the Neuroinformatics Unit Open Software Week, bringing together researchers from around the world for a week of training and collaborating on open source neuroscience software. First day is a Python programming workshop. neuroinformatics.dev/open-softwar... #niu_osw

ty is incredible for diagnostics AND as a language server! Orders of magnitude faster than Pyright and will eventually replace it. Still need Pyright for on-hover info for now, but we're moving toward a complete Astral-backed Python environment! ⚡

Charlie Marsh@crmarsh.com · last yr.

Today, we’re announcing the preview release of ty, an extremely fast type checker and language server for Python, written in Rust. In early testing, it's 10x, 50x, even 100x faster than existing type checkers. (We've seen >600x speed-ups over Mypy in some real-world projects.)

I still get chills Meet Mike *30+ years severe depression *first hospitalized @ 13y *20 meds *3 rounds of ECT *2 near-fatal suicide attempts Mike felt joy for the first time in decades after we turned on his new brain pacemaker or PACE see videos, read paper, follow thread doi.org/10.31234/osf...

A must read for anyone interested in studying spatial navigation with #fUSI! 🧠🗺️ @felipecybis.bsky.social really opened up new possibilities with this one!👇

Felipe Cybis Pereira@felipecybis.bsky.social · last yr.

🚨 Preprint alert 🚨 The main results of my PhD are online and I only now could find some time to post about it! We explored the neurovascular activations of spatial navigation by using functional ultrasound imaging (fUSI) in freely moving rats during open field.

Drumroll... The SPM team will announce that SPM is now fully accessible from Python! 🐍 Learn more about SPM-Python at the SPM roundtable event (Friday, 1pm) and poster number 1841 at #OHBM2025. Try the beta for yourself at github.com/spm/spm-python [2/7]

GitHub - spm/spm-python: The Python interface to SPM

The Python interface to SPM. Contribute to spm/spm-python development by creating an account on GitHub.

github.com

New paper in Imaging Neuroscience by Théo Lambert, Alan Urban, et al: Functional ultrasound imaging and neuronal activity: How accurate is the spatiotemporal match? doi.org/10.1162/IMAG...

🧠✨ Amazing #fUSbrainDAYS2025 conference! Thanks to the organizers for bringing together the fUSI community. Poll results (53 participants): 🏝️ Corsica vs Paris: 41 vs 11 🔬 fUSi vs fUS: 33 vs 14 Looks like we're heading to Corsica next year, and embracing #fUSI!

Benchmarking methods for mapping functional connectivity in the brain | doi.org/10.1038/s415... What is the best measure of functional connectivity (FC)? led by @zhenqi.bsky.social in @natmethods.nature.com ⤵️

🚨 New preprint alert! We benchmarked 792 denoising pipelines for #fUSI in awake mice 🐭🧠 Our results show how they reduce motion artifacts and impact seed-based connectivity analyses. Check it out on @biorxivpreprint.bsky.social 👇 🔗 www.biorxiv.org/content/10.1...