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/

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...

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

When it comes to blood flow in the brain, not all neurons are created equal. Rather, only a subset of neurons may be driving vascular changes, a new study finds. By @claudia-lopez.bsky.social #neuroskyence www.thetransmitter.org/neurovascula...

Arousal neuron activity explains brain blood flow in mice

The findings could impact how researchers interpret signals from techniques that use blood flow as a surrogate for neural activity.

thetransmitter.org

Major effort from Samuel and the rest of the authors! Looking forward to seeing these strategies available and applied in future fUSI papers :)

Samuel Le Meur-Diebolt@sdiebolt.bsky.social · 4mo ago

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

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...

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

🚨 New paper alert: fUS and free exploration 🚨 Happy to share this end-of-year publication ("A vascular code for speed in the spatial navigation system") just out in Cell Reports a few days ago. Functional ultrasound imaging in rats during free exploration! 1/10 Full paper: tiny.cc/a48x001

A vascular code for speed in the spatial navigation system

During free exploration, cerebral blood volume in the entorhinal-hippocampal navigation system closely tracked locomotion speed, revealing hierarchical thalamic-to-hippocampal flow and exposing a vasc...

tiny.cc

⚠️ New paper alert and what a way to end 2025! 🎉 Happy to share our story “Sleep-dependent infraslow rhythms are evolutionarily conserved across reptiles and mammals.” published today in Nature Neuroscience. Sleeping dragons 🦎 and functional ultrasound! Read the full paper here: rdcu.be/eWJHb 1/8

Sleep-dependent infraslow rhythms are evolutionarily conserved across reptiles and mammals

Nature Neuroscience - Bergel et al. show that an infraslow rhythm connecting the brain and body during sleep is shared by lizards, mammals and birds, revealing an ancestral process and reshaping...

rdcu.be

“Leave the lab! Escape the ivory tower!” they said. Hold our EEGs! @dreamteamicm.bsky.social is teaming up with Alexia Barrier and The Famous Project, the first all-female crew racing the Trophée Jules Verne! We’ll track their brain activity across 40 days at sea! @institutducerveau.bsky.social

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

🚨𝗛𝗼𝘁 𝗳𝗿𝗼𝗺 𝘁𝗵𝗲 𝗽𝗿𝗲𝘀𝘀 – 𝗠𝗮𝗷𝗼𝗿 𝗯𝗿𝗲𝗮𝗸𝘁𝗵𝗿𝗼𝘂𝗴𝗵 𝗶𝗻 𝗺𝗲𝗱𝗶𝗰𝗮𝗹 𝗶𝗺𝗮𝗴𝗶𝗻𝗴 𝗷𝘂𝘀𝘁 𝗽𝘂𝗯𝗹𝗶𝘀𝗵𝗲𝗱 𝗶𝗻 𝗡𝗮𝘁𝘂𝗿𝗲 𝗖𝗼𝗺𝗺𝘂𝗻𝗶𝗰𝗮𝘁𝗶𝗼𝗻𝘀! For the first time, whole-organ blood flow dynamics can be mapped at micrometric resolution using an ultrasound multi-lens probe. 🔗 Find out more: physicsformedicine.espci.fr/major-breakt...

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...

Our didactic review on machine learning for causal inference, now open access: • identifiability (theory of when the data can answer a causal question) • machine-learning estimators • study design (asking well-framed questions + loopholes, eg with timewise data) www.annualreviews.org/content/jour...

🚨 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.

bioRxiv Neuroscience@biorxiv-neursci.bsky.social · last yr.

Speed Vascular Patterns in the Spatial Navigation System https://www.biorxiv.org/content/10.1101/2025.07.15.663536v1

We need your help!!! 🧠🧪💤 If you are human, you fall asleep at least once a day! What happens in your mind then? Scientists know actually very little about this private moment. We propose a 20-min survey to get as much data as possible! Here is the link: redcap.link/DriftingMinds

Enormous amount of work put into it by @sdiebolt.bsky.social! Glad to be part of it :)

Samuel Le Meur-Diebolt@sdiebolt.bsky.social · last yr.

🚨 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...

🚨 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...

An Analysis of 200 pairwise statistics for functional brain connectivity in tasks such as hub mapping, distance relationships, structure-function coupling and behavior prediction highlights their effectiveness for neurophysiological applications. www.nature.com/articles/s41...

Benchmarking methods for mapping functional connectivity in the brain - Nature Methods

In this Analysis, Liu et al. benchmark more than 200 pairwise statistics for functional brain connectivity in tasks such as hub mapping, distance relationships, structure–function coupling and behavio...

nature.com

#fUSbrain DAYS 2025 | Last call for registration! Registrations will close on May 31st! Don't miss your chance to join us on June 19&20 in Paris, for two days dedicated to functional ultrasound neuroimaging! 👉 Check the detailed program and register here www.physicsformedicine.espci.fr/fusbrain2025

🎓 My lab has 2 PhD positions with @cimecunitrento.bsky.social 1️⃣ 🧠 Watch the 🐭 brain in motion, with functional ultrasound imaging (fUSI) 2️⃣🧪 Mess with the 🐭 brain (experimentally) via causal perturbations + imaging 🔬 Neuro/physics/bioengeneering backgrounds welcome 👉Info ▶️https://lnkd.in/dDeTTDj2

Illustration done for the first publication of my colleague Nicolas Zucker. He managed to measure heart and breathing rate by monitoring tissue motion in the brain using ultrasound, what a crazy idea ! #sciart 🐡 #scicomm 🧪 #neuroscience 🧠🫀🫁🤯

Mickael Tanter@mickaeltanter.bsky.social · last yr.

New publication on fUS Imaging by our PHD student Nicolas Zucker in eBioMedicine « Physio-fUS: a tissue-motion based method for heart and breathing rate assessment in neurofunctional ultrasound imaging » www.thelancet.com/journals/ebi...

Hey fUSI users. As you were well aware, the next meeting on fUSI-BIDS, our soon to be data sharing standard, is happening next week 12/02 4pm CET. Please join us (details in the doc docs.google.com/document/d/1...) to discuss bidsification, metadata and share your opinion before your data 😉

fUS-BIDS extension proposal v0.0.9

BIDS Extension Proposal 40 (BEP040): fUS-BIDS version 0.0.10 Available under the CC-BY 4.0 International license. Extension moderators/leads: Jean-Charles Mariani <jean-charles.mariani@cri-paris.org>,...

docs.google.com

Join us at fUSbrain #DAYS, a workshop on ultrasound neuroimaging, in 19-20/06/2025 in Paris. Submit your abstract on www.physicsformedicine.espci.fr/fusbrain2025 Organized by PhysMedParis, with the support of Iconeus. @inserm.fr @espciparispsl.bsky.social @psl-univ.bsky.social @cnrs.bsky.social

Félicitations à @mickaeltanter.bsky.social, élu à l' @academiesciences.bsky.social ! cc @physmedparis.bsky.social academie-sciences.prod.aa-testing.tech/sites/defaul... #ESPCIPhD

Our preprint of my PhD’s work in @gisellavetere.bsky.social lab is finally out on BiorXiv: doi.org/10.1101/2024..., and I’m so excited to share it! If you’ve ever wondered about reconciling engram manipulation experiments and neuronal activity during encoding, you’re on the right thread! 1/14

Deconstruction of a memory engram reveals distinct ensembles recruited at learning

How are associative memories formed? Which cells represent a memory, and when are they engaged? By visualizing and tagging cells based on their calcium influx with unparalleled temporal precision, we ...

doi.org