If you love imaging metadata, do I have something for you -- Search, organize, aggregate and share image data with BioFile Finder (BFF) | Nature Methods share.google/9UxsAcpaWhbu...
3/11
Early olfactory circuits may organize odor information along behaviorally relevant dimensions.
To test this in zebrafish larvae, we used pan-neuronal CaMPARI2 to map odorant-evoked activity in freely swimming larvae across a broad spectrum of odorants.
Excited to share our first red ACh sensor! 🔴
We developed GRAB_rACh1h, the first genetically encoded red fluorescent sensor for recording acetylcholine dynamics in vivo. (1/3)
Cleve Moler, #mathematician, cofounder of #MathWorks, and creator of #MATLAB, has died at 86. And I fully agree: Say what you will about MATLAB, but its impact on #ScientificComputing is undeniable. As a student, I felt almost rebellious when I started coding in MATLAB instead of #Fortran 🤘
datashuttle is now published in JOSS!
A tool to automate the creation, validation & transfer of standardised neuroscience project folders — GUI or Python API.
The GUI works on all operating systems, even remotely via SSH!
More details: datashuttle.neuroinformatics.dev
#neuroscience #openscience
so I just realized I forgot to #skeetprint my Contactomes paper... (is that what we're calling it?)
www.biorxiv.org/content/10.6...
@kordinglab.bsky.social @dacolon.bsky.social smithneurallab.weebly.com @jhuapl.bsky.social
#academicsky #preprint #neuroscience
New from the lab: Fred Stoll & Neelima Valluru looked at how neural activity in frontal ctx tracks deliberative decision making. In a trial they found that activity flips between the options. When this flip happens it reshapes the neural geometry of option attributes. www.biorxiv.org/content/10.6...
This is the kind of things PhD student Louis can do with @ekatrukha.bsky.social's CurveMorph: following protein movement whithin growing axons in his stunning 80-hour movies
Nature Methods - Search, organize, aggregate and share image data with BioFile Finder (BFF)
How far are biologically-plausible local learning rules from backpropagation (BP)?
In our new ICML paper we look at local self-supervised learning and find how to better align its gradients to BP.
We achieve competitive performance on various datasets!
new paper, #NeuroAI 📣📜
Can measured cortical organization be used as an inductive bias for artificial recurrent neural networks?
In this work, we ask whether cortical geometry, wiring, and function can push RNNs learn.
Not as metaphor, but as measurable structure!
1/n🧵👇
arxiv.org/abs/2606.14975
Decision-making involves dynamic evaluation of competing options. Recording 16,495 neurons across nine frontal and subcortical areas in macaques revealed brain-wide fluctuations between encoding the a...
How the wiring and functional organization of cortex shape recurrent computation remains a central question in both neuroscience and machine learning. Here, we leverage data released through the Machi...
arxiv.org
Fabrizio Musacchio
SWC/GCNU Neuroinformatics Unit
Rudebeck Lab
jordan jordan jordan
Christophe 🔬 Leterrier
Video
Video
GerstnerLab
Nima Dehghani
We were struggling with wiggling neurites on our long term imaging data and the poor existing plugins to deal with them, until I thought "let's ask Eugene about it". Lo and behold, he just made the perfect plugin for dynamic kymograph generation!
Christophe 🔬 Leterrier
Just published in JOSS: 'datashuttle: automated data management for experimental neuroscience' https://doi.org/10.21105/joss.09642
People like to dunk on MATLAB now, but it’s hard to overstate how large an advance it was at the time and the impact it has had on scientific computing. RIP Cleve Moler www.nytimes.com/2026/06/11/s...
Can we match self-supervised backpropagation using local learning rules? We show it is possible in our new paper accepted by ICML. We achieve:
1. theoretical equivalence to BP in a controlled setup
2. new SOTA for local learning across image datasets
3. same performance as BP on multiple datasets
With a motivating push from @christlet.bsky.social I made a new Fiji plugin, CurveMorph. The idea was to create a tool for kymograph generation along the dynamic (bending/shaking) filament shapes (microtubules, cilia, neurites, etc).
The logo was made using the plugin.
github.com/UU-cellbiolo...
