Will you be at COSYNE 2026? Come see us at the Neuromatch booth
We're excited for #COSYNE2026 in Lisbon, Portugal, 12–17 March!
We’re looking forward to connecting with the community and sharing our work at @cosynemeeting.bsky.social. If you’re attending, let’s meet and continue building an open, collaborative #CompNeuro ecosystem.
www.cosyne.org
First whole-brain recording of social sound processing in a vertebrate. Surprises start in the hindbrain; thalamus gates conspecific calls; male and female brains diverge downstream. Work by @joerghenninger.bsky.social, @mh123.bsky.social sky.social and team. www.biorxiv.org/content/10.6...
It was bad when I thought a human had okayed it and it’s bad now that it looks like an AI did, bc this is EXACTLY why they wanted that thing - so that when people call them monsters for bombing a school full of little girls, they can say “computer glitch, wasn’t our fault, you can’t call us that”
Two-photon calcium imaging at 24,000 lines/s, with the resonant axis spanning 4x what other systems can do. Inertia-free. Diffraction-limited. No tradeoffs. Che-Hang Yu developed a 4x angle multiplier for laser scanning. His paper is out today: opg.optica.org/optica/fullt... 1/n #fluorescenceFriday
Are you working at the interface of #neuroscience and ML/AI? Share your research at Janelia in Nov! 🧠 🤖 janelia.news/NAI26
Years ago I registered glue [dot] wiki because of the sheer quantity of contextual knowledge surrounding glue in research that literally has no venue or medium of knowledge transfer
Thrilled that my paper is out in the @nature.com. We explored how the brain builds complex tasks by compositionally combining simpler sub-task representations. The brain flexibly performs multiple tasks by dynamically reusing neural subspaces for sensory inputs and motor actions
rdcu.be/eRVUk
5) Code is available at github.com/mouseland/su.... Thanks also to contributions from Chris Ki, Nicholas Del Grosso, @lafosse.bsky.social , and @qqzhang.bsky.social ! 🔥💻 pip install suite2p --upgrade 💻🔥
Suite2p GUI features including correlation visualization, automated ROI merging, motion-correction movie viewing, registration metrics, and Rastermap visualization of neural activity
4) Suite2p has a GUI with many visualizations and tools - we recommend starting there to run the algorithm and explore the data.
ROI detection. a, Frames are binned in time (left) and then high-pass filtered in space and time (right). b, Time-averaged thresholded activity from convolved square templates of different sizes. c, Initialization of new ROI with best fitting square template from b. d, Initial time trace corresponding to the dot product of the template in c with each movie frame. e, Iterative template refinement for four example ROIs. f, Example region with many cells detected and their spatial overlaps (top left), temporal overlaps (top right) and active frames crossing the threshold (bottom). g, Detected ROIs divided by the sizes of their initial square templates.
3) We developed an ROI detection algorithm which implements matrix decomposition with L0-sparsity constraints in both space and time.
a, Reference image is computed by iterative re-alignment of a random subset of frames. b, Rigid motion offsets are computed by correlation of whitened reference and frame, i.e. phase correlation. c, Calculated X/Y rigid motion offsets. d, Non-rigid motion offsets computed by dividing image into overlapping blocks, computing phase correlation in each block, smoothing across blocks, taking the optimal shifts per block and upsampling them via bilinear interpolation. e, Timing as a function of number of frames in recording - Hz estimated from slope
2) Motion correction is very important in recordings of awake, behaving animals. We perform *fast* non-rigid motion correction (170 frames per sec).
Suite2p pipeline. a, Example volume imaging data. b, X/Y motion correction (left: before, right: after). c, ROI detection (left) and trace extraction with neuropil extraction based on surrounding pixels (right). d, Classification of ROIs into somatic and non-somatic (i.e. dendrites and other neuropil). e, The graphical user interface (GUI) can be used for manual curation and results visualization. f, Multi-plane recording of over 100,000 neurons using a standard Thorlabs Bergamo2 scope (see Methods for exact configuration). Somatic ROIs for example plane shown in different colors. g, Neural activity raster from recording in f, with neurons sorted by Rastermap, colored by the corridor that the mouse is in
1) Suite2p is a complete pipeline for processing large optical recordings of neurons, including motion correction, ROI detection, classification, and manual curation.
🔬🧠 Releasing the 1.0 version of #Suite2p and THE PAPER w/ @marius10p.bsky.social! Now with GPU acceleration. Want to use Suite2p but don’t have 100,000 neuron recordings? We show you how to get those with a standard 2p microscope #neuroscience #imaging #neuroAI www.biorxiv.org/content/10.6...
President Mandela said, "there can be no keener revelation of a society's soul than the way in which it treats its children."
$1.65M per day in DC alone. That’s approximately two NIH R01 Grant *years* burned per day. Ninety *five year* R01s projects burned in the last seven months with no end in sight.
Instead of lasting scientific advance we get….what?
Civil rights violations and authoritarian replacement of democracy.
🚨 new work from the lab on how eye movements 👀 versus orofacial movements influence 🐭 visual cortex activity 🧠 #neuroscience #behavior #neuroAI
Excited to share “Orofacial behaviors, not eye movements, govern neural activity in mouse visual cortex”
www.biorxiv.org/content/10.6...
Summary below...
the Epstein files are really devastating because they remind me of how many girls and women miss out on professional opportunities, mentorship and careers because of how many powerful, rich and influential men only view girls and women — and interactions with them — through the lens of sex
Viral labeling of projection neurons in the mouse brain with green fluorescence protein
For #FluorescenceFriday - experiment was apparently a stereotaxic injection "miss", but resulted in a lovely image nevertheless. Credit to @rphillips3.bsky.social and JHU undergrad Natalia Gonzalez-Perez 🧠🔬🧪
Fluorescent microscopy image showing bright red neurons
Some #FluorescenceFriday content for you - check out these anterior cingulate cortex neurons that project to the superior colliculus. Image by @izzabellagreen.bsky.social 🧠
A favorite recent image of some busy microglia, lovingly named the Rat King (yellow CD68, pink Iba1, blue DAPI) for my first #FluorescenceFriday
A glittery, festive #FluorescenceFriday today, spent playing with some fun samples 🪩🕺
Dimensionality reduction may be the wrong approach to understanding neural representations. Our new paper shows that across human visual cortex, dimensionality is unbounded and scales with dataset size—we show this across nearly four orders of magnitude. journals.plos.org/ploscompbiol...
Amazing talk by my dear colleague and friend @albertdm.bsky.social and his supervisor @maweigert.bsky.social showing the cool things you can do with Spotiflow at #CBIAS2025. Look at this beautiful learned spot detection in 3D! 👩🏻💻👩🏻💻🔬 #bioimageanalysis #spotdetection
#SfN2025 Qingqing is presenting this work on spatial predictive coding NOW at poster Q9!
#sfn2025 interested in how eye movements 👀 versus orofacial movements influence 🐭 visual cortex activity 🧠? Check out poster R8 by @atika-syeda.bsky.social NOW!
Still at SfN on the last day? During the morning session on the 19th, 8:00AM - 12:00PM, come check out our posters from the Moser, Zong, and Gonzalo Cogno groups in row QQ ('Grid cells and spatially modulated cells'). Ephys, imaging, remapping, development, sweeps and more! 🧠
Detailed thread below 👇
Happening now! Come see Jorge Ramirez present our recent work showing that Purkinje cell nonlinear mixed selectivity facilitates flexible readouts of locomotor coordination 🐭 🧠🚶♂️ #SfN25 Board W6
Watching this literal magic tech take shape has been one of my favorite parts of being in this group - a plausible path to real actual naturalistic life-scale experiments.
#SfN2025
Good morning #SfN. Want to chat about chronic Neuropixels or tracking? Find me today at the #Neuropixels booth (3731) from 11 to 12! And if you're still around tomorrow afternoon, come talk about distributed coding in navigation at my poster tomorrow afternoon (RR16).
