#ephys — Public Fediverse posts

"Phase-specific premotor inhibition modulates leech rhythmic motor output", Martina Radice et al. 2025
https://elifesciences.org/reviewed-preprints/104921

#neuroscience #leech #ephys #motoneurons

#Tetrode recordings (in a bundle): did you know that you could record the same neuron on two different tetrodes?
or even three different tetrodes??

After checking that, turns out I usually have about 5-10% of neurons that are a duplicate of another neuron, in a given 8-tetrodes recording! They are pretty easy to detect with a firing rate correlation so I can remove them from analysis.
But I bet most neuron counts in published papers are inflated of that much!

Here's an example where you can see the spike plots and waveforms of 3 different, well-isolated clusters, recorded from 3 different tetrodes!

#Hexamaze #NeuroRat #Neuroscience #Ephys #Hippocampus #PlaceCells #SpikeSorting (-related)

@elduvelle_neuro

I don't think it would be possible to record a single neuron on multiple tetrodes. What is the separation between your tetrodes?

#NeuroMethods #Ephys #SpikeSorting #Tetrodes

If you do need cross-correlation code, there is mex'd cross-correlation code in MClust.

#NeuroMethods #Ephys what is the fastest way to detect potential duplicate neurons after spike-sorting?
Say you’ve recorded from multiple neurons that might be detected by multiple tetrodes, you do #SpikeSorting per tetrode, and want to detect those duplicates afterwards?

I was thinking cross-correlation across all cell pairs. But my implementation is really slow. If anyone already has code for this (Matlab or Python) I’d be happy to steal it 😬

What do #Electrophysiologists who record raw data from many channels (#NeuroPixels, #Hyperdrives…) do for data backup and storage? I just bought 2 x 4Tb external drives and it looks like they won’t be enough (at all). Is there a cheap and reliable AND huge storage way to do this?

#Ephys #NeuroMethods #DataManagement

What’s your best guide on extracellular recordings #waveform shapes to know if you’re recording from soma, axon, dendrite etc.? (Most interested about #Hippocampus of course)
#Ephys #Electrophysiology #NeuroMethods

📢📢📢
#ephys and #spikesorting community!

We are thrilled to announce the "Tools and Methods for Next Generation Electrophysiology" event, happening in Edinburgh from May 27-31.

Registration link:
https://forms.gle/6dEdeR7sD7u6u8rU8

More info on the event webpage:
https://spikeinterface.github.io/spikeinterface-events/spikeinterface-workshop-2024/

Really cool #lightsheet #microscopy application:

An atlas of the developing mouse brain (DevATLAS from Yongsoo Kim's lab), combined with a new neuronal activity reporter line (Npas4-Cre), shows the order in which brain regions become active in the first postnatal weeks.

(And they have #ephys and #rnaseq too!)

Spatiotemporal Mapping and Molecular Basis of Whole-brain Circuit Maturation
Xue et al., preprint on biorxiv, 2024
https://doi.org/10.1101/2024.01.03.572456

#neuroscience #preprint #tissueclearing

#NeuroMastodon #ephys #spikesorting

📢📢📢📢📢
SpikeInterface v0.99.0 has been released on #PyPi!

https://pypi.org/project/spikeinterface/0.99.0/

Just run this to upgrade your installation:

>>> pip install --upgrade spikeinterface

Check out the release notes here:
https://spikeinterface.readthedocs.io/en/0.99.0/releases/0.99.0.html

Happy & proud to share our latest work with the #bluespot community, #locuscoeruleus enthusiasts, and anyone else willing to read 😉

https://www.biorxiv.org/content/10.1101/2023.10.16.562534v1

4 years ago, we had the idea that endogenous neuromodulatory systems are in place that control LC activity, thereby promoting adaptive behavioral responses in challenging environments.

We examined the role of Neuropeptide Y, as a possible candidate system for this, and identified a new population of #NPY-expressing neurons, distributed in the pericoerulean space.

We showed that peri-LC NPY cells innervate the region, providing #NPY input onto #noradrenergic neurons of the LC, and strongly inhibiting their activity, via Y1Rs.

Next, we showed that chemogenetic stimulation of NPY cells led to anxiety-relief, via Y1Rs, and conversely, inhibition of NPY neurons triggered an anxiogenic phenotype.

Together, we showed a novel role for NPY-mediated #neuromodulation of the LC in adaptive behaviors.

We re happy to hear your thoughts /ideas /feedback on our data.

Please share/boost. Happy reading 🔵

#preprint #neuroscience #systemsneuro #ephys #stress

Happy & proud to share our latest work with the #bluespot community, #locuscoeruleus enthusiasts, and anyone else willing to read 😉

https://www.biorxiv.org/content/10.1101/2023.10.16.562534v1

4 years ago, we had the idea that endogenous neuromodulatory systems are in place that control LC activity, thereby promoting adaptive behavioral responses in challenging environments.

We examined the role of Neuropeptide Y, as a possible candidate system for this, and identified a new population of #NPY-expressing neurons, distributed in the pericoerulean space.

We showed that peri-LC NPY cells innervate the region, providing #NPY input onto #noradrenergic neurons of the LC, and strongly inhibiting their activity, via Y1Rs.

Next, we showed that chemogenetic stimulation of NPY cells led to anxiety-relief, via Y1Rs, and conversely, inhibition of NPY neurons triggered an anxiogenic phenotype.

Together, we showed a novel role for NPY-mediated #neuromodulation of the LC in adaptive behaviors.

We re happy to hear your thoughts /ideas /feedback on our data.

Please share/boost. Happy reading 🔵

#preprint #neuroscience #systemsneuro #ephys #stress

Happy & proud to share our latest work with the #bluespot community, #locuscoeruleus enthusiasts, and anyone else willing to read 😉

https://www.biorxiv.org/content/10.1101/2023.10.16.562534v1

4 years ago, we had the idea that endogenous neuromodulatory systems are in place that control LC activity, thereby promoting adaptive behavioral responses in challenging environments.

We examined the role of Neuropeptide Y, as a possible candidate system for this, and identified a new population of #NPY-expressing neurons, distributed in the pericoerulean space.

We showed that peri-LC NPY cells innervate the region, providing #NPY input onto #noradrenergic neurons of the LC, and strongly inhibiting their activity, via Y1Rs.

Next, we showed that chemogenetic stimulation of NPY cells led to anxiety-relief, via Y1Rs, and conversely, inhibition of NPY neurons triggered an anxiogenic phenotype.

Together, we showed a novel role for NPY-mediated #neuromodulation of the LC in adaptive behaviors.

We re happy to hear your thoughts /ideas /feedback on our data.

Please share/boost. Happy reading 🔵

#preprint #neuroscience #systemsneuro #ephys #stress

Happy & proud to share our latest work with the #bluespot community, #locuscoeruleus enthusiasts, and anyone else willing to read 😉

https://www.biorxiv.org/content/10.1101/2023.10.16.562534v1

4 years ago, we had the idea that endogenous neuromodulatory systems are in place that control LC activity, thereby promoting adaptive behavioral responses in challenging environments.

We examined the role of Neuropeptide Y, as a possible candidate system for this, and identified a new population of #NPY-expressing neurons, distributed in the pericoerulean space.

We showed that peri-LC NPY cells innervate the region, providing #NPY input onto #noradrenergic neurons of the LC, and strongly inhibiting their activity, via Y1Rs.

Next, we showed that chemogenetic stimulation of NPY cells led to anxiety-relief, via Y1Rs, and conversely, inhibition of NPY neurons triggered an anxiogenic phenotype.

Together, we showed a novel role for NPY-mediated #neuromodulation of the LC in adaptive behaviors.

We re happy to hear your thoughts /ideas /feedback on our data.

Please share/boost. Happy reading 🔵

#preprint #neuroscience #systemsneuro #ephys #stress

Happy & proud to share our latest work with the #bluespot community, #locuscoeruleus enthusiasts, and anyone else willing to read 😉

https://www.biorxiv.org/content/10.1101/2023.10.16.562534v1

4 years ago, we had the idea that endogenous neuromodulatory systems are in place that control LC activity, thereby promoting adaptive behavioral responses in challenging environments.

We examined the role of Neuropeptide Y, as a possible candidate system for this, and identified a new population of #NPY-expressing neurons, distributed in the pericoerulean space.

We showed that peri-LC NPY cells innervate the region, providing #NPY input onto #noradrenergic neurons of the LC, and strongly inhibiting their activity, via Y1Rs.

Next, we showed that chemogenetic stimulation of NPY cells led to anxiety-relief, via Y1Rs, and conversely, inhibition of NPY neurons triggered an anxiogenic phenotype.

Together, we showed a novel role for NPY-mediated #neuromodulation of the LC in adaptive behaviors.

We re happy to hear your thoughts /ideas /feedback on our data.

Please share/boost. Happy reading 🔵

#preprint #neuroscience #systemsneuro #ephys #stress

.@neurobanks &co describe organization of human neocortex on multiple spatial scales, using resting state intracranial #ephys... hierarchical organization of #AuditoryCortex & a limbic stream that parallels ventral & dorsal processing streams #PLOSBiology https://plos.io/44ufoJi

@elduvelle_neuro this is great! I’m curious what you and other #Electrophysiologists think of dexamethasone treatment as postop care? It seems a more prevalent practice among those working with #Neuropixels but not amongst the #ephys community-at-large #EphysTip #neuroscience

#ephys study of monkeys reveals a 2-stage mechanism for recalling #SemanticMemory: 1. retrieve its allocentric representation in #PerirhinalCortex, 2. represent the retrieved information in the 1st-person perspective by #hippocampal neurons #PLOSBiology https://plos.io/3qB4Olx

#NeuroMastodon #ephys #spikesorting

SpikeInterface v0.97.0 has been released on #PyPi: https://pypi.org/project/spikeinterface/

Just run:
>>> pip install --upgrade spikeinterface

The new release includes several new features and updates to the package! A detailed list of changes can be found here:
https://spikeinterface.readthedocs.io/en/latest/releases/0.97.0.html

Happy #spikesorting to everyone!!!

@kordinglab @PessoaBrain oh boy I've got to read both pieces because I don't know how one would argue about the existence and importance of switching networks. They also don't seem at all at odds with modular networks.

Work from the extended Eve Marder universe on the Crab #STG, #Neuromodulation, and #ContextualModulation as always is useful here: In a network of just 40-ish neurons, there are clear sub circuits with clearly defined computations with cells with well defined roles. There are also neurons that belong to multiple circuits, linking them together and qualitatively changing both their and the jointly-defined circuits behavior per neuromodulation, longer timescale circuit rhythms, and behavioral/organismal context. It seems extremely unlikely to me that this is a byproduct of the particular ganglion, by far the more parsimonious interpretation is that this is fundamental to how densely connected excitable dynamical systems with diverse functional requirements work - the combinatoric computational benefits are obvious, and the empirical fact of their existence is impossible to deny.

Haven't read the piece(s) yet and would be surprised if they didn't mention this work. Can pull citations and more detailed argument when at computer. it hardly makes me an expert but Lauren Hewitt and I did a project on this at the #MBL with some #DynanicClamp #EPhys , so I already have the argument organized.

Next, https://onlinelibrary.wiley.com/doi/abs/10.1111/ejn.15866

Here authors go deep into slice #ephys to show cholinergic neuromodulation of #LC NAergic cells and periLC #interneurons, via muscarinic Ach receptors.

In an interesting twist, mAchR activation *both* increases spontaneous activity of the forementioned cell types, *and* suppresses inhibitory input to LC-NA neurons.

Data indicate that, in a receptor-specific manner, cholinergic neuromodulation alters E/I relations within the LC

#introduction

SpikeInterface is an #opensource framework in #python to analyze extracellular electrophysiology #ephys data and perform #spikesorting.

We believe that spike sorting development should be a collaborative and community effort and we encourage contributors!

You can read more in the docs:
https://spikeinterface.readthedocs.io/en/latest/

Follow a tutorial:
https://github.com/SpikeInterface/spiketutorials

Check out the source code:
https://github.com/SpikeInterface/spikeinterface/

Happy #spikesorting to all!

#introduction toot!! I am a neuroscientist at Instituto Cajal in Madrid, Spain. My lab studies how the 🧠hippocampus generates activity patterns (theta, gamma and ripple oscillations) in service for memory function. We target cell-type specific microcircuits and basic neurophysiological mechs in health & disease (e.g., epilepsy). We use #ephys #neuropixels #miniscopes #uLEDs #optogenetics #computationalneuroscience #machinelearning and love developing new #openscience tools & #neurotechnologies

First post, talking to the void: looking to connect with fellow neuroscientists, interested in all things #stress, #locuscoeruleus #neuropeptides #ephys Particularly invested in dialogue, open science & equity

First post, talking to the void: looking to connect with fellow neuroscientists, interested in all things #stress, #locuscoeruleus #neuropeptides #ephys Particularly invested in dialogue, open science & equity

First post, talking to the void: looking to connect with fellow neuroscientists, interested in all things #stress, #locuscoeruleus #neuropeptides #ephys Particularly invested in dialogue, open science & equity

Above, my #introduction of interests. Here, who I am, what I do: a neuroscientist at the #MRCLMB and University of Cambridge, UK, studying the neural circuit basis of behavior, originally in #Drosophila but now also in #cephalopods (#pygmysquid #Idiosepius), the lancelet #Amphioxus and other animals. Our main approach: whole brain #connectomics with #vEM (volume electron microscopy) as the basis for computational modeling to guide neuronal activity perturbation and monitoring experiments with #optogenetics and #electrophysiology (#ephys for short).
Once upon a time I founded the #ImageJ -based #TrakEM2 software for image registration and neuronal arbor reconstruction and annotation, which spurred founding the #FijiSc (https://fiji.sc) image processing software, and later the #CATMAID web-based software for #connectomics.
Always open to inquires from prospective students and postdocs, and collaborations.