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Jeffrey C. Erlich boosted
Francisco R. Villatoro

#Nature Neural signal propagation atlas of Caenorhabditis elegans nature.com/articles/s41586-023 "23,433 pairs of neurons across the head of the nematode Caenorhabditis elegans. Signal propagation differs from model predictions that are based on anatomy. Extrasynaptic signalling not visible from anatomy contributes to this difference. Extrasynaptically released neuropeptides serve a similar function to that of classical neurotransmitters. Both synaptic and extrasynaptic signalling drive neural dynamics on short timescales."

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Jeffrey C. Erlich boosted
Carsen Stringer (she/her)

Jonny Lovelace, Jingrui Ma, ... and Vinny Augustine discovered the vagal pathway underlying fainting, really exciting work, summarized here: nature.com/articles/d41586-023 , full paper here: nature.com/articles/s41586-023 (I helped a little w/ neural analyses)

When the mouse faints, its eyes roll back and most neurons across the brain *shut off completely* (at yellow line in first figure, shows one example #neuropixels recording). But neurons in the hypothalamic PVZ increased their firing during this time period (first group in the second figure). These neurons were causally implicated: inhibition increased fainting duration while excitation increased arousal.

#neuroscience #syncope #fainting #vagal #discovery

Neuropixels recordings during induction of mouse fainting thru vagal stimulation. Neural activity raster, sorted by rastermap, shows a significant decrease in activity after fainting -- shown by the yellow line.
Neurons from all recordings, shown during fainting (aka syncope). Neurons in the PVZ increased their activity while most other neurons were suppressed
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Jeffrey C. Erlich boosted
BrainGlobe

Hi everyone!

The BrainGlobe Initiative exists to facilitate the development of interoperable Python-based tools for computational neuroanatomy, particularly in model organisms.

For more details please see brainglobe.info or chat with us at brainglobe.zulipchat.com.

#neuroscience

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Jeffrey C. Erlich

@jonny Interesting. Currently, we are using pub/sub so I don't have to worry about getting out of sync in a req/rep loop. but for some reason Matlab/jeromq does miss messages sometimes and our current hack is to just send messages meant for Matlab a few times. but I'm not really happy with that and would like something more robust. it's low priority as things are working...

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Jeffrey C. Erlich

@jonny In auto-pi-lot do you ever run into a situation where a zmq request is not replied to? and things get stuck? I took a look in `node.py` and couldn't tell if you do some time of timeout and message handling.

I'm asking because I'm thinking of re-writing part of our infrastructure to use REQ/REP zmq calls (which are now local function calls. this would be the first step in moving away from Matlab)..

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Jeffrey C. Erlich

@skykiss America definitely needs to deal with its gun issue. But listen to the 6 part series from Malcolm Gladwell to hear why the assault weapons ban is not really the answer: pushkin.fm/podcasts/revisionis

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Jeffrey C. Erlich

@kendmiller @tdverstynen They released this elifesciences.org/inside-elife

supports Tim's theory, that this was the straw that broke the camels back.

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Jeffrey C. Erlich boosted
El Duvelle Neuro

Closing application date coming soon (Oct 30th) for this 3-year #Postdoc position in the lab of @katejjeffery, now in Glasgow!

“on the neural processing of space and direction in freely behaving rodents”

nature.com/naturecareers/job/1

#NeuroJob #JefferyLab #Electrophysiology #Neuroscience

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Jeffrey C. Erlich

Deadline is Nov 20!!

Sainsbury Wellcome Centre  
Looking to launch your career in neuroscience? Apply to join our 2024 PhD programme at SWC: 🧠 World-class training in systems neuroscience 💰 Fully-...
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Jeffrey C. Erlich boosted
International Brain Laboratory

Surprisingly, the block prior was represented by few neurons in very few regions. To investigate this further, we devoted a whole companion paper to it, where additional analyses discovered widespread representations of the prior. (7/8)
biorxiv.org/content/10.1101/20

Brain-wide representations of prior information in mouse decision-making

The neural representations of prior information about the state of the world are poorly understood. To investigate this issue, we examined brain-wide Neuropixels recordings and widefield calcium imaging collected by the International Brain Laboratory. Mice were trained to indicate the location of a visual grating stimulus, which appeared on the left or right with prior probability alternating between 0.2 and 0.8 in blocks of variable length. We found that mice estimate this prior probability and thereby improve their decision accuracy. Furthermore, we report that this subjective prior is encoded in at least 20% to 30% of brain regions which, remarkably, span all levels of processing, from early sensory areas (LGd, VISp) to motor regions (MOs, MOp, GRN) and high level cortical regions (ACCd, ORBvl). This widespread representation of the prior is consistent with a neural model of Bayesian inference involving loops between areas, as opposed to a model in which the prior is incorporated only in decision making areas. This study offers the first brain-wide perspective on prior encoding at cellular resolution, underscoring the importance of using large scale recordings on a single standardized task. ### Competing Interest Statement The authors have declared no competing interest.

www.biorxiv.org
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Jeffrey C. Erlich boosted
International Brain Laboratory

We are excited to present a Brain-Wide Map of neural activity during a complex decision-making behavior, a product of the monumental effort of 22 labs: 547 Neuropixels recordings in 267 brain regions from 115 mice collected in 11 labs 🐭 (1/8)
biorxiv.org/content/10.1101/20
#neuroscience

A Brain-Wide Map of Neural Activity during Complex Behaviour

A key challenge in neuroscience is understanding how neurons in hundreds of interconnected brain regions integrate sensory inputs with prior expectations to initiate movements. It has proven difficult to meet this challenge when different laboratories apply different analyses to different recordings in different regions during different behaviours. Here, we report a comprehensive set of recordings from 115 mice in 11 labs performing a decision-making task with sensory, motor, and cognitive components, obtained with 547 Neuropixels probe insertions covering 267 brain areas in the left forebrain and midbrain and the right hindbrain and cerebellum. We provide an initial appraisal of this brain-wide map, assessing how neural activity en- codes key task variables. Representations of visual stimuli appeared transiently in classical visual areas after stimulus onset and then spread to ramp-like activity in a collection of mid- and hindbrain regions that also encoded choices. Neural responses correlated with motor action almost everywhere in the brain. Responses to reward delivery and consumption versus reward omission were also widespread. Representations of objective prior expectations were weaker, found in sparse sets of neurons from restricted regions. This publicly available dataset represents an unprecedented resource for understanding how computations distributed across and within brain areas drive behaviour. ### Competing Interest Statement The authors have declared no competing interest.

www.biorxiv.org
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Jeffrey C. Erlich boosted
Fanny Cazettes

🚨We have an open position for a research assistant in systems #neuroscience! Please, check the attachment for details. Reposts are welcome 🙂

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Jeffrey C. Erlich

Is food addiction real? Apparently if it is "ultra-processed"

theguardian.com/food/2023/oct/

> As Van Tulleken explains, “Addictive products are not addictive for everyone. Almost 90% of people can try alcohol and not develop a problematic relationship; many can try cigarettes, or even cocaine.” Equally, not everyone who eats UPFs will become addicted – but, based on current studies, one in seven will. “Many UPFs for many people are addictive,” Van Tulleken summarises. “And when people experience food addiction, it is almost always to UPF products.”

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Jeffrey C. Erlich

Excited to share our _open access_ paper in Nature Neuroscience investigating the role of the rat frontal and parietal cortices in economic decisions under risk.

nature.com/articles/s41593-023

We found that silencing the frontal orienting field (FOF) in rat secondary motor cortex increased risk-aversion and we could decode the value of the lottery on each trial from the population activity of the FOF.

@Nature

p.s. We are looking to hire a postdoc to work in mice models of economic (esp. strategic) decisions. Message me if you will be at SFN and would be interested in working at the amazing @SWC_Neuro

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Jeffrey C. Erlich

@kendmiller signed

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Jeffrey C. Erlich boosted
Tim Verstynen

I was wondering what right now must feel like for the Israelis that have been fighting the Netanyahu government and/or pushing for an end to hostilities with the Palestinians. The visceral pain of the brutal terrorism Israel experienced has to conflict with the awareness of the inevitably brutal response that is happening/coming. That tension must be unbearable.

jewishcurrents.org/we-cannot-c

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Jeffrey C. Erlich boosted
Sainsbury Wellcome Centre

Looking to launch your career in neuroscience? Apply to join our 2024 PhD programme at SWC:

🧠 World-class training in systems neuroscience
💰 Fully-funded 4-year programme
💂 Based in London with close links to the Gatsby Computational Neuroscience Unit

Learn more and apply by 20 Nov: sainsburywellcome.org/web/cont

#PhD #Neuroscience #Career #Training #London

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Jeffrey C. Erlich

Hooray!

ucl.ac.uk/news/2023/sep/rejoin

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Jeffrey C. Erlich

@mcaleerp If you use bibliography software like zotero you don't need to worry about file name conventions. zotero + betterbibtex is awesome
@zotero

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Jeffrey C. Erlich boosted
Ed Merkle

blavaan 0.5-1 is now on CRAN, including initial functionality for two-level structural equation models. Estimation happens via #mcmc_stan

If you don't know these models, they are multivariate Gaussian models with three levels (e.g., multiple response variables within people within schools).

Some further info is here:
ecmerkle.github.io/blavaan/art

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