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Posts by Javier Alegre-Cortés

Terms like "encode", "representation" or "manifold" are used with different meanings, often blurring the original definitions.
This could be eased including a brief glossary section with operational definitions in papers, facilitating the communication and interpretation of scientific results.

1 day ago 2 0 1 0
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Excited to share a new review by @kocherlab.bsky.social and me:

Nature-inspired neuroscience

We discuss diverse sensory systems and behaviors across the animal kingdom and argue for their integration into neuroscience. New tools in diverse systems are making this possible ✨

tinyurl.com/y5y9du27

3 days ago 195 71 1 8

Sadly, applications to the Advanced Python summer school have dropped significantly over the past 2 years.

Plus, there'll be no external funding for the 1st time in *17 years*.

Likely all because of GenAI - but programming skills still matter🔥

Deadline May 3, please help by sharing:
aspp.school

1 week ago 17 20 1 3
Postdoctoral Position in the Cognitive Computational Neuroscience of Language | Max Planck Institute

OPEN POSTDOC position (part of @erc.europa.eu Consolidator DYNALANG)

We build math&comp models of neural dynamics using insights from formal linguistics + ML

Seeking theory-driven researchers w/ interests in language, neural dynamics, & math/comp neuroscience.

Apply here: tinyurl.com/55exdpse

1 week ago 35 34 2 1
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Wanna do neuroscience in Paris but can't find interesting lab?

Want to come do a sabbatical but don't know who to collaborate?

Check this webpage aggregating ~all the neuroscience labs (+200) in Paris.

⚠️only the information of 'verified' profiles is reliable⚠️

Please retweet 🙏

parisneuro.fr

2 weeks ago 126 71 2 2

Looking forward to 45' with no distractions to fully enjoy @thedearhunter.bsky.social 's new album

4 weeks ago 0 0 0 0
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AI slop and the destruction of knowledge Cite as: van Rooij, I. (2025) AI slop and the destruction of knowledge. This week I was looking for info on what cognitive scientists mean when they speak of ‘domain-general’ cognition. I was curio…

Ugh!!

irisvanrooijcogsci.com/2025/08/12/a...

1 month ago 20 8 2 1

Let me post a spicy take here: most people don't read or cite other model organisms' work. Because of this, they keep rediscovering things and, most importantly, re-writing the timeline in favor of fewer and fewer models. That, plus an artificial limit of citations per paper equals this 🧪

1 month ago 108 27 15 3
Why I may ‘hire’ AI instead of a graduate student “It can competently perform a lot of the work I need immediately,” this professor writes

Science is about building and exploring new theories.
We train people because they will be the future builders of theories that expand our knowledge, not because they are contingent labor.
www.science.org/content/arti...

1 month ago 1 1 0 0
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Why I may ‘hire’ AI instead of a graduate student “It can competently perform a lot of the work I need immediately,” this professor writes

Wtf
Science is about building and exploring new theories.
We train people because they will be the future builders of theories that will expand our knowledge, not because they are contingent labor.

www.science.org/content/arti...

1 month ago 1 0 0 0
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"I got my PhD by writing prompts instead of doing research, I'm winning"

got some bad news, there still no jobs and now you also know nothing

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1 month ago 2 0 0 0

Mildly hot take: Not enough studies address neural dynamics from the perspective of the oscillatory properties of population firing rates

1 month ago 1 0 0 0
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22 years of Brain Science: what CoSyNe tells us about the evolution of Neuroscience Tracking the intellectual DNA of Computational and Systems Neuroscience through its flagship meeting

I tracked every keyword in 22 years of Cosyne abstracts to map how computational neuroscience evolved — from Bayesian brains to neural manifolds to LLMs — and where it's heading next.

1 month ago 159 70 7 18
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Next week I'll attend #Systems-in-Action, at @neuroalc.bsky.social!
Tired of just talking about glutamate and GABA?
I will present my work on how the combination of neuromodulators shapes circuit activity and how biophysical models can explain their mechanisms of action and computational effects.

1 month ago 3 1 0 0

Evolutionarily conserved neural dynamics across mice, monkeys, and humans www.biorxiv.org/content/10.64898/2026.03...

1 month ago 7 2 0 0

Pepper update: Multiple varieties have germinated!

1 month ago 0 0 0 0

I’m building a foundational reading list for our lab (systems & circuit neuroscience, compneuro, modeling, neuromodulators, population coding etc.).

I’d like to crowdsource recommendations.

Which review(s) would you consider mandatory reading for the next generation of researchers?

1 month ago 73 25 8 3
It is at the data and hypothesis levels that preregistration and similar methods attempt to constrain science to avoid QRPs (e.g., Flis, 2019; Szollosi et al., 2019). To ensure scientific quality, however, we propose that preregistration is not enough because it serves only to constrain the data and hypothesis spaces. Researchers who wish to develop their formal account of a capacity must ascend the path instead of, or in addition to, for example, preregistering analysis plans. Preregistration cannot on its own evaluate theories. We cannot coherently describe and thus cannot sensibly preregister what we do not yet (formally and computationally) understand. Indeed, theories can and should be computationally embodied and pitted against each other without gathering or analyzing any new data. To develop, evaluate, and stress-test theories, we need theory-level constraints on and discussions about our science. Figure 2 can serve as a first step in the right direction toward such an ideal.

It is at the data and hypothesis levels that preregistration and similar methods attempt to constrain science to avoid QRPs (e.g., Flis, 2019; Szollosi et al., 2019). To ensure scientific quality, however, we propose that preregistration is not enough because it serves only to constrain the data and hypothesis spaces. Researchers who wish to develop their formal account of a capacity must ascend the path instead of, or in addition to, for example, preregistering analysis plans. Preregistration cannot on its own evaluate theories. We cannot coherently describe and thus cannot sensibly preregister what we do not yet (formally and computationally) understand. Indeed, theories can and should be computationally embodied and pitted against each other without gathering or analyzing any new data. To develop, evaluate, and stress-test theories, we need theory-level constraints on and discussions about our science. Figure 2 can serve as a first step in the right direction toward such an ideal.

“To develop, evaluate, and stress-test theories, we need theory-level constraints on and discussions about our science.”

By @olivia.science & @andreaeyleen.bsky.social (2021): doi.org/10.1177/1745...

1 month ago 22 6 2 1
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It's Saturday noon. I have no results for my Monday progress report, two liters of coffee and a great Spotify math-rock playlist...

1 month ago 3 0 0 0
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I played around with building a bluesky labeler for neuroscience methods. subscribe to: neuromethods.bsky.social and like the corresponding post to have a shiny methods label appear in your profile.

1 month ago 29 7 5 1
Toward the end of his two-volume Treatise on the Venom of the Viper, published in 1781, the Tuscan naturalist Deluxe Fontana declared: "I have made more than 6000 experiments; I have had more than 4000 animals bit; I have employed upwards of 3000 vipers and may have been deceived; some essential circumstance may have escaped me: I may have neglected some other, not thinking it necessary; my consequences may have been too general, my experiments too few in number. In a word, I may very easily have been mistaken, and it would be almost impossible that I should never have been so in a matter so difficult, so obscure, and likewise so new."

Toward the end of his two-volume Treatise on the Venom of the Viper, published in 1781, the Tuscan naturalist Deluxe Fontana declared: "I have made more than 6000 experiments; I have had more than 4000 animals bit; I have employed upwards of 3000 vipers and may have been deceived; some essential circumstance may have escaped me: I may have neglected some other, not thinking it necessary; my consequences may have been too general, my experiments too few in number. In a word, I may very easily have been mistaken, and it would be almost impossible that I should never have been so in a matter so difficult, so obscure, and likewise so new."

Fontana thinking his 6000+ experiments may not have been enough to feel confident in his conclusions in the 18th century while we expect our singular experiments and their standalone replications to do wonders some 250 years later... (excerpt from the intro of Jutta Schickore's About Experiment)

2 months ago 157 36 5 5
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Ironically or home in Paris has more sunlight that the ones where we used to live in Alicante, so let's see how it goes this time

2 months ago 2 0 0 1
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Celebrating the MSCA fellowship with a small homemade feast: ginger ribs, niratama, chinese style potato salad and grilled kushinsai

2 months ago 3 0 0 0
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The angle of the dipole obviously matters. If active dipoles in two conditions are slightly misaligned, a difference can be observed. However, this difference is not driven by differences in amplitudes, but only by differences in orientations. Here, I simulated such a scenario.
#brainmovies

2 months ago 18 5 0 1
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Neuronal spiking in the mammalian forebrain is dominated by a heterogeneous ground state Neuronal firing patterns have significant spatiotemporal variability with no agreed-upon theoretical framework. Using a combined experimental and mode…

With this one in print, I think I finally earned that PhD... 😅
Presented for the first time at the cosyne when the world ended (March 2020). I'll bring over a summary thread from twitter when it was still twitter...

www.sciencedirect.com/science/arti...

2 months ago 147 38 10 1

Can anyone point me to works showing the evolution of monoaminergic signaling across the phylogenetic tree?
Or how the molecules/peptides activating GPCRs may have changed in time?

2 months ago 0 0 0 0

An ancient monoaminergic signaling system coordinates contractility in a nerveless sponge www.biorxiv.org/content/10.64898/2026.02...

2 months ago 1 1 0 0
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𝗨𝗻𝗱𝗲𝗿𝘀𝘁𝗮𝗻𝗱𝗶𝗻𝗴 𝘀𝗰𝗶𝗲𝗻𝘁𝗶𝗳𝗶𝗰 𝗴𝗿𝗼𝘄𝘁𝗵
Beyond Kuhn and Feyerbend.
Still in chapter 2 but this looks great.

2 months ago 45 5 5 2
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