Javier Alegre-Cortés
@alegrecortes.bsky.social
Postdoc at @karalis-lab.bsky.social - @institutducerveau.bsky.social
I create computational models to build hypothesis and make predictions.
Philosophy of science aficionado
I create computational models to build hypothesis and make predictions.
Philosophy of science aficionado
Pinned
Global and local nature of cortical slow waves
Explaining the macroscopic activity of a neuronal population from its microscopic
properties poses a great challenge, not just because of the many local agents that
play a role, but due to the impact ...
www.cell.com
I'm excited to share my latest publication! 🚨
Global and local nature of cortical slow waves:
www.cell.com/iscience/ful...
In brief, we explored in silico how cortical slow waves are shaped by both external inputs and intrinsic properties of neuronal populations.
Global and local nature of cortical slow waves:
www.cell.com/iscience/ful...
In brief, we explored in silico how cortical slow waves are shaped by both external inputs and intrinsic properties of neuronal populations.
Reposted by Javier Alegre-Cortés
Like most animals, fish move less at night. Underwater, stable posture requires movement. Find out how fish don't fall down at night in: Lighting and circadian cues shape locomotor strategies for balance and navigation in larval zebrafish from @yunluzhu.bsky.social
doi.org/10.1101/2025...
doi.org/10.1101/2025...
Lighting and circadian cues shape locomotor strategies for balance and navigation in larval zebrafish
Most fish are inherently unstable and must swim to stabilize posture. How diurnal fish reduce activity at night while maintaining postural control remains unclear. We defined distinct locomotor strate...
doi.org
November 19, 2025 at 3:24 AM
Like most animals, fish move less at night. Underwater, stable posture requires movement. Find out how fish don't fall down at night in: Lighting and circadian cues shape locomotor strategies for balance and navigation in larval zebrafish from @yunluzhu.bsky.social
doi.org/10.1101/2025...
doi.org/10.1101/2025...
I will be in Bordeaux presenting my ongoing work in the @karalis-lab.bsky.social at the #NeuralNet2025 meeting.
If anyone is attending, come say hi!
If anyone is attending, come say hi!
November 18, 2025 at 10:27 AM
I will be in Bordeaux presenting my ongoing work in the @karalis-lab.bsky.social at the #NeuralNet2025 meeting.
If anyone is attending, come say hi!
If anyone is attending, come say hi!
Reposted by Javier Alegre-Cortés
I'm really happy to share our latest work:
“Cholinergic heterogeneity facilitates synchronization and information flow in a whole-brain model”
www.biorxiv.org/content/10.1...
“Cholinergic heterogeneity facilitates synchronization and information flow in a whole-brain model”
www.biorxiv.org/content/10.1...
Cholinergic heterogeneity facilitates synchronization and information flow in a whole-brain model
The human brain displays substantial regional variability in molecular, anatomical, and physiological organization. Yet, how this heterogeneity shapes large-scale neuronal dynamics remains poorly unde...
www.biorxiv.org
October 29, 2025 at 12:58 PM
I'm really happy to share our latest work:
“Cholinergic heterogeneity facilitates synchronization and information flow in a whole-brain model”
www.biorxiv.org/content/10.1...
“Cholinergic heterogeneity facilitates synchronization and information flow in a whole-brain model”
www.biorxiv.org/content/10.1...
Reposted by Javier Alegre-Cortés
Thrilled that our paper is out today in Nature!
www.nature.com/articles/s4...
www.nature.com/articles/s4...
Sensory expectations shape neural population dynamics in motor circuits
Nature - Experiments with human volunteers and macaques show that expectations produced by probabilistic cueing of future sensory inputs shape motor circuit dynamics in order to increase the...
www.nature.com
October 29, 2025 at 4:11 PM
Thrilled that our paper is out today in Nature!
www.nature.com/articles/s4...
www.nature.com/articles/s4...
Reposted by Javier Alegre-Cortés
My co-authors have yet to move to Bluesky, so I'm pleased to announce our latest work has just been published in @nature.com Neuroscience. Amazing work led by Junheng Li, revealing that falling asleep follows a predictable bifurcation pattern #neuroskyence #sleep
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Falling asleep follows a predictable bifurcation dynamic - Nature Neuroscience
Li et al. propose a conceptual framework to study the phenomenon of falling asleep based on electroencephalogram data. They show that a tipping point marks the brain’s nonlinear wake-to-sleep transiti...
www.nature.com
October 28, 2025 at 5:35 PM
My co-authors have yet to move to Bluesky, so I'm pleased to announce our latest work has just been published in @nature.com Neuroscience. Amazing work led by Junheng Li, revealing that falling asleep follows a predictable bifurcation pattern #neuroskyence #sleep
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Javier Alegre-Cortés
📰 "Un modelo computacional avanzado basado en datos reales sobre la anatomía y la fisiología del cerebro de mamíferos permite simular con realismo cómo se comportan las redes neuronales al conectarse".
🔬 @alegrecortes.bsky.social
🏛️ @neuroalc.bsky.social
🔗
🔬 @alegrecortes.bsky.social
🏛️ @neuroalc.bsky.social
🔗
Un estudio del Instituto de Neurociencias CSIC-UMH revela cómo el cerebro organiza y dirige su actividad más lenta | Consejo Superior de Investigaciones Científicas
El cerebro nunca descansa, incluso durante el sueño profundo o bajo anestesia mantiene una actividad eléctrica rítmica conocida como oscilaciones lentas.
buff.ly
October 27, 2025 at 9:02 AM
📰 "Un modelo computacional avanzado basado en datos reales sobre la anatomía y la fisiología del cerebro de mamíferos permite simular con realismo cómo se comportan las redes neuronales al conectarse".
🔬 @alegrecortes.bsky.social
🏛️ @neuroalc.bsky.social
🔗
🔬 @alegrecortes.bsky.social
🏛️ @neuroalc.bsky.social
🔗
Silent hills vibes at Izu peninsula
October 20, 2025 at 9:26 AM
Silent hills vibes at Izu peninsula
Here we go again
October 2, 2025 at 7:41 AM
Here we go again
Reposted by Javier Alegre-Cortés
🔥A new study led by @reiglab.bsky.social and @alegrecortes.bsky.social is now published on @cp-iscience.bsky.social 🙌
Researchers reveal how the brain organizes and directs its slowest activity: slow waves 🧠
More info 👇
in.umh-csic.es/en/articulos...
Researchers reveal how the brain organizes and directs its slowest activity: slow waves 🧠
More info 👇
in.umh-csic.es/en/articulos...
September 23, 2025 at 10:11 AM
🔥A new study led by @reiglab.bsky.social and @alegrecortes.bsky.social is now published on @cp-iscience.bsky.social 🙌
Researchers reveal how the brain organizes and directs its slowest activity: slow waves 🧠
More info 👇
in.umh-csic.es/en/articulos...
Researchers reveal how the brain organizes and directs its slowest activity: slow waves 🧠
More info 👇
in.umh-csic.es/en/articulos...
Reposted by Javier Alegre-Cortés
Stimulus-Dependent Dopamine Dynamics from LocusCoeruleus Axons https://www.biorxiv.org/content/10.1101/2025.09.15.676390v1
September 16, 2025 at 8:18 AM
Stimulus-Dependent Dopamine Dynamics from LocusCoeruleus Axons https://www.biorxiv.org/content/10.1101/2025.09.15.676390v1
Reposted by Javier Alegre-Cortés
Preprint -
Excited to present WHOLISTIC, which extends the concept of whole-brain functional imaging to the entire body. Pioneering work by incredibly talented Virginia Ruetten @vmsruetten.bsky.social, this platform reveals whole-organism cellular dynamics in vivo.
www.biorxiv.org/content/10.1...
Excited to present WHOLISTIC, which extends the concept of whole-brain functional imaging to the entire body. Pioneering work by incredibly talented Virginia Ruetten @vmsruetten.bsky.social, this platform reveals whole-organism cellular dynamics in vivo.
www.biorxiv.org/content/10.1...
September 8, 2025 at 4:25 PM
Preprint -
Excited to present WHOLISTIC, which extends the concept of whole-brain functional imaging to the entire body. Pioneering work by incredibly talented Virginia Ruetten @vmsruetten.bsky.social, this platform reveals whole-organism cellular dynamics in vivo.
www.biorxiv.org/content/10.1...
Excited to present WHOLISTIC, which extends the concept of whole-brain functional imaging to the entire body. Pioneering work by incredibly talented Virginia Ruetten @vmsruetten.bsky.social, this platform reveals whole-organism cellular dynamics in vivo.
www.biorxiv.org/content/10.1...
Reposted by Javier Alegre-Cortés
Finding correlates of the same signal in different brain areas is not evidence against specialisation, it is evidence for interconnection.
When I flush my toilet, the level in the tank and the flow rate in the supply pipe become perfectly correlated. Yet these toilet areas have distinct functions.
When I flush my toilet, the level in the tank and the flow rate in the supply pipe become perfectly correlated. Yet these toilet areas have distinct functions.
Sad day for peope who still believe brain areas are the primary organizational units of function in the brain.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
A brain-wide map of neural activity during complex behaviour - Nature
The International Brain Laboratory presents a brain-wide electrophysiological map obtained from pooling data from 12 laboratories that performed the same standardized perceptual decision-making task i...
www.nature.com
September 4, 2025 at 11:52 AM
Finding correlates of the same signal in different brain areas is not evidence against specialisation, it is evidence for interconnection.
When I flush my toilet, the level in the tank and the flow rate in the supply pipe become perfectly correlated. Yet these toilet areas have distinct functions.
When I flush my toilet, the level in the tank and the flow rate in the supply pipe become perfectly correlated. Yet these toilet areas have distinct functions.
Reposted by Javier Alegre-Cortés
Scientists in training should be taught the creative scientific process, to gain confidence in their self-efficacy for research and identity as a scientist, & also for greater work satisfaction and a better chance of remaining in science long-term. Join our community at www.night-science.org
September 4, 2025 at 3:36 AM
Scientists in training should be taught the creative scientific process, to gain confidence in their self-efficacy for research and identity as a scientist, & also for greater work satisfaction and a better chance of remaining in science long-term. Join our community at www.night-science.org
Reposted by Javier Alegre-Cortés
I wrote a Comment on neurotheory, and now you can read it!
Some thoughts on where neurotheory has and has not taken root within the neuroscience community, how it has shaped those subfields, and where we theorists might look next for fresh adventures.
www.nature.com/articles/s41...
Some thoughts on where neurotheory has and has not taken root within the neuroscience community, how it has shaped those subfields, and where we theorists might look next for fresh adventures.
www.nature.com/articles/s41...
Theoretical neuroscience has room to grow
Nature Reviews Neuroscience - The goal of theoretical neuroscience is to uncover principles of neural computation through careful design and interpretation of mathematical models. Here, I examine...
www.nature.com
August 20, 2025 at 4:09 PM
I wrote a Comment on neurotheory, and now you can read it!
Some thoughts on where neurotheory has and has not taken root within the neuroscience community, how it has shaped those subfields, and where we theorists might look next for fresh adventures.
www.nature.com/articles/s41...
Some thoughts on where neurotheory has and has not taken root within the neuroscience community, how it has shaped those subfields, and where we theorists might look next for fresh adventures.
www.nature.com/articles/s41...
Reposted by Javier Alegre-Cortés
We should always take seriously where computational descriptions fail, as it tells us something about where the current boundaries of what we can describe in language lie
August 18, 2025 at 10:47 PM
We should always take seriously where computational descriptions fail, as it tells us something about where the current boundaries of what we can describe in language lie
Reposted by Javier Alegre-Cortés
1. The philosophy of science sometimes gets an unearned reputation as a purely academic exercise that offers little by way of concrete tools for advancing research.
This is wrong.
And today, as we grapple with how AI is changing the nature of scientific activity, it's desperately wrong.
This is wrong.
And today, as we grapple with how AI is changing the nature of scientific activity, it's desperately wrong.
August 19, 2025 at 4:59 AM
1. The philosophy of science sometimes gets an unearned reputation as a purely academic exercise that offers little by way of concrete tools for advancing research.
This is wrong.
And today, as we grapple with how AI is changing the nature of scientific activity, it's desperately wrong.
This is wrong.
And today, as we grapple with how AI is changing the nature of scientific activity, it's desperately wrong.
Reposted by Javier Alegre-Cortés
If you want to join us for a short stay and learn with us, that's a good opportunity. If you are interested, get in touch!
Want to develop your #neuroscience skills abroad?
Apply for the #FENS / #IBRO–PERC #ExchangeFellowships programme and conduct research at a lab in another European country! 🚀
🗓️ Deadline: 15 October 2025
👉 https://loom.ly/DhYSWlQ
@ibroorg.bsky.social
Apply for the #FENS / #IBRO–PERC #ExchangeFellowships programme and conduct research at a lab in another European country! 🚀
🗓️ Deadline: 15 October 2025
👉 https://loom.ly/DhYSWlQ
@ibroorg.bsky.social
August 8, 2025 at 8:10 AM
If you want to join us for a short stay and learn with us, that's a good opportunity. If you are interested, get in touch!
Reposted by Javier Alegre-Cortés
Lakatos on Popper isn't half bad
“Popper seems to cultivate rhetoric deliberately, partly to cover up the weaknesses of his argument and partly, I suppose, for moral reasons, to give the impression that he has an argument when he has none. This is characteristic of his whole life’s work. Most of his famous theses are slogans
August 7, 2025 at 3:41 AM
Lakatos on Popper isn't half bad
Reposted by Javier Alegre-Cortés
🚨 Upcoming postdoc openings 🚨
We will soon be hiring postdocs to work on neural data analysis & modelling in the context of a recently awarded ARIA grant aimed at "precision control" of neural population dynamics (w. collabs. across the UK)
Reach out if interested!
www.aria.org.uk/opportunity-...
We will soon be hiring postdocs to work on neural data analysis & modelling in the context of a recently awarded ARIA grant aimed at "precision control" of neural population dynamics (w. collabs. across the UK)
Reach out if interested!
www.aria.org.uk/opportunity-...
Precision Neurotechnologies
Backed by £69m, this programme aims to unlock new methods to interface with the human brain at the cellular level, with unprecedented precision.
www.aria.org.uk
August 4, 2025 at 10:32 AM
🚨 Upcoming postdoc openings 🚨
We will soon be hiring postdocs to work on neural data analysis & modelling in the context of a recently awarded ARIA grant aimed at "precision control" of neural population dynamics (w. collabs. across the UK)
Reach out if interested!
www.aria.org.uk/opportunity-...
We will soon be hiring postdocs to work on neural data analysis & modelling in the context of a recently awarded ARIA grant aimed at "precision control" of neural population dynamics (w. collabs. across the UK)
Reach out if interested!
www.aria.org.uk/opportunity-...
Reposted by Javier Alegre-Cortés
🚨New paper🚨
Neural manifolds went from a niche-y word to an ubiquitous term in systems neuro thanks to many interesting findings across fields. But like with any emerging term, people use it very differently.
Here, we clarify our take on the term, and review key findings & challenges rdcu.be/ex8hW
Neural manifolds went from a niche-y word to an ubiquitous term in systems neuro thanks to many interesting findings across fields. But like with any emerging term, people use it very differently.
Here, we clarify our take on the term, and review key findings & challenges rdcu.be/ex8hW
August 1, 2025 at 9:57 AM
🚨New paper🚨
Neural manifolds went from a niche-y word to an ubiquitous term in systems neuro thanks to many interesting findings across fields. But like with any emerging term, people use it very differently.
Here, we clarify our take on the term, and review key findings & challenges rdcu.be/ex8hW
Neural manifolds went from a niche-y word to an ubiquitous term in systems neuro thanks to many interesting findings across fields. But like with any emerging term, people use it very differently.
Here, we clarify our take on the term, and review key findings & challenges rdcu.be/ex8hW
Reposted by Javier Alegre-Cortés
We are looking for a Postdoc (up to 5 years) who wants to study neural mechanisms of spatial memory in honeybees.
This includes tetrode recordings in behaving honeybees.
Application Deadline is 1st of October 2025.
More details:
www.biozentrum.uni-wuerzburg.de/en/services/...
This includes tetrode recordings in behaving honeybees.
Application Deadline is 1st of October 2025.
More details:
www.biozentrum.uni-wuerzburg.de/en/services/...
Postdoctoral Position (f/m/d) at the Chair of Behavioral Physiology & Sociobiology
Biocenter of the University of Würzburg Am Hubland 97074 Würzburg
www.biozentrum.uni-wuerzburg.de
August 1, 2025 at 8:44 AM
We are looking for a Postdoc (up to 5 years) who wants to study neural mechanisms of spatial memory in honeybees.
This includes tetrode recordings in behaving honeybees.
Application Deadline is 1st of October 2025.
More details:
www.biozentrum.uni-wuerzburg.de/en/services/...
This includes tetrode recordings in behaving honeybees.
Application Deadline is 1st of October 2025.
More details:
www.biozentrum.uni-wuerzburg.de/en/services/...
Reposted by Javier Alegre-Cortés
Check out our new review/perspective (w/ @juangallego.bsky.social & Devika Narain) on neural manifolds in the brain! It was a lot of fun to think through these ideas over the past couple of years, and I'm excited it's finally out in the world!
🔗: www.nature.com/articles/s41...
📄: rdcu.be/ex8hW
🔗: www.nature.com/articles/s41...
📄: rdcu.be/ex8hW
A neural manifold view of the brain - Nature Neuroscience
Recent advances in neuroscience have revealed how neural population activity underlying behavior can be well described by topological objects called neural manifolds. Understanding how nature, nurture...
www.nature.com
July 29, 2025 at 7:06 PM
Check out our new review/perspective (w/ @juangallego.bsky.social & Devika Narain) on neural manifolds in the brain! It was a lot of fun to think through these ideas over the past couple of years, and I'm excited it's finally out in the world!
🔗: www.nature.com/articles/s41...
📄: rdcu.be/ex8hW
🔗: www.nature.com/articles/s41...
📄: rdcu.be/ex8hW