sinan malik
@sinanmalik.bsky.social
📤 554
📥 668
📝 32
RA
@juliesemmelhack.bsky.social
Lab| systems neuroscience | writes @preLights
pinned post!
Really enjoyed highlighting this work by
@vmsruetten.bsky.social
from
@mishaahrens.bsky.social
lab for preLights. WHOLISTIC! A whole-body functional atlas of cellular dynamics. Lots of cool things in the preprint.
@hhmijanelia.bsky.social
@prelights.bsky.social
add a skeleton here at some point
about 2 months ago
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sinan malik
Portugues Lab
4 days ago
Have you ever wondered how the brain should represent the sensory world in order to generate behavior? Read our new preprint: work by Shuhong Huang
shuhonghuang.bsky.social
with our long-standing collaborator James Fitzgerald at Northwestern.
add a skeleton here at some point
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sinan malik
Oded Rechavi
15 days ago
“ok so this is embarrassing but just for the record and just so we have it, your C.V says "Nature Scientific Reports"? sorry to have to even ask”
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sinan malik
Peter Rupprecht
24 days ago
Excited to share our new preprint! We explore the link between the locus coeruleus (LC) and arousal for astrocytes, pyramidal cells, interneurons in the hippocampus. A fantastic collaboration with
@sianduss.bsky.social
@bohaceklab.bsky.social
, and many others:
www.biorxiv.org/content/10.6...
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Oded Rechavi
10 months ago
Supplementary figure 16
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Ryosuke Tanaka
about 1 month ago
Instead, fish seemed to remap 180º of the visual space onto the 360º extent of their neural compass, effectively "considering" the two suns as an identical object. This shows the surprising capacity of the HD cells to rapidly pick up the correlation structure of the visual inputs.
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sinan malik
Simon Schultz
about 1 month ago
Lu, Schultz, Kozlov, Astrocytes and neurons exhibit partially shared but distinct composite receptive fields for natural stimuli Now published in J Neurophys
journals.physiology.org/doi/abs/10.1...
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Astrocytes and neurons exhibit partially shared but distinct composite receptive fields for natural stimuli | Journal of Neurophysiology | American Physiological Society
Astrocytes are increasingly recognized as active participants in sensory processing, but whether they show selective responses to stimulus features, analogous to neuronal receptive fields, is not yet ...
https://journals.physiology.org/doi/abs/10.1152/jn.00505.2025
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sinan malik
about 1 month ago
In
@elife.bsky.social
: Pallium-encoded valence-specific chemosensory amplification of eye-body coordination in larval zebrafish
doi.org/10.7554/eLif...
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Pallium-encoded valence-specific chemosensory amplification of eye-body coordination in larval zebrafish
https://doi.org/10.7554/eLife.109494
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sinan malik
Portugues Lab
about 1 month ago
1/6: New publication from the lab: “Plastic landmark anchoring in zebrafish compass neurons” by Ryosuke Tanaka (
@ryosuketanaka.bsky.social
) and Ruben is available here:
rdcu.be/eX1L4
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Plastic landmark anchoring in zebrafish compass neurons
Nature - Using two-photon microscopy with a panoramic virtual reality setup, how head direction cells in larval zebrafish integrate visual landmarks and optic flow to track orientation is revealed.
https://rdcu.be/eX1L4
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sinan malik
Artologica aka Michele Banks
about 1 month ago
Okay, well, I painted some new neurons in burnt sienna and black
#sciart
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sinan malik
Portugues Lab
about 1 month ago
1/n: A new collaborative preprint from the lab to start the year: "A multi-ring shifter network computes head direction in zebrafish" together with Siyuan Mei, Martin Stemmler and Andreas Herz from the LMU, Munich.
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sinan malik
BWJones
about 1 month ago
Surprise mother$#@%er! Q: What does this mean for neural systems to understand them? A: We absolutely need the wiring diagram. All synapses, chemical and electrical.
#Connectomics
add a skeleton here at some point
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Mackenzie Weygandt Mathis
about 1 month ago
Interested in the latest advances in neuroscience (neural dynamics and internal models) and how they can be leveraged to build smarter, adaptive AI? ➡️ My first real solo piece 🖤🫶
@natneuro.nature.com
rdcu.be/eWVmA
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Leveraging insights from neuroscience to build adaptive artificial intelligence
Nature Neuroscience - Adaptive intelligence envisions AI that, like animals, learns online, generalizes and adapts quickly. This Perspective reviews biological foundations, progress in AI and...
https://rdcu.be/eWVmA
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Ann Kennedy
about 1 month ago
"My New Year's Resolution is to find a principled way to think about all those cell types in the brain" Why friend, you are in luck, because
@rgast.bsky.social
has just the perspective for you:
www.sciencedirect.com/science/arti...
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How heterogeneity shapes dynamics and computation in the brain
Much effort has been spent clustering neurons into transcriptomic or functional cell types and characterizing the differences between them. Beyond sub…
https://www.sciencedirect.com/science/article/pii/S0896627325008967
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sinan malik
Allen Institute
about 2 months ago
Glutamate is the primary molecule that neurons use to communicate with each other. Previously, scientists have mostly recorded when neurons fire output signals, but now with a new glutamate indicator, they can record the many inputs that causes cells to fire. 🧵
#neuroskyence
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Joey Tidei
about 2 months ago
I don't always get pretty, isolated, AND transfected primary neurons in culture, but when I do I take advantage.... Rat hippocampal neuron overexpressing ThymosinB4-mScarlet and imaged for 16hr on a
@zeiss-microscopy.bsky.social
LSM880 with Airyscan.
#FluorescenceFriday
#Microscopy
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Jonas Wietek
about 2 months ago
Merry Christmas, Hanukkah, et al.
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Really enjoyed highlighting this work by
@vmsruetten.bsky.social
from
@mishaahrens.bsky.social
lab for preLights. WHOLISTIC! A whole-body functional atlas of cellular dynamics. Lots of cool things in the preprint.
@hhmijanelia.bsky.social
@prelights.bsky.social
add a skeleton here at some point
about 2 months ago
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sinan malik
Ryosuke Tanaka
2 months ago
A paper from my PhD lab is on Science! This is a really cool new way to utilize EM connectome datasets. Congrats to the team!
www.science.org/doi/10.1126/...
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Spatial and morphological organization of mitochondria in neurons across a connectome
Neuronal function depends on mitochondria, but little is known about their organization across neurons. Using an electron microscopy Drosophila connectome, we uncovered quantitative rules governing th...
https://www.science.org/doi/10.1126/science.ads6674
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sinan malik
Current Biology
3 months ago
Check out our newest issue where we interview
@juliesemmelhack.bsky.social
, who studies the neural circuits of visual behavior at the Hong Kong University of Science and Technology.
www.cell.com/current-biol...
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Q & A
Interview with Julie Semmelhack, who studies the neural circuits of visual behavior at the Hong Kong University of Science and Technology.
https://www.cell.com/current-biology/fulltext/S0960-9822(25)01258-8
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sinan malik
Adrian Jacobo
2 months ago
It's finally out! Our paper on optogenetic interrogation of the lateral line:
www.cell.com/iscience/ful...
This one involved a lot of sweat and tears, and it was a real tour de force. It was also the last paper we got to write with Jim, so it's a special one (and hence, the tears).
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Optogenetic interrogation of the zebrafish lateral line reveals brain-wide neural circuits involved in pattern separation
Zoology; Neuroscience; Sensory neuroscience
https://www.cell.com/iscience/fulltext/S2589-0042(25)02453-8
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sinan malik
Oded Rechavi
2 months ago
The fun leaving your body the moment you're done with the science and it's time to get it published
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sinan malik
Leibniz-Institut für Neurobiologie
2 months ago
We are very excited:
@hannazwaka.bsky.social
has been awarded a Leibniz Best Minds grant as a Junior Research Group Leader! Five years of independent research, tenure track and part of the Best Minds network – a real boost for her career.
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You're not you when you're hungry... and neither is a zebrafish! Our new paper shows that hunger completely overrides the instinct to flee, making zebrafish approach potential threats instead. "Hunger shapes predator avoidance in zebrafish."
@zebrafishrock.bsky.social
🐟
doi.org/10.1080/0394...
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Hunger shapes predator avoidance behaviour in zebrafish
All organisms, including humans, engage in behavioral choices and complex decision-making processes, which are crucial for survival. The mechanisms underlying behavioral choices require the acquisi...
https://doi.org/10.1080/03949370.2025.2563566
2 months ago
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sinan malik
Abe Goldfarb
2 months ago
when someone tells me not to use em dashes because AI uses em dashes
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sinan malik
Portugues Lab
3 months ago
(1/n) We are excited to share our new paper in Nature Communications, by Hagar Lavian (
@hlavian.bsky.social
) and team, revealing how the zebrafish brain integrates visual navigation signals!
www.nature.com/articles/s41...
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Visual motion and landmark position align with heading direction in the zebrafish interpeduncular nucleus - Nature Communications
How are various visual signals integrated in the vertebrate brain for navigation? Here authors show that different spatial signals are topographically organized and align to one another in the zebrafi...
https://www.nature.com/articles/s41467-025-66084-1
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sinan malik
David Schoppik
3 months ago
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...
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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...
https://doi.org/10.1101/2025.11.18.689084
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sinan malik
Matthew Logie
3 months ago
The changes we experience may be the source of our subjective experience of time.
www.nature.com/articles/s41...
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Time, space, memory and brain–body rhythms - Nature Reviews Neuroscience
Understanding how the brain represents experienced time and how representations of space and time are integrated to form episodic memories has been a goal of much neuroscientific research. In this Per...
https://www.nature.com/articles/s41583-025-00987-2
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sinan malik
Oded Rechavi
3 months ago
Going to the lab during the weekend to do cell culture work and trying to do everything at double speed
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sinan malik
Oded Rechavi
3 months ago
Writing the “Alternative Plans” part of the grant
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Caroline Wee
3 months ago
Now published in Molecular Metabolism, improved by the helpful reviewers! We hope to continue to leverage the
#zebrafish
to understand the neurometabolic and hormonal regulation of appetite and beyond! Read the full article here:
www.sciencedirect.com/science/arti...
add a skeleton here at some point
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sinan malik
3 months ago
✨ New preprint ✨ What if we could watch AND control thousands of individual neurons in behaving mice—with stable access over months? 🧠⚡ Our work introduces transgenic all-optical tools that make this possible - and a resulting surprising discovery! 🔭💡
www.biorxiv.org/content/10.1...
1/13 🧵
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Large-scale cellular-resolution read/write of activity enables discovery of cell types defined by complex circuit properties
The complexity of the mammalian brain’s vast population of interconnected neurons poses a formidable challenge to elucidate its underlying mechanisms of coordination and computation. A key step forwar...
https://www.biorxiv.org/content/10.1101/2025.10.21.683734v1
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sinan malik
MPI for Biological Intelligence
3 months ago
How does a fish know when to blend in? Scientists identified a key circuit controlling camouflage in zebrafish – from cells in the retina sensing light to nerve cells in the brain controlling the release of a hormone that pales the skin to match bright backgrounds.
www.bi.mpg.de/news/2025-11...
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sinan malik
Chiara Fornetto
3 months ago
Excited to share our paper now published in Cell! 'Zebrafish use spectral information to suppress the visual background' Huge thanks to
@neurofishh.bsky.social
&
@teuler.bsky.social
@cellpress.bsky.social
@cp-cell.bsky.social
👇🏻
www.cell.com/cell/fulltex...
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Zebrafish use spectral information to suppress the visual background
Vertebrate eyes first evolved in water, where spectral content rapidly fades with distance. Zebrafish exploit this loss by antagonizing cone signals to suppress the background, pointing to distance es...
https://www.cell.com/cell/fulltext/S0092-8674(25)01138-9
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sinan malik
Fumi Kubo
3 months ago
Thank you so much for featuring our study🙏
add a skeleton here at some point
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Found them: the brain's specific "go" neurons for swimming.
@fumikubo.bsky.social
team discovers the inhibitory pretextal cells essential for optomotor response, dissociating it from eye movements. A stunning map from function to molecular identity. Thrilled to highlight this work! 🐟
add a skeleton here at some point
4 months ago
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sinan malik
Martin Haesemeyer
4 months ago
Out now in
@currentbiology.bsky.social
led by Kaarthik A Balakrishnan: We identify medullary circuits that represent the valence of thermal stimuli and control both long-term strategies of cold-avoidance and short term hot avoidance behaviors to enable thermoregulation.
www.cell.com/current-biol...
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Behavioral and circuit principles of temperature gradient navigation
Behavioral thermoregulation is critical for survival across animals. Balakrishnan and Haesemeyer discover that thermoregulatory behavior in larval zebrafish is organized into longer-term swim modes. T...
https://www.cell.com/current-biology/fulltext/S0960-9822%2825%2901253-9
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Witnessed an Orchestra for the first time 'Silk Notes From Pipa'. Simply beautiful. Definition of teamwork and synchronicity.
4 months ago
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sinan malik
The Transmitter
4 months ago
Naturalistic approaches such as Ulanovsky’s open up “potential opportunities to really reveal why the brain is structured in the way it’s structured,” says Iain Couzin. By
@claudia-lopez.bsky.social
#neuroskyence
www.thetransmitter.org/neuroetholog...
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Diving in with Nachum Ulanovsky
With an eye toward realism, the neuroscientist, who has a new study about bats out today, creates microcosms of the natural world to understand animal behavior.
https://www.thetransmitter.org/neuroethology/diving-in-with-nachum-ulanovsky/?utm_source=bluesky&utm_medium=org-social&utm_campaign=20251020-profile-nachum-ulanovsky
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sinan malik
Javier Lazaro - scientific illustration
5 months ago
"Fishman", proposal for a journal cover. Commissioned by MY Dennis' lab
@mydennis.bsky.social
for a study focused on identifying human-specific gene duplications and their role in brain evolution using genomics and zebrafish as model.
@dcsoto.bsky.social
#art
#digitalart
#sciart
#fish
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Jun Nagai
4 months ago
Just out in Nature! “The astrocytic ensemble acts as a multiday trace to stabilize memory.” We identified astrocytic ensembles that link experiences across days to stabilize memory
nature.com/articles/s41...
. New astrocyte tools are openly available at Addgene:
addgene.org/Jun_Nagai/
. 1/8
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Cool work! from Engert Lab
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4 months ago
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My first paper is out! “Social maintenance masks induced aggression in zebrafish” — research from my internship in the Neuronal Plasticity Group on how social context can suppress aggression.
#zebrafishrocks
🐟
www.nature.com/articles/s41...
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Social maintenance masks induced aggression in zebrafish - Scientific Reports
Scientific Reports - Social maintenance masks induced aggression in zebrafish
https://www.nature.com/articles/s41598-025-17318-1
4 months ago
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sinan malik
Katrin Vogt
5 months ago
How is valence computed in the brain? Check out our new preprint about a single cell that integrates excitatory and inhibitory input across modalities according to valence and impacts behavioral decisions. An exciting collaboration across many labs. Enjoy reading!
www.biorxiv.org/content/10.1...
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A multisensory, bidirectional, valence encoder guides behavioral decisions
A key function of the brain is to categorize sensory cues as repulsive or attractive and respond accordingly. While we have some understanding of how sensory information is processed in the sensory pe...
https://www.biorxiv.org/content/10.1101/2025.09.26.678749v1
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sinan malik
5 months ago
1/8 How can the brain create countless unique memories using a single, universal metric of space? We’ve been waiting for the answer to this for two decades! Read it here:
www.biorxiv.org/content/10.1...
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sinan malik
Venki Murthy
5 months ago
(edited repost) Thrilled to see our computational work on adaptive shaping of behavior (we call it outcome-based curriculum learning) in PLoS Comp Biol!
@wl-tong.bsky.social
,
@gautamreddy.bsky.social
& I formalize curricula in any RL task that can be framed as sequential simple-to-complex behavior.
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Adaptive algorithms for shaping behavior
Author summary Animals are commonly trained by ‘shaping’ their behavior using a sequence of simpler tasks towards a complex behavior. Numerous schools of thought have proposed heuristics for shaping b...
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1013454
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sinan malik
The Transmitter
5 months ago
In this month’s “Liftoff,”
@matthiasnau.bsky.social
talks about the importance of making quick decisions as a PI, and
@kmcostalab.com
shares how lab members being mad at a PI can sometimes be a good thing. By
@franciscorr25.bsky.social
#neuroskyence
www.thetransmitter.org/liftoff-new-...
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Liftoff: New lab alerts
Learn about early-career scientists starting their own labs.
https://www.thetransmitter.org/liftoff-new-lab-alerts-early-career-neuroscientists/?utm_source=bluesky&utm_medium=org-social&utm_campaign=20250917-liftoff-sept
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sinan malik
bioRxiv Neuroscience
5 months ago
Hierarchical processing of sensory information across topographically organized thalamocortical-like circuits in the zebrafish brain
https://www.biorxiv.org/content/10.1101/2025.09.15.675867v1
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sinan malik
Emre Yaksi
5 months ago
Check out this exciting study led by Anh-Tuan Trinh from our lab, where we investigated how thalamocortical-like circuits in the zebrafish pallium receive, represent, and integrate sensory information: 🔗
doi.org/10.1101/2025...
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Hierarchical processing of sensory information across topographically organized thalamocortical-like circuits in the zebrafish brain
Thalamocortical projections contribute to the spatial organization and functional hierarchies of the mammalian cortex. Primary sensory cortices receive topographically segregated information from firs...
https://doi.org/10.1101/2025.09.15.675867
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sinan malik
bioRxiv Neuroscience
5 months ago
Beyond Locomotion: How Specialized Motor Rhythms Enable Vertebrate Escape from Capture
https://www.biorxiv.org/content/10.1101/2025.09.08.674955v1
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sinan malik
Kanaka Rajan
5 months ago
(4/8) Beyond neural predictions, POCO's learned unit embeddings independently reproduce brain region clustering without any anatomical labels. That means at single-cell resolution across entire brains, POCO mimics biological organization purely from neural activity patterns ✨
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