Jure Majnik
@juremaj.bsky.social
PhD student in (developmental/comp)neuroscience. Cossart lab (INMED, Marseille). track2p.github.io
Pinned
Jure Majnik
@juremaj.bsky.social
· Mar 3
How does a neuron get its activity? 👀
Check out our latest preprint, where we tracked the activity of the same neurons throughout early postnatal development: www.biorxiv.org/content/10.1...
see 🧵 (1/?)
Check out our latest preprint, where we tracked the activity of the same neurons throughout early postnatal development: www.biorxiv.org/content/10.1...
see 🧵 (1/?)
Reposted by Jure Majnik
This is who runs this account
February 4, 2026 at 5:12 PM
This is who runs this account
Reposted by Jure Majnik
A new community-driven lab handbook for reducing conflict and creating more positive and equitable work environments gets strong support from a survey of 200 researchers.
buff.ly/K7CGFLV
buff.ly/K7CGFLV
January 14, 2026 at 11:02 AM
A new community-driven lab handbook for reducing conflict and creating more positive and equitable work environments gets strong support from a survey of 200 researchers.
buff.ly/K7CGFLV
buff.ly/K7CGFLV
Reposted by Jure Majnik
I am very happy (and a bit scared) to present to you what we have been working on over the last 4 years. This manuscript is exactly what I dreamt of when I started the lab and I could not be happier and prouder of the outcome!
Evolutionary dynamics of temporal transcription factor series in the insect optic lobe https://www.biorxiv.org/content/10.64898/2026.01.08.698497v1
January 10, 2026 at 9:43 AM
I am very happy (and a bit scared) to present to you what we have been working on over the last 4 years. This manuscript is exactly what I dreamt of when I started the lab and I could not be happier and prouder of the outcome!
Reposted by Jure Majnik
Sequences are everywhere! In every brain region. And are written in stone.
Invariant Activity Sequences Across the Mouse Brain.
Out today, by Célian Bimbard, with @kenneth-harris.bsky.social.
Based on data by Célian and by @intlbrainlab.bsky.social.
www.biorxiv.org/content/10.6...
Invariant Activity Sequences Across the Mouse Brain.
Out today, by Célian Bimbard, with @kenneth-harris.bsky.social.
Based on data by Célian and by @intlbrainlab.bsky.social.
www.biorxiv.org/content/10.6...
December 22, 2025 at 11:59 AM
Sequences are everywhere! In every brain region. And are written in stone.
Invariant Activity Sequences Across the Mouse Brain.
Out today, by Célian Bimbard, with @kenneth-harris.bsky.social.
Based on data by Célian and by @intlbrainlab.bsky.social.
www.biorxiv.org/content/10.6...
Invariant Activity Sequences Across the Mouse Brain.
Out today, by Célian Bimbard, with @kenneth-harris.bsky.social.
Based on data by Célian and by @intlbrainlab.bsky.social.
www.biorxiv.org/content/10.6...
Reposted by Jure Majnik
“A process which led from the amoeba to man appeared to the philosophers to be obviously a progress - though whether the amoeba would agree with this opinion is not known"
- Bertrand Russell, 1976.
Time-lapse video of Vampyrella lateritia eating Spirogyra algae from Science Source/Oliver Skibbe. 🦠
- Bertrand Russell, 1976.
Time-lapse video of Vampyrella lateritia eating Spirogyra algae from Science Source/Oliver Skibbe. 🦠
December 17, 2025 at 4:53 PM
“A process which led from the amoeba to man appeared to the philosophers to be obviously a progress - though whether the amoeba would agree with this opinion is not known"
- Bertrand Russell, 1976.
Time-lapse video of Vampyrella lateritia eating Spirogyra algae from Science Source/Oliver Skibbe. 🦠
- Bertrand Russell, 1976.
Time-lapse video of Vampyrella lateritia eating Spirogyra algae from Science Source/Oliver Skibbe. 🦠
Reposted by Jure Majnik
And here is the PDF of the 4th course @college-de-france.fr. You will find the justification and presentation of geometric representation of cell decisions, a parsimonious mathematical model for signalling and cell state transitions
tinyurl.com/yc7u296j
tinyurl.com/yc7u296j
December 16, 2025 at 9:57 AM
And here is the PDF of the 4th course @college-de-france.fr. You will find the justification and presentation of geometric representation of cell decisions, a parsimonious mathematical model for signalling and cell state transitions
tinyurl.com/yc7u296j
tinyurl.com/yc7u296j
My first paper just got published last week!
*Longitudinal tracking of neuronal activity from the same cells in the developing brain using Track2p*
elifesciences.org/articles/107...
*Longitudinal tracking of neuronal activity from the same cells in the developing brain using Track2p*
elifesciences.org/articles/107...
December 18, 2025 at 10:59 AM
My first paper just got published last week!
*Longitudinal tracking of neuronal activity from the same cells in the developing brain using Track2p*
elifesciences.org/articles/107...
*Longitudinal tracking of neuronal activity from the same cells in the developing brain using Track2p*
elifesciences.org/articles/107...
Reposted by Jure Majnik
Intravital observation of neuronal and immune cell dynamics in the developing mammalian brain: @cellpress.bsky.social www.cell.com/cell/fulltex...
December 16, 2025 at 3:45 PM
Intravital observation of neuronal and immune cell dynamics in the developing mammalian brain: @cellpress.bsky.social www.cell.com/cell/fulltex...
Reposted by Jure Majnik
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/...
www.science.org/doi/10.1126/...
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...
www.science.org
December 14, 2025 at 9:46 AM
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/...
www.science.org/doi/10.1126/...
Reposted by Jure Majnik
How do neural circuits generate the walking rhythm?
Using connectome simulations, @sarahpugly.bsky.social found a minimal central pattern generator (CPG) that produces oscillations in leg motor neurons. Same circuit motif for each 🪰 leg.
w @bingbrunton.bsky.social
www.biorxiv.org/content/10.1...
Using connectome simulations, @sarahpugly.bsky.social found a minimal central pattern generator (CPG) that produces oscillations in leg motor neurons. Same circuit motif for each 🪰 leg.
w @bingbrunton.bsky.social
www.biorxiv.org/content/10.1...
December 9, 2025 at 5:50 PM
How do neural circuits generate the walking rhythm?
Using connectome simulations, @sarahpugly.bsky.social found a minimal central pattern generator (CPG) that produces oscillations in leg motor neurons. Same circuit motif for each 🪰 leg.
w @bingbrunton.bsky.social
www.biorxiv.org/content/10.1...
Using connectome simulations, @sarahpugly.bsky.social found a minimal central pattern generator (CPG) that produces oscillations in leg motor neurons. Same circuit motif for each 🪰 leg.
w @bingbrunton.bsky.social
www.biorxiv.org/content/10.1...
Reposted by Jure Majnik
Our Method of the Year 2025 is...drumroll please...EM-based connectomics!!
Our Editorial introduces our choice and highlights six Comments and other related content in this special issue. Please join us in celebrating EM-based connectomics! 🎉🧠🔬
www.nature.com/articles/s41...
Our Editorial introduces our choice and highlights six Comments and other related content in this special issue. Please join us in celebrating EM-based connectomics! 🎉🧠🔬
www.nature.com/articles/s41...
Method of the Year 2025: electron microscopy-based connectomics - Nature Methods
A large network of interconnected neurons serves as the basis of brain function and of behavior. Methodological advances have enabled the reconstruction of large-scale and even whole-brain connectomes...
www.nature.com
December 8, 2025 at 4:59 PM
Our Method of the Year 2025 is...drumroll please...EM-based connectomics!!
Our Editorial introduces our choice and highlights six Comments and other related content in this special issue. Please join us in celebrating EM-based connectomics! 🎉🧠🔬
www.nature.com/articles/s41...
Our Editorial introduces our choice and highlights six Comments and other related content in this special issue. Please join us in celebrating EM-based connectomics! 🎉🧠🔬
www.nature.com/articles/s41...
Reposted by Jure Majnik
Flipbook of zebrafish embryogenesis. Taken from December 1996 issue of @dev-journal.bsky.social. Still images from movie by Rolf Karlstrom and Don Kane. Flipping credit to @amjeve.bsky.social. #ZebrafishZunday #ZebrafishFunFacts 🧪
December 7, 2025 at 5:47 AM
Flipbook of zebrafish embryogenesis. Taken from December 1996 issue of @dev-journal.bsky.social. Still images from movie by Rolf Karlstrom and Don Kane. Flipping credit to @amjeve.bsky.social. #ZebrafishZunday #ZebrafishFunFacts 🧪
Reposted by Jure Majnik
Great to see this published: Fitting dynamical landscape models to single-cell data, creating interpretable maps of cell decision making & developmental logic
Applied to neural tube patterning, we show how morphogen signals reshape landscapes and drive fate decisions
www.pnas.org/doi/10.1073/...
Applied to neural tube patterning, we show how morphogen signals reshape landscapes and drive fate decisions
www.pnas.org/doi/10.1073/...
Reconstructing Waddington’s landscape from data | PNAS
The development of a zygote into a functional organism requires that this single progenitor
cell gives rise to numerous distinct cell types. Attemp...
www.pnas.org
December 4, 2025 at 6:29 AM
Great to see this published: Fitting dynamical landscape models to single-cell data, creating interpretable maps of cell decision making & developmental logic
Applied to neural tube patterning, we show how morphogen signals reshape landscapes and drive fate decisions
www.pnas.org/doi/10.1073/...
Applied to neural tube patterning, we show how morphogen signals reshape landscapes and drive fate decisions
www.pnas.org/doi/10.1073/...
Reposted by Jure Majnik
Happy to share the first paper from my journey at @psich.bsky.social towards X-ray connectomics, now out in @natmethods.nature.com: www.nature.com/articles/s41...
November 27, 2025 at 10:21 AM
Happy to share the first paper from my journey at @psich.bsky.social towards X-ray connectomics, now out in @natmethods.nature.com: www.nature.com/articles/s41...
Reposted by Jure Majnik
Our new paper showcasing molecular connectomics with pan-expansion microscopy is out in @natbiotech.nature.com! www.nature.com/articles/s41...
This wonderful collaboration with @bewersdorflab.bsky.social was led by Ons M'Saad (now founder/CEO of Panluminate) and @allisonphysics.bsky.social. (1/5)
This wonderful collaboration with @bewersdorflab.bsky.social was led by Ons M'Saad (now founder/CEO of Panluminate) and @allisonphysics.bsky.social. (1/5)
November 27, 2025 at 4:40 AM
Our new paper showcasing molecular connectomics with pan-expansion microscopy is out in @natbiotech.nature.com! www.nature.com/articles/s41...
This wonderful collaboration with @bewersdorflab.bsky.social was led by Ons M'Saad (now founder/CEO of Panluminate) and @allisonphysics.bsky.social. (1/5)
This wonderful collaboration with @bewersdorflab.bsky.social was led by Ons M'Saad (now founder/CEO of Panluminate) and @allisonphysics.bsky.social. (1/5)
Reposted by Jure Majnik
Hi, I’m David Brückner @davidbrueckner.bsky.social.
I’ll take you through how cells in a tissue can use information distributed by biochemical gradients to make decisions, and how we can measure such positional information.
buff.ly/RFxVeHh
I’ll take you through how cells in a tissue can use information distributed by biochemical gradients to make decisions, and how we can measure such positional information.
buff.ly/RFxVeHh
November 15, 2025 at 8:00 AM
Hi, I’m David Brückner @davidbrueckner.bsky.social.
I’ll take you through how cells in a tissue can use information distributed by biochemical gradients to make decisions, and how we can measure such positional information.
buff.ly/RFxVeHh
I’ll take you through how cells in a tissue can use information distributed by biochemical gradients to make decisions, and how we can measure such positional information.
buff.ly/RFxVeHh
Reposted by Jure Majnik
Our work on training biophysical models with Jaxley is now out in @natmethods.nature.com. Led by @deismic.bsky.social, with @philipp.hertie.ai, @ppjgoncalves.bsky.social & @jakhmack.bsky.social et al.
Paper: www.nature.com/articles/s41...
Paper: www.nature.com/articles/s41...
Jaxley: differentiable simulation enables large-scale training of detailed biophysical models of neural dynamics - Nature Methods
Jaxley is a versatile platform for biophysical modeling in neuroscience. It allows efficiently simulating large-scale biophysical models on CPUs, GPUs and TPUs. Model parameters can be optimized with ...
www.nature.com
November 13, 2025 at 1:08 PM
Our work on training biophysical models with Jaxley is now out in @natmethods.nature.com. Led by @deismic.bsky.social, with @philipp.hertie.ai, @ppjgoncalves.bsky.social & @jakhmack.bsky.social et al.
Paper: www.nature.com/articles/s41...
Paper: www.nature.com/articles/s41...
Reposted by Jure Majnik
Felix Zhou's u-Segment3D is out:
www.nature.com/articles/s41...
It leverages 2D cell segmentations from orthoviews to generate a ‘consensus’ 3D segmentation.
It does a great job on segmenting densely packed samples, and we have used the algorithm in many applications.
www.nature.com/articles/s41...
It leverages 2D cell segmentations from orthoviews to generate a ‘consensus’ 3D segmentation.
It does a great job on segmenting densely packed samples, and we have used the algorithm in many applications.
November 12, 2025 at 2:41 AM
Felix Zhou's u-Segment3D is out:
www.nature.com/articles/s41...
It leverages 2D cell segmentations from orthoviews to generate a ‘consensus’ 3D segmentation.
It does a great job on segmenting densely packed samples, and we have used the algorithm in many applications.
www.nature.com/articles/s41...
It leverages 2D cell segmentations from orthoviews to generate a ‘consensus’ 3D segmentation.
It does a great job on segmenting densely packed samples, and we have used the algorithm in many applications.
Reposted by Jure Majnik
Connectome datasets alone are generally not sufficient to predict neural activity. However, pairing connectivity information with neural recordings can produce accurate predictions of activity in unrecorded neurons
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Prediction of neural activity in connectome-constrained recurrent networks - Nature Neuroscience
The authors show that connectome datasets alone are generally not sufficient to predict neural activity. However, pairing connectivity information with neural recordings can produce accurate predictio...
www.nature.com
November 10, 2025 at 10:12 PM
Connectome datasets alone are generally not sufficient to predict neural activity. However, pairing connectivity information with neural recordings can produce accurate predictions of activity in unrecorded neurons
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Jure Majnik
How can we organize current theoretical approaches for developmental biology - from information to dynamical systems & GRNs - into a common framework?
We propose to think along Marr's 3 levels: computational problem, algorithm, implementation
Check out our review:
arxiv.org/abs/2510.24536
We propose to think along Marr's 3 levels: computational problem, algorithm, implementation
Check out our review:
arxiv.org/abs/2510.24536
November 10, 2025 at 6:46 AM
How can we organize current theoretical approaches for developmental biology - from information to dynamical systems & GRNs - into a common framework?
We propose to think along Marr's 3 levels: computational problem, algorithm, implementation
Check out our review:
arxiv.org/abs/2510.24536
We propose to think along Marr's 3 levels: computational problem, algorithm, implementation
Check out our review:
arxiv.org/abs/2510.24536
Reposted by Jure Majnik
Conrad Hal Waddington was born OTD in 1905.
His “epigenetic landscape” is a diagrammatic representation of the constraints influencing embryonic development.
On his 50th birthday, his colleagues gave him a pinball machine on the model of the epigenetic landscape.
🧪 🦫🦋 🌱🐋 #HistSTM #philsci #evobio
His “epigenetic landscape” is a diagrammatic representation of the constraints influencing embryonic development.
On his 50th birthday, his colleagues gave him a pinball machine on the model of the epigenetic landscape.
🧪 🦫🦋 🌱🐋 #HistSTM #philsci #evobio
November 8, 2025 at 4:03 PM
Reposted by Jure Majnik
We have written two reviews providing a practical guide and fundamentals of cell migration:
(1) How to select an optimal cell migration assay,
(2) How to analyze cell migration data.
We also added a perspective on AI methods of analysis.
Coming out soon in Nature Methods.
(1) How to select an optimal cell migration assay,
(2) How to analyze cell migration data.
We also added a perspective on AI methods of analysis.
Coming out soon in Nature Methods.
November 8, 2025 at 6:17 PM
We have written two reviews providing a practical guide and fundamentals of cell migration:
(1) How to select an optimal cell migration assay,
(2) How to analyze cell migration data.
We also added a perspective on AI methods of analysis.
Coming out soon in Nature Methods.
(1) How to select an optimal cell migration assay,
(2) How to analyze cell migration data.
We also added a perspective on AI methods of analysis.
Coming out soon in Nature Methods.
Reposted by Jure Majnik
New issue of Nature - with NINE studies on #brain #development from the BRAIN Initiative Cell Atlas Network (BICAN) 🧠🧪🔬
An amazing set of resources for all scientists working on the brain!
🧠 Immersive feature:
www.nature.com/immersive/d4...
🧠 Perspective:
www.nature.com/articles/s41...
An amazing set of resources for all scientists working on the brain!
🧠 Immersive feature:
www.nature.com/immersive/d4...
🧠 Perspective:
www.nature.com/articles/s41...
November 5, 2025 at 6:53 PM
New issue of Nature - with NINE studies on #brain #development from the BRAIN Initiative Cell Atlas Network (BICAN) 🧠🧪🔬
An amazing set of resources for all scientists working on the brain!
🧠 Immersive feature:
www.nature.com/immersive/d4...
🧠 Perspective:
www.nature.com/articles/s41...
An amazing set of resources for all scientists working on the brain!
🧠 Immersive feature:
www.nature.com/immersive/d4...
🧠 Perspective:
www.nature.com/articles/s41...
Reposted by Jure Majnik
Do flies feel pain?
Spooky new preprint from our lab on the cells and circuits that mediate nociceptive behaviors in adult Drosophila, led by graduate student (and newly minted PhD!) @jonesjes.bsky.social.
🪰⚡👻🎃
www.biorxiv.org/content/10.1...
Spooky new preprint from our lab on the cells and circuits that mediate nociceptive behaviors in adult Drosophila, led by graduate student (and newly minted PhD!) @jonesjes.bsky.social.
🪰⚡👻🎃
www.biorxiv.org/content/10.1...
October 29, 2025 at 6:56 PM
Do flies feel pain?
Spooky new preprint from our lab on the cells and circuits that mediate nociceptive behaviors in adult Drosophila, led by graduate student (and newly minted PhD!) @jonesjes.bsky.social.
🪰⚡👻🎃
www.biorxiv.org/content/10.1...
Spooky new preprint from our lab on the cells and circuits that mediate nociceptive behaviors in adult Drosophila, led by graduate student (and newly minted PhD!) @jonesjes.bsky.social.
🪰⚡👻🎃
www.biorxiv.org/content/10.1...
Reposted by Jure Majnik
The songbird basal ganglia connectome https://www.biorxiv.org/content/10.1101/2025.10.25.684569v1
October 27, 2025 at 8:15 AM
The songbird basal ganglia connectome https://www.biorxiv.org/content/10.1101/2025.10.25.684569v1