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Reposted by Amin Saberi

Golia Shafiei @goliashf.bsky.social · 16d

Excited to share that our work introducing the Reproducible Brain Charts (RBC) data resource is now published in Neuron!! 🎉

📚 Read the paper: authors.elsevier.com/c/1lpaF3BtfH...
🧠 Explore the RBC dataset: reprobrainchart.github.io

Golia Shafiei @goliashf.bsky.social · Feb 27

(1/18) Now out on BioRxiv‼️ Reproducible Brain Charts: An open data resource for mapping brain development and its associations with mental health | doi.org/10.1101/2025...

Funded by National Institute of Mental Health (NIMH)

Reproducible Brain Charts: An open data resource for mapping brain development and its associations with mental health

Major mental disorders are increasingly understood as disorders of brain development. Large and heterogeneous samples are required to define generalizable links between brain development and psychopat...

doi.org

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Reposted by Amin Saberi

Bratislav Misic @misicbata.bsky.social · 28d

The effect of spherical projections on spin tests for brain maps | doi.org/10.1162/IMAG...

Spin tests are the de facto null model for map-to-map comparisons in brain imaging. Why don't they perfectly control false positives? @vincebaz.bsky.social explores ⤵️

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Reposted by Amin Saberi

Alessandro Gozzi @gozziale.bsky.social · 28d

🚨 Excited to share the latest preprint form the lab ➡️https://tinyurl.com/32d3be9f

Here we tackle a long-standing chicken-or-egg 🐣🥚question in #autism and developmental neuroscience

➡️ Is excitation–inhibition (E:I) imbalance a "cause" or a "consequence" of #autism?

Check out what we found!
🧵1/n

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Reposted by Amin Saberi

Bratislav Misic @misicbata.bsky.social · Aug 4

Integrating and interpreting brain maps | doi.org/10.1016/j.ti...

Imaging and recording technologies make it possible to map multiple biological features of the brain. How can these features be conceptually integrated into a coherent understanding of brain structure and function? ⤵️

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Reposted by Amin Saberi

Sofie Valk @sofievalk.bsky.social · Jun 21

My lab is at @ohbmofficial.bsky.social in Brisbane! Find us at the @gradientsworkshop.bsky.social - great talks by @wanb.bsky.social Katerina Manoli (and others)

Then we are at the educational sessions where @claraweber.bsky.social will present @amnsbr.bsky.social work on E/I balance.

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Amin Saberi @amnsbr.bsky.social · Jun 6

... and functional changes e.g., faster and stronger IPSCs, and an increase in parvalbumin expression which (at least in one study) was not mirrored by an increase in PV cell counts. I can recommend Caballero 2014 Brain Struct Func, Caballero 2016 Neuro Biobeh Rev, and Hoftman 2017 Biol Psychiatry.

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Amin Saberi @amnsbr.bsky.social · Jun 6

Thank you :) Interesting but difficult question! In our study we are focusing on simulted currents which one can argue is more closely related to synapses, but it's really difficult to tell from our data. But empirical evidence from animal studies to my knowledge is more in favor of synaptic ...

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Amin Saberi @amnsbr.bsky.social · Jun 6

Unfortunately not this year, but @sofievalk.bsky.social will be there. Also feel free to drop me an email/dm and we can talk more :)

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Amin Saberi @amnsbr.bsky.social · Jun 6

Thank you very much 😊 Yes cuBNM was the side product of this study. Happy to help if you're interested in using it!

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Reposted by Amin Saberi

Sofie Valk @sofievalk.bsky.social · Jun 5

Very happy about this paper and what we learned from it!! Please see Amins thread for more juice 🧃 and let us know if you are also on the E/I journey and like to try our toolbox

Amin Saberi @amnsbr.bsky.social · Jun 5

🧠⚖️📉 How does the cortical excitation-inhibition ratio mature during adolescence?
We asked this in our new paper just out in #ScienceAdvances ✨
“Adolescent maturation of cortical excitation-inhibition ratio based on individualized biophysical network modeling”
📄 www.science.org/doi/full/10....
🧵⤵️

Adolescent maturation of cortical excitation-inhibition ratio based on individualized biophysical network modeling

Individualized simulations reveal a decrease in excitation-inhibition ratio in association areas throughout adolescence.

www.science.org

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Reposted by Amin Saberi

Leon Lotter @leondlotter.de · Jun 5

Amazing new paper on individual development of E/I balance during adolescence, first-authored by @amnsbr.bsky.social!

Read @ Science Advances: www.science.org/doi/10.1126/...

Bonus: Amin developed a tool to run biophysical network modelling on GPUs – because why shouldn't he?
cubnm.readthedocs.io

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Reposted by Amin Saberi

Rick Betzel @richardfbetzel.bsky.social · Jun 5

This is awesome!

Amin Saberi @amnsbr.bsky.social · Jun 5

🧠⚖️📉 How does the cortical excitation-inhibition ratio mature during adolescence?
We asked this in our new paper just out in #ScienceAdvances ✨
“Adolescent maturation of cortical excitation-inhibition ratio based on individualized biophysical network modeling”
📄 www.science.org/doi/full/10....
🧵⤵️

Adolescent maturation of cortical excitation-inhibition ratio based on individualized biophysical network modeling

Individualized simulations reveal a decrease in excitation-inhibition ratio in association areas throughout adolescence.

www.science.org

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Amin Saberi @amnsbr.bsky.social · Jun 5

Haha, thank you 😁

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Amin Saberi @amnsbr.bsky.social · Jun 5

Thanks Rick 😊🙏

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Reposted by Amin Saberi

Boris Bernhardt @borismontreal.bsky.social · Jun 5

⭐ new paper

Maturation of cortical excitation-inhibition (EI) in adolescence

now in Science Advances 💥

A true tour de force of multimodal MRI, connectomics & GPU-powered 🤖!! biophysical modelling

by hiball superheroes 🦸‍♂️🦸‍♀️🦸‍♂️
@amnsbr.bsky.social @sofievalk.bsky.social @sbe.bsky.social

Amin Saberi @amnsbr.bsky.social · Jun 5

🧠⚖️📉 How does the cortical excitation-inhibition ratio mature during adolescence?
We asked this in our new paper just out in #ScienceAdvances ✨
“Adolescent maturation of cortical excitation-inhibition ratio based on individualized biophysical network modeling”
📄 www.science.org/doi/full/10....
🧵⤵️

Adolescent maturation of cortical excitation-inhibition ratio based on individualized biophysical network modeling

Individualized simulations reveal a decrease in excitation-inhibition ratio in association areas throughout adolescence.

www.science.org

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Amin Saberi @amnsbr.bsky.social · Jun 5

Thank you 😊🎉

Amin Saberi @amnsbr.bsky.social · Jun 5

... @linaschaare.bsky.social, @brainalien.bsky.social, @lifeofthemind.bsky.social, and many others not on BlueSky 🙏

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Amin Saberi @amnsbr.bsky.social · Jun 5

I spent most of my PhD on this study and while facing many difficulties, I am grateful to have learned so much.
Huge thanks to @sofievalk.bsky.social for her incredible support, and to our co-authors, @sbe.bsky.social, @borismontreal.bsky.social, @juergendukart.bsky.social, @leondlotter.de, ...

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Amin Saberi @amnsbr.bsky.social · Jun 5

Our work provides new in vivo evidence supporting cortical E-I ratio decreases in association regions during adolescence. This has key implications for understanding critical periods and neurodevelopmental disorders.

We also contribute new tools + methods for individualized brain modeling.

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Amin Saberi @amnsbr.bsky.social · Jun 5

Lastly, we ended with a methodological note on alternative simulation-based measures of E-I ratio, importantly highlighting that relying on model parameters may not be ideal as they are interdependent and hard to interpret in isolation.

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Amin Saberi @amnsbr.bsky.social · Jun 5

We then rigorously tested sensitivity of our findings to modeling choices and confounds: structural connectivity, parcellation, parameter settings, noise, and more. Despite some differences, the main developmental pattern (↓E-I ratio in association areas) remained consistent.

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Amin Saberi @amnsbr.bsky.social · Jun 5

Interestingly, the spatial pattern of E-I maturation aligned with the sensorimotor-association axis of cortical development. In addition, genes associated with regions showing ↓E-I ratio were enriched in later developmental stages compared to genes associated with regions showing ↑E-I ratio.

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Amin Saberi @amnsbr.bsky.social · Jun 5

We replicated this pattern longitudinally in the IMAGEN dataset (n=149): Over ~5 years of follow-up (14y → 19y), association areas showed increased inhibition (↓E-I ratio), while sensorimotor areas showed ↑E-I ratio or remained stable.

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Amin Saberi @amnsbr.bsky.social · Jun 5

We then studied how E-I ratio changes with age.

In the PNC cross-sectional data (n=752, 10-19 y), we found age-related decreases in the E-I ratio in frontal, parietal, and temporal association areas, and increases or stable E-I ratios in sensorimotor and visual regions.

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Amin Saberi @amnsbr.bsky.social · Jun 5

For this we needed to run many simulations (~30,000 per subject!) and since this was not feasible to do on CPUs, we developed a ~100-1000x faster GPU implementation of simulations, now available as a Python package cubnm.readthedocs.io/en/stable/ (work in progress; more to follow 🏗️)

cubnm documentationContentsMenuExpandLight modeDark modeAuto light/dark, in light modeAuto light/dark, in dark mode

cubnm.readthedocs.io

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