Ke Xie

🚨 New paper in Nature Methods:
HippoMaps: multiscale cartography of the human hippocampus

Open-source tools & data to explore structure and function of the 🍤🧠 (histology, in/ex vivo MRI, iEEG)

Led by @jordandekraker.bsky.social

docs: hippomaps.readthedocs.io
paper: doi.org/10.1038/s415...

Polygenic and developmental profiles of autism differ by age at diagnosis - Nature A study of several longitudinal birth cohorts and cross-sectional cohorts finds only moderate overlap in genetic variants between autism that is diagnosed earlier and that diagnosed later, so they may represent aetiologically different conditions.

This was a fantastic collaboration with lots of people including @hilarycmartin.bsky.social @jakobgrove.bsky.social, Experts by Experience, and several others who I can't seem to find on this app.

Article: www.nature.com/articles/s41...

Disentangling metabolic and neurovascular timescales supporting cognitive processes | PNAS The balance between neural excitation and inhibition (EIB), governed by glutamatergic and GABAergic neurotransmission, is an essential mechanism su...

Excited to share such a career milestone 🌟 Our new @pnas.org paper shows how E–I balance drives dynamic brain adaptation.

Thanks to @jorgejovicich.bsky.social, @dimitrivdv.bsky.social, @asiaferrari.bsky.social, @bcassone.bsky.social & amazing co-authors 🙏
🔗 www.pnas.org/doi/10.1073/...

Our new paper is out now in Neuron! 🎉 With @vaibhavtripathi.bsky.social @maxwellelliott.bsky.social Joanna Ladopoulou, Wendy Sun, Mark Eldaief, and Randy Buckner

Paper link: www.sciencedirect.com/science/arti...

Arousal as a universal embedding for spatiotemporal brain dynamics - Nature Reframing of arousal as a latent dynamical system can reconstruct multidimensional measurements of large-scale spatiotemporal brain dynamics on the timescale of seconds in mice.

Super proud of this collaboration with rockstar Ryan Raut - born out of playing in the sandbox in our last year of grad school! Multi-scale brain activity can be predicted from a simple measure of arousal like pupil diameter. Out with linear causality, in with dynamic systems to explain neurobiology

Invasive neurophysiology and whole brain connectomics for neural decoding in patients with brain implants - Nature Biomedical Engineering A modularized open-source pipeline for invasive brain signal decoding bridges the gap between closed-loop neuromodulation and clinical brain–computer interface approaches in a large patient cohort.

New paper in Nature Biomedical Engineering by @timonmerk.bsky.social !

We built a platform that unites AI-based brain signal decoding with connectomics across 123 hours of recordings from 73 patients. A step toward adaptive, network-level neurotechnology.

www.nature.com/articles/s41...

The potential of laminar functional MRI in refining the understanding of epilepsy in humans Aitken et al. highlight laminar fMRI as a tool to connect the neural effects of anti-seizure medications with the microcircuits that generate seizures in e

Our review discussing the potential use of laminar fMRI for probing the role of cortical layers in epileptic seizure propagation and spread as well as it possible future clinical applications out in Brain (well as accepted manuscript!)

academic.oup.com/brain/advanc...

High-Density EEG Source Localisation of averaged interictal epileptic Discharges validated by surgical Outcome - Scientific Data Scientific Data - High-Density EEG Source Localisation of averaged interictal epileptic Discharges validated by surgical Outcome

Interested in Epileptic Discharges? In need of a data set to validate your source reconstruction models based on clinical outcome? Check out our newest: www.nature.com/articles/s41...
Big thanks to B. Vorderwülbecke, S. Vuillémoz et al. ! - @seeber.bsky.social @cibm.bsky.social

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? ⤵️

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...

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

1/11 Excited to share our @Naturestudy led by @leonooi.bsky.social @csabaorban.bsky.social @shaoshiz.bsky.social

AI performance is known to scale with logarithm of sample size (Kaplan 2020), but in many domains, sample size can be # participants or # measurements...

doi.org/10.1038/s415...

Alert! ... for the child development world!

@fluxsociety.bsky.social @fitngin.bsky.social ‪

The Healthy Brain and Child Development (HBCD) Study has released its first data wave - it’s massive.

Check here:
docs.hbcdstudy.org

and here:
nbdc-datahub.org

Here’s why it matters 🧠🍼

🧠 ⚡️ Preprint alert ⚡️ 🧠

I️n the most comprehensive review of DBS in epilepsy, with 124 studies, 1,210 patients, and 20 anatomical targets we map where stimulation works best and why.

Deep Brain Stimulation for Epilepsy: Optimal Targeting and Clinical Outcomes
www.researchgate.net/publication/...

Combined impact of gray and superficial white matter abnormalities: Implications for epilepsy surgery Objective Drug-resistant focal epilepsy is associated with abnormalities in the brain in both gray matter (GM) and superficial white matter (SWM). However, it is unknown if both types of abnormaliti...

Combined impact of gray and superficial white matter abnormalities: Implications for epilepsy surgery - Kozma - Epilepsia - Wiley Online Library onlinelibrary.wiley.com/doi/10.1111/...

Seizure freedom after surgical resection of diffusion‐weighted magnetic resonance imaging abnormalities Objective Successful epilepsy surgery requires accurate localization and removal of the epileptogenic zone. Neuroimaging helps detect structural brain abnormalities to guide surgery, but current cli...

Seizure freedom after surgical resection of diffusion‐weighted magnetic resonance imaging abnormalities - Horsley - Epilepsia - Wiley Online Library onlinelibrary.wiley.com/doi/10.1111/...

RELEASE THE KRAKEN(CODER)!
Ever struggle deciding which connectome pipeline to use or want to map between structure and function? Our multi-modal connectome mapping and fusion tool-the Krakencoder-can help! Brilliant Keith Jamison led this work, code available! www.nature.com/articles/s41...

The history and future of resting-state functional magnetic resonance imaging - Nature This Review provides an overview of the history of resting-state functional MRI research, which has helped to reveal the spatiotemporal organization of the brain, and discusses how it can contribute f...

When I first started working with resting state fMRI as a postdoc, there was a lot of skepticism about what we could learn from it. 20 years later, it's hard to imagine where the field of neuroscience would be without it. Here's a summary 🧠 www.nature.com/articles/s41...

The gradients workshop is happening soon! Please join us on June 23rd in Brisbane for a full day of gradient fun! 🌈

✅ Amazing speaker line up
✅ Poster presentation
✅ Flash talks for selected abstracts

Deets on program, abstract submission, and registration 👉 gradients-workshop.github.io

Autonomic physiological coupling of the global fMRI signal Nature Neuroscience - The brain and body are necessarily connected. Here the authors show that brain blood flow and electrical activity are coupled with systemic physiological changes in the body.

First post on an exciting new manuscript online today @natneuro.nature.com - in collab with @lucinauddin.bsky.social and Catie Chang. We take a fresh look at the physiological dynamics associated with the global signal 🧠 ...

www.nature.com/articles/s41...

Read here:
rdcu.be/ek01F

Sherbrooke Laboratory for Integrative Connectomics | SLIC Exploring cutting-edge research in neuroimaging, epilepsy, brain development, and so much more!

My lab has two fully funded MSc/PhD positions available!

* Cool research on neuroimaging, epilepsy, and brain development ⚡️
* Located in a brand new building with lots of natural light 🌱
* Worldwide collaborations 🤝🏼
* Fun and inclusive environment 🤩

Learn more and apply 👉🏼 slic-lab.github.io

a cartoon of tweety and jerry saying they are a team . ALT: a cartoon of tweety and jerry saying they are a team .

🙏 Huge thanks to our amazing 🎓 colleagues at @theneuro.bsky.social, 🌍 co-authors, and 🙆 participants who made this work possible. @borismontreal.bsky.social @alexngo.bsky.social @jroyer.bsky.social @alexbarnett.bsky.social @saratheriver.bsky.social

5️⃣ Toward precision medicine in epilepsy!
✅ Using these individual deviation maps, machine learning models achieved precise diagnosis, seizure onset zone lateralization, and prediction of postsurgical seizure outcome. 💊 📃

4️⃣ Superficial white matter (SWM) anomalies emerge as a key driver. 🧠
🎯 SWM microstructure disruption primarily underpins cortical functional alterations in TLE.

3️⃣ The brain’s structural connectome acts as a scaffold!
🧩 Functional alteration patterns are strongly shaped by the white matter network architecture.

2️⃣ TLE patients show substantial heterogeneity in cortical alteration patterns.
📊 The greatest overlap is in the temporolimbic cortex, but no two patients are exactly the same.

1️⃣ We computed individualized brain functional deviations at local, regional, and global levels.
📈 Highlighted brain regions with extreme deviations — for every single TLE patient.

Personalized Biomarkers of Multiscale Functional Alterations in Temporal Lobe Epilepsy Temporal lobe epilepsy (TLE) presents with substantial inter-patient variability in clinical and neuroimaging manifestations. This multicenter study examined inter-individual differences in spatial pa...

✨ What makes the brain's functional organization different in each #TLE patient? 🧠
✨ We used a large sample (298 healthy adults, 282 TLE, 45 disease controls) + normative modeling to capture individualized functional disruptions. 🔎 #epilepsy #neuroimaging #precisionmedicine
doi.org/10.1101/2025...

While the world burns, we cook up a new preprint! doi.org/10.1101/2025...

Biophysical modeling is a key tool to derive mechanistic insights into the brain. These models are governed by biologically meaningful parameters (unlike artificial neural networks), but the dirty secret ... 1/N

Human lifespan changes in the brain’s functional connectome - Nature Neuroscience Sun et al. report human lifespan changes in the brain’s functional connectome in 33,250 individuals, which highlights critical growth milestones and distinct maturation patterns and offers a normative...

Happy to share that our article “Human lifespan changes in the brain’s functional connectome” is now published online at Nature Neuroscience @natureneuro.bsky.social !

Many thanks to all collaborators & data contributors, and the editor team & reviewers!

www.nature.com/articles/s41...

A network correspondence toolbox for quantitative evaluation of novel neuroimaging results - Nature Communications Here, the authors present the Network Correspondence Toolbox, which enables researchers to examine and report spatial correspondence between their neuroimaging results and widely used brain atlases.

It's finally here! Use the Network Correspondence Toolbox to help contextualize your neuroimaging findings 🧠