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practiCal fMRI

@practicalfmri.bsky.social
276 followers 33 following 336 posts

practicalfmri.blogspot.com www.youtube.com/@practiCalfMRI

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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 18h
Dose-dependent ultrasound neuromodulation of the human brain www.biorxiv.org/content/10.64898/20…
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Dan Handwerker @danielhandwerker.bsky.social · 25/09/2026
Great postdoc opportunity with Peter Bandettini @fmri-today.bsky.social (and me).
jobs.humanbrainmapping.org
Postdoctoral Researcher in fMRI methods Job Opening in Bethesda, Maryland - Organization for Human Brain Mapping
A new Postdoctoral Researcher in fMRI methods job is available in Bethesda, Maryland. Check it out on Organization for Human Brain Mapping.
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Dan Handwerker @danielhandwerker.bsky.social · 23/09/2026
Looking forward to seeing who is lucky enough to hire @joetzel.bsky.social
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Jo Etzel @joetzel.bsky.social · 22/09/2026
Searching for myself on YouTube is more mixed-content than I expected: Bobbiejo Etzel (no relation) was charged for murder a few years ago. (The www.youtube.com/watch?v=iNbT... link is for my job search; anyone in the EU looking to hire staff (me!) for fMRI/dataset QC/analysis/project management?)
youtube.com
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Micah G. Allen @micahgallen.com · 22/09/2026
Here is what Sol said when I asked it how it did this 🧵
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Micah G. Allen @micahgallen.com · 22/09/2026
So… we just found out that GPT sol can complete a complex online behavioral/cognitive study producing nearly indistinguishable behavior and subjective reports… right as we are about to launch. Is this doomsday for online cognitive testing?
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 11/09/2026
Large-Vessel Venous Signal Confounds Apparent Amygdala Activation in BOLD fMRI www.biorxiv.org/content/10.64898/20…
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Geoanna M. Bautista, M.D. @geoannabautista.bsky.social · 10/09/2026
Mechanosensation isn't just at the cell surface. In gut smooth muscle, we found that Piezo1 is mostly intracellular, <40 nm from RyR and BK channels. Activating it hyperpolarizes cells and weakens contraction- like a molecular brake. Stay tuned for more to come! J Physiol: doi.org/10.1113/JP29...
doi.org
Intracellular mechanosensation in intestinal smooth muscle: Piezo1 complexes amplify signalling beyond the surface
Abstract figure legend Mechanosensation is not confined to the cell surface. In intestinal smooth muscle Piezo1 is predominantly intracellular (86%), where it forms a nanoscale (<40 nm) complex at th...
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practiCal fMRI @practicalfmri.bsky.social · 03/09/2026
These knockout models supposedly eliminate Piezo1 from neurons, but neither paper mentions any possible effects on the considerable Piezo1 in endothelial cells. Anyone able to shed light on potential side effects? Thx! pubmed.ncbi.nlm.nih.gov/37098060/ pubmed.ncbi.nlm.nih.gov/38748529/
pubmed.ncbi.nlm.nih.gov
The mechanosensitive ion channel Piezo1 contributes to ultrasound neuromodulation - PubMed
Transcranial low-intensity ultrasound is a promising neuromodulation modality, with the advantages of noninvasiveness, deep penetration, and high spatiotemporal accuracy. However, the underlying biological mechanism of ultrasonic neuromodulation remains unclear, hindering the development of efficaci …
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practiCal fMRI @practicalfmri.bsky.social · 01/09/2026
Could this be a big part of the response to tFUS? Piezo1... "... suppresses functional hyperemia." "... activation triggers a mechano-feedback system that promotes blood flow recovery to baseline (whether from somatosensory or hypercapnic stimulation)." pubmed.ncbi.nlm.nih.gov/39375369/
pubmed.ncbi.nlm.nih.gov
Endothelial Piezo1 channel mediates mechano-feedback control of brain blood flow - PubMed
Hyperemia in response to neural activity is essential for brain health. A hyperemic response delivers O<sub>2</sub> and nutrients, clears metabolic waste, and concomitantly exposes cerebrovascular endothelial cells to hemodynamic forces. While neurovascular research has primarily centered on the fro …
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Paul Taylor @afni-pt.bsky.social · 31/08/2026
Have you ever felt like something was missing from your #fmri results? Have you been worried about potential reproducibility issues? Well, this new @natmethods.nature.com article with 40+ coauthors shows how the simple change to transparent thresholding helps both. Go Figure! rdcu.be/B4tikBETdQZa
A comparison of old and new thresholding approaches for fMRI data. The newer, transparent thresholding allows for interpreting context, more complete modeling, a reduction of biases and an increase in meaningful content. This all leads to more accurate interpretations and improved reproducibility evaluations.
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tor @torwager.bsky.social · 01/09/2026
42 new #fmri tutorials to accompany our new book Elements of fMRI, with @fMRIstats. Run code in both #python and #matlab in your browser to explore. 7 sections, from conceptual foundations to machine learning and AI. torwager.github.io/elements-of-...
torwager.github.io
Elements of fMRI Analysis — Interactive Tutorials
Hands-on tutorials for the book Elements of fMRI Analysis: runnable MATLAB and Python code, thought questions, and self-quizzes for all 42 chapters.
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 26/08/2026
Evidence for a rod-to-cone lactate shuttle in the mammalian retina www.biorxiv.org/content/10.64898/20…
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practiCal fMRI @practicalfmri.bsky.social · 30/08/2026
The Unexpected Role of the Endothelial Nitric Oxide Synthase at the Neurovascular Unit: Beyond the Regulation of Cerebral Blood Flow pubmed.ncbi.nlm.nih.gov/39201757/ Another "better late than never," with possible implications for a contribution of vasculo-neural coupling to tFUS activity.
pubmed.ncbi.nlm.nih.gov
The Unexpected Role of the Endothelial Nitric Oxide Synthase at the Neurovascular Unit: Beyond the Regulation of Cerebral Blood Flow - PubMed
Nitric oxide (NO) is a highly versatile gasotransmitter that has first been shown to regulate cardiovascular function and then to exert tight control over a much broader range of processes, including neurotransmitter release, neuronal excitability, and synaptic plasticity. Endothelial NO synthase (e …
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practiCal fMRI @practicalfmri.bsky.social · 28/08/2026
Type-I nNOS neurons orchestrate cortical neural activity and vasomotion pubmed.ncbi.nlm.nih.gov/41217439/ (Better late than never!)
pubmed.ncbi.nlm.nih.gov
Type-I nNOS neurons orchestrate cortical neural activity and vasomotion - PubMed
It is unknown how the brain orchestrates coordination of global neural and vascular dynamics. We sought to uncover the role of a sparse but unusual population of genetically distinct interneurons known as type-I nNOS neurons, using a novel pharmacological strategy to unilaterally ablate these neuron …
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practiCal fMRI @practicalfmri.bsky.social · 18/08/2026
While I’m pondering scanners of the future, what about moving to active chest/cardiac shielding so super fast whole body, symmetric gradients could be used over the head? Asymmetric gradients are so constraining, and loud!
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practiCal fMRI @practicalfmri.bsky.social · 17/08/2026
Do you think Siemens, GE or Philips will ever offer a 5 T for advanced neuro? While they might reduce their 7 T sales a bit, surely many research orgs would upgrade from premiere 3 T scanners if the price & specs were right.
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practiCal fMRI @practicalfmri.bsky.social · 10/08/2026
Beyond the canonical HRF: Flexible temporal modeling reveals unconstrained BOLD profiles during naturalistic viewing pubmed.ncbi.nlm.nih.gov/42569467/
pubmed.ncbi.nlm.nih.gov
Beyond the canonical HRF: Flexible temporal modeling reveals unconstrained BOLD profiles during naturalistic viewing - PubMed
Naturalistic stimuli, such as movies and narratives, are increasingly used in cognitive neuroscience to map cognitive and affective processes onto brain activity measured with functional MRI (fMRI). F...
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 05/08/2026
Denoising the central autonomic network: characterizing processes jointly associated with arousal and non-neuronal physiological artefacts in dynamic fMRI analyses www.biorxiv.org/content/10.64898/20…
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practiCal fMRI @practicalfmri.bsky.social · 28/07/2026
But pseudo-motion dominates in the phase encoding axis of EPI; that is, a translation. So I've always wondered whether we couldn't use just the three rotations to calculate FD as a better estimate of real head motion instead: practicalfmri.blogspot.com/2024/04/can-... (2/2)
practicalfmri.blogspot.com
Can we separate real and apparent motion in QC of fMRI data?
A few years ago, Jo Etzel and I got into a brief but useful investigation of the effects of apparent head motion in fMRI data collected wi...
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practiCal fMRI @practicalfmri.bsky.social · 28/07/2026
Framewise displacement (FD) uses the three translations & three rotations from volume realignment ("motion correction") to estimate total motion amount, and define high/low movers. In this paper, as in earlier work, a notch filter (~0.3 Hz) tries to deal with pseudo-motion from breathing. (1/2)
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 28/07/2026
The State of Motion: Demographic and representational consequences of motion-based exclusion in fMRI www.biorxiv.org/content/10.64898/20…
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practiCal fMRI @practicalfmri.bsky.social · 28/07/2026
More evidence of motion as stable trait which biases fMRI group studies.
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practiCal fMRI @practicalfmri.bsky.social · 22/07/2026
So the UK gubmint replaced its prime minister for the sake of £45 a year in VAT on electricity and a quid off a bus fare already capped at £3? Seriously? These are the big changes?
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 21/07/2026
Limitations of pupil diameter as a proxy for modes of locus coeruleus activity www.biorxiv.org/content/10.64898/20…
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Dan Handwerker @danielhandwerker.bsky.social · 10/07/2026
The 2026 fMRI Summer Course with @fmri-today.bsky.social has begun and the recordings and slides are shared here: fmrif.nimh.nih.gov/SummerCourse
fmrif.nimh.nih.gov
FMRIF Summer Course
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 11/07/2026
Optimizing MR-based gaze-decoding for eyes-closed eye-tracking in fMRI www.biorxiv.org/content/10.64898/20…
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practiCal fMRI @practicalfmri.bsky.social · 03/07/2026
NAA as mitochondrial “sweat” makes sense. It’s localized to neurons & dendrites, and the harder they work the more carbon they need to build synapses.
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 03/07/2026
N-Acetylaspartate Synthesis as a Thermodynamic Relief Mechanism for Mitochondrial Aspartate Aminotransferase www.biorxiv.org/content/10.64898/20…
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Blaise Frederick @blaisefrederick.bsky.social · 02/07/2026
Dr. Tianye Zhai’s careful and exhaustive new paper evaluating the effects of numerous fMRI denoising pipeline components, alone and in combination, just came out in HBM - check it out! onlinelibrary.wiley.com/doi/10.1002/...
onlinelibrary.wiley.com
Benchmarking fMRI Denoising Pipelines
This paper benchmarked fMRI denoising pipelines on task- and resting-state, single- and multi-echo fMRI datasets, in a modern 1-step regression framework, with pre-whitening and time-shifted physiolo...
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practiCal fMRI @practicalfmri.bsky.social · 30/06/2026
Cell-Type-Specific Bidirectional Modulation of the Cortico-Thalamo-Cortical Sensory Pathway by Transcranial Focused Ultrasound (tFUS) pubmed.ncbi.nlm.nih.gov/42362146/
pubmed.ncbi.nlm.nih.gov
Cell-Type-Specific Bidirectional Modulation of the Cortico-Thalamo-Cortical Sensory Pathway by Transcranial Focused Ultrasound (tFUS) - PubMed
These findings demonstrate that tFUS exerts bidirectional, parameter-dependent modulation of a sensory pathway and highlight the critical role of CaMKII-positive neurons in mediating these effects. Th...
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Neuroskeptic @neuroskeptic.bsky.social · 28/06/2026
In-scanner thoughts contribute to resting-state functional connectivity pubmed.ncbi.nlm.nih.gov/42365014/ I've long thought that this is the "elephant in the room" of resting state #fMRI esp. for comparing groups. If two groups think & feel differently in the scanner, of course rsfMRI will differ!
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 10/06/2026
Neuroendocrine influences on dynamic cerebrovascular function and implications for functional MRI www.biorxiv.org/content/10.64898/20…
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jean-rintoul.bsky.social @jean-rintoul.bsky.social · 17/06/2026
Published today in Nature Communications: our work shows that ultrasound and electric fields can interact in tissue to generate low-frequency electrical stimulation at the ultrasound focus. A possible new mechanism for ultrasound neuromodulation. doi.org/10.1038/s414...
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 12/06/2026
Ultralow frequency vaso-oscillations in human cerebral arteries are independent from Mayer waves www.biorxiv.org/content/10.64898/20…
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practiCal fMRI @practicalfmri.bsky.social · 04/06/2026
Might vasculo-neural coupling be the main mechanism behind tFUS neuromodulation? What does AI have to say? practicalfmri.blogspot.com/2026/06/in-j...
practicalfmri.blogspot.com
Might vasculo-neural coupling be the main mechanism behind tFUS neuromodulation? What does AI have to say?
In January I speculated on the role of blood vessels  as the possible site(s) of primary activity for transcranial focused ultrasound (tF...
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practiCal fMRI @practicalfmri.bsky.social · 10/05/2026
Commentary by Chen, Rosen & Polimeni in the same issue: www.nature.com/articles/s41...
nature.com
BOLD fMRI reflects both vascular and metabolic signals - Nature Neuroscience
A recent study by Epp et al. uses advanced, quantitative functional MRI measures to demonstrate that the ‘canonical’ interpretation of blood-oxygenation-level-dependent (BOLD) functional MRI (fMRI) — ...
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Tim Behrens @behrenstimb.bsky.social · 09/05/2026
This is the May cover of NN but it has already been debunked on biorxiv www.biorxiv.org/content/10.6... Such a clear statement about the ridiculous pace of publishing (not just NN).
biorxiv.org
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practiCal fMRI @practicalfmri.bsky.social · 09/05/2026
Multiplexed magnetic resonance imaging (MRx). www.nature.com/articles/s41... 22 measures incl. T1, T2, main metabolites in 14 min. A technical tour de force, but I'm not sure where/how it will find clinical applications.
nature.com
Multiplexed magnetic resonance imaging - Nature
A new approach to magnetic resonance imaging, ‘multiplexed magnetic resonance imaging’, is reported, which enables high-resolution simultaneous multiparametric mapping of multiple molecules in standar...
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practiCal fMRI @practicalfmri.bsky.social · 04/05/2026
A Multi-Channel AM-TMAS Driving System Based on Amplitude-Modulated Sine Waves pubmed.ncbi.nlm.nih.gov/42072199/
pubmed.ncbi.nlm.nih.gov
A Multi-Channel AM-TMAS Driving System Based on Amplitude-Modulated Sine Waves - PubMed
Selectively modulating specific brain-rhythm bands with physical stimuli helps both to reveal neural mechanisms and to provide non-pharmacological treatment avenues for brain disorders. This study pro...
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practiCal fMRI @practicalfmri.bsky.social · 27/04/2026
BOLD response delays represent local cortical processing pubmed.ncbi.nlm.nih.gov/42015405/
pubmed.ncbi.nlm.nih.gov
BOLD response delays represent local cortical processing - PubMed
A number of studies showed that stimulus or task conditions can alter the shape of the hemodynamic response (HR). Contrary to variations across brains and brain regions, vascular factors alone cannot ...
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 26/04/2026
Opposing BOLD signals and oxygen metabolism largely arise from statistical uncertainty in metabolic estimates www.biorxiv.org/content/10.64898/20…
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Dr Cyril Pernet @cyrilrpernet.bsky.social · 26/04/2026
OMG 😱 just created a new GitHub repo with CoPilot prompt explaining the project and analyses - it created folders etc .. and wrote half of the code already - some is likely BS but still .. just wow
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 26/02/2026
Neural Control of Autonomic Arousal During Threat Anticipation Revealed by High-Resolution Cardiac Contractility www.biorxiv.org/content/10.64898/20…
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Agnès Landemard @agnesland.bsky.social · 15/04/2026
How does blood flow relate to brain activity? We discovered that it reflects two neural populations affected oppositely by arousal. Together, they explain neurovascular coupling in all brain regions and brain states! Out today in Nature: rdcu.be/fdC2A @uclbrainscience.bsky.social
The supply of blood to brain tissue is thought to depend on the overall neural activity in that tissue, and this dependence is thought to differ across brain regions and across brain states. However, studies supporting these views have measured neural activity as a bulk quantity and related it to blood supply following disparate events in different regions. Here we measure fluctuations in neuronal activity and blood volume across the mouse brain, and find that their relationship is consistent across brain states and brain regions but differs in two opposing brainwide neural populations. Functional ultrasound imaging (fUSI) revealed that whisking, a marker of arousal, is associated with brainwide fluctuations in blood volume. Simultaneous fUSI and Neuropixels recordings showed that neurons that increase activity with whisking have distinct haemodynamic response functions compared with those that decrease activity. Their summed contributions predicted blood volume across states.Brainwide Neuropixels recordings revealed that these opposing populations coexist in the entire brain. Their differing contributions to blood volume largely explain the apparent differences in blood volume fluctuations across regions. The mouse brain thus contains two neural populations with opposite relations to brain state and distinct relationships to blood supply, which together account for brainwide fluctuations in blood volume.
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Carien van Reekum @carien.bsky.social · 15/04/2026
📣 Job alert: We are recruiting a Prof in Neuroscience with MRI expertise to join us at @unirdg-cinn.bsky.social and @unirdg-psych.bsky.social. See tinyurl.com/2kdjph8v for details. Contact me for info/chat. Please spread the word #neuroskyence #neurojobs
tinyurl.com
Professor of Neuroscience at University of Reading
Apply for the Professor of Neuroscience role on jobs.ac.uk, the top job board for academic positions in higher education. View details and apply now.
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Dan Handwerker @danielhandwerker.bsky.social · 07/04/2026
tedana, multi-echo fMRI denoising software, newsletter includes tedana v26.0.3 updates and details of multi-echo fMRI ed course at OHBM 2026. groups.google.com/g/tedana-new...
groups.google.com
Multi-echo fMRI course at OHBM 2026 and tedana v26.0.3
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bioRxiv Neuroscience @biorxiv-neursci.bsky.social · 07/04/2026
Tau-induced mitochondrial reverse electron transport drives neurodegeneration www.biorxiv.org/content/10.64898/20…
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practiCal fMRI @practicalfmri.bsky.social · 02/04/2026
WTI crude. Going up like Artemis II since April Fool’s Day.
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practiCal fMRI @practicalfmri.bsky.social · 02/04/2026
Right so that would be a hard no from the markets, Mr Trump. Care to revise your so-called plans?
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