Faruk Gulban
@ofgulban.bsky.social
High Resolution Magnetic Resonance Imaging |
Github → http://github.com/ofgulban
Youtube → http://youtube.com/@ofgulban
Blog → http://thingsonthings.org
Art → http://behance.net/ofgulban
Github → http://github.com/ofgulban
Youtube → http://youtube.com/@ofgulban
Blog → http://thingsonthings.org
Art → http://behance.net/ofgulban
One reason I developed LayNii IDA was to more easily explore my 0.35 mm multi echo human brain data. Here I’m observing blood motion artifacts across echos. The arterial signal *appear* to move across several millimeters. Best captured in short readout windows (e.g. ~3 ms readout windows in GRE).
July 25, 2025 at 4:02 PM
One reason I developed LayNii IDA was to more easily explore my 0.35 mm multi echo human brain data. Here I’m observing blood motion artifacts across echos. The arterial signal *appear* to move across several millimeters. Best captured in short readout windows (e.g. ~3 ms readout windows in GRE).
I've always wanted to explore fMRI time series as a smooth, real-time movie. Now I can with LayNii IDA. Plus, with voxel-wise correlations on the fly.
Fast, intuitive, and surprisingly insightful.
40 ms TR fMRI data from @practicalfmri.bsky.social !
@layerfmri.bsky.social @afni-pt.bsky.social
Fast, intuitive, and surprisingly insightful.
40 ms TR fMRI data from @practicalfmri.bsky.social !
@layerfmri.bsky.social @afni-pt.bsky.social
July 15, 2025 at 2:51 PM
I've always wanted to explore fMRI time series as a smooth, real-time movie. Now I can with LayNii IDA. Plus, with voxel-wise correlations on the fly.
Fast, intuitive, and surprisingly insightful.
40 ms TR fMRI data from @practicalfmri.bsky.social !
@layerfmri.bsky.social @afni-pt.bsky.social
Fast, intuitive, and surprisingly insightful.
40 ms TR fMRI data from @practicalfmri.bsky.social !
@layerfmri.bsky.social @afni-pt.bsky.social
In this blog post I am exploring the strange tension between rigor, reach, and recognition in modern science.
What we gain (and lose) by just publishing the PDFs:
thingsonthings.org/just-publish...
What we gain (and lose) by just publishing the PDFs:
thingsonthings.org/just-publish...
June 11, 2025 at 3:43 PM
In this blog post I am exploring the strange tension between rigor, reach, and recognition in modern science.
What we gain (and lose) by just publishing the PDFs:
thingsonthings.org/just-publish...
What we gain (and lose) by just publishing the PDFs:
thingsonthings.org/just-publish...
New in LayNii v2.9.0: Introducing *LayNii IDA*, a high-performance tool for real-time interaction with ultra–high resolution MRI data. Built for speed, designed for discovery. Still early, but a big step toward the next era of 7T fMRI: higher resolution, larger datasets.
github.com/layerfMRI/La...
github.com/layerfMRI/La...
May 23, 2025 at 3:12 PM
New in LayNii v2.9.0: Introducing *LayNii IDA*, a high-performance tool for real-time interaction with ultra–high resolution MRI data. Built for speed, designed for discovery. Still early, but a big step toward the next era of 7T fMRI: higher resolution, larger datasets.
github.com/layerfMRI/La...
github.com/layerfMRI/La...
In neuroimaging, we do skull stripping, but not brain stripping. Feels like favoritism.
May 21, 2025 at 12:39 PM
In neuroimaging, we do skull stripping, but not brain stripping. Feels like favoritism.
[Field Note, Entry 05]
- Refrain from repeating k-space experiment [Explosion_05]. What began as signal amplification now resembles an awakening. Frequencies folded in on themselves—revealing geometries that should not exist.
- Proceeding further may breach more than spatial coherence...
- Refrain from repeating k-space experiment [Explosion_05]. What began as signal amplification now resembles an awakening. Frequencies folded in on themselves—revealing geometries that should not exist.
- Proceeding further may breach more than spatial coherence...
May 20, 2025 at 12:43 PM
[Field Note, Entry 05]
- Refrain from repeating k-space experiment [Explosion_05]. What began as signal amplification now resembles an awakening. Frequencies folded in on themselves—revealing geometries that should not exist.
- Proceeding further may breach more than spatial coherence...
- Refrain from repeating k-space experiment [Explosion_05]. What began as signal amplification now resembles an awakening. Frequencies folded in on themselves—revealing geometries that should not exist.
- Proceeding further may breach more than spatial coherence...
I think ultra-high field MRI will be shifting toward ~0.35 mm voxels, even in routine use. This isn't just sharper images. We now directly see cortical layers, veins...
It’s a leap, not a tweak. A few already crossed this threshold, but now it's becoming practical.
More: doi.org/10.1101/2025...
It’s a leap, not a tweak. A few already crossed this threshold, but now it's becoming practical.
More: doi.org/10.1101/2025...
April 8, 2025 at 6:17 PM
I think ultra-high field MRI will be shifting toward ~0.35 mm voxels, even in routine use. This isn't just sharper images. We now directly see cortical layers, veins...
It’s a leap, not a tweak. A few already crossed this threshold, but now it's becoming practical.
More: doi.org/10.1101/2025...
It’s a leap, not a tweak. A few already crossed this threshold, but now it's becoming practical.
More: doi.org/10.1101/2025...
Mesoscopic veins appear as dark dots peppered across the middle gray matter surface—captured in living humans.
High-precision cortex segmentation + T2*-weighted MRI at 0.35 mm isotropic resolution makes this possible.
More at: doi.org/10.1101/2025...
High-precision cortex segmentation + T2*-weighted MRI at 0.35 mm isotropic resolution makes this possible.
More at: doi.org/10.1101/2025...
March 29, 2025 at 7:58 PM
Mesoscopic veins appear as dark dots peppered across the middle gray matter surface—captured in living humans.
High-precision cortex segmentation + T2*-weighted MRI at 0.35 mm isotropic resolution makes this possible.
More at: doi.org/10.1101/2025...
High-precision cortex segmentation + T2*-weighted MRI at 0.35 mm isotropic resolution makes this possible.
More at: doi.org/10.1101/2025...
In vivo reconstruction of Duvernoy's postmortem vasculature images
- Fast, high-res imaging: Whole-brain 0.35 mm MRI in <7 min at 7 T
- Vessel-type specific podt-processing: Capturing large leptomeningeal, pial, and intracortical meso-veins
PDF: doi.org/10.1101/2025...
- Fast, high-res imaging: Whole-brain 0.35 mm MRI in <7 min at 7 T
- Vessel-type specific podt-processing: Capturing large leptomeningeal, pial, and intracortical meso-veins
PDF: doi.org/10.1101/2025...
March 26, 2025 at 8:38 PM
In vivo reconstruction of Duvernoy's postmortem vasculature images
- Fast, high-res imaging: Whole-brain 0.35 mm MRI in <7 min at 7 T
- Vessel-type specific podt-processing: Capturing large leptomeningeal, pial, and intracortical meso-veins
PDF: doi.org/10.1101/2025...
- Fast, high-res imaging: Whole-brain 0.35 mm MRI in <7 min at 7 T
- Vessel-type specific podt-processing: Capturing large leptomeningeal, pial, and intracortical meso-veins
PDF: doi.org/10.1101/2025...
Behold the butterfly k-space trajectory: a maddening yet elegant dance across Fourier realms, conjuring cerebral truths from the void.
Gaze upon the eldritch brain patterns it summons… if you dare.
Gaze upon the eldritch brain patterns it summons… if you dare.
December 13, 2024 at 6:42 PM
Behold the butterfly k-space trajectory: a maddening yet elegant dance across Fourier realms, conjuring cerebral truths from the void.
Gaze upon the eldritch brain patterns it summons… if you dare.
Gaze upon the eldritch brain patterns it summons… if you dare.
Experiments in k-space.
I call this one "explosion-02".
I call this one "explosion-02".
December 11, 2024 at 4:30 PM
Experiments in k-space.
I call this one "explosion-02".
I call this one "explosion-02".
December 7, 2024 at 5:04 PM
December 4, 2024 at 7:01 PM
I see you and raise you this bubble-sorted layers 🍰
December 3, 2024 at 8:04 PM
I see you and raise you this bubble-sorted layers 🍰
Fascinating: mesoscopic vessels remain consistently visible across different T2*-weighted acquisitions!
Here’s the same living human brain imaged 6 months apart using different parameters.
Which image is your favorite?
Here’s the same living human brain imaged 6 months apart using different parameters.
Which image is your favorite?
November 21, 2024 at 1:11 PM
Fascinating: mesoscopic vessels remain consistently visible across different T2*-weighted acquisitions!
Here’s the same living human brain imaged 6 months apart using different parameters.
Which image is your favorite?
Here’s the same living human brain imaged 6 months apart using different parameters.
Which image is your favorite?
While fine-tuning 3D EPI parameters, we captured an impressively clear view of the human LGN! If you look closely, you can almost make out faint layers—wish they were more distinct though 🫤
November 14, 2024 at 3:45 PM
While fine-tuning 3D EPI parameters, we captured an impressively clear view of the human LGN! If you look closely, you can almost make out faint layers—wish they were more distinct though 🫤
3D EPI has come so far! Here’s a whole-brain, 0.35 mm isotropic image we recently acquired, in under 7 minutes!!! So many potential applications (and analysis challenges) ahead... 🤯
November 12, 2024 at 5:55 PM
3D EPI has come so far! Here’s a whole-brain, 0.35 mm isotropic image we recently acquired, in under 7 minutes!!! So many potential applications (and analysis challenges) ahead... 🤯
In this video, I am showing how to quickly register anatomical images onto partial coverage fMRI data using ITKSNAP: youtu.be/2txoJiLsNbU
November 3, 2024 at 3:17 PM
In this video, I am showing how to quickly register anatomical images onto partial coverage fMRI data using ITKSNAP: youtu.be/2txoJiLsNbU
We have starting developing a *programming first* self-study pipeline to understand the fMRI signal in OHBM 2024 Brainhack. Might be useful for those who learn by interacting with the equations.
A summary of the project can be found at: youtu.be/jQyK0ZV1LzY
A summary of the project can be found at: youtu.be/jQyK0ZV1LzY
October 27, 2024 at 3:09 PM
We have starting developing a *programming first* self-study pipeline to understand the fMRI signal in OHBM 2024 Brainhack. Might be useful for those who learn by interacting with the equations.
A summary of the project can be found at: youtu.be/jQyK0ZV1LzY
A summary of the project can be found at: youtu.be/jQyK0ZV1LzY
A new video tutorial on segmenting and meshing treeshrew cortical layers for whole brain analyses: youtu.be/g4N4pO8pFak?...
February 3, 2024 at 1:42 PM
A new video tutorial on segmenting and meshing treeshrew cortical layers for whole brain analyses: youtu.be/g4N4pO8pFak?...
December 8, 2023 at 2:26 PM
Quantum echoes hum,
Silicon synapses bloom,
Electric thoughts consume.
Silicon synapses bloom,
Electric thoughts consume.
December 4, 2023 at 1:43 PM
Quantum echoes hum,
Silicon synapses bloom,
Electric thoughts consume.
Silicon synapses bloom,
Electric thoughts consume.