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Concomitant physiological changes as potential confounds for BOLD-based fMRI:...
**Please let me know of errors or omissions!**This post is a work-in-progress. It will be updated based on feedback. I will remove (draft) from the title when I consider this version to be complete.A...
View ArticleA failed quench circuit?
No doubt you've seen this news doing the rounds:Two stuck to MRI machine for 4 hoursHospital says GE took 4 hrs for a 30-sec job There was, of course, a huge procedural failure that allowed a large,...
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Concomitant physiologic changes as potential confounds for BOLD-based fMRI: a...
Many thanks for all the feedback on the draft version of this post.Main updates since the draft:Added DRIFTER to the list of de-noising methodsAdded a reference for sex differences in hematocrit and...
View ArticleUpdated checklist for fMRI acquisition methods reporting in the literature
This post updates the checklist that was presented back in January, 2013. The updated checklist is denoted Version 1.2. The main update is to include reporting for simultaneous multi-slice (SMS)...
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Potential of ultralow field T1 and high field T1ρ in evaluating brain trauma
Crazy Scientist sent me a link to a paper, "Neuroimaging after mild traumatic brain injury: Review and meta-analysis," (doi:10.1016/j.nicl.2013.12.009) and it prompted me to do something with a brief...
View ArticleAnother way to find posts: The Winnower
Open access online science publisher The Winnower has made a huge leap in scientific publishing and now offers bloggers a way to assign a digital object identifier (DOI) to any post uploaded to their...
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Uploading to The Winnower from Blogger: A real time tutorial
So I have a memory like a sieve except that it's profoundly less useful in the kitchen. And because I know from painful experience that anything I don't document never happened, I am going to help...
View ArticleChecklist for fMRI acquisition methods reporting in the literature: version 1.3
The latest version of the fMRI acquisition checklist is now available at The Winnower via this link. It can also be located/cited using DOI: 10.15200/winn.143191.17127 .Updates/changes from v1.2:The...
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Functional MRI of trained dogs
One of the delightful aspects of running an imaging facility is the sheer variety of projects coming through the door. Late last year my boss told me he'd been discussing with a group from Emory...
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12-channel versus 32-channel head coils for fMRI
At last month's Human Brain Mapping conference in Seattle, a poster by Harvard scientists Stephanie McMains and Ross Mair (poster 3412) showed yet more evidence that the benefits of a 32-channel coil...
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Shared MB-EPI data
This is cool, publicly available test-retest pilot data sets using MB-EPI and conventional EPI on the same subjects courtesy of Nathan Kline Institute:Multiband Imaging Test-Retest Pilot DatasetWhat's...
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The experimental consequences of using partial Fourier for EPI
PFUFA Part Fourteen introduced the idea of acquiring partial k-space and explained how the method, hereafter referred to as partial Fourier (pF), is typically used for EPI acquisitions. At this point...
View Articlei-fMRI: BRAIN scanners of the past, present and future
Have you ever wondered why your fMRI scanner is the way it is? Why, for example, is the magnet typically operated at 1.5 or 3 T, and why is there a body-sized transmission coil for the RF? The prosaic...
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CALAMARI: Doing MRI at 130 microtesla with a SQUID
I've been dabbling in some ultralow field (ULF) MRI over the past several years, trying first to get functional brain imaging to work (more on that another day, perhaps) and more recently looking at...
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Using partial Fourier EPI for fMRI
Back in August I did a post on the experimental consequences of using partial Fourier for EPI. (An earlier post, PFUFA Part Fourteen introduces partial Fourier EPI.) The main point of that post was to...
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Partial Fourier versus GRAPPA for increasing EPI slice coverage
This is the final post in a short series concerning partial Fourier EPI for fMRI. The previous post showed how partial Fourier phase encoding can accelerate the slice acquisition rate for EPI. It is...
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Functional MRI of dolphins?
Those of you who follow me on Twitter may have noticed that I've been scanning some post mortem brains of Cetacea over the past year or so. That's whales, dolphins and porpoises to you and me. The...
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Making tracks for charity
This is going to be among the more unusual blog posts I've written. Here goes nothing.The back story. A few years ago I decided to take a stab at writing fiction. The result was Bubble Chamber, an...
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Corrective lenses for tight head coils
Most labs have plastic goggles for correcting a subject's vision in the MRI. Here's our box of tricks:These goggles work pretty well for a standard sized head coil, such as the 12-channel TIM coil on...
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Starting points for SMS-EPI at 3 T
Several people have approached me for advice on using simultaneous multi-slice (SMS) EPI for fMRI experiments. This is the sequence also known as multiband (MB) EPI. I'll come back to nomenclature in a...
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