Archive for February, 2007 Page 2 of 2



Diffusion Tensor Imaging feed

I’m adding the DTI feed to the right sidebar now instead of its own page. I still would like to solicit suggestions for other real-time feeds off of PubMed, so leave a comment with your favorite queries.

The PubMed query for the DTI feed is as follows: Continue reading ‘Diffusion Tensor Imaging feed’

brain scans and superbowl ads

I am sure that this experiment was initially conceived by grad students:

FMRI scans while watching superbowl ads

FKF Applied Research and the UCLA Ahmanson Lovelace Brain Mapping Center have released their Second Annual Ranking of the most effective Super Bowl ads using fMRI (functional Magnetic Resonance Imaging) brain imaging. Many of the Super Bowl ads stoked regions of the brain associated with anxiety, including the amygdala.

Compared to last year’s ads there was much more anxiety, and far less positive emotion in these highly touted commercials. “This clearly was the year of the amygdala, the brain’s ‘threat detector,” said Dr. Joshua Freedman UCLA Clinical Assistant Professor of Psychiatry and a co-founder of FKF Applied Research. “Much of the anxiety seemed caused by violence, but was also rooted in economic fears. The Nationwide ad had a spike when Kevin Federline was revealed to be working in fast food, and also when the GM robot turned out to be OK but afraid for its job.”

FKF Applied Research and Dr. Marco Iacoboni’s group at the UCLA Ahmanson Lovelace Brain Mapping Center recruited men and women ages 18-34 to watch this year’s Super Bowl ads. The subjects viewed the ads while in UCLA’s high-field fMRI scanner, which monitors the activity in their brains.

Continue reading ‘brain scans and superbowl ads’

short-axis PROPELLER

One of the more interesting abstracts from last year’s ISMRM in Seattle has now been published as a full manuscript:

Propeller EPI in the other direction

A new propeller EPI pulse sequence with reduced sensitivity to field inhomogeneities is proposed. Image artifacts such as blurring due to Nyquist ghosting and susceptibility gradients are investigated and compared with those obtained in previous propeller EPI studies. The proposed propeller EPI sequence uses a readout that is played out along the short axis of the propeller blade, orthogonal to the readout used in previous propeller methods. In contrast to long-axis readout propeller EPI, this causes the echo spacing between two consecutive phase-encoding (PE) lines to decrease, which in turn increases the k-space velocity in this direction and hence the pseudo-bandwidth. Long- and short-axis propeller EPI, and standard single-shot EPI sequences were compared on phantoms and a healthy volunteer. Diffusion-weighted imaging (DWI) was also performed on the volunteer. Short-axis propeller EPI produced considerably fewer image artifacts compared to the other two sequences. Further, the oblique blades for the long-axis propeller EPI were also prone to one order of magnitude higher residual ghosting than the proposed short-axis propeller EPI.

Skare S et al, Magn Reson Med. 2006 Jun;55(6):1298. PMID: 16676335

Continue reading ’short-axis PROPELLER’

150 years of intellectual writing

The Atlantic Monthly has opened its extensive archives in honor of its 150th birthday. The collection is organized into broad categories, including traditional ones like religion, politics, and women’s rights; there are also more intellectual ruminations like idealism and practicality and markets and morals. Naturally there are technology and science categories as well, and the latter has particular items of interest like this contemporary review of Darwin’s Origin of Species, an essay on Mars by Percival Lowell, and a rumination on the philosophic impact of atomic physics by Warner Heisenberg.

Open Peer Review and MRI

I have decided that my inaugural post on this respectable, scientific blog should, of course, be filled with rampant speculation and ungrounded commentary. Sadly, Aziz does not have that “Organizing the Secret (Yet Open-Source) Cabal that Shall Rule ISMRM” tag for this blog…Respectable commentary on image reconstruction coming later in the week.

One thing that I have followed with some interest is the recent open peer review/open access movement. One comment I’ve heard is that if “pre-publication” review is shortened or eliminated, various negative consequences will ensue: scientists will have little motivation to send in comments, mean quality of a publication will suffer, etc.

So, here’s a crazy idea: create an open-PR MR journal (make it electronic only, even) and focus it on the areas of MR that are not well-served by the current paradigm. Have an editor give submissions a cursory check, and send it off. Focus it in the following (non-exhaustive list of) areas:

  • Simple measurements (scattered useful information, such as the T1 of a group of body tissues at 7T)
  • Negative results
  • Commentary on reasonably straight-foreward tasks that might have a minor hitch (”My experience combining SENSE, EPI, and Dixon”).

Basically, make a purposefully low-impact journal, at least as an initial experiment. Give it a small audience, so that people can keep up with it. Make it over simple topics so that you don’t feel nervous if you want to use it in your own research. And then see how it works.

What does everone else in the blogosphere think?

nanotech contrast agents

MRI, as an imaging modality, offers tremendous soft-tissue contrast without any use of contrast agents. Even beyond anatomic scans with T1, T2 or proton density weighting, other methods like arterial spin labeling or diffusion imaging exist which leverage both physics and physiology to tease out new information in a scan, making MRI the single most versatile non-invasive imaging method in the medical arsenal.

However, the use of paramagnetic contrast agents (usually administered via IV) is still an integral part of a routine MR exam, for good reason: contrast in MR simply gives us another lever with which we can manipulate the system, providing much more anatomic and functional information. To that end, the Nephrogenic Systemic Fibrosis (NSF) advisory from the FDA is of grave concern. For the vast majority of patients, gadolinium-based contrast agents are perfectly safe, but there still is a need to look for improvement.

There are some interesting signs in the literature that point to where contrast agents are headed. For one thing, superparamagnetic iron oxide-based (SPIO) contrast agents are already being used, like Feridex®, primarily in abdominal imaging of liver or spleen. These agents’ particles are on the order of 50 nm. However, there’s a new report from the National Institute of Standards and Technology (NIST) about nano-scale iron agents, called “molecular nanomagnets“. Quoting from the NIST press release,

…iron-containing magnets just two nanometers wide, dissolved in water, do provide reasonable contrast in non-clinical MRI images—as long as the nanomagnet concentration is below a certain threshold. (A nanometer is one billionth of a meter.) Previous studies by other research groups had reached conflicting conclusions on the utility of molecular nanomagnets for MRI, but without accounting for concentration. NIST scientists, making novel magnetic measurements, were able to monitor the molecules’ decomposition and magnetic properties as the composition was varied.

The article includes the following image, with caption:

nanoscale magnets

This test image shows what happens when nanomagnets are used to alter the nuclear properties of hydrogen in water, increasing brightness (bright spots below left and center) compared to deionized water (above).

These magnets are a single molecule, less than 5 nm in size. The potential for increased contrast effectiveness, as well as being able to label other biocompounds with them for true molecular imaging, is enormous.

Leveraging nanotech isn’t limited to iron-based agents, however. Even the workhorse Gadolinium-based agents are getting a nanoscale refresh. For example, superparamagnetic gadonanotubes have also been shown to have improved contrast properties. The link is to a paper from August 2005 at Rice University, whose abstract is:

We report the nanoscale loading and confinement of aquated Gd3+n-ion clusters within ultra-short single-walled carbon nanotubes (US-tubes); these Gd3+n@US-tube species are linear superparamagnetic molecular magnets with Magnetic Resonance Imaging (MRI) efficacies 40 to 90 times larger than any Gd3+-based contrast agent (CA) in current clinical use.

There have been a spate of other published works in the literature in this direction as well, of course. It’s clear that there is a lot of ground to be gained yet in terms of optimizing these new agents and bringing them to market. But assuming that they do get there, the nanoscale revolution will certainly leave its mark on MRI as a field. I wouldn’t be surprised to see nanotech contrast agents in the market within 5 years, or even less.

Video: oxygen bottle

PROPELLER-EPI for high-resolution DTI

PROPELLER-EPI with parallel imaging using a circularly symmetric phased-array RF coil at 3.0 T: application to high-resolution diffusion tensor imaging

A technique integrating multishot periodically rotated overlapping parallel lines with enhanced reconstruction (PROPELLER) and parallel imaging is presented for diffusion echo-planar imaging (EPI) at high spatial resolution. The method combines the advantages of parallel imaging to achieve accelerated sampling along the phase-encoding direction, and PROPELLER acquisition to further decrease the echo train length (ETL) in EPI. With an eight-element circularly symmetric RF coil, a parallel acceleration factor of 4 was applied such that, when combined with PROPELLER acquisition, a reduction of geometric distortions by a factor substantially greater than 4 was achieved. The resulting phantom and human brain images acquired with a 256 x 256 matrix and an ETL of only 16 were visually identical in shape to those acquired using the fast spin-echo (FSE) technique, even without field-map corrections. It is concluded that parallel PROPELLER-EPI is an effective technique that can substantially reduce susceptibility-induced geometric distortions at high field strength.

Chuang TC et al. Magn Reson Med. 2006 Dec;56(6):1352-8. PMID: 17051531

Discussion below the fold…. Continue reading ‘PROPELLER-EPI for high-resolution DTI’