Cool Movies/Slides

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Overview Presentations

First Neurosurgical Case (Dr. Alex Golby) with BioImage-Slicer3-BrainLab
(Operating Room 12, Department of Neurosurgy, BWH, Feb 11, 2009)

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Slicer Images

A collection of Slicer Images on Slicer Wiki

Conference Proceedings


Slicer Presentations and Images

From Clinical IGT Workshop_2008_03_10_11_

U41 Project Presentations



Fig. 1 depicts the manner in which a patient will have his head secured within the transducer, which focuses high intensity ultrasound waves into the cranium. Courtesy: Children's Hospital, Zurich University, Switzerland. Reprinted with permission from Insightec, Inc.
Fig. 2 shows a close up of the transducer at a different angle. The patient table is docked to the MR scanner during treatment for real-time imaging and monitoring. Courtesy: Children's Hospital, Zurich University, Switzerland. Reprinted with permission from Insightec, Inc.

ExAblate 4000: "Image courtesy InSightec, Ltd., Haifa Israel" ExAblate 4000

AMIGO Facilities Pictures

High Res Rendering of AMIGO Suite
Amigo OR artist rendering20080302
01 14 2008 plans
OR view through control area
AMIGO Construction Site. January 12, 2009
AMIGO Construction Site. September 22, 2008
AMIGO Construction Site. October 15, 2008
AMIGO Construction Site. October 15, 2008
AMIGO Construction Site. October 15, 2008
AMIGO Rendering by Payette October 15, 2008
AMIGO Groundbreaking Group.jpg
Amigo boom layout
Amigo boom layout
Amigo boom layout

AMIGO Facilities Additional

Other AMIGO-like Setups



Tokai University

Movie (122MB)

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AMIGO Promotional CD

This section is for collecting material that will be compiled into a promotional CD for AMIGO. The idea is to include everything that shows off our latest and greatest science, while keeping in mind that the audience may not have the same scientific/technical background as us. Movies, video clips, powerpoint slides are all acceptable. Please keep in mind that the resulting compilation will be distributed widely without and non-disclosure paperwork, and do not submit any sensitive material. The immediate request for this promotional CD is from Joe Hogan, CEO GE Healthcare, and his likely use of it will be to illustrate the concept of AMIGO to GE colleagues and customers. Beyond that request, we expect to use the compilation to introduce the concept of AMIGO to technical as well as non-technical audiences.


Registration of pre-operative tractgraphy data to intra-operative MRI in neurosurgery. Note that the geometical relationship between tumor and neuronerve is clearly presented in intra-operative MRI.

MRI-guided laser ablation of brain tumore. Gd-enhanced MRI was used to identify the extent of tumor volume, to which a laeser fiber was placed with using surgical navigation software Slicer (ver 2.6 modified for IGT). During laser deposition, MR thermometry was useful to examine the extent of ablation with respect to treatment volume of the tumor. After the first deposition the laser fiber was re-positioned to ablate the untreated lesion, again using Slicer and the second set of ablation was performed.

Surgical navigation in MRI-guided neurosurgery using fused pre-operative fmri to intra-operative mri using rigid and deformable registration.

Registration of pre-operative fmri (colored lesions) to intra-operative mri using rigid and deformable registration.

Demonstration of intraoperative brain deformation during resection of a temporal lobe tumor. Intraoperative MRI allows tracking of this deformation. pre-operative ly acquired images (such as fMRI or DTI) can then be warped to bring them into alignment with the intra-operative brain position.

FUS - Uterine Fibroids

CNN story on MRI-guided focused ultrasound treatment of uterine fibroids.

NBC story on MRI-guided focused ultrasound treatment of uterine fibroids.

This movie demonstrates how the MR images are used to plan the focused ultrasound treatment. The images are acquired in three orientations, and then the doctor draws an outline of the target she would like to treat. Then an outline of the path of the ultrasound beam is superimposed the images. By carefully looking at this, one can ensure that the beam path does not pass through critical structures on route to the tumor target.

This movie demonstrates how MR thermometry is used to guide focused ultrasound surgery. During each sonication, a time-series of temperature maps are acquired. Using a model that incorporates the temperature rise and the time, one can estimate what regions of tissue have received a lethal thermal dose. This realtime feedback ensures that the acoustic power is high enough to ablate the tissue, but not so high that boiling occurs. By superimposing these isodose contours on the images, one can also determine where to target subsequent sonications. In this example, the goal was to debulk the tumor for symptom relief, so it was not necessary to completely cover the target volume with a lethal thermal dose. For cancer treatments, one would ensure that the entire tumor and a safety margin receives a lethal thermal dose.

This movie shows the fibroid after focused ultrasound treatment. After contrast injection, the treated area shows as a dark zone, indicating that the blood vessels were occluded. Interestingly, this non-enhancing was larger than the region that received high temperatures, indicating an enhancement of the treatment.

FUS - Brain

This video discusses the challenges of performing transcranial focused ultrasound ablation of brain tumors. This was a promotional video produced by the Intel Corporation to promote the high-speed graphics rendering capabilities of the Pentium4 processor.

Prostate Brachytherapy and Biopsy

The design of the Prostate Therapy Robot will accommodate the confined workspace of the magnet and the goal of the intervention is to work through the patient's perineum, while maintaining a compact profile to prevent interference with the patient, the closed-bore MR scanner, and adjacent equipment. Numerous animated motion sequences, such as the one shown here, were performed in a CAD environment to determine that the robot meets all kinematic requirements. The robot is designed to be constructed entirely of non-ferrous materials; conductive materials are used sparingly, and the links and connections are made of plastic.

This movie shows the insertion of biopsy needles into a gelatine phantom under MR guidance. Needle insertion is performed here using an MR-compatible robot. The targets appear as round voids within the gelatine. Target specification, path planning, and guidance is performed within the 3D Slicer software system.

In this movie, the effect of needle insertion on patient anatomy can be seen. In these sagittal MR images taken during a prostate biopsy, tissue is seen to deform as the biopsy needle advances. Note also the motion due to patient breathing. Accounting for these motions and deformations through modelling, tracking and control is an integral part of the prostate therapy systems currently under development.

Insertion of a biopsy or brachytherapy needle results in deformation of tissue and of the needle itself. In this movie, experiments designed to allow the prediction of these effects are presented. In the first part of the movie, a computer simulation is shown. This simulation uses equations of bio-mechanics in a mathematical model to estimate needle and tissue deformation. In the second part of the movie, the experiment is repeated using a gelatine phantom and an actual biopsy needle. By comparing the results of these two models, the predictive ability of the mathematical model can be estimated, and subsequently the mathematical model can be improved.

  • Actual In-Bore Display During Prostate Biopsy

This movie shows a sequence of images as displayed to the physician during MR-guided prostate biopsy. The images are alternated between registered high quality pre-operative imaging, including imaging obtained in a different MR scanner on a different day, and real time imaging showing the biopsy needle approaching a specified target. The target itself is marked for reference, and the out of plane distance to the target is shown. Displaying such a sequence allows the physician to visualize all available imaging data as well as the current needle location relative to the target, thus providing guidance for proper biopsy needle placement.

  • Another In-Bore Display, with Annotation

This movie again shows the image sequence provided to the physician during prostate biopsy, and also gives more information, with the individual sequences of images being displayed. Here, the white arrow marks the location of the target and a properly placed needle in axial views. These views include registered T2-weighted axials obtained in a 1.5 Tesla scanner (1.5T T2WI Ax), similar T2-weighted images obtained in an intra-operative scanner (0.5T T2WI Ax), real-time axial FGRE images in which the biopsy needle can be seen (0.5T FGRE Ax), and similar coronal images. The method can easily be extended to include other imaging parameters, such as spectroscopy and diffusion-weighted imaging.

  • Slicer used for Brachytherapy Planning

This movie shows a visualization of relevant prostate anatomy during an MR-guided brachytherapy procedure. This type of visualization, and the process of delineating prostate sub-structures, are performed by a physician in the operating room using our 3D Slicer software package. Here, the structure shown in green is the prostate peripheral zone, the region of the prostate, targeted for treatment, in which cancer is most likely to originate. This is the region to which the maximal dose of radiation needs to be applied during brachytherapy. The blue and red regions are the urethra and anterior wall of the rectum respectively, structures to which we wish to limit or minimize the radiation exposure. The 3D Slicer provides three-dimensional visualizations to convey the size and relative locations of these critical structures, and provides data required for dosimetry calculation to the radiation physicist.


This video, MRTCRYO BWH 2004, was made by the Tumor Ablation Program as Kemal Tuncali was to give a press release at RSNA on MRI-guided liver cryo. It used footage from the Galil 2002 movie and then added many images from a complex liver case. Caution: some shots are a little dated.

This video, MRTCRYO GALIL 2002, was made by Galil Medical the cryo company in 2002 to be shown at the GE booth at RSNA as a show of progress in interventional MRI. It is very well done and there is some excellent footage. Caution: some shots are a little dated and you would want to update them -- like the one that shows a 3 probe system which is out-of-date.

Cardiac Interventional MRI

The movie shows a catheter as it is advanced through the aorta and inta a ventricle. A 3D cardiac cine loop is used as a road map, and this cine loop is triggered by the patients ECG, so that it is temporarily registered. The cathter is tracked using miniature 6DOF coils that measures the local gradient strength. The navigation application allows direct interfacing to the MRI scanner for real-time scanplane control and display of real-time MRI images registered with the dynamic roadmap. The movie is a simulation of a catheter, and does not depict a real intervention. A higher definition video is available on request (wiki didn't want to take a 33Mb file).

  • ** [1] Powerpoint presentation Eigil Samset's from 1st monday talk

GE Marketing videos