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Current projects


cTracks top view

Web-based visualization of genomics data

Collaborators: Elaine Gee and Jacob Durtschi
Company: ARUP Laboratories

ARUP and the SCI Institute are teaming to collaboratively create innovative methods and tools for the understanding of complex genetic information. The focus of this project is the creation of a web-based visualization… Read more
Pig skin model

Minipig brain model creation

Collaborator: Ken Monson, PhD
Department: Mechanical Engineering

We are developing a 3-D geometry dataset of the Gottingen minipig brain and cerebral blood vessels for use in a finite element model of blast brain injury. This model will combine multiple imaging modalities (MRI, MRA and CT),… Read more

XNAT-based data management and brain MRI analysis workflow

Collaborator: Chris Butson, PhD
Department: Biomedical Engineering

We have developed an imaging informatics framework, enabling data storage, data management and analysis of brain MRI images in a secured environment.
The imaging informatics platform XNAT, used as a research database, is… Read more
shapeworks WithLogo

Morphology of the Anteriorly Unstable Shoulder with Hill-Sachs Lesions

Collaborators: Heath Henninger, PhD, Matthijs Jacxsens, MD
Departments: Biomechanics and Orthopaedics

Anterior shoulder dislocation accounts for approximately half of all major joint dislocations each year, mainly affecting young athletes. Recurrent instability frequently arises after a first…

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Past projects



VISOAR as a digital pathology solution

Collaborator: Mohamed Salama MD
Assoc Prof Pathology, ARUP

We propose to develop a platform that enables easy access to high resolution images for histological applications. Our preliminary study demonstrates how the VISOAR tool developed at the SCI Institute (based on the ViSUS framework)…

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Enhancing capabilities of magnetic resonance imaging repositories for multi-institutional clinical research

Collaborator: Charles Casper, PhD
Associate Professor, Department of Pediatrics

We propose to assess and catalog the quality of Magnetic Resonance Image (MRI) sessions acquired for clinical purposes and translate this assessment into an image classification method. The images were obtained… Read more

Open data tools for connectomics

Collaborators: Robert Marc, PhD, Bryan Jones, PhD
Department: Ophthalmology, Moran Eye Center

We are currently engaged in annotating the worlds first complete connectome with all the resolution and molecular profiling required to elucidate connectivity and network function. We are dedicated to… Read more

Implementation of a GPU-based image analysis pipeline for structural biology

Collaborators: David Belnap, PhD, Peter Shen, PhD
Department: Biochemistry, Electron Microscopy Core

We are on the horizon of a new era for structural biology. Pioneering efforts in both the academic and the private sector led to the invention and commercialization of direct electron detectors…

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Altablu Prime-perfused mouse eye (Numira Bioscience)

Optimizing Vascular Assessment in Diabetes and Macular Degeneration Models

Collaborator: Balamurali K. Ambati, MD, PhD
Associate Professor, Ophthalmology & Visual Sciences

Animal Models: Diabetic mice develop retinal vascular dropout over 6 months of hyperglycemia. Macular degeneration models can be induced in mice with laser inciting choroidal neovascularization.…

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BIDAC MouseStudy

MRI and DTI analysis of Hoxb8 mouse model of OCD

Collaborators: Naveen Nagarajan, PhD, Mario Capecchi, PhD
Department: Human Genetics

Obsessive Compulsive disorder (OCD) is a devastating anxiety disorder that is characterized by recurrent, unwanted thoughts (obsessions) and/or repetitive behaviors (compulsions). To understand the… Read more

Isotopic 3D Reconstruction of SPIM data in Real-Time

Collaborators: Christopher Rodesch, PhD, Mike Redd, PhD
Departments: Neurobiology and Anatomy, Fluorescence Microscopy Core

The HSC Fluorescence Microscopy Core is in the process of assembling a Single Plane Illumination Microscope (SPIM) for the real time visualization of large format…

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