Current and recent projects


Screenshot Connectomics Processing2

GPU-based data volume assembly for retinal connectomics

Collaborators: Dr. Jones, Dr. Anderson
Department: Dept. Ophthalmology, Moran Eye Center

While genomics aims to map the human genome, connectomics aims to map all connections in the brain and retina. Retinal connectomics help discover how retinas are wired via structural maps of connectivity,… Read more
Screenshot 3DSensing Workflow

AI-based 3D depth sensing from thermal camera systems

Collaborators: Andrey Filippov, Olga Filippova, Tolga Tasdizen
Company: Elphel Inc., SCI Institute

Long-range 3D perception is an essential capability for autonomous navigation. The additional use of Long Wave Infrared (LWIR) cameras, compared to other systems, enable environment awareness in… Read more
Screenshot Ultrasound FinalGUI1

Ultrasound signal processing for gastroesophageal reflux detection

Collaborators: Rudy Wilcox
Company: Reflodx, Utah

We developed an advanced digital signal processing workflow to analyze ultrasound data and non-invasively detect gastroesophageal reflux (GER). We developed various signal analysis steps, both at series and data frame levels by leveraging… Read more
Radiology Data Workflow

Big data engineering workflow for AI in radiology

Collaborator: Joyce Schroeder
Department: Radiology and Imaging Sciences

In partnership with researchers from the Radiology Department, the Enterprise Data Warehouse (EDW) and the Center for High Performance Computing (CHPC), we have developed software and hardware infrastructure to support… Read more
Screenshot DataScienceWorkflow

Data management and data analytics for radiology studies

Collaborator: Jessica Chan and Joyce Schroeder
Department: Radiology and Imaging Sciences

We aim to predict the severity of restrictive pulmonary function in patients with interstitial lung disease (ILD) from chest radiographs using deep convolutional neural networks. For this clinical… Read more



Past projects



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
Pig skin model

Minipig brain model creation

Collaborator: Ken Monson, Ginu Unnikrishnan, Aravind Sundaramurthy
Department: Mechanical Engineering - UofU, Biotechnology HPC Software Applications Institute - BHSAI

We are developing a 3-D geometry dataset of the Gottingen minipig brain and cerebral blood vessels for use in a finite… Read more
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

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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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
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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