Current and recent projects
GPU-based data volume assembly for retinal connectomics
Department: Dept. Ophthalmology, Moran Eye Center
Project
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
AI-enabled brain aneurysm identification and segmentation on 3D acquisitions
Departments: Dept. Radiology and UCAIR (Utah Center for Advanced Imaging Research)
Project:
We aim to automatically identify and segment intracranial aneurysms on 3D time of flight MR angiography acquisitions. We leveraged DeepMedic, a tensorflow-based multi-scale CNN… Read more
AI-based 3D depth sensing from thermal camera systems
Company: Elphel Inc., SCI Institute
Project:
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
Ultrasound signal processing for gastroesophageal reflux detection
Company: Reflodx, Utah
Project:
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
Deep learning analysis for image classification and regression tasks
Departments: Dept. Civil and Environment Engineering, SCI Institute
Project:
Nuclear forensics aims to investigate the origin and history of nuclear or radioactive materials via analytical techniques. Using microscopy images, we aim to perform deep… Read more
Big data engineering workflow for AI in radiology
Department: Radiology and Imaging Sciences
Project:
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
Data management and data analytics for radiology studies
Department: Radiology and Imaging Sciences
Project:
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
Department: Biomedical Engineering
Project:
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
Minipig brain model creation
Collaborator: Ken Monson, Ginu Unnikrishnan, Aravind Sundaramurthy
Department: Mechanical Engineering - UofU, Biotechnology HPC Software Applications Institute - BHSAI
Project:
We are developing a 3-D geometry dataset of the Gottingen minipig brain and cerebral blood vessels for use in a finite… Read more
Web-based visualization of genomics data
Company: ARUP Laboratories
Project:
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
Morphology of the Anteriorly Unstable Shoulder with Hill-Sachs Lesions
Collaborators: Heath Henninger, PhD, Matthijs Jacxsens, MD
Departments: Biomechanics and Orthopaedics
Project
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…
VISOAR as a digital pathology solution
Collaborator: Mohamed Salama MD
Assoc Prof Pathology, ARUP
Project
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)…
Enhancing capabilities of magnetic resonance imaging repositories for multi-institutional clinical research
Associate Professor, Department of Pediatrics
Project
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
Department: Ophthalmology, Moran Eye Center
Project
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
MRI and DTI analysis of Hoxb8 mouse model of OCD
Department: Human Genetics
Project
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
Project
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…
Optimizing Vascular Assessment in Diabetes and Macular Degeneration Models
Collaborator: Balamurali K. Ambati, MD, PhD
Associate Professor, Ophthalmology & Visual Sciences
Project
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.…
Implementation of a GPU-based image analysis pipeline for structural biology
Collaborators: David Belnap, PhD, Peter Shen, PhD
Department: Biochemistry, Electron Microscopy Core
Project
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…