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IDSC Fellows, Spring 2023

Catch the Replay: 2022-2023 IDSC Fellows’ Project Proposals

by Helen Gynell

January 18, 2023

The Institute for Data Science and Computing (IDSC) was pleased to host the newly chosen 2022-2023 IDSC Fellows as they presented their project proposals on December 14, 2022. Join us in congratulating (in order of presentation) Jeffrey Serville, Kelly Soluri, Sadegh Tale Masoule, and Shara Sookhoo. Each spoke briefly on what they hoped to accomplish.

IDSC joins with University faculty to mentor the IDSC Fellows on how to best utilize University’s cutting-edge advanced computing resources. Special thanks to the IDSC Fellows Steering Committee:  CHAIR | Mohamed Iskandarani  MEMBERS | Alberto CairoKim GrinfederDaniel MessingerMitsunori OgiharaKamal PremaratneAzizi Seixas, and Ravi Vadapalli.

Jeffrey Serville

“Orientation-selective Deep Brain Stimulation of Midbrain Circuits in the Yucatan Micropig for Improving Gait After Spinal Cord Injury”

Jeffrey W. Serville

MENTOR:  Ravi Vadapalli, PhD | Director, IDSC Advanced Computing

– Department of Biomedical Engineering, College of Engineering
– Department to Neurological Surgery, Miller School of Medicine
– The Miami Project to Cure Paralysis
– Institute for Data Science and Computing (IDSC)
– Institute for Neural Engineering (INEM)

Jeffrey is a 2nd year PhD student in the Department of Biomedical Engineering.  His research focuses on neuromodulation and rehabilitation for movement disorders, specifically spinal cord injury.  As an IDSC Fellow, he aspires to utilize the university’s Triton supercomputer to accelerate preprocessing algorithms designed for diffusion-weighted images (including eddy-current, susceptibility, and motion distortions) and automate MRI-based segmentation of the pig brain that is used for generating anatomically-constrained-tractograms (3D reconstructed fiber pathways) to predict neural activation patterns resulting from deep brain stimulation of the mesencephalic locomotor region (midbrain/brainstem) in pigs.  The purpose of his research project is to optimize stimulation programming, as it relates to generating locomotion while minimizing unwanted side-effects, by implementing the finite-element method to solve the associated bioelectric field problem on a subject-by-subject basis.

Project Overview

  • Overcome computational bottlenecks commonly encountered in traditional desktop or workstation environments, for, specifically, preprocessing of diffusion-weighted images (DWIs). This can take eight up to sixteen hours and it’s a huge bottleneck in the computational workflow.
  • Improve DBS (deep brain simulation) outcomes by offering more realistic visualizations and realizations (i.e. surgical planning and/or consultation)
  • Decrease the times it takes for potential DBS therapies to go from bench to bedside.

Kelly Soluri

“Forecasting Bycatch Hotspots Using Machine Learning”

Kelly S. Soluri

Kelly Soluri, M.S. Candidate for Marine Biology and Ecology, Rosenstiel School for Marine, Atmospheric, and Earth Science

– Dr. Elizabeth Babcock, quantitative fisheries scientist and professor at the University of Miami with a specialty in fisheries stock assessments
– Dr. Gang Ren, data and computer scientist and professor at the University of Miami with expertise in artificial intelligence
– Dr. Mitsunori Ogihara, Director of Workforce Development and Education at IDSC and Editor-in-Chief of the Theory of Computer Systems Journal with research interests in data mining
– Cooperative Institute for Marine And Atmospheric Studies (CIMAS)
– National Oceanic and Atmospheric Administration (NOAA)

Kelly Sophia Soluri is a Marine Biology and Ecology Master’s student at the Rosenstiel School of Marine, Atmospheric, and Earth Sciences at the University of Miami. She is using machine learning to research quantitative fisheries with Dr. Beth Babcock with a focus in optimizing ways to forecast hotspots in the Gulf of Mexico where many untargeted species are caught. Previously, she has researched sea turtles with Dr. Mariana Fuentes of Florida State University, science diplomacy for the U.S. Department of State’s Office of Science and Technology Cooperation in Washington D.C., and environmentally equitable urban planning with the Miami-Dade County Office of Resilience.

Kelly has strong interests in ecological processes in oceanic and coastal systems as well as learning novel technologies and methods to better understand how these processes function as a response to climate change or anthropogenic pressure. As a native South Floridian, she wishes to support coastal communities that deal with sea level rise, resource insecurity, and intensifying natural disasters. She is also passionate about science literacy for all and the uplifting of minority communities in STEM.

Sadegh Tale Masoule

“Segmentation and Evaluation of Micro-Cracks from Micro-CT Images of Concrete Elements”

Sadegh Tale Masoule

MENTOR:  David Chapman, PhD | IDSC AI + Machine Learning

Sadegh is a second-year PhD student doing research in the advanced infrastructure materials lab in the college of engineering. His research includes measuring physiochemical properties of polymers in fluids and in cast construction materials, and then analyzing the results with different methods, one of them being machine learning that he’s currently pursuing. He hopes that with access to the IDSC’s expertise and resources, he can achieve good progress on his project.

Project Goals

  • Learn more about different segmentation models and transfer learning
  • Build a comprehensive database of micro-cracks with different samples
  • Develop a pipeline to accurately segment and measure micro-cracks as an estimation for the level of damage in elements
  • Publish the results

Shara Sookhoo

“To Investigate the Co-Occurrence Patterns in the Microbiomes of Six Species of Corals”

Shara Sookhoo

MENTOR:  Manohar Murthi, PhD, Associate Professor | College of Engineering, Department of Electrical and Computer Engineering

– Dr. Nikki Traylor Knowles, Associate Professor, Department of Marine Biology and Ecology, Rosenstiel School for Marine, Atmospheric, and Earth Science | Secondary Faculty in Biology
– Mote Marine Laboratory & Aquarium
Shara is a Junior majoring in Marine Biology and Ecology with minors in Computer Science and Biochemistry and Molecular Biology. After learning to SCUBA dive at 14, she became passionate about coral conservation. Through her work with University of Miami’s Marine Genomics lab and Mote’s Coral Health and Disease lab, she is learning the skills to find and develop corals that are more resilient to climate change and disease. In the last year, these interests have led her to jump off a bridge in the Florida Keys and climb a volcano in the Galapagos. Both in and out of the lab, Shara always looking for the next adventure.

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