All cells contain essential information in the form of messenger RNA (mRNA), which determines both individual cell function and overall tissue organization. The genetic information encoded in mRNA, known as the transcriptome, can be analyzed using single-cell and spatial transcriptomics.Single-cell transcriptomics provides high-resolution insights into gene expression by analyzing the transcriptome one cell at a time. However, since this method requires cell isolation, it results in a loss of spatial (...)
RAD Collaboration
RAD Collaboration, SAS - DLS - Genetics
This proposal is a novel investigation of the role of astrocytes and myelin in regulating the functionality of injured neurons that combines experimental data from Atomic Force Microscopy (AFM) measurements with in-silico computational (finite element and machine learning) studies. Injury to axons in white matter (WM) remains a primary cause of many of the functional deficits that follow traumatic brain injury (TBI). Understanding how axons are injured mechanically will pave the way for designing (...)
RAD Collaboration
Engn - Mechanical & Aerospace Engineering, RAD (...)
Mechanical Engineering
This summer project focuses on applying artificial intelligence (AI) to annotate cell types from single-cell transcriptomic data in the context of spinal cord injury (SCI). The Cai lab has demonstrated that GSX1 gene therapy effectively restores locomotor and sensory functions in rodent models of SCI. The project is directly related to Biomedical Informatics and Health AI, aiming to enhance our understanding of cellular responses and mechanisms underlying SCI. In addition, we have generated extensive (...)
RAD Collaboration
Engn - Biomedical Engineering, RAD Collaboration
Biomedical Engineering
The purpose of this NSF-funded project is to develop a software tool to accelerate analysis of molecular dynamics simulation data. This software tool will be data-driven in nature, using training data obtained from targeted molecular dynamics simulations. The main challenge of the project is to develop a software workflow and machine learning approach that is flexible and extensible, so that additional analysis capabilities can be continuously added. The summer intern on this project would explore (...)
RAD Collaboration
Engn - Materials Science and Engineering, RAD Collaboration
Materials Science and Engineering
Gene regulatory networks (GRNs) are crucial in understanding how genes are expressed in a cell—in response to intracellular and extracellular signals, gene transcription is dynamically regulated to coordinate cellular activities. GRNs are computational models of the regulation of gene expression, taking the form of a network or a graph, defined in mathematical terms. The basic interpretation of these models aims to capture the relationship between transcription factors (TFs) and their target genes—in (...)
RAD Collaboration
RAD Collaboration, SAS - DLS - Genetics
