Roshan Desai
Pronouns: He/Him
Research Mentor(s): Yongqun He, Associate Professor
Research Mentor School/College/Department: Lab Animal Medicine, Microbiology and Immunology, & Bioinformatics, Michigan Medicine
Presentation Date: Thursday, April 22, 2021
Session: Session 4 (2pm-2:50pm)
Breakout Room: Room 13
Presenter: 4
Abstract
SARS-CoV-2 has imprinted itself on our modern society, bringing lives around the world to a grinding halt. For this study, we focused primarily on the pathways leading to Acute Kidney Injury (AKI) and investigated how we could map this into Ontology. We started with looking at pathways to AKI, and with the use of BioGRID, a database compiling protein and gene information regarding SARS-CoV-2, and DAVID Bioinformatics, and the goal was to map pathways involved in SARS-CoV-2 manifestations. Much of our research involved trying to find an effective way to study the multitude of information presented with the open resources provided by the internet. To do so, we looked at other studies to understand how they used BioGRID and other protein databases for their studies. Furthermore, this study involved mapping out known protein interactions into Excel spreadsheets in order to find a way to integrate them into Ontology. With this understanding and knowledge of the proteins involved in processes such as viral entry, I could then use DAVID and enrich the pathways with the information provided in the hopes of finding something new or a different connection. Results included literature analysis and notes mapping out findings with the BioGRID dataset. This research focuses on specific protein interactions and uses for protein databases laying the groundwork for trying to ontologically organize protein and signaling pathways affected by SARS-CoV-2. From the research we have found that a conjunction of protein resources is preferable in trying to enrich and ontologically map protein pathways and interactions. Many researchers that used BioGRID data used the data and other resources to bring more context to the raw data that is provided by the BioGRID database. With this understanding, we were able to use the BioGRID data and DAVID to further comprehend how protein pathways work, leading to the enrichment of SARS-CoV-2 manifestations in the renal system and beyond. Existing proteins and protein interactions were able to be enhanced in terms of understanding by further database analysis of S protein interactions and interactors presented by BioGRID and DAVID.
Authors: Roshan Desai, Yongqun “Oliver” He
Research Method: Computer Programming
