FlaviExplore Platform
Session Number
Project ID: RISE 07
Advisor(s)
Mrs. Allison Hennings, Illinois Mathematics and Science Academy
Dr. Priyanka Patel (PhD), APEX Clinical Labs
Dr. Shivani Agrawal (PhD), Vanqua Biotech
Dr. Amit Rahi (PhD), Northwestern University, Feinberg School of Medicine
Discipline
Computer Science
Start Date
17-4-2024 9:40 AM
End Date
17-4-2024 9:55 AM
Abstract
This experiment developed the FlaviExplore platform with a main goal of making gathering West Nile virus (WNV) data simpler for researchers and extending phylogenetic knowledge about WNV. Currently, many researchers have to spend an excessive amount of time gathering sequences and converting them to fasta files, which could slow down the process of gaining new insights about the virus. This platform, comprising an integrated database and website, centralizes WNV genetic information and enables simple extraction and analysis of WNV sequences. The phylogenetic analysis done also extends knowledge related to WNV genetic diversity across multiple regions. The project involved collecting WNV DNA sequences from both the ViPR and the BVBRC databases and converting them into csv files for storage in a Cosmos database. The fasta sequences were utilized in developing the FlaviExplore website, a platform that made WNV sequences easily accessible for analysis. The sequences were then analyzed using a multitude of bioinformatics software, leading to the construction of a phylogenetic tree and the study of genetic variants among WNV strains.The universally negative Tajima's D values point to significant expansion or new evolutionary pressures in WNV populations, highlighted by considerable genetic diversity, which contradicts the null hypothesis of the experiment. This genetic diversity provides valuable insights into its population structures. Such knowledge is crucial for understanding the essential for controlling WNV spread and developing effective antiviral treatments. FlaviExplore provides an efficient method for gathering WNV fasta files for WNV researchers, further increasing WNV knowledge.
FlaviExplore Platform
This experiment developed the FlaviExplore platform with a main goal of making gathering West Nile virus (WNV) data simpler for researchers and extending phylogenetic knowledge about WNV. Currently, many researchers have to spend an excessive amount of time gathering sequences and converting them to fasta files, which could slow down the process of gaining new insights about the virus. This platform, comprising an integrated database and website, centralizes WNV genetic information and enables simple extraction and analysis of WNV sequences. The phylogenetic analysis done also extends knowledge related to WNV genetic diversity across multiple regions. The project involved collecting WNV DNA sequences from both the ViPR and the BVBRC databases and converting them into csv files for storage in a Cosmos database. The fasta sequences were utilized in developing the FlaviExplore website, a platform that made WNV sequences easily accessible for analysis. The sequences were then analyzed using a multitude of bioinformatics software, leading to the construction of a phylogenetic tree and the study of genetic variants among WNV strains.The universally negative Tajima's D values point to significant expansion or new evolutionary pressures in WNV populations, highlighted by considerable genetic diversity, which contradicts the null hypothesis of the experiment. This genetic diversity provides valuable insights into its population structures. Such knowledge is crucial for understanding the essential for controlling WNV spread and developing effective antiviral treatments. FlaviExplore provides an efficient method for gathering WNV fasta files for WNV researchers, further increasing WNV knowledge.