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A Bioinformatics Approach to Investigating Packaging of Segmented Viral Genomes
A Bioinformatics Approach to Investigating Packaging of Segmented Viral Genomes
In this project, we aimed to generate a list of potential regions involved in viral assortment of influenza and rotavirus using four methods in our pipeline:
1. Conserved Segments
2. Codon Conservation
3. Nucleotide Variation
4. Mapping of RNA-RNA Interactions
A Snapshot of Our Project: Gannt Chart
A Snapshot of Our Project: Gannt Chart
Subproject 1: Sequence Conservation
Subproject 1: Sequence Conservation
1. Conserved Segments: Create motif logos with the most common base pair at each location in the segment
2. Codon Conservation: Identify areas of low nucleotide sequence variation independent of amino acid conservation
3. Nucleotide Variation: Examine conservation for individual nucleotides
Subproject 2: RNA-RNA Interactions
Subproject 2: RNA-RNA Interactions
Used IntaRNA to make comparisons between each position on each segment
Example heatmap illustrating the areas of minimum free energy between different regions of two segments (red = high free energy, blue = low free energy)
Page by: Bonnie Huang
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