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Abstract by Cole Lyman

Personal Infomation


Presenter's Name

Cole Lyman

Co-Presenters

None

Degree Level

Undergraduate

Co-Authors

Stanley Fujimoto
Brian Brown
Kyle Johnsen
Cindi Wadsworth

Abstract Infomation


Department

Computer Science

Faculty Advisor

Mark Clement

Title

Phylogenetic Tree Reconstruction Using Colored de Bruijn Graphs

Abstract

We present kleuren, a novel assembly-free method to reconstruct phylogenetic trees using the Colored de Bruijn Graph. kleuren works by constructing the Colored de Bruijn Graph and then traversing it, finding bubble structures in the graph that provide phylogenetic signal. The bubbles are then aligned and concatenated to form a supermatrix, from which a phylogenetic tree is inferred. We introduce the algorithms that kleuren uses to accomplish this task, and show its performance on reconstructing the phylogenetic tree of 12 Drosophila species. kleuren reconstructed the established phylogenetic tree accurately, and is a viable tool for phylogenetic tree reconstruction using whole genome sequences.