A Study of Computational Genome Assembly by Graph Theory

Abstract

Abstract The assembly of billions of short sequencing reads into a contiguous genome is a daunting task. The foundation knowledge of current DNA assembly models is concentrated among a select group, where the solution to the genome assembly challenge lies in proper ordering the genomic data. This contribution’s objective is to provide an overview of the original graph models used in DNA sequencing by hybridization. With the updated analytical approach based on the bidirectional bipartite graph class, the theoretical basic structure of the DNA assembly model has been described in new perspective by incorporating few short hypothetical DNA sequences. On the Galaxy platform, by using Spades assembler and Velvet assembler, the comparative outcomes of an experiment are presented, and we also identify their working schemes. Here, the working principle of de Bruijn graph has been discussed in broader point of view.