Algorithm development for next generation sequencing-based metagenome analysis

Metagenomics;DNA;Bioinformatics

Kislyuk, Andrey O. ; Biology

University:Georgia Institute of Technology

Department:Biology

关键词: Metagenomics;    DNA;    Bioinformatics;   

Others  :  https://smartech.gatech.edu/bitstream/1853/42779/1/kislyuk_andrey_o_201012_phd.pdf

美国|英语

来源: SMARTech Repository

【 摘 要 】

We present research on the design, development and application of algorithms for DNA sequence analysis, with a focus on environmental DNA (metagenomes). We present an overview and primer on algorithm development for bioinformatics of metagenomes; work on frameshift detection in DNA sequencing data; work on a computational pipeline for the assembly, feature prediction, annotation and analysis of bacterial genomes; work on unsupervised phylogenetic clustering of metagenomic fragments using Markov Chain Monte Carlo methods; and work on estimation of bacterial genome plasticity and diversity, potential improvements to the measures of core and pan-genomes.