DetectMITE: A novel approach to detect miniature inverted repeat transposable elements in genomes.

ABSTRACT: Miniature inverted repeat transposable elements (MITEs) are prevalent in eukaryotic genomes, including plants and animals. Classified as a type of non-autonomous DNA transposable elements, they play important roles in genome organization and evolution. Comprehensive and accurate genome-wide detection of MITEs in various eukaryotic genomes can improve our understanding of their origins, transposition processes, regulatory mechanisms, and biological relevance with regard to gene structures, expression, and regulation. In this paper, we present a new MATLAB-based program called detectMITE that employs a novel numeric calculation algorithm to replace conventional string matching algorithms in MITE detection, adopts the Lempel-Ziv complexity algorithm to filter out MITE candidates with low comp

SUBMITTER: Ye C 

PROVIDER: S-EPMC4726161 | biostudies-literature | 2016 Jan

REPOSITORIES: biostudies-literature