An algorithm for the reconstruction of consensus sequences of ancient segmental duplications and transposon copies in eukaryotic genomes.

Published

Journal Article

Interspersed repeats, mostly resulting from the activity and accumulation of transposable elements, occupy a significant fraction of many eukaryotic genomes. More than half of human genomic sequence consists of known repeats, however a very large part has not yet been associated with neither repetitive structures nor functional units. We have postulated that most of the seemingly unique content of mammalian genomes is also a result of transposon activity, written software to look for weak signals which would help us reconstruct the ancient elements with substantially mutated copies, and integrated it into a system for de novo identification and classification of interspersed repeats. In this manuscript we describe our approach, and report on our methods for building the consensus sequences of these transposons.

Full Text

Duke Authors

Cited Authors

  • Singh, A; Keswani, U; Levine, D; Feschotte, C; Nikola Stojanovic,

Published Date

  • January 2010

Published In

Volume / Issue

  • 6 / 2

Start / End Page

  • 147 - 162

PubMed ID

  • 20223737

Pubmed Central ID

  • 20223737

Electronic International Standard Serial Number (EISSN)

  • 1744-5493

International Standard Serial Number (ISSN)

  • 1744-5485

Digital Object Identifier (DOI)

  • 10.1504/ijbra.2010.032118

Language

  • eng