An algorithm for the reconstruction of consensus sequences of ancient segmental duplications and transposon copies in eukaryotic genomes.
Journal Article (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
- 2010
Published In
Volume / Issue
- 6 / 2
Start / End Page
- 147 - 162
PubMed ID
- 20223737
Pubmed Central ID
- PMC2932673
International Standard Serial Number (ISSN)
- 1744-5485
Digital Object Identifier (DOI)
- 10.1504/IJBRA.2010.032118
Language
- eng
Conference Location
- Switzerland