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Presentation
Parsimony Approach to Test the Evolving Master Gene Hypothesis for Human Alu Repeats
Proceedings of the Sixth IEEE Symposium on BioInformatics and BioEngineering
  • Sridhar Ramachandran, Wright State University - Main Campus
  • Travis E. Doom, Wright State University - Main Campus
  • Michael L. Raymer, Wright State University - Main Campus
  • Dan E. Krane, Wright State University - Main Campus
Document Type
Conference Proceeding
Publication Date
10-1-2006
Disciplines
Abstract

The Alu family of Short interspersed repeats (SINEs) account for a significant portion of the "junk DNA" within the mammalian genome. Thousands of copies of Alu subfamilies are scattered essentially randomly through the human genome. The relative abundance of these repeats provides a rich fossil record of primate and human history. Since Alus have no known functionality, a great deal of ambiguity surrounds their amplification and evolution. Herein, using parsimony approach, we investigate the popular belief that the vast majority of Alu amplification is derived from a small subset of Alu master genes. Our results indicate that the classification of Alu subfamilies reported in literature is incomplete. Furthermore, we summarize some of the factors relevant to the use of the Alu family of repeats in bioinformatic assays.

Comments

Presented at the Sixth IEEE Symposium on BioInformatics and BioEngineering, Arlington, VA, October 16-18, 2006.

DOI
10.1109/BIBE.2006.253337
Citation Information
Sridhar Ramachandran, Travis E. Doom, Michael L. Raymer and Dan E. Krane. "Parsimony Approach to Test the Evolving Master Gene Hypothesis for Human Alu Repeats" Proceedings of the Sixth IEEE Symposium on BioInformatics and BioEngineering (2006) p. 213 - 219 ISSN: 0769527272
Available at: http://works.bepress.com/michael_raymer/86/