• Endogenous retroviruses of the chicken genome 

      Huda, Ahsan; Polavarapu, Nalini; Jordan, I. King; McDonald, John F. (Georgia Institute of TechnologyBioMed Central, 2008-03-24)
      We analyzed the chicken (Gallus gallus) genome sequence to search for previously uncharacterized endogenous retrovirus (ERV) sequences using ab initio and combined evidence approaches. We discovered 11 novel families of ...
    • Evolutionary history of Oryza sativa LTR retrotransposons: a preliminary survey of the rice genome sequences 

      Gao, Lizhi; McCarthy, Eugene M.; Ganko, Eric W.; McDonald, John F. (Georgia Institute of TechnologyBioMed Central, 2004-03-02)
      Background: LTR Retrotransposons transpose through reverse transcription of an RNA intermediate and are ubiquitous components of all eukaryotic genomes thus far examined. Plant genomes, in particular, have been found to ...
    • Exonization of the LTR transposable elements in human genome 

      Piriyapongsa, Jittima; Polavarapu, Nalini; Borodovsky, Mark; McDonald, John F. (Georgia Institute of TechnologyBioMed Central, 2007-08-28)
      Background: Retrotransposons have been shown to contribute to evolution of both structure and regulation of protein coding genes. It has been postulated that the primary mechanism by which retrotransposons contribute to ...
    • Long terminal repeat retrotransposons of Mus musculus 

      McCarthy, Eugene M.; McDonald, John F. (Georgia Institute of TechnologyBioMed Central, 2004-02-13)
      Background: Long terminal repeat (LTR) retrotransposons make up a large fraction of the typical mammalian genome. They comprise about 8% of the human genome and approximately 10% of the mouse genome. On account of their ...
    • LTR retrotransposons and the evolution of dosage compensation in Drosophila 

      Matyunina, Lilya V.; Bowen, Nathan J.; McDonald, John F. (Georgia Institute of TechnologyBioMed Central, 2008-06-04)
      Background: Dosage compensation in Drosophila is the epigenetic process by which the expression of genes located on the single X-chromosome of males is elevated to equal the expression of X-linked genes in females where ...
    • Optimal State-Feedback and Output-Feedback Controllers for the Wheeled Inverted Pendulum System 

      Katariya, Ashish Santosh (Georgia Institute of Technology, 2010-05-12)
      Vehicles characterized as wheeled inverted pendulums have received recent attention in the robotics community. This thesis illustrates the process of designing optimal state-feedback and output-feedback controllers for the ...