Computational and biological inference of gene regulatory networks of the LINE-1 retrotransposon. Academic Article

abstract

• Computational approaches were used to define structural and functional determinants of a putative genetic regulatory network of murine LINE-1 (long interspersed nuclear element-1), an active mammalian retrotransposon that uses RNA intermediates to populate new sites throughout the genome. Polymerase (RNA) II polypeptide E AI845735 and mouse DNA homologous to Drosophila per fragment M12039 were identified as primary attractors. siRNA knockdown of the aryl hydrocarbon receptor NM_013464 modulated gene expression within the network, including LINE-1, Sgpl1, Sdcbp, and Mgst1. Genes within the network did not exhibit physical proximity and instead were dispersed throughout the genome. The potential impact of individual members of the network on the global dynamical behavior of LINE-1 was examined from a theoretical and empirical framework.

authors

• Ramos, Kenneth

published proceedings

• Genomics

author list (cited authors)

• Ramos, K. S., He, Q., Kalbfleisch, T., Montoya-Durango, D. E., Teneng, I., Stribinskis, V., & Brun, M.

citation count

• 20

complete list of authors

• Ramos, Kenneth S||He, Qiang||Kalbfleisch, Ted||Montoya-Durango, Diego E||Teneng, Ivo||Stribinskis, Vilius||Brun, Marcel

publication date

• August 2007

publisher

• Elsevier  Publisher

published in

• Genomics  Journal

keywords

• Algorithms
• Animals
• Computational Biology
• Gene Regulatory Networks
• Genome
• Genomics
• Hela Cells
• Humans
• Long Interspersed Nucleotide Elements
• Mice
• Models, Biological
• Models, Genetic
• RNA
• Receptors, Aryl Hydrocarbon

PubMed Central ID

• 17521869

Digital Object Identifier (DOI)

• 10.1016/j.ygeno.2007.04.003

start page

• 176

end page

• 185

volume

• 90

issue

• 2

URL

• http://dx.doi.org/10.1016/j.ygeno.2007.04.003