In this past year we reported the discovery of T7 Islands by usingmolecular information theory. These genetic elements appear, so far,only in pathogenic bacterial strains and so may have some effect indiseases. The T7 islands contain promoters for T7-like bacteriophagebut they do not contain T7-like polymerases. Each island has severalunique genes with unknown function, an integrase and direct repeats onthe ends. A second report shows how the fundamental theorem ofinformation theory, the channel capacity theorem, is actually a theorem about biology. This fuses information technologies withmolecular biology. A third paper reports the development of agraphical technique for displaying correlations between parts of aDNA, RNA or protein, the three-dimensional sequence logo. We havedeveloped a nanotechnology for detection of molecules, Rod-TetherNanoprobes (patent pending).

Agency
National Institute of Health (NIH)
Institute
Division of Basic Sciences - NCI (NCI)
Type
Intramural Research (Z01)
Project #
1Z01BC008396-18
Application #
7337953
Study Section
(CCRN)
Project Start
Project End
Budget Start
Budget End
Support Year
18
Fiscal Year
2006
Total Cost
Indirect Cost
Name
Basic Sciences
Department
Type
DUNS #
City
State
Country
United States
Zip Code
Jeong, Jae-Ho; Kim, Hyun-Ju; Kim, Kun-Hee et al. (2012) An unusual feature associated with LEE1 P1 promoters in enteropathogenic Escherichia coli (EPEC). Mol Microbiol 83:612-22
Shultzaberger, Ryan K; Chen, Zehua; Lewis, Karen A et al. (2007) Anatomy of Escherichia coli sigma70 promoters. Nucleic Acids Res 35:771-88
Bindewald, Eckart; Schneider, Thomas D; Shapiro, Bruce A (2006) CorreLogo: an online server for 3D sequence logos of RNA and DNA alignments. Nucleic Acids Res 34:W405-11
Schneider, Thomas D (2006) Claude Shannon: biologist. The founder of information theory used biology to formulate the channel capacity. IEEE Eng Med Biol Mag 25:30-3
Schneider, Thomas D (2006) Twenty Years of Delila and Molecular Information Theory: The Altenberg-Austin Workshop in Theoretical Biology Biological Information, Beyond Metaphor: Causality, Explanation, and Unification Altenberg, Austria, 11-14 July 2002. Biol Theory 1:250-260
Chen, Zehua; Schneider, Thomas D (2006) Comparative analysis of tandem T7-like promoter containing regions in enterobacterial genomes reveals a novel group of genetic islands. Nucleic Acids Res 34:1133-47
Khan, Sikandar G; Metin, Ahmet; Gozukara, Engin et al. (2004) Two essential splice lariat branchpoint sequences in one intron in a xeroderma pigmentosum DNA repair gene: mutations result in reduced XPC mRNA levels that correlate with cancer risk. Hum Mol Genet 13:343-52
Hengen, Paul N; Lyakhov, Ilya G; Stewart, Lisa E et al. (2003) Molecular flip-flops formed by overlapping Fis sites. Nucleic Acids Res 31:6663-73
Schneider, Thomas D (2002) Consensus sequence Zen. Appl Bioinformatics 1:111-9
Emmert, S; Schneider, T D; Khan, S G et al. (2001) The human XPG gene: gene architecture, alternative splicing and single nucleotide polymorphisms. Nucleic Acids Res 29:1443-52

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