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    Edward N. Trifonov Ph.D.

    trifonoff  
    Professor Emeritus, Department of Evolutionary and Environmental Biology
    Office: Multi-Purpose Building, Room 216 | Phone: 972-4-8288-096 | Fax: 972-4-8288-235
    Email: This email address is being protected from spambots. You need JavaScript enabled to view it.
    Subject: Sequence biology, protein modularity and early molecular evolution
    Lab website | Contact | Photo album | Publications | CV

    Research Interests

    • Deciphering of the codes carried by sequences.
    • Sequence determinants of chromatin structure
    • Modular structure of proteins
    • Networks in protein sequence space
    • Early molecular evolution and origin of life

    The group currently studies nucleosome positioning patterns in various types of isochores, interaction between translation code and chromatin code, nature of gene splicing, evolution of protein sequences.

    Selected Publications

    Trifonov, E. N., Sussman, J. L., The pitch of chromatin DNA is reflected in its nucleotide sequence. Proc. Natl. Acad. Sci. USA 77, 3816-3820 (1980) (Link)

    Brendel, V., Trifonov, E. N., A computer algorithm for testing potential prokaryotic terminators. Nucl. Acids Res. 12, 4411-4427 (1984) (Link)

    Trifonov, E. N., Curved DNA. CRC Crit. Rev. Biochemistry 19, 89-106 (1985) (Link)

    Ulanovsky, L., Bodner, M., Trifonov, E. N., Choder, M., Curved DNA: design, synthesis and circularization. Proc. Natl. Acad. Sci. USA 83, 862-866 (1986) (Link)

    Bucher, P., Trifonov, E. N., Compilation and analysis of eukaryotic Pol II promoter sequences. Nucl. Acids Res. 14, 10009-10026 (1986) (Link)

    Trifonov, E. N., Translation framing code and frame-monitoring mechanism as suggested by the analysis of mRNA and 16S rRNA nucleotide sequences. J. Molec. Biol. 194, 643-652 (1987) (Link)

    Ulanovsky, L. E., Trifonov, E. N., Estimation of wedge components in curved DNA. Nature 326, 720-722 (1987) (Link)

    Bolshoy, A., McNamara, P., Harrington, R. E., Trifonov, E. N., Curved DNA without AA: experimental estimation of all 16 wedge angles. Proc. Natl. Acad. Sci. USA 88, 2312-2316 (1991) (Link)

    Shpigelman, E. S., Trifonov, E. N., Bolshoy, A., CURVATURE: software for the analysis of curved DNA. CABIOS 9, 435-440 (1993) (Link)

    Ioshikhes, I., Bolshoy, A., Derenshteyn, K., Borodovsky, M., Trifonov, E. N., Nucleosome DNA sequence pattern revealed by multiple alignment of experimentally mapped sequences. J. Molec. Biol. 262, 129-139 (1996) (Link)

    Berezovsky, I. N., Grosberg, A. Y., Trifonov, E. N., Closed loops of nearly standard size: common basic element of protein structure. FEBS Letters 466, 283-286 (2000) (Link)

    Trifonov, E. N., The triplet code from first principles. J. Biomol. Str. Dyn. 22, 1-11 (2004) (Link)

    Gabdank, I., Barash, D., Trifonov, E. N., Nucleosome DNA bendability matrix (C. elegans). J. Biomol. Str. Dyn. 26, 403-412  (2009) (Link)

    Trifonov, E. N. Cracking the chromatin code: precise rule of nucleosome positioning. Physics of Life Reviews 8, 39-50 (2011) Link

    Frenkel Z. M., Trifonov E. N.  Origin and evolution of genes and genomes. Crucial role of triplet expansions. J Biomol Str Dyn 30, 201-210 (2012) Link

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