Search Results - "Trifonov, E. N."

Consensus temporal order of amino acids and evolution of the triplet code by Trifonov, E N

“…Forty different single-factor criteria and multi-factor hypotheses about chronological order of appearance of amino acids in the early evolution are summarized…”
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10-11 bp periodicities in complete genomes reflect protein structure and DNA folding by HERZEL, H, WEISS, O, TRIFONOV, E. N

“…Completely sequenced genomes allow for detection and analysis of the relatively weak periodicities of 10-11 basepairs (bp). Two sources contribute to such…”
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Nucleosome DNA Bendability Matrix (C. elegans) by Gabdank, I., Barash, D., Trifonov, E. N.

“…An original signal extraction procedure is applied to database of 146 base nucleosome core DNA sequences from C. elegans (S. M. Johnson et al. Genome Research…”
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Nucleosome Positioning Pattern Derived from Oligonucleotide Compositions of Genomic Sequences by Rapoport, Alexandra E., Frenkel, Z. M., Trifonov, E. N.

“…Availability of nucleosome positioning pattern(s) is crucial for chromatin studies. The matrix form of the pattern has been recently derived (I. Gabdank, D…”
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Single-base Resolution Nucleosome Mapping on DNA Sequences by Gabdank, I., Barash, D., Trifonov, E. N.

“…Nucleosome DNA bendability pattern extracted from large nucleosome DNA database of C. elegans is used for construction of full length (116 dinucleotide…”
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Curved DNA Without A-A: Experimental Estimation of All 16 DNA Wedge Angles by Bolshoy, A., McNamara, P., Harrington, R. E., Trifonov, E. N.

“…The principal sequence feature responsible for intrinsic DNA curvature is generally assumed to be runs of adenines. However, according to the wedge model of…”
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Epigenetic Nucleosomes: Alu Sequences and CG as Nucleosome Positioning Element by Salih, F., Salih, B., Kogan, S., Trifonov, E. N.

“…Alu sequences carry periodical pattern with CG dinucleotides (CpG) repeating every 31-32 bases. Similar distances are observed in distribution of DNA curvature…”
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CURVATURE: software for the analysis of curved DNA by Shpigelman, E.S., Trifonov, E.N., Bolshoy, A.

“…Software is presented to plot the sequence-dependent spatial trajectory of the DNA double helix and/or distribution of curvature along the DNA molecule. The…”
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Sequence-directed Mapping of Nucleosome Positions by Salih, F., Salih, B., Trifonov, E. N.

“…A nucleosome DNA sequence probe is designed that combines recently derived RR/YY counter-phase and AA/TT in-phase periodical patterns. A simple nucleosome…”
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Sequence fossils, triplet expansion, and reconstruction of earliest codons by Trifonov, E.N., Bettecken, T.

“…mRNA sequences are known to carry a hidden periodical pattern (GCU) n, which may be considered a remnant of sequence organization of mRNA early in its…”
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The Triplet Code From First Principles by Trifonov, Edward N.

“…Temporal order ("chronology") of appearance of amino acids and their respective codons on evolutionary scene is reconstructed. A consensus chronology of amino…”
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Sequence Structure of Hidden 10.4-base Repeat in the Nucleosomes of C. elegans by Salih, F., Salih, B., Trifonov, E. N.

“…By measuring prevailing distances between YY, YR, RR, and RY dinucleotides in the large database of the nucleosome DNA fragments from C. elegans, the consensus…”
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Curved DNA: Design, Synthesis, and Circularization by Ulanovsky, Levy, Bodner, Mordechai, Trifonov, Edward N., Choder, Mordechai

“…Curved DNA molecules and unusually small circles have been obtained by ligation of synthetic 21-base precursors: $ \matrix 5^{\prime}\quad \quad \quad \quad…”
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Translation framing code and frame-monitoring mechanism as suggested by the analysis of mRNA and 16 S rRNA nucleotide sequences by Trifonov, E N

“…Protein coding sequences carry an additional message in the form of a universal three-base periodical pattern (G-non-G-N)n, which is expressed as a strong…”
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Towards functional repertoire of the earliest proteins by Sobolevsky, Y., Guimarães, R.C., Trifonov, E.N.

“…The conserved protein sequence motifs present in all prokaryotic proteomes, "omnipresent motifs," presumably, correspond to the earliest proteins of the Last…”
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Earliest pages of bioinformatics by TRIFONOV, E. N

“…This review is a brief outline of the chronology and essence of early events in bioinformatics, covering the period from 1869 (discovery of DNA by Miescher) to…”
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One common structural feature of "words" in protein sequences and human texts by Zemková, M., Trifonov, E.N., Zahradník, D.

“…Frequently discussed analogy between genetic and human texts is explored by comparison of alternation of polar and non-polar amino-acid residues in proteins…”
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multiple codes of nucleotide sequences by Trifonov, E.N

“…Nucleotide sequences carry genetic information of many different kinds, not just instructions for protein synthesis (triplet code). Several codes of nucleotide…”
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Loop fold nature of globular proteins by Berezovsky, Igor N., Trifonov, Edward N.

“…Protein chains make numerous returns in globules, thus forming loops, closed by tight residue-to-residue contacts—closed loops. Previous statistical analysis…”
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Compilation and analysis of eukaryotic POL II promoter sequences by Bucher, P, Trifonov, E.N

“…A representative set of 168 eukaryotic POL II promoters has been compiled from the EMBL library and subjected to computer signal search analysis. Application…”
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