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Literature DB >> 7021862

The universal dinucleotide asymmetry rules in DNA and the amino acid codon choice.

Abstract

Natural DNA sequences were recently found to contain distinct nearest neighbor patterns. Hetero-dinucleotides were demonstrated to appear consistently more (less) than their mirror-image counterparts. This paper shows that this asymmetric behavior does not stem from the coding requirements of the DNA. It also shows some codon patterns in prokaryotic and eukaryotic genomes which came up in the course of this work.

Entities: Chemical

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Year: 1981 PMID： 7021862 DOI： 10.1007/bf01732761

Source DB: PubMed Journal: J Mol Evol ISSN： 0022-2844 Impact factor: 2.395

35 in total

1. Nucleotide sequence of cloned cDNA for bovine corticotropin-beta-lipotropin precursor.

Authors: S Nakanishi; A Inoue; T Kita; M Nakamura; A C Chang; S N Cohen; S Numa
Journal: Nature Date: 1979-03-29 Impact factor: 49.962

2. The genome of simian virus 40.

Authors: V B Reddy; B Thimmappaya; R Dhar; K N Subramanian; B S Zain; J Pan; P K Ghosh; M L Celma; S M Weissman
Journal: Science Date: 1978-05-05 Impact factor: 47.728

3. Complete nucleotide sequence of SV40 DNA.

Authors: W Fiers; R Contreras; G Haegemann; R Rogiers; A Van de Voorde; H Van Heuverswyn; J Van Herreweghe; G Volckaert; M Ysebaert
Journal: Nature Date: 1978-05-11 Impact factor: 49.962

4. Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli.

Authors: J Brosius; M L Palmer; P J Kennedy; H F Noller
Journal: Proc Natl Acad Sci U S A Date: 1978-10 Impact factor: 11.205

5. Nucleotide sequence and amplification in bacteria of structural gene for rat growth hormone.

Authors: P H Seeburg; J Shine; J A Martial; J D Baxter; H M Goodman
Journal: Nature Date: 1977-12-08 Impact factor: 49.962

6. An approach to evolutionary relationships of mammalian DNA viruses through analysis of the pattern of nearest neighbor base sequences.

Authors: H Subak-Sharpe; R R Bürk; L V Crawford; J M Morrison; J Hay; H M Keir
Journal: Cold Spring Harb Symp Quant Biol Date: 1966

7. Some rules in the ordering of nucleotides in the DNA.

Authors: R Nussinov
Journal: Nucleic Acids Res Date: 1980-10-10 Impact factor: 16.971

8. Nucleotide sequence of bacteriophage fd DNA.

Authors: E Beck; R Sommer; E A Auerswald; C Kurz; B Zink; G Osterburg; H Schaller; K Sugimoto; H Sugisaki; T Okamoto; M Takanami
Journal: Nucleic Acids Res Date: 1978-12 Impact factor: 16.971

9. Complete nucleotide sequence of bacteriophage MS2 RNA: primary and secondary structure of the replicase gene.

Authors: W Fiers; R Contreras; F Duerinck; G Haegeman; D Iserentant; J Merregaert; W Min Jou; F Molemans; A Raeymaekers; A Van den Berghe; G Volckaert; M Ysebaert
Journal: Nature Date: 1976-04-08 Impact factor: 49.962

10. DNA methylation and the frequency of CpG in animal DNA.

Authors: A P Bird
Journal: Nucleic Acids Res Date: 1980-04-11 Impact factor: 16.971

15 in total

1. Comparison of dinucleotide frequency and codon usage in Toxoplasma and Plasmodium: evolutionary implications.

Authors: A M Johnson
Journal: J Mol Evol Date: 1990-04 Impact factor: 2.395

2. Doublet preference and gene evolution.

Authors: R Hanai; A Wada
Journal: J Mol Evol Date: 1990-02 Impact factor: 2.395

3. On concerted origin of transfer RNAs with complementary anticodons.

Authors: S Rodin; S Ohno; A Rodin
Journal: Orig Life Evol Biosph Date: 1993-12 Impact factor: 1.950

4. Compositional constraints and genome evolution.

Authors: G Bernardi; G Bernardi
Journal: J Mol Evol Date: 1986 Impact factor: 2.395

5. A comprehensive package for DNA sequence analysis in FORTRAN IV for the PDP-11.

Authors: J Arnold; V K Eckenrode; K Lemke; G J Phillips; S W Schaeffer
Journal: Nucleic Acids Res Date: 1986-01-10 Impact factor: 16.971

6. The effects of guanine and cytosine variation on dinucleotide frequency and amino acid composition in the human genome.

Authors: R Hanai; A Wada
Journal: J Mol Evol Date: 1988 Impact factor: 2.395

7. Strong doublet preferences in nucleotide sequences and DNA geometry.

Authors: R Nussinov
Journal: J Mol Evol Date: 1984 Impact factor: 2.395

8. The effect of codon usage on the oligonucleotide composition of the E. coli genome and identification of over- and underrepresented sequences by Markov chain analysis.

Authors: G J Phillips; J Arnold; R Ivarie
Journal: Nucleic Acids Res Date: 1987-03-25 Impact factor: 16.971

9. Mono- through hexanucleotide composition of the Escherichia coli genome: a Markov chain analysis.

Authors: G J Phillips; J Arnold; R Ivarie
Journal: Nucleic Acids Res Date: 1987-03-25 Impact factor: 16.971

10. Asymmetrical distribution of CpG in an 'average' mammalian gene.

Authors: M McClelland; R Ivarie
Journal: Nucleic Acids Res Date: 1982-12-11 Impact factor: 16.971