Comparative analysis of nucleic acid sequences by their general constraints - PubMed (original) (raw)

Comparative Study

Comparative analysis of nucleic acid sequences by their general constraints

D J Lipman et al. Nucleic Acids Res. 1982.

Free PMC article

Abstract

We describe two measures of a nucleic acid sequence, derived from Information Theory, which characterize the constraints toward nonuniform base composition, and the constraints on the ordering of the bases. These two measures distinguish extra-chromosomal coding sequences from all other coding sequences examined. The two measures separate eukaryotic coding sequences into two groups: those with introns and those without introns. We have also found a relationship between the general constraints of a subsequence and its degree of conservation in related genes.

PubMed Disclaimer

Similar articles

• Classifying nucleic acid sub-sequences as introns or exons using genetic programming.
  Handley S. Handley S. Proc Int Conf Intell Syst Mol Biol. 1995;3:162-9. Proc Int Conf Intell Syst Mol Biol. 1995. PMID: 7584433
• Origination of the split structure of spliceosomal genes from random genetic sequences.
  Regulapati R, Bhasi A, Singh CK, Senapathy P. Regulapati R, et al. PLoS One. 2008;3(10):e3456. doi: 10.1371/journal.pone.0003456. Epub 2008 Oct 20. PLoS One. 2008. PMID: 18941625 Free PMC article.
• Prediction of function in DNA sequence analysis.
  Gelfand MS. Gelfand MS. J Comput Biol. 1995 Spring;2(1):87-115. doi: 10.1089/cmb.1995.2.87. J Comput Biol. 1995. PMID: 7497122 Review.

Cited by

• Hierarchical analysis of influenza A hemagglutinin gene sequences.
  Lipman DJ, Smith TF, Beckman RJ, Waterman MS. Lipman DJ, et al. Nucleic Acids Res. 1982 Sep 11;10(17):5375-89. doi: 10.1093/nar/10.17.5375. Nucleic Acids Res. 1982. PMID: 7145705 Free PMC article.
• Signal search analysis: a new method to localize and characterize functionally important DNA sequences.
  Bucher P, Bryan B. Bucher P, et al. Nucleic Acids Res. 1984 Jan 11;12(1 Pt 1):287-305. doi: 10.1093/nar/12.1part1.287. Nucleic Acids Res. 1984. PMID: 6546421 Free PMC article.
• Nucleotide sequence and transcription analysis of a linear DNA plasmid associated with the killer character of the yeast Kluyveromyces lactis.
  Stark MJ, Mileham AJ, Romanos MA, Boyd A. Stark MJ, et al. Nucleic Acids Res. 1984 Aug 10;12(15):6011-30. doi: 10.1093/nar/12.15.6011. Nucleic Acids Res. 1984. PMID: 6473099 Free PMC article.
• Strong doublet preferences in nucleotide sequences and DNA geometry.
  Nussinov R. Nussinov R. J Mol Evol. 1984;20(2):111-9. doi: 10.1007/BF02257371. J Mol Evol. 1984. PMID: 6433029
• Sequence homologies in the protamine gene family of rainbow trout.
  Aiken JM, McKenzie D, Zhao HZ, States JC, Dixon GH. Aiken JM, et al. Nucleic Acids Res. 1983 Jul 25;11(14):4907-22. doi: 10.1093/nar/11.14.4907. Nucleic Acids Res. 1983. PMID: 6308564 Free PMC article.

References

1. 1. Nature. 1978 Feb 9;271(5645):501 - PubMed
2. 1. Cell. 1980 Oct;21(3):653-68 - PubMed
3. 1. J Mol Biol. 1981 Mar 25;147(1):195-7 - PubMed
4. 1. Science. 1981 Dec 18;214(4527):1305-12 - PubMed
5. 1. Cell. 1981 Nov;26(3 Pt 1):345-53 - PubMed

Publication types

MeSH terms

Substances

LinkOut - more resources

• Full Text Sources

  • Europe PubMed Central
  • PubMed Central
  • Silverchair Information Systems

• Medical

  • MedlinePlus Health Information