U.S. patents available from 1976 to present.
U.S. patent applications available from 2005 to present.

Codon pair utilization

Patent 5082767 Issued on January 21, 1992. Estimated Expiration Date: Icon_subject February 27, 2009. Estimated Expiration Date is calculated based on simple USPTO term provisions. It does not account for terminal disclaimers, term adjustments, failure to pay maintenance fees, or other factors which might affect the term of a patent.

Patent References

Process for producing a structurally modified interferon
Patent #: 4184917
Issued on: 01/22/1980
Inventor: Dorner ,   et al.

Modified microorganisms and method of preparing and using same
Patent #: 4190495
Issued on: 02/26/1980
Inventor: Curtiss, III

Interferon production
Patent #: 4262090
Issued on: 04/14/1981
Inventor: Colby, Jr. ,   et al.

Method for synthesizing DNA sequentially
Patent #: 4293652
Issued on: 10/06/1981
Inventor: Cohen

Oligonucleotides useful as adaptors in DNA cloning, adapted DNA molecules, and methods of preparing adaptors and adapted molecules
Patent #: 4321365
Issued on: 03/23/1982
Inventor: Wu ,   et al.

Protein synthesis
Patent #: 4332892
Issued on: 06/01/1982
Inventor: Ptashne ,   et al.

Hybrid plasmid and process of making same
Patent #: 4332898
Issued on: 06/01/1982
Inventor: Reusser

Mature protein synthesis
Patent #: 4338397
Issued on: 07/06/1982
Inventor: Gilbert ,   et al.

Method of constructing a replicable cloning vehicle having quasi-synthetic genes
Patent #: 4342832
Issued on: 08/03/1982
Inventor: Goeddel ,   et al.

Method for preparing a recombinant DNA phage
Patent #: 4348477
Issued on: 09/07/1982
Inventor: Nakano ,   et al.

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Inventors

Application

No. 316321 filed on 02/27/1989

US Classes:

435/6, Involving nucleic acid435/69.1, Recombinant DNA technique included in method of making a protein or polypeptide435/91.5, Acellular preparation of polynucleotide436/501, BIOSPECIFIC LIGAND BINDING ASSAY536/23.1, DNA or RNA fragments or modified forms thereof (e.g., genes, etc.)536/24.1Non-coding sequences which control transcription or translation processes (e.g., promoters, operators, enhancers, ribosome binding sites, etc.)

Examiners

Primary: Wax, Robert A.
Assistant: Marschel, Ardin H.

Attorney, Agent or Firm

International Class

C12Q 001/68

Abstract

A method for determining the pattern of nonrandom codon pair usage of an organism, comprising the steps of obtaining nucleotide sequence data for the organism, determining from the data the number of codons represented in at least a portion of the sequence and the frequency of usage of at least some codons in the portion, determining from the frequency the expected number of occurrences of at least some codon pairs, if they are paired in a random manner, and comparing the expected number with the actual number of occurrences to determine relative codon pairing preferences. The codon pairings of organisms are highly nonrandom, and differ from organism to organism. This information is used to construct and express altered or synthetic genes having desired levels of translational efficiency, to determine which regions in a genome are protein coding regions, to introduce translational pause sites into heterologous genes, and to ascertain relationship or ancestral origin of nucleotide sequences.

Other References

  • Shpaer, "Constraints on Codon Context in Escherichia coli Genes, Their Possible Role in Modulating the Efficiency of Translation", J. Mol. Biol. 188:555-564 (1985)
  • Yarus et al., "Sense Codons Are Found in Specific Contexts", J. Mol. Biol. 182:529-540 (1985)
  • Ausubel et al., Current Protocols in Molecular Biology, vol. 1, Chap. 8, (Wiley Interscience, 1988)
  • Staden, R., Nucleic Acids Res. 12:551-567 (1984)
  • R. Nussinov, "Eukaryotic Dinucleotide Preference Rules and Their Implications for Degenerate Codon Usage", J. Mol. Biol. 149:125-131 (1981)
  • Bossi, L. and J. R. Roth, "The Influence of Codon Context on Genetic Code Translation", Nature 286:123-127 (1980)
  • Taniguchi, T. and C. Weissman, "Inhibition of Qଲ RNA 70S Ribosome Initiation Complex Formation by an Oligonucleotide Complementary to the 3' Terminal Region of E. coli 16S Ribosomal RNA", Nature 275:770-772 (1978)
  • Kolaskar, A. S. and B. V. B. Reddy, "Contextual Constraints on Codon Pair Usage: Structural and Biological Implications", Journal of Biomolecular Structure and Dynamics 3(4):725-738 (1986)
  • Hatfield et al., "Codon Pair Utilization in E. coli is Non-Random", Journal of Cellular Biochemistry, Supplement 13 C, (1989
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