Method and system for identification of genetic information from

Details Method and system for identification of genetic information from Method and system for identification of genetic information from

1997-02-25

2000-07-25

Zitomer, Stephanie W.

Data processing: measuring, calibrating, or testing

Measurement system

Statistical measurement

702190, 702196, 702197, 702198, G06F 1718, G06F 1710, G06F 1716

Patent

active

060946261

ABSTRACT:
A method and system for the identification of genetic information from a polynucleotide sequence is described. Genetic information from a raw polynucleotide sequence is identified by assigning values to nucleotide base changes along the raw polynucleotide sequence and processing these values. Particularly, a distribution of the values of the base changes is generated and the variance from a random distribution of this distribution is calculated by determining the root mean square variance of the distribution. The types of genetic information that can be identified using this system and method include the presence of a protein encoding region, or gene; the number of genes in a given overall polynucleotide sequence; the reading frame for the gene sequence; and tRNA and rRNA sites.

REFERENCES:
patent: 5365455 (1994-11-01), Tibbetts et al.
Warren Gish and David J. States, Identification Of Protein Coding Regions By Database Similarity Search; Nature Genetics vol. 3, pp. 266-272 (Mar. 1993).
Pearson and D.Lipman, Improved Tools For Biological Sequence Comparison, Proc. Natl. Acad. Sci. USA, 85:2444-2448 (Apr. 1988).
M. Gates, A Simple Way to Look at DNA, J. Theor. Biol., 119:319-328 (1986).
C. Lawrence; S. Altschu; M. Boguski; J. Liu; A. Neuwald and J. Wootten, Detecting Subtle Sequence Signals: A Gibbs Sampling Strategy For Multiple Alignment, Science, vol. 262, pp. 208-214 (Oct. 8, 1993).
E. Hamori, Novel DNA Sequence Representations, Nature, vol. 314, pp. 585-586 (Apr. 18, 1985).
R. Guigo; S. Knudsen; N. Drake; and T. Smith, Prediction Of Gene Structrure, J. Mol. Biol. 226:141-157 (1992).
V.Solovyev; A.Salamov and C. Lawrence, The Prediction Of Human Exons By Oligonucleotide Composition And Discriminant Analysis Of Spliceable Open Reading Frames, Proceedings, Second International Conference on Intelligent Systems for Molecular Biology, (1994).
V. Solovyev and C. Lawrence, Identification Of Human Gene Functional Regions Based On Oligonucleotide Composition, Proceedings, First International Conference on Intelligent Systems for Molecular Biology, pp. 371-379, (Jul. 1993).
P. Baldi; Y. Chauvin; T. Hunkapiller; M.McClure Hidden Markov Models Of Biological Primary Sequence Information, Proc. Natl. Acad. Sci. USA, 91:1059-1063 (Feb. 1994).
D. Kulp; D. Haussler; M. Reese; and F. Eeckman, A Generalized Hidden Markov Model For The Recognition Of Human Genes In DNA, Journal Not Available.
H. J. Jeffrey, Chaos Game Representation Of Gene Structure, Nucleic Acids Research, vol. 18, pp. 2163-2170, No. 8.
C. Dutta and J. Das, Mathematical Characterization of Chaos Game Representation: New Algorithms for Nucleotide Sequence Analysis, Journal Not Available (1992).
C. Burks; E. Myers; W. Pearson, Identifying Features In Biological Sequences: Sixth Workshop Report, Aspen Center for Physics, 29 May-16 Jun., 1995 (Jan. 26, 1996).
M. Burset and R. Guigo, Evaluation Of Gene Structure Prediction Programs, Genomics , 34:353-367 (1996 ).
S.Tiwari; S.Ramachandran; A. Bhattacharya; S. Bhattacharya; and R. Ramaswamy, Prediction Of Probable Genes By Fourier Analysis Of Genomic Sequences, No Journal Citation Available.
E.Uberbacher and R. Mural, Locating Protein-Coding Regions In Human DNA Sequences By A Multiple Sensor-Neural Network Approach, Proc. Natl. Acad. Sci. USA, 88:11261-265 (Dec. 1991).
Guigo et al., J. Mol. Bio. 226:141-157, 1992.
Fickett, J.W., Nucleic Acids Research 10(17):5303-5318, 1982.
Shulman et al., Journal of Theoretical Biology 88:409-420, 1981.
Silverman et al., ibid., 118:295-300, 1986.

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