Monte Carlo sequence alignment

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Monte Carlo sequence alignment

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Annual Conference on Research in Computational Molecular Biology archive
Proceedings of the first annual international conference on Computational molecular biology table of contents

Santa Fe, New Mexico, United States

Pages: 93 - 97

Year of Publication: 1997

ISBN:0-89791-882-7

Author

Gary A. Churchill

Biometrics Unit, Cornell University, Ithaca, NY

Sponsors

SIGACT: ACM Special Interest Group on Algorithms and Computation Theory
DOE : Department of Energy

Publisher

ACM New York, NY, USA

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REFERENCES

Note: OCR errors may be found in this Reference List extracted from the full text article. ACM has opted to expose the complete List rather than only correct and linked references.

	1	Churchill GA (1995) Accurate restoration of DNA sequences, Case Studies in Bayesian Statistics vol. Ii, eds. C. Gatsaris, J.S. Hodges, R.E. Kass, N.D. Singpurwalla, Springer-Verlag, New-York, pp. 90-148.
	2	Churchill GA, Lazareva B (1996) Bayesian restoration of a hidden Markov chain with appliactions to DNA sequencing. Submitted: J. American Statistical Assoc.
	3	Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 17:368-376.
	4	Fitch WM, Smith TS (1983) Optimal Sequence Alignments. Proc. Natl. Acad. Sci. USA 80:1382-1386.
	5	Gelfand AE, Smith AFM (1990) Sampling Based Approaches to Calculating Marginal Densities. J. Amer. Statist. Assoc. 85:398-409.
	6	Krogh A, Brown M, Mian, IS, SjSlander K, Haussler D (1994) Hidden Markov models in computational biology: Applications to protein modeling. J. Mol. Biol., 235: 1501-1531.
	7	Rabiner LR (1989) A tutorial on hidden Markov models and selected applications in speech recognition, Proceedings of the iEEE, 77, 257-286.
	8	Thorne JL, Churchill GA (1995) Estimation and Reliability of molecular sequence alignments. Biometrics, 51: 100-113.
	9	Thorne JL, Kishino H, Felsenstein J (1991) An evolutionary model for maximum likelihood alignment of DNA sequences. J. Mol. Evol. 33:114-124.
	10	Thorne JL, Kishino H, Felsenstein J (1992) Inching toward reality: An improved likelihood model of sequence evolution. J. Mol. Evol. 34:3-16.
	11	Thorne JL, Kishino H (1993) Freeing phylogenies from artifacts of alignment. Mol. Biol. Evol. 9(6):1148-1162.
	12	Vingron M (1996) Near-optimal sequence alignment. Current Opinion in structural biology 6: 346-352.
	13	Vingron M and Waterman MS (1994) Sequence alignment and penalty choice: Review of concepts, case studies and implications, j. Mol. Biol. 235: 1-12.