Computational Methods for SNPs and Haplotype Inference: by Andrew G. Clark, Emmanouil T. Dermitzakis, Stylianos E. PDF

By Andrew G. Clark, Emmanouil T. Dermitzakis, Stylianos E. Antonarakis (auth.), Sorin Istrail, Michael Waterman, Andrew Clark (eds.)

ISBN-10: 3540212493

ISBN-13: 9783540212492

This publication constitutes the post-proceedings of the DIMACS/RECOMB satellite tv for pc Workshop on Computational tools for SNPs and Haplotype Inference held in Piscataway, NJ, united states, in November 2002.

The publication offers ten revised complete papers in addition to abstracts of the remainder workshop papers. All appropriate present matters in computational tools for SNP and haplotype research and their purposes to affliction institutions are addressed.

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Read Online or Download Computational Methods for SNPs and Haplotype Inference: DIMACS/RECOMB Satellite Workshop, Piscataway, NJ, USA, November 21-22, 2002. Revised Papers PDF

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Extra info for Computational Methods for SNPs and Haplotype Inference: DIMACS/RECOMB Satellite Workshop, Piscataway, NJ, USA, November 21-22, 2002. Revised Papers

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Problem 12 (Tree Minimization). Devise an algorithm which finds min E(T, h) (7) T,h over all h explaining g and all trees T . The second is the high temperature regime β ∼ 0 (1 − βE(T, h)) = (2n)2n−2 (1 − Z(h; β) ∼ T 1 2n D(h1 , h2 )) h1 ,h2 ∈h where D(h1 , h2 ) is the Hamming distance between h1 and h2 . In this extreme, the approximate problem is the minimization of the sum of all pairwise Hamming distances. Problem 13 (Sum of Pairs Hamming Distance Minimization). Devise an algorithm which finds D(h1 , h2 ) min h (8) h1 ,h2 ∈h over all h explaining g and all trees T .

10. E. Eskin, E. Halperin, and R. Karp. Large scale reconstruction of haplotypes from genotype data. Proceedings of RECOMB 2003, April 2003. 11. E. Eskin, E. Halperin, and R. Karp. Efficient reconstruction of haplotype structure via perfect phylogeny. Technical report, UC Berkeley, Computer Science Division (EECS), 2002. 12. M. Fullerton, A. Clark, Charles Sing, and et. al. Apolipoprotein E variation at the sequence haplotype level: implications for the origin and maintenance of a major human polymorphism.

14. D. Gusfield. Efficient algorithms for inferring evolutionary history. Networks, 21:19–28, 1991. 15. D. Gusfield. Algorithms on Strings, Trees and Sequences: Computer Science and Computational Biology. Cambridge University Press, 1997. 16. D. Gusfield. A practical algorithm for deducing haplotypes in diploid populations. In Proceedings of 8’th International Confernece on Intelligent Systems in Molecular Biology, pages 183–189. AAAI Press, 2000. 17. D. Gusfield. Inference of haplotypes from samples of diploid populations: complexity and algorithms.

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Computational Methods for SNPs and Haplotype Inference: DIMACS/RECOMB Satellite Workshop, Piscataway, NJ, USA, November 21-22, 2002. Revised Papers by Andrew G. Clark, Emmanouil T. Dermitzakis, Stylianos E. Antonarakis (auth.), Sorin Istrail, Michael Waterman, Andrew Clark (eds.)


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