Download e-book for kindle: Algorithms in Bioinformatics: 13th International Workshop, by Bernard M. E. Moret (auth.), Aaron Darling, Jens Stoye

By Bernard M. E. Moret (auth.), Aaron Darling, Jens Stoye (eds.)

ISBN-10: 3642404529

ISBN-13: 9783642404528

ISBN-10: 3642404537

ISBN-13: 9783642404535

This booklet constitutes the refereed court cases of the thirteenth foreign Workshop on Algorithms in Bioinformatics, WABI 2013, held in Sophia Antipolis, France, in September 2013. WABI 2013 is certainly one of seven workshops which, in addition to the eu Symposium on Algorithms (ESA), represent the ALGO annual assembly and highlights study in algorithmic paintings for bioinformatics, computational biology and structures biology. The target is to provide contemporary learn effects, together with major work-in-progress, and to spot and discover instructions of destiny study. The 27 complete papers provided have been rigorously reviewed and chosen from sixty one submissions. The papers disguise all points of algorithms in bioinformatics, computational biology and platforms biology.

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Extra resources for Algorithms in Bioinformatics: 13th International Workshop, WABI 2013, Sophia Antipolis, France, September 2-4, 2013. Proceedings

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Suppose to the contrary that v1 , . . , vn is a cycle in the underlying graph. Since a cannot be on this cycle and by the above observation, each of the cycle’s vertices is reachable from a. , let v1 be the farthest from a in Gi among all cycle vertices. Then one can obtain a smaller solution by removing one of the edges (v1 , v2 ), (vn , v1 ) (depending on their orientations), a contradiction. As noted earlier, when k = 1 the MKL problem is equivalent to the minimum directed Steiner tree problem, which is known to be NP-complete [5].

In case of two fragments from each protein structure, we call them remote fragment pair. Here, we require the pair of remote fragments to be of the same size and to be at least three residues away from each other to avoid modeling information redundant to the local fragments. 1. Since the initial set of ROTRANs may contain a great deal of noise, we try to filter out most of the noise with a star-like k-median clustering algorithm in the second step. Assuming that we know the maximum distance between the Towards Reliable Automatic Protein Structure Alignment 21 median of a cluster and any member of the same cluster, an approximate clustering is applied using a neighbor graph: each vertex represents a rotation matrix, and two vertices are connected if and only if the distance between them is at most .

Pp. 25–40 (1996) 3. : SARFing the PDB. Protein Eng. 9(9), 727–732 (1996) 4. : Structural alignment of large-size proteins via lagrangian relaxation. In: RECOMB 2002: Proceedings of the Sixth Annual International Conference on Computational Biology, pp. 100–108. ACM, New York (2002) 5. : Proust: a comparison method of threedimensional structure of proteins using indexing techniques. Journal of Computational Biology 11, 1061–1072 (2004) Towards Reliable Automatic Protein Structure Alignment 31 6.

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Algorithms in Bioinformatics: 13th International Workshop, WABI 2013, Sophia Antipolis, France, September 2-4, 2013. Proceedings by Bernard M. E. Moret (auth.), Aaron Darling, Jens Stoye (eds.)


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