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By Broňa Brejová, Michal Burger, Tomáš Vinař (auth.), Teresa M. Przytycka, Marie-France Sagot (eds.)

This booklet constitutes the refereed lawsuits of the eleventh foreign Workshop on Algorithms in Bioinformatics, WABI 2011, held in Saarbrücken, Germany, in September 2011.
The 30 papers offered have been conscientiously reviewed and chosen from seventy seven submissions. They conceal features of algorithms in bioinformatics, computational biology and platforms biology.

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Extra resources for Algorithms in Bioinformatics: 11th International Workshop, WABI 2011, Saarbrücken, Germany, September 5-7, 2011. Proceedings

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1 Introduction Plant breeding is the practice of creating improved varieties of cultivated crops with for instance a higher yield, better appearance or enhanced disease resistance [2]. Up to recently, selection of favorable traits has been solely on the basis of observable phenotype [4]. With the availability of genetic maps, containing the exact locations on the genome of genetic markers associated with desirable traits, selection at the genotypic level has become possible [8]. This knowledge allows to design a schedule of crossings of individuals resulting ultimately in an individual with all alleles corresponding to desired favorable traits present.

A mixed path in P Gk (R1 × R2 ) is a non-branching path (NBP) if each node, except the first and the last, has in-degree of 1 in the graph with respect to the corresponding in-edge type in the path, and out-degree of 1 corresponding to the out-edge type. In traditional assembly heuristics, a contig can be represented as a NBP where each edge is an overlap edge (simple path). For example, maximal-length contigs from the graph in Figure 1 are {ab → bc → cd, cd → de → ef → f c → cd, cd → dg → gh}. In contrast, a non-trivial non-branching path is {ab ef gh}, where the path-string (ab♦2 ef ♦2 gh) is a scaffold which covers the whole string.

Phil. Trans. R. Soc. B 363(1491), 557– 572 (2008) 4. : The use of molecular genetics in the improvement of agricultural populations. Nature Reviews Genetics 3, 22–32 (2002) 5. : The combination of linkage values and the calculation of distances between the loci of linked factors. Journal of Genetics 8, 299–309 (1919) 38 S. Canzar and M. El-Kebir 6. : Optimization of the marker-based procedures for pyramiding genes from multiple donor lines: I. Schedule of crossing between the donor lines. Crop Science 47, 537–546 (2007) 7.

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