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Published Online:pp 461-473https://doi.org/10.1504/IJBRA.2005.008448

This paper deals with the computational problem of inferring complete information on haplotypes from haplotypes with missing data. This problem is one of the main issues in haplotyping, as the current DNA sequencing technology often produces haplotypes with missing bases and therefore the complete information on haplotypes has to be inferred through computational methods. In this paper, we propose a new algorithmic approach to the problem that assumes both the Coalescent and the Minimum Entropy models and we provide an experimental analysis relating it to the previously investigated approaches. In particular, the reconstruction of a perfect phylogeny from haplotypes with missing data is addressed.

Keywords

haplotyping, incomplete haplotype reconstruction, perfect phylogeny haplotyping, heuristics design, bioinformatics, partial haplotype completion, haplotypes, DNA sequencing, missing data, coalescent model, minimum entropy model