期刊
JOURNAL OF COMPUTATIONAL BIOLOGY
卷 15, 期 9, 页码 1133-1153出版社
MARY ANN LIEBERT, INC
DOI: 10.1089/cmb.2008.0065
关键词
gene clusters; genomic rearrangements; strings; recombinations; ARG
类别
资金
- Spanish Ministry of Science [FPU AP2006-03268, BFU-63657]
Traditionally nonrecombinant genome, i.e., mtDNA or Y chromosome, has been used for phylogeography, notably for ease of analysis. The topology of the phylogeny structure in this case is an acyclic graph, which is often a tree, is easy to comprehend and is somewhat easy to infer. However, recombination is an undeniable genetic fact for most part of the genome. Driven by the need for a more complete analysis, we address the problem of estimating the ancestral recombination graph (ARG) from a collection of extant sequences. We exploit the coherence that is observed in the human haplotypes as patterns and present a network model of patterns to reconstruct the ARG. We test our model on simulations that closely mimic the observed haplotypes and observe promising results.
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