AI Article Synopsis
- - The text discusses a method for comparing gene orders as an alignment issue, integrating both rearrangement and modification of gene content in its evolutionary model.
- - A new heuristic using dynamic programming is introduced for determining the median of three genomes within a broader phylogenetic context.
- - The tool called multiOrthoAlign demonstrates high accuracy with both simulated and real data sets, while also improving the efficiency of DupLoCut, an almost exact algorithm that utilizes linear programming for similar problems.
Article Abstract
We relate the comparison of gene orders to an alignment problem. Our evolutionary model accounts for both rearrangement and content-modifying events. We present a heuristic based on dynamic programming for the inference of the median of three genomes and apply it in a phylogenetic framework. multiOrthoAlign is shown accurate on simulated and real datasets, and shown to significantly improve the running-time of DupLoCut, an "almost" exact algorithm based on linear programming, developed recently for the same problem.
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| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4239680 | PMC |
| http://dx.doi.org/10.1186/1471-2164-15-S6-S5 | DOI Listing |
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