Genaralized Neighbor Joining Approaches for Reconstructing Tandem Duplication History: a comparitive study
نویسندگان
چکیده
Motivation: Genomes are replete with short sequences repeated consecutively called tandem repeats. Reconstructing duplication histories for tandem repeats may yield valuable insights into their functions and the biological mechanisms of tandem repeat creation and extension. Results: We study the generalized neighbor-joining approaches for reconstructing tandem duplication history. We develop a software NJtandem that includes three different versions of a generalized neighbor-joining algorithm. We prove that some versions are able to infer the correct duplication history if the input distance matrix is nearly additive. A comparitive study is conducted for the three versions. Availability: NJtandem is available at http://www.cs.cityu.edu.hk/ ̃ lwang/tandem.
منابع مشابه
Neighbor Joining Approaches for Reconstructing Tandem Duplication History
Motivation: Genomes are replete with short sequences repeated consecutively called tandem repeats. Reconstructing duplication histories for tandem repeats may yield valuable insights into their functions and the biological mechanisms of tandem repeat creation and extension. Results: we design and implement a set of heuristic algorithms for reconstructing tandem duplication history with neighbor...
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