caa a22 4500 378925938 CHVBK 20180305123617.0 cr unu---uuuuu 161128e20041114xx s 000 0 eng 10.2202/1544-6115.1060 doi (NATIONALLICENCE)gruyter-10.2202/1544-6115.1060 Maximum Likelihood for Genome Phylogeny on Gene Content [Elektronische Daten] [Hongmei Zhang, Xun Gu] With the rapid growth of entire genome data, reconstructing the phylogenetic relationship among different genomes has become a hot topic in comparative genomics. Maximum likelihood approach is one of the various approaches, and has been very successful. However, there is no reported study for any applications in the genome tree-making mainly due to the lack of an analytical form of a probability model and/or the complicated calculation burden. In this paper we studied the mathematical structure of the stochastic model of genome evolution, and then developed a simplified likelihood function for observing a specific phylogenetic pattern under four genome situation using gene content information. We use the maximum likelihood approach to identify phylogenetic trees. Simulation results indicate that the proposed method works well and can identify trees with a high correction rate. Real data application provides satisfied results. The approach developed in this paper can serve as the basis for reconstructing phylogenies of more than four genomes. ©2011 Walter de Gruyter GmbH & Co. KG, Berlin/Boston Computational Biology/Bioinformatics nationallicence Gene Content nationallicence Maximum Likelihood nationallicence Phylogenetic Trees nationallicence Genome nationallicence Zhang Hongmei University of West Florida aut Gu Xun Iowa State University aut Statistical Applications in Genetics and Molecular Biology De Gruyter 3/1(2004-11-14), 1-16 3:1<1 2004 3 sagmb https://doi.org/10.2202/1544-6115.1060 text/html Onlinezugriff via DOI 1 research article jats NATIONALLICENCE 856 40 https://doi.org/10.2202/1544-6115.1060 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Zhang Hongmei University of West Florida aut NATIONALLICENCE 700 1- Gu Xun Iowa State University aut NATIONALLICENCE 773 0- Statistical Applications in Genetics and Molecular Biology De Gruyter 3/1(2004-11-14), 1-16 3:1<1 2004 3 sagmb CC0 http://creativecommons.org/publicdomain/zero/1.0 nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-gruyter