Maximum Likelihood for Genome Phylogeny on Gene Content
| LEADER | caa a22 4500 | ||
|---|---|---|---|
| 001 | 378925938 | ||
| 003 | CHVBK | ||
| 005 | 20180305123617.0 | ||
| 007 | cr unu---uuuuu | ||
| 008 | 161128e20041114xx s 000 0 eng | ||
| 024 | 7 | 0 | |a 10.2202/1544-6115.1060 |2 doi |
| 035 | |a (NATIONALLICENCE)gruyter-10.2202/1544-6115.1060 | ||
| 245 | 0 | 0 | |a Maximum Likelihood for Genome Phylogeny on Gene Content |h [Elektronische Daten] |c [Hongmei Zhang, Xun Gu] |
| 520 | 3 | |a 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. | |
| 540 | |a ©2011 Walter de Gruyter GmbH & Co. KG, Berlin/Boston | ||
| 690 | 7 | |a Computational Biology/Bioinformatics |2 nationallicence | |
| 690 | 7 | |a Gene Content |2 nationallicence | |
| 690 | 7 | |a Maximum Likelihood |2 nationallicence | |
| 690 | 7 | |a Phylogenetic Trees |2 nationallicence | |
| 690 | 7 | |a Genome |2 nationallicence | |
| 700 | 1 | |a Zhang |D Hongmei |u University of West Florida |4 aut | |
| 700 | 1 | |a Gu |D Xun |u Iowa State University |4 aut | |
| 773 | 0 | |t Statistical Applications in Genetics and Molecular Biology |d De Gruyter |g 3/1(2004-11-14), 1-16 |q 3:1<1 |1 2004 |2 3 |o sagmb | |
| 856 | 4 | 0 | |u https://doi.org/10.2202/1544-6115.1060 |q text/html |z Onlinezugriff via DOI |
| 908 | |D 1 |a research article |2 jats | ||
| 950 | |B NATIONALLICENCE |P 856 |E 40 |u https://doi.org/10.2202/1544-6115.1060 |q text/html |z Onlinezugriff via DOI | ||
| 950 | |B NATIONALLICENCE |P 700 |E 1- |a Zhang |D Hongmei |u University of West Florida |4 aut | ||
| 950 | |B NATIONALLICENCE |P 700 |E 1- |a Gu |D Xun |u Iowa State University |4 aut | ||
| 950 | |B NATIONALLICENCE |P 773 |E 0- |t Statistical Applications in Genetics and Molecular Biology |d De Gruyter |g 3/1(2004-11-14), 1-16 |q 3:1<1 |1 2004 |2 3 |o sagmb | ||
| 900 | 7 | |b CC0 |u http://creativecommons.org/publicdomain/zero/1.0 |2 nationallicence | |
| 898 | |a BK010053 |b XK010053 |c XK010000 | ||
| 949 | |B NATIONALLICENCE |F NATIONALLICENCE |b NL-gruyter | ||