Performance of criteria for selecting evolutionary models in phylogenetics: a comprehensive study based on simulated datasets
文献类型：期刊论文
| 作者 | Luo, Arong2,3; Qiao, Huijie2,3; Zhang, Yanzhou2; Shi, Weifeng4; Ho, Simon Y. W.5,6; Xu, Weijun7; Zhang, Aibing1; Zhu, Chaodong2 |
| 刊名 | Bmc evolutionary biology
 |
| 出版日期 | 2010-08-09 |
| 卷号 | 10页码:13 |
| ISSN号 | 1471-2148 |
| DOI | 10.1186/1471-2148-10-242 |
| 通讯作者 | Zhang, aibing(zhangab2008@gmail.com) |
| 英文摘要 | Background: explicit evolutionary models are required in maximum-likelihood and bayesian inference, the two methods that are overwhelmingly used in phylogenetic studies of dna sequence data. appropriate selection of nucleotide substitution models is important because the use of incorrect models can mislead phylogenetic inference. to better understand the performance of different model-selection criteria, we used 33,600 simulated data sets to analyse the accuracy, precision, dissimilarity, and biases of the hierarchical likelihood-ratio test, akaike information criterion, bayesian information criterion, and decision theory. results: we demonstrate that the bayesian information criterion and decision theory are the most appropriate model-selection criteria because of their high accuracy and precision. our results also indicate that in some situations different models are selected by different criteria for the same dataset. such dissimilarity was the highest between the hierarchical likelihood-ratio test and akaike information criterion, and lowest between the bayesian information criterion and decision theory. the hierarchical likelihood-ratio test performed poorly when the true model included a proportion of invariable sites, while the bayesian information criterion and decision theory generally exhibited similar performance to each other. conclusions: our results indicate that the bayesian information criterion and decision theory should be preferred for model selection. together with model-adequacy tests, accurate model selection will serve to improve the reliability of phylogenetic inference and related analyses. |
| WOS关键词 | LIKELIHOOD RATIO TESTS ; MAXIMUM-LIKELIHOOD ; NUCLEOTIDE SUBSTITUTION ; MOLECULAR PHYLOGENETICS ; SEQUENCE EVOLUTION ; STATISTICAL TESTS ; MITOCHONDRIAL-DNA ; BAYES FACTORS ; MONTE-CARLO ; HETEROGENEITY |
| WOS研究方向 | Evolutionary Biology ; Genetics & Heredity |
| WOS类目 | Evolutionary Biology ; Genetics & Heredity |
| 语种 | 英语 |
| WOS记录号 | WOS:000282767000001 |
| 出版者 | BIOMED CENTRAL LTD |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2405441 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Zhang, Aibing |
| 作者单位 | 1.Capital Normal Univ, Coll Life Sci, Beijing 100048, Peoples R China 2.Chinese Acad Sci, Inst Zool, Beijing 100101, Peoples R China 3.Chinese Acad Sci, Grad Univ, Beijing 100049, Peoples R China 4.Univ Coll Dublin, UCD Conway Inst Biomol & Biomed Sci, Dublin 4, Ireland 5.Australian Natl Univ, Res Sch Biol, Ctr Macroevolut & Macroecol, Canberra, ACT 0200, Australia 6.Univ Sydney, Sch Biol Sci, Sydney, NSW 2006, Australia 7.Nanjing Normal Univ, Zhongbei Coll, Nanjing 210046, Peoples R China |
| 推荐引用方式 GB/T 7714 | Luo, Arong,Qiao, Huijie,Zhang, Yanzhou,et al. Performance of criteria for selecting evolutionary models in phylogenetics: a comprehensive study based on simulated datasets[J]. Bmc evolutionary biology,2010,10:13. |
| APA | Luo, Arong.,Qiao, Huijie.,Zhang, Yanzhou.,Shi, Weifeng.,Ho, Simon Y. W..,...&Zhu, Chaodong.(2010).Performance of criteria for selecting evolutionary models in phylogenetics: a comprehensive study based on simulated datasets.Bmc evolutionary biology,10,13. |
| MLA | Luo, Arong,et al."Performance of criteria for selecting evolutionary models in phylogenetics: a comprehensive study based on simulated datasets".Bmc evolutionary biology 10(2010):13. |
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来源：中国科学院大学
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