التفاصيل البيبلوغرافية
| العنوان: |
Phylogenetic analysis of HIV-1 genomes based on the position-weighted K-mers method |
| المؤلفون: |
Ma, Yuanlin, Yu, Zuguo, Tang, Runbin, Xie, Xianhua, Han, Guosheng, Anh, Vo V. |
| المصدر: |
Entropy |
| بيانات النشر: |
Multidisciplinary Digital Publishing Institute |
| سنة النشر: |
2020 |
| المجموعة: |
Queensland University of Technology: QUT ePrints |
| مصطلحات موضوعية: |
Alignment-free, HIV-1 virus, Phylogenetic analysis, Position-weighted k-mers, Robinson-Foulds distance |
| الوصف: |
HIV-1 viruses, which are predominant in the family of HIV viruses, have strong pathogenicity and infectivity. They can evolve into many different variants in a very short time. In this study, we propose a new and effective alignment-free method for the phylogenetic analysis of HIV-1 viruses using complete genome sequences. Our method combines the position distribution information and the counts of the k-mers together. We also propose a metric to determine the optimal k value. We name our method the Position-Weighted k-mers (PWkmer) method. Validation and comparison with the Robinson-Foulds distance method and the modified bootstrap method on a benchmark dataset show that our method is reliable for the phylogenetic analysis of HIV-1 viruses. PWkmer can resolve within-group variations for different known subtypes of Group M of HIV-1 viruses. This method is simple and computationally fast for whole genome phylogenetic analysis. |
| نوع الوثيقة: |
article in journal/newspaper |
| وصف الملف: |
application/pdf |
| اللغة: |
unknown |
| Relation: |
https://eprints.qut.edu.au/229124/1/107333139.pdf; Ma, Yuanlin, Yu, Zuguo, Tang, Runbin, Xie, Xianhua, Han, Guosheng, & Anh, Vo V. (2020) Phylogenetic analysis of HIV-1 genomes based on the position-weighted K-mers method. Entropy, 22(2), Article number: 255.; http://purl.org/au-research/grants/arc/DP160101366; https://eprints.qut.edu.au/229124/; Science & Engineering Faculty; School of Computer Science |
| الاتاحة: |
https://eprints.qut.edu.au/229124/ |
| Rights: |
free_to_read ; http://creativecommons.org/licenses/by/4.0/ ; 2020 The Author(s) ; This work is covered by copyright. Unless the document is being made available under a Creative Commons Licence, you must assume that re-use is limited to personal use and that permission from the copyright owner must be obtained for all other uses. If the document is available under a Creative Commons License (or other specified license) then refer to the Licence for details of permitted re-use. It is a condition of access that users recognise and abide by the legal requirements associated with these rights. If you believe that this work infringes copyright please provide details by email to qut.copyright@qut.edu.au |
| رقم الانضمام: |
edsbas.6B0BB38C |
| قاعدة البيانات: |
BASE |