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题名Prophage Hunter: an integrative hunting tool for active prophages
作者
发表日期2019-07-01
发表期刊Nucleic Acids Research
ISSN/eISSN0305-1048
卷号47期号:W1页码:W74-W80
摘要

Identifying active prophages is critical for studying coevolution of phage and bacteria, investigating phage physiology and biochemistry, and engineering designer phages for diverse applications. We present Prophage Hunter, a tool aimed at hunting for active prophages from whole genome assembly of bacteria. Combining sequence similarity-based matching and genetic features-based machine learning classification, we developed a novel scoring system that exhibits higher accuracy than current tools in predicting active prophages on the validation datasets. The option of skipping similarity matching is also available so that there's higher chance for novel phages to be discovered. Prophage Hunter provides a one-stop web service to extract prophage genomes from bacterial genomes, evaluate the activity of the prophages, identify phylogenetically related phages, and annotate the function of phage proteins. Prophage Hunter is freely available at https://pro-hunter.bgi.com/.

DOI10.1093/nar/gkz380
URL查看来源
收录类别SCIE
语种英语English
WOS研究方向Biochemistry & Molecular Biology
WOS类目Biochemistry & Molecular Biology
WOS记录号WOS:000475901600011
Scopus入藏号2-s2.0-85069234057
引用统计
被引频次:162[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符https://repository.uic.edu.cn/handle/39GCC9TT/13138
专题个人在本单位外知识产出
通讯作者Xiao, Minfeng
作者单位
1.BGI-Shenzhen,Shenzhen,518083,China
2.China National Genebank,BGI-Shenzhen,Shenzhen,518120,China
3.Department of Biomedical Engineering,Duke University,Durham,27708,United States
4.Center for Genomic and Computational Biology,Duke University,Durham,27708,United States
5.Department of Molecular Genetics and Microbiology,Duke University School of Medicine,Durham,27708,United States
6.Department of Clinical Laboratory,Xiangya Hospital,Central South University,Changsha,410008,China
7.South China University of Technology,Guangzhou, Guangdong,510640,China
8.Department of Basic Medical Sciences,Qingdao University,Qingdao,266071,China
推荐引用方式
GB/T 7714
Song, Wenchen,Sun, Hai Xi,Zhang, Carolynet al. Prophage Hunter: an integrative hunting tool for active prophages[J]. Nucleic Acids Research, 2019, 47(W1): W74-W80.
APA Song, Wenchen., Sun, Hai Xi., Zhang, Carolyn., Cheng, Li., Peng, Ye., .. & Xiao, Minfeng. (2019). Prophage Hunter: an integrative hunting tool for active prophages. Nucleic Acids Research, 47(W1), W74-W80.
MLA Song, Wenchen,et al."Prophage Hunter: an integrative hunting tool for active prophages". Nucleic Acids Research 47.W1(2019): W74-W80.
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