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- Wenchen Song
- BGI-Shenzhen, Shenzhen 518083, China
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- Hai-Xi Sun
- BGI-Shenzhen, Shenzhen 518083, China
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- Carolyn Zhang
- Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA
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- Li Cheng
- BGI-Shenzhen, Shenzhen 518083, China
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- Ye Peng
- BGI-Shenzhen, Shenzhen 518083, China
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- Ziqing Deng
- BGI-Shenzhen, Shenzhen 518083, China
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- Dan Wang
- BGI-Shenzhen, Shenzhen 518083, China
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- Yun Wang
- BGI-Shenzhen, Shenzhen 518083, China
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- Ming Hu
- Department of Basic Medical Sciences, Qingdao University, Qingdao 266071, China
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- Wenen Liu
- Department of Clinical Laboratory, Xiangya Hospital, Central South University, Changsha 410008, China
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- Huanming Yang
- BGI-Shenzhen, Shenzhen 518083, China
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- Yue Shen
- BGI-Shenzhen, Shenzhen 518083, China
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- Junhua Li
- BGI-Shenzhen, Shenzhen 518083, China
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- Lingchong You
- Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA
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- Minfeng Xiao
- BGI-Shenzhen, Shenzhen 518083, China
説明
<jats:title>Abstract</jats:title> <jats:p>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/.</jats:p>
収録刊行物
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- Nucleic Acids Research
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Nucleic Acids Research 47 (W1), W74-W80, 2019-05-22
Oxford University Press (OUP)