nextflu: real-time tracking of seasonal influenza virus evolution in humans
nextflu: real-time tracking of seasonal influenza virus evolution in humans
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DOI：
10.1093/bioinformatics/btv381
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发表时间：
2015-11-01
期刊：
影响因子：
5.8
通讯作者：
Bedford, Trevor
中科院分区：
文献类型：
--
作者：
Neher, Richard A.;Bedford, Trevor
摘要：季节性流感病毒进化迅速，使它们能够逃避人类宿主的免疫，并重新感染先前感染的个体。同样，针对季节性流感的疫苗需要经常更新，以防止病毒种群不断演变。因此，我们开发了一种处理管道和基于浏览器的可视化，可以方便地探索和分析最新的流感病毒序列数据。这个Web应用程序显示了一个系统发育树，可以用其他信息来装饰，例如特定位置的病毒基因型、采样位置和已被证明可以预测未来病毒动态的派生统计数据。此外，还计算和显示了突变、基因和分支频率轨迹。
A Summary: Seasonal influenza viruses evolve rapidly, allowing them to evade immunity in their human hosts and reinfect previously infected individuals. Similarly, vaccines against seasonal influenza need to be updated frequently to protect against an evolving virus population. We have thus developed a processing pipeline and browser-based visualization that allows convenient exploration and analysis of the most recent influenza virus sequence data. This web-application displays a phylogenetic tree that can be decorated with additional information such as the viral genotype at specific sites, sampling location and derived statistics that have been shown to be predictive of future virus dynamics. In addition, mutation, genotype and clade frequency trajectories are calculated and displayed.