相关实验视频
Updated: Jul 9, 2025
09:36
Unbiased Deep Sequencing of RNA Viruses from Clinical Samples
Published on: July 2, 2016
17.0K
主机网:在深度神经网络中改进了序列表示,用于病毒-主机预测
Zhaoyan Ming1, Xiangjun Chen2, Shunlong Wang3,4
1School of Computer and Computing Science, Hangzhou City University, Hangzhou, 310015, China.
BMC bioinformatics
|December 1, 2023
概括
HostNet使用新型深度学习框架准确预测病毒宿主,解决更好的疾病控制的数据挑战. 这种计算工具有助于识别潜在的病毒宿主,这对公共卫生和疫苗开发至关重要.
科学领域:
- 病毒学 病毒学
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
背景情况:
- 新兴病毒需要快速识别宿主,以保护公共卫生和动物福利.
- 传统的病毒宿主范围的确定是劳动密集型和耗时的.
- 准确的计算工具对于预测新型病毒的宿主和控制传染病至关重要.
研究的目的:
- 开发一种高精度的计算工具,用于预测病毒与宿主之间的关联.
- 解决病毒宿主预测方面的挑战,包括数据不足和不平衡.
主要方法:
- 介绍了HostNet,这是一个使用Transformer-CNN-BiGRU架构的深度学习框架.
- 实现了两个增强的序列表示模块:k-mer to vector和一个自适应的滑动窗口.
- 预先训练的k-mer表示来缓解数据缺陷,并使用自适应的滑动窗口来处理不同的序列长度和数据不平衡.
主要成果:
- 在基准和内部数据集上,HostNet在最先进的方法上表现优越.
- 实现了更高的宿主预测准确度和F1分数.
- 增强的序列表示模块改善了对具有挑战性的病毒类的训练概括性,稳定性和性能.
结论:
- HostNet是一个强大的框架,用于从基因组序列预测病毒宿主,有效地处理稀疏和可变长度数据.
- 该框架显示出作为病毒学和公共卫生领域的有价值工具的巨大潜力.
- 基于深度神经网络的病毒宿主预测为疾病预防和疫苗开发提供了准确有效的方法.
相关概念视频
00:36Viral Mutations
32.3K
A mutation is a change in the sequence of bases of DNA or RNA in a genome. Some mutations occur during replication of the genome due to errors made by the polymerase enzymes that replicate DNA or RNA. Unlike DNA polymerase, RNA polymerase is prone to errors because it is not capable of “proofreading” its work. Viruses with RNA-based genomes, like HIV, therefore accrue mutations faster than viruses with DNA-based genomes. Because mutation and recombination provide the raw material...
32.3K
00:57Viral Recombination
23.5K
Cells are sometimes infected by more than one virus at once. When two viruses disassemble to expose their genomes for replication in the same cell, similar regions of their genomes can pair together and exchange sequences in a process called recombination. Alternatively, viruses with segmented genomes can swap segments in a process called reassortment.
23.5K
02:33Retroviruses
12.3K
Retroviruses and retrotransposons both insert copies of their genetic elements into the genome of the host cell. Thus, the viral genes are passed on when the host genome is replicated or translated. A typical retroviral DNA sequence contains 3-4 genes that encode the different proteins required for its structural assembly and function as a molecular parasite. This DNA is transcribed into a single mRNA, which is very similar in structure to conventional mRNAs, i.e., it is capped at the 5’...
12.3K