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ZikaVR：一个综合 Zika 病毒资源的基因组学、蛋白质组学、系统发生和治疗分析平台。

ZikaVR: An Integrated Zika Virus Resource for Genomics, Proteomics, Phylogenetic and Therapeutic Analysis.

机构信息

Bioinformatics Centre, Institute of Microbial Technology, Council of Scientific and Industrial Research (CSIR), Sector 39A, Chandigarh, 160036, India.

出版信息

Sci Rep. 2016 Sep 16;6:32713. doi: 10.1038/srep32713.

DOI:10.1038/srep32713
PMID:27633273
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC5025660/
Abstract

Current Zika virus (ZIKV) outbreaks that spread in several areas of Africa, Southeast Asia, and in pacific islands is declared as a global health emergency by World Health Organization (WHO). It causes Zika fever and illness ranging from severe autoimmune to neurological complications in humans. To facilitate research on this virus, we have developed an integrative multi-omics platform; ZikaVR (http://bioinfo.imtech.res.in/manojk/zikavr/), dedicated to the ZIKV genomic, proteomic and therapeutic knowledge. It comprises of whole genome sequences, their respective functional information regarding proteins, genes, and structural content. Additionally, it also delivers sophisticated analysis such as whole-genome alignments, conservation and variation, CpG islands, codon context, usage bias and phylogenetic inferences at whole genome and proteome level with user-friendly visual environment. Further, glycosylation sites and molecular diagnostic primers were also analyzed. Most importantly, we also proposed potential therapeutically imperative constituents namely vaccine epitopes, siRNAs, miRNAs, sgRNAs and repurposing drug candidates.

摘要

目前，寨卡病毒（ZIKV）在非洲、东南亚和太平洋岛屿的多个地区爆发，世界卫生组织（WHO）宣布这是全球卫生紧急事件。它会导致人类出现寨卡热和各种严重的自身免疫性到神经并发症。为了促进对这种病毒的研究，我们开发了一个综合性的多组学平台；ZikaVR（http://bioinfo.imtech.res.in/manojk/zikavr/），专门用于寨卡病毒的基因组、蛋白质组和治疗知识。它包含了整个基因组序列，以及与蛋白质、基因和结构内容相关的功能信息。此外，它还提供了复杂的分析，如全基因组和蛋白质组水平的全基因组比对、保守性和变异性、CpG 岛、密码子上下文、使用偏好和系统发育推断，以及用户友好的可视化环境。此外，还分析了糖基化位点和分子诊断引物。最重要的是，我们还提出了一些具有潜在治疗意义的成分，如疫苗表位、siRNAs、miRNAs、sgRNAs 和重新利用的药物候选物。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/23a4d22e5a98/srep32713-f6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/c64adde34d16/srep32713-f1.jpg
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https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/ec027a10308a/srep32713-f3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/311379fd2d62/srep32713-f4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/3f8722ca1391/srep32713-f5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/23a4d22e5a98/srep32713-f6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/c64adde34d16/srep32713-f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/31ce43aaac0a/srep32713-f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/ec027a10308a/srep32713-f3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/311379fd2d62/srep32713-f4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/3f8722ca1391/srep32713-f5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c3c4/5025660/23a4d22e5a98/srep32713-f6.jpg

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The crystal structure of Zika virus helicase: basis for antiviral drug design.寨卡病毒解旋酶的晶体结构：抗病毒药物设计的基础
Protein Cell. 2016 Jun;7(6):450-4. doi: 10.1007/s13238-016-0275-4.
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Structures of the Zika Virus Envelope Protein and Its Complex with a Flavivirus Broadly Protective Antibody.寨卡病毒包膜蛋白及其与黄病毒广谱保护性抗体复合物的结构。
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Genomic characterization and phylogenetic analysis of Zika virus circulating in the Americas.
应对新冠疫情之外的大流行病的多维未来主义方法。
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Computational Identification of Potential Multitarget Inhibitors of Nipah Virus by Molecular Docking and Molecular Dynamics.通过分子对接和分子动力学对尼帕病毒潜在多靶点抑制剂进行计算鉴定
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Computational identification of repurposed drugs against viruses causing epidemics and pandemics via drug-target network analysis.通过药物-靶点网络分析发现针对引发流行病和大流行病的病毒的再利用药物。
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CoronaVR: A Computational Resource and Analysis of Epitopes and Therapeutics for Severe Acute Respiratory Syndrome Coronavirus-2.CoronaVR：严重急性呼吸综合征冠状病毒2的表位与治疗方法的计算资源及分析
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NipahVR: a resource of multi-targeted putative therapeutics and epitopes for the Nipah virus.尼帕病毒 VR：针对尼帕病毒的多靶点潜在治疗药物和表位资源。
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