BioVR: a platform for virtual reality assisted biological data integration and visualization
BioVR: a platform for virtual reality assisted biological data integration and visualization
复制标题
DOI：
10.1186/s12859-019-2666-z
复制
发表时间：
2019-02-15
影响因子：
3
通讯作者：
Cui, Feng
中科院分区：
文献类型：
--
作者：
Zhang, Jimmy F.;Paciorkowski, Alex R.;Cui, Feng
单核苷酸变异（snv）的功能表征包括两个步骤，第一步是将DNA转化为蛋白质，第二步是将蛋白质序列及其结构可视化。大规模并行测序已成为基因组学的领先技术，导致数据量显著增加，在新的用户界面（UI）中直接可视化snv及其相关蛋白质序列/结构将是评估其对蛋白质功能潜在影响的更有效方法。我们开发了BioVR，这是一个易于使用的交互式虚拟现实（VR）辅助平台，用于使用Unity3D和c#编程语言对DNA/RNA/蛋白质序列和蛋白质结构进行集成视觉分析。它利用了尖端的Oculus Rift和Leap Motion手部检测，从而直观地导航和探索各种类型的生物数据。以Gria2及其相关基因产物为例，我们提出了这个概念验证软件来整合蛋白质和核酸数据。对于Gria2序列中任何感兴趣的氨基酸或核苷酸，都可以快速连接到Gria2蛋白结构上的相应位置，并在VR中可视化。利用创新的3D技术，我们提供了一个基于vr的DNA/RNA序列和蛋白质结构可视化平台，该平台可以扩展到组学数据的可视化。
BackgroundFunctional characterization of single nucleotide variants (SNVs) involves two steps, the first step is to convert DNA to protein and the second step is to visualize protein sequences with their structures. As massively parallel sequencing has emerged as a leading technology in genomics, resulting in a significant increase in data volume, direct visualization of SNVs together with associated protein sequences/structures in a new user interface (UI) would be a more effective way to assess their potential effects on protein function.ResultsWe have developed BioVR, an easy-to-use interactive, virtual reality (VR)-assisted platform for integrated visual analysis of DNA/RNA/protein sequences and protein structures using Unity3D and the C# programming language. It utilizes the cutting-edge Oculus Rift, and Leap Motion hand detection, resulting in intuitive navigation and exploration of various types of biological data. Using Gria2 and its associated gene product as an example, we present this proof-of-concept software to integrate protein and nucleic acid data. For any amino acid or nucleotide of interest in the Gria2 sequence, it can be quickly linked to its corresponding location on Gria2 protein structure and visualized within VR.ConclusionsUsing innovative 3D techniques, we provide a VR-based platform for visualization of DNA/RNA sequences and protein structures in aggregate, which can be extended to view omics data.