HIV Toolbox, an interactive, visual, and customizable HIV Protein Ontology

HIV Toolbox，交互式、可视化和可定制的 HIV 蛋白质本体

• 批准号: 8868467
• 负责人: MARTIN R SCHILLER
• 金额: $ 33.19万
• 依托单位: UNIVERSITY OF NEVADA LAS VEGAS
• 依托单位国家: 美国
• 财政年份: 2014
• 资助国家: 美国
• 起止时间: 2014-07-01 至 2017-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8868467
• 关键词: Acquired Immunodeficiency Syndrome; Address; Amino Acid Sequence; Anatomy; Bioinformatics; Cells; Chemicals; Collection; Complex; Data; Databases; Development; Disease; Drug Binding Site; Drug Design; Drug resistance; Economics; Epitopes; Evolution; Experimental Designs; Feedback; Goals; HIV; HIV Infections; HIV drug resistance; HIV-1; Health; Human; Immune; Internet; Knowledge; Laboratories; Literature; Location; Mining; Ontology; Peptide Hydrolases; Peptide Sequence Determination; Pharmaceutical Preparations; Post-Translational Protein Processing; Process; Protein Databases; Proteins; Regulation; Reporting; Research; Scientist; Structure; Study models; System; Transportation; Update; Visual; base; biological systems; biophysical properties; computerized tools; data structure; effective therapy; improved; information display; interest; knowledge base; novel; novel strategies; pandemic disease; pathogen; programs; protein structure; public health relevance; research study; resistance mutation; social; tool; user-friendly; web site

DESCRIPTION (provided by applicant): There is enormous interest in studying HIV to improve the treatment for the AIDS pandemic. As study of the pathogen enters its 4th decade, HIV infection is becoming one of the best-studied biological systems. HIV infection of a human host can be considered a large complex system like the transportation, Internet, social, and economic systems we interact with daily. We contend that like the aforementioned macroscopic systems, we should begin to integrate information and develop tools for presenting the information to facilitate the study of HIV as a system, rather than a collection of segregated microdomains. To begin addressing one aspect of this issue, our laboratory has built HIVToolbox, a database about HIV proteins and an open-access web system that displays this information in a unified view to facilitate the study of HIV protein sequence, structure, and function; weblink: [http://hivtoolbox.bio-toolkit.com]. This integrated, interactive HIVToolbox system allows visual mining of relationships that are not readily revealed by other approaches where data is not integrated as well. This approach is useful for generating hypotheses, experimental design, and interpretation of experiments. HIVToolbox is the only website we know of that readily integrates data and coordinates display of sequence, structure, function, and conservation in a unified interface. HIVToolbox has already reached a wide audience with ~100,000 hits in the last 1.5 years. Here, we propose a significant expansion of the functionality of by implementing new approaches for using sequence, structural, function, and conservation information in HIVToolbox. The new HIVToolbox will also enabling comparison of drug binding sites with drug resistance mutations as an aid to consider drug resistance in ARV drug design. We will also generate a public HIV ontology that can be used for HIV bioinformatics research and connecting HIV research with other fields. This approach to data structure and presentation can also serve as a model for studying other important aspects of human health and disease.

描述（由申请人提供）：人们对研究艾滋病毒以改善艾滋病流行病的治疗非常感兴趣。随着对病原体的研究进入第四个十年，艾滋病毒感染正在成为研究得最好的生物系统之一。人类宿主的HIV感染可以被认为是一个大型复杂系统，就像我们每天与之互动的交通、互联网、社会和经济系统一样。我们主张，像上述宏观系统一样，我们应该开始整合信息并开发呈现信息的工具，以促进将艾滋病毒作为一个系统而不是一个孤立的微观领域的集合进行研究。为了开始解决这个问题的一个方面，我们的实验室已经建立了一个关于HIV蛋白质的数据库和一个开放访问的网络系统，该系统以统一的视图显示这些信息，以促进对HIV蛋白质序列、结构和功能的研究;网络链接：[http://hivtoolbox.bio-toolkit.com]。这种集成的，交互式的HIV系统允许视觉挖掘的关系，不容易揭示的其他方法，其中数据不集成以及。这种方法对于产生假设、实验设计和解释实验是有用的。HIV是我们所知道的唯一一个网站，它可以在一个统一的界面中轻松地整合数据并协调序列，结构，功能和保守性的显示。在过去的1.5年里，艾滋病毒已经达到了广泛的受众，点击量约为10万次。在这里，我们提出了一个显着的扩展的功能，通过实施新的方法，使用序列，结构，功能和保护信息的HIV。新的HIV抗体还将能够比较药物结合位点与耐药突变，作为在ARV药物设计中考虑耐药性的辅助手段。我们还将生成一个公共的HIV本体，可用于HIV生物信息学研究，并将HIV研究与其他领域联系起来。这种数据结构和表示方法也可以作为研究人类健康和疾病其他重要方面的模型。

项目成果

TALEN gene editing takes aim on HIV.

• DOI: 10.1007/s00439-016-1678-2
• 发表时间: 2016-09
• 期刊: HUMAN GENETICS
• 影响因子: 5.3
• 作者: Benjamin, Ronald;Berges, Bradford K.;Solis-Leal, Antonio;Igbinedion, Omoyemwen;Strong, Christy L.;Schiller, Martin R.
• 通讯作者: Schiller, Martin R.