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）：研究HIV以改善艾滋病大流行的治疗方面有很大的兴趣。随着对病原体的研究进入其第四个十年，HIV感染已成为研究最佳的生物系统之一。人类宿主的艾滋病毒感染可以被认为是我们每天与之互动的运输，互联网，社会和经济体系等大型复杂系统。我们认为，与上述宏观系统一样，我们应该开始整合信息并开发用于介绍信息以促进HIV作为系统的工具，而不是集合的隔离微域。为了开始解决此问题的一个方面，我们的实验室建立了HivToolbox，HivToolbox，一个有关HIV蛋白的数据库和一个开放式Web系统，该系统以统一的视图以促进HIV蛋白序列，结构和功能的研究以促进该信息； Weblink：[http://hivtoolbox.bio-toolkit.com]。这种集成的交互式HivToolbox系统允许视觉挖掘关系，这些关系也不容易被数据也不集成的其他方法揭示。这种方法可用于生成假设，实验设计和实验解释。 HIVToolbox是我们知道的唯一一个很容易地集成数据并在统一接口中显示序列，结构，功能和保护的网站。在过去的1。5年中，HivToolbox已经以约100,000次命中吸引了广泛的观众。在这里，我们通过在HIVToolbox中实施新的方法，结构，功能和保护信息来大大扩展功能。新的HivToolbox还将可以比较具有耐药性突变的药物结合位点，以考虑在ARV药物设计中考虑耐药性。我们还将生成一个公共艾滋病毒本体论，可用于HIV生物信息学研究，并将艾滋病毒研究与其他领域联系起来。这种数据结构和呈现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.