Bioinformatics tool development to analyze and integrate genomics data generated by high-throughput sequencing / Développement d'outils bio-info analysant les données de séquençage

生物信息学工具开发，用于分析和整合高通量测序生成的基因组数据 / Développement doutils 生物信息分析工具 les données de séquençage

• 批准号: 435710-2013
• 负责人: Jacques, PierreÉtienne
• 金额: $ 2.33万
• 依托单位: Université de Sherbrooke
• 依托单位国家: 加拿大
• 项目类别: Discovery Grants Program - Individual
• 财政年份: 2018
• 资助国家: 加拿大
• 起止时间: 2018-01-01 至 2019-12-31
• 项目状态: 已结题
• 来源: https://www.nserc-crsng.gc.ca/ase-oro/Details-Detailles_eng.asp?id=654422
• 关键词: Bioinformatics; tool; development; analyze; integrate

High-throughput DNA sequencing (HTS) is significantly changing modern biology and is already becoming a very important tool for most laboratories interested in genetics and molecular biology. While advances in HTS technologies continue to improve our ability to collect data, it is becoming increasingly clear that the bottleneck in translating these gains into scientific breakthroughs now resides in data mining and integrative analysis. There is currently no tool exploiting the publicly available epigenomics data sets in order to help understanding new data sets. To fulfill that need, we propose to develop the Genomic Correlator and Enrichment (GeCorE) tool that will be running on a supercomputer and accessible to end users through a web interface. This will allow non-bioinformatician users to benefit from this tool without having to install anything. GeCorE will be using thousands of published whole-genome data sets downloaded, uniformly processed and organized on our server. Through private account, users working on all organisms, thus including many model organisms, will be able to upload their own private epigenomics data and use the GeCorE application to characterize them.****On another aspect, the recent publication of incorrectly analyzed epigenomics data leading to erroneous biological conclusion prompted us to develop a tool based on a method initiated during my post-doctoral training. The Aggregate Profiler (TAggPro) tool will allow biologists with any type of computational skills to efficiently capture trends in its whole data by easily generating aggregate profiles over genes or regions of interest. As illustrated by the popular adage, a picture is worth a thousand words. TAggPro will therefore be designed to be highly flexible by integrating many parameters, and will be accessible for the users through a user-friendly interface. It will also greatly benefit of being on the same server than GeCorE by having access to the wealth of collected and organized public epigenomics data.************************

高通量DNA测序（HTS）正在显著改变现代生物学，并且已经成为大多数对遗传学和分子生物学感兴趣的实验室的一个非常重要的工具。虽然HTS技术的进步不断提高我们收集数据的能力，但越来越明显的是，将这些成果转化为科学突破的瓶颈现在在于数据挖掘和综合分析。目前还没有工具利用公开的表观基因组学数据集，以帮助理解新的数据集。为了满足这一需求，我们建议开发基因组相关和富集（GeCorE）工具，该工具将在超级计算机上运行，并通过Web界面供最终用户访问。这将允许非生物信息学家用户受益于此工具，而无需安装任何东西。GeCORE将使用数千个已发布的全基因组数据集，这些数据集在我们的服务器上下载、统一处理和组织。通过私人账户，研究所有生物体（包括许多模式生物体）的用户将能够上传他们自己的私人表观基因组学数据，并使用GeCORE应用程序对其进行表征。另一方面，最近发表的错误分析的表观基因组学数据导致错误的生物学结论，促使我们基于我在博士后培训期间发起的方法开发一种工具。聚合分析器（TAggPro）工具将允许具有任何类型计算技能的生物学家通过轻松生成感兴趣的基因或区域的聚合图谱来有效地捕获整个数据的趋势。正如一句流行的格言所说明的那样，一张图片胜过千言万语。因此，TAggPro将通过集成许多参数而设计成高度灵活的，并且用户可以通过用户友好的界面访问。它还将大大受益于与GeCore在同一台服务器上，可以访问收集和组织的大量公共表观基因组学数据。**