SILVAngs: The next Generation analysis system for ribosomal RNA genes

SILVAngs：下一代核糖体 RNA 基因分析系统

• 批准号: 186840243
• 负责人: Professor Dr. Frank Oliver Glöckner
• 金额: --
• 依托单位: Institut für Infektionskrankheiten
• 依托单位国家: 德国
• 项目类别: Research data and software (Scientific Library Services and Information Systems)
• 财政年份: 2011
• 资助国家: 德国
• 起止时间: 2010-12-31 至 2020-12-31
• 项目状态: 已结题
• 来源: https://gepris.dfg.de/gepris/projekt/186840243?language=en
• 关键词: SILVAngs; next; Generation; analysis; system

The SILVA ribosomal RNA databases were established in 2007 to provide high-quality reference databases of aligned rRNA gene sequences for all three domains of life. With the discontinuation of the "European Ribosomal RNA Database Project", SILVA became the authoritative rDNA database project for Europe. With the dramatic change in sequencing technologies and capacities, the possibilities for analysis and inventory of microbial diversity ranging from Bacteria and Archaea to small Eukaryota have reached an unprecedented dimension. Fuelled by nearly unlimited capacities, a typical project does no longer consist of several hundreds of cloned rDNA sequences, but of thousands to millions of rDNA amplicon tags produced by next generation sequencing technologies (NGS). The pure capacity to produce data, as well as the sheer amount of available data does not "per se" result in the production of biological knowledge. To advance science and application, researchers in academia and industry must be enabled to: 1. analyse their data and 2. compare their data. Consequently, the goal of this application is to: 1. extend the SILVAngs analysis pipeline with innovative analysis tools including statistical analysis, 2. facilitate incentives making SILVAngs projects results publicly available, 3. process a set of publicly available, experimentally well designed, highly contextualized, high quality rDNA datasets (flagships) of the "Sequence Read Archive" with the SILVAngs pipeline. Over time this will result in a growing reference data set of high quality rRNA gene NGS projects publicly available for in depth comparisons across biological domains. The overall objective of this application is to facilitate and standardize the processing of amplicon based rRNA marker gene data, enhance the archiving of richly contextualized NGS sequences in the public repository´s (INSDC), as well as improving the re-usability of sequence data in SRA

SILVA核糖体RNA数据库建立于2007年，旨在为生命的所有三个领域提供高质量的比对rRNA基因序列参考数据库。随着“欧洲核糖体RNA数据库计划”的终止，SILVA成为欧洲权威的rDNA数据库计划。随着测序技术和能力的巨大变化，从细菌和微生物多样性到小真核生物的分析和库存的可能性已经达到了前所未有的程度。在几乎无限的能力的推动下，一个典型的项目不再由数百个克隆的rDNA序列组成，而是由下一代测序技术（NGS）产生的数千到数百万个rDNA扩增子标签组成。产生数据的纯粹能力以及现有数据的绝对数量“本身”并不导致生物知识的产生。为了推进科学和应用，学术界和工业界的研究人员必须能够：1。分析数据，2。比较他们的数据。因此，本申请的目标是：1.使用包括统计分析在内的创新分析工具扩展SILVAngs分析管道; 2.促进激励措施，使SILVAng项目的成果公开，3.使用SILVAngs pipeline处理一组公开可用的、实验设计良好的、高度情境化的、高质量的“Sequence Read Archive”rDNA数据集（旗舰）。随着时间的推移，这将导致越来越多的高质量rRNA基因NGS项目的参考数据集公开，可用于跨生物学领域的深入比较。该应用程序的总体目标是促进和标准化基于扩增子的rRNA标记基因数据的处理，增强公共知识库（INSDC）中丰富背景化NGS序列的存档，以及提高SRA中序列数据的可重用性