Technology Core

技术核心将支持所有四个研究项目，提供广泛的下一代 测序和数据分析能力。核心功能分为排序、原始数据 分析，比较分析。测序策略将包括全基因组和靶向测序 测序、通过rna-seq进行转录组分析、rRNA分析、以及元基因组学和元转录组学 测序。将使用六种不同的测序仪器平台，包括llLumina MiSeq和HiSeq， Lon Torrent、ABI 3730x1、454 Flx+和Pacific Biosciences RSH。在整个过程中对样本跟踪进行管理 执行该过程和广泛的质量评估，以最大限度地提高有用信息的产量。 正在进行的对新方法的评估将使图书馆建设的新方法得以实施 和排序，提高了效率，降低了成本。自动化管道已经到位，可以处理大部分 装配、变体检测和批注任务。数据分析方法将在整个过程中得到改进 通过整合新的分析方法来提高自动化程度、改进结果并提供更多 易于共享的软件，比较分析将利用PanOCT来识别共享和品系/支系特定 基因组特征。将开发新的元译码组分析方法，使 具有和不具有参考基因组或超基因组的样本之间的定量比较。这个 核心结果将为研究项目提供适合进一步综合的分析数据 分析和解释。技术核心将与数据管理、分析和 资源传播(DMARD)核心，确保快速提交序列数据、克隆和 将软件工具复制到适当的公共存储库。

The Technology Core will support all four Research Projects by providing a broad range of next-generation sequencing and data analysis capabilities. Core functions are divided into sequencing, primary data analysis, and comparative analysis. Sequencing strategies will include whole genome and targeted sequencing, transcriptome profiling by RNA-seq, rRNA profiling, and metagenomic and metatranscriptomic sequencing. Six different sequencing instrument platforms will be used including lllumina MiSeq and HiSeq, lon Torrent, ABI 3730x1, 454 FLX+, and Pacific Biosciences RSH. Sample tracking is managed throughout the process and extensive quality assessment is performed to maximize the yield of usable information. Ongoing evaluation of new methods will enable implementation of new approaches for library construction and sequencing, increase efficiency and lower costs. Automated pipelines are in place to handle most assembly, variant detection, and annotation tasks. Data analysis methods will be improved throughout the project to increase automation, improve results by incorporating new analytical methods, and provide more readily shared software, Comparative analysis will leverage PanOCT to identify shared and strain/clade-specific genome features. New methods will be developed for metatranscriptome analysis that enable quantitative comparisons between samples with and without reference genomes or metagenomes. The results of the Core will provide Research Projects with analyzed data that is suitable for further integrative analysis and interpretation. The Technology Core will work closely with the Data Management, Analysis and Resource Dissemination (DMARD) Core to ensure prompt submission of sequence data, clones, and software tools to the appropriate public repositories.