CCR Sequencing Facility

在过去的一年里，CCR-SF已经为数十个不同的NCI主要调查人员测定了数百个样本的序列，生成了可绘制地图的数据库，并完成了许多项目。已成功测序的样本类型包括：全基因组DNA、外显子组捕获DNA、染色质免疫沉淀DNA(ChIP)、DNA酶HS DNA、4C DNA、mRNA、短发夹状DNA、微RNA和亚硫酸盐样本。劳动密集型的建库步骤是主要的工作流程瓶颈。为了降低文库准备成本，提高文库准备产量和实验室操作效率，CCR-SF团队实施了Beckmann SPRIworks片段文库系统(SPRI-TE)。SPRI-TE能够生产技术人员准备的三倍数量的文库，使用严格控制的微流体系统来减少手动液体转移的变异性，试剂成本目前等于或低于优化前Illumina文库准备试剂的成本。CCR-SF生物信息学已经对所有应用程序实施了标准分析。这些分析已被纳入自动化管道，为生物信息学工作人员提供了额外的时间，以优化数据质量和自动化过程。CCR-SF生物信息学向所有新客户介绍Illumina课程，并提供一份供将来参考的文档。这门课程已经在整个NCI开设。CCR-SF质量管理团队实施了强大的QC工作流程，以帮助尽早识别潜在故障，进一步节约资源并提高整体效率。

Over the last year the CCR-SF has sequenced several hundred samples for dozens of different NCI principal investigators, generated Terabases of mappable data, and has completed numerous projects. Sample types from various cancer types and infectious diseases including COVID, have been successfully sequenced include: whole genomic DNA, exome capture DNA, Chromatin Immuno-Precipitated DNA (ChIP), DNase HS DNA, 4C DNA, mRNA, short hairpin DNA, microRNA and Bisulfite samples. The labor intensive library preparation step is the major workflow bottle neck. To reduce library preparation costs and increase library preparation throughput and the efficiency of laboratory operations, the CCR-SF team has implemented Beckmans SPRIworks Fragment Library System (SPRI-TE). The SPRI-TE has the capability to produce three times the number of libraries prepared by a technician, uses a tightly controlled micro fluidics system to reduce manual liquid transfer variability, and the reagent costs are currently at or below the cost of the Illumina library preparation reagents before optimization. CCR-SF bioinformatics has implemented standard analyses on all applications. These analyses have been incorporated into an automation pipeline providing additional time to bioinformatics staff for optimizing the data quality and automation process. CCR-SF bioinformatics takes all new customers through an Introduction to Illumina session complete with a document for future reference. This course has been given across NCI. The CCR-SF Quality Management team has implemented a robust QC workflow to help identify potential failures as early as possible further conserving resources and increasing overall efficiency.