ShEEP request for Chromium Controller

我们正在申请资金购买10X Genomics Chromium系统。该仪器允许 研究人员在单细胞上进行基因表达分析和结构基因组分析（SNP， 缺失、转换等）。目前，研究 俄克拉荷马州市退伍军人医疗中心（OKC VAMC）或俄克拉荷马州附属大学的机构 健康科学中心有能力测量单细胞中的基因表达/基因组完整性。它 众所周知，细胞间通讯在组织功能中是重要的。然而，它现在才成为 很明显，即使在相同类型的细胞之间，细胞异质性的变化也可能对 组织和生物体，即，导致细胞间差异较大的条件可能会损害功能 一张纸巾。然而，在过去，没有技术可以让研究人员研究分子 在大量的单个细胞中进行。 10X Genomics Chromium系统是进行下一代测序的新方法 图书馆.该系统背后的Gemcode技术使仪器能够同时进行 每个油滴样本有数千个微型库。在每个液滴中捕获一个细胞，并且RNA-Seq 来自每个液滴的文库被赋予独特的条形码。这使得研究人员可以对所有受试者进行RNA-Seq。 从一个单一的细胞同时和分离的数据后，事实。因此，可以 表征大量细胞上的单个转录组，并确定转录组中的方差。 在一些实施方案中，本发明涉及来自培养物或组织的细胞的转录谱。 10X Genomics Chromium系统还可用于表征个体的基因组完整性。 细胞，即，核基因组内的结构变异，如缺失、颠换、重排等 和线粒体基因组通过单独条形码化的大基因组支架（50kb至10Mb）。不像 目前在基因组研究中使用的短读测序，可能难以组装成完整的基因组 这些支架较大并且更容易组装。随着大型支架的重要结构变化 很容易解决与DNA损伤，转基因动物的验证和潜在的重要影响， 开发新的表观基因组工作流程。 一项对OKC VAMC所有VA研究人员的调查显示，超过80%的研究人员对 在他们的研究中，使用10X Genomics Chromium System来研究细胞的异质性的潜力。 该工具将由八个主要用户使用，这些用户已获得VA优异奖助金（7）或待定（1）， 三个潜在的用户谁拥有VA优异奖助学金资助（2）或待定（1）。我们还预计， 在其他VA中心将使用该仪器。

We are requesting funds to purchase a 10X Genomics Chromium System. This instrument allows investigators to perform gene expression analysis on single cells and structural genomic analysis of (SNPs, deletions, transitions, etc) through genome sequencing of large scaffolds. Currently, neither the research facility at the Oklahoma City VA Medical Center (OKC VAMC) or the affiliated University of Oklahoma Health Sciences Center have the ability to measure gene expression/genomic integrity in single cells. It is well known that cell-cell communication is important in tissue function. However, it is only now becoming evident that changes in cell heterogeneity even between the same types of cells can be potentially harmful to tissues and an organism, i.e., conditions that lead to large cell to cell differences can compromise the function of a tissue. However, in the past there was no technology available that allowed investigators to study molecular processes in large numbers of individual cells. The 10X Genomics Chromium System is a new approach to making next-generation-sequencing libraries. The Gemcode technology behind this system enables the instrument to simultaneously make thousands of mini-libraries per sample in oil droplets. One cell is captured in each droplet and the RNA-Seq library from each droplet is given a unique barcode. This allows an investigator to perform RNA-Seq on all the mini-libraries from a single cell simultaneously and separate the data after the fact. Therefore, one can characterize the individual transcriptomes on a large number of cells and determine the variance in the transcription profile of cells from a culture or tissue. The 10X Genomics Chromium System can also be used to characterize the genomic integrity of individual cells, i.e., structural variation such as deletions, transversions, rearrangements, etc. within the nuclear genome and the mitochondrial genome through individually barcoded large genomic scaffolds (50kb to 10Mb). Unlike short-read sequencing currently used in genomic studies that can be difficult to assemble into whole genomes these scaffolds are large and are more readily assembled. With the large scaffolds important structural variations are readily resolved with important implications for DNA damage, transgenic animal validation and potential in development of novel epigenomic workflows. A survey of all VA researchers at OKC VAMC showed over 80% of the researchers are interested in the potential of in using the 10X Genomics Chromium System to study the heterogeneity of cells in their research. This instrument will be used by eight major users who have VA Merit grants funded (7) or pending (1) and three potential users who have VA Merit grants funded (2) or pending (1). We also anticipate that researchers at other VA Centers will use this instrument.