Visium spatial transcriptome analysis add on to the current proposed scRNA seq analysis

Visium 空间转录组分析添加到当前提出的 scRNA seq 分析中

• 批准号: 10829137
• 负责人: Jianjun Zhao
• 金额: $ 13.66万
• 依托单位: CLEVELAND CLINIC LERNER COM-CWRU
• 依托单位国家: 美国
• 财政年份: 2021
• 资助国家: 美国
• 起止时间: 2021-08-01 至 2026-07-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10829137
• 关键词: APEXL2 Gene; Acute Renal Failure with Renal Papillary Necrosis; Affect; Antisense Oligonucleotide Therapy; Cell Communication; Cells; Chromosome Mapping; Cisplatin; Complex; Gene Expression; Gene Expression Profile; Gene Expression Profiling; Immune response; Individual; Kidney; Modeling; Molecular; Morbidity - disease rate; Process; Research; Resolution; Spatial Distribution; Techniques; Tissues; cell type; histological image; interest; mortality; response; single-cell RNA sequencing; therapeutic target; transcriptome; transcriptome sequencing; transcriptomics; treatment response

ABSTRACT: This application is being submitted in response to the Notice of Special Interest (NOSI) identified as NOT-CA-23-045. Cisplatin induced Acute kidney injury (C-AKI) is a complex condition with significant morbidity and mortality. Our research team aims to investigate the cellular and molecular mechanisms involved in AKI and therapy response. We have used single-cell RNA sequencing (scRNA seq) to investigate gene expression levels in individual cells. However, scRNA seq lacks spatial context, which is important for understanding cell-cell interactions and the microenvironment. Therefore, we propose adding Visium Spatial Transcriptomics, a cutting-edge technique that combines histological imaging with RNA sequencing, to our study. We aim to analyze gene expression levels in a spatially resolved manner, identify new cell types and their spatial distribution, and generate high-resolution maps of gene expression patterns in kidney tissue. To investigate the spatial expression patterns of genes involved in the immune response and other processes affected by APE2-ASO treatment, we propose a study using Visium Spatial Transcriptomics in the APE2 ASO-treated cisplatin-induced AKI model. By adding Visium Spatial Transcriptomics to our ongoing AKI study, we aim to gain a deeper understanding of the cellular and molecular mechanisms involved and identify potential therapeutic targets.

抽象的： 本申请是为了响应所确定的特殊利益通知 (NOSI) 而提交的 作为 NOT-CA-23-045。 顺铂引起的急性肾损伤（C-AKI）是一种复杂的疾病，具有显着的发病率和 死亡。我们的研究团队旨在研究所涉及的细胞和分子机制 AKI 和治疗反应。我们使用单细胞 RNA 测序 (scRNA seq) 来 研究单个细胞中的基因表达水平。然而，scRNA seq 缺乏空间背景， 这对于理解细胞间相互作用和微环境非常重要。所以， 我们建议添加 Visium 空间转录组学，这是一种尖端技术，结合了 我们的研究通过 RNA 测序进行组织学成像。我们的目标是分析基因表达 以空间分辨的方式水平，识别新的细胞类型及其空间分布，以及 生成肾脏组织中基因表达模式的高分辨率图。为了调查 参与免疫反应和其他过程的基因的空间表达模式 受 APE2-ASO 治疗的影响，我们提出了一项使用 Visium 空间转录组学的研究 APE2 ASO 处理的顺铂诱导的 AKI 模型。通过添加 Visium 空间转录组学 我们正在进行 AKI 研究，我们的目标是更深入地了解细胞和分子 涉及的机制并确定潜在的治疗靶点。