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Stanford Tissue Mapping Center

斯坦福大学组织绘图中心

基本信息

批准号：
10213800
负责人：
GARRY P NOLAN
金额：
$ 167.55万
依托单位：
STANFORD UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2018
资助国家：
美国
起止时间：
2018-09-19 至 2022-06-30
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10213800
关键词：
ATAC-seq Antibodies Architecture Area Atlases Back Biological Assay Blood Circulation Brain Death Cells Collection Colon Communities Complex Consent Data Data Set Detection Diarrhea Digestion Disease Duodenum Encyclopedia of DNA Elements Epitopes Food Gastrointestinal tract structure Genome Genomics Goals Health Heterogeneity Histologic Homeostasis Human Human BioMolecular Atlas Program Human body Imaging Techniques Immune response Immunity Individual Inflammatory Bowel Diseases Ingestion Intestines Large Intestine Length Maintenance Maps Mediating Metabolism Methodological Studies Methods Molecular Neurophysiology - biologic function Nutritional Organ Organ Donor Participant Phase Physiology Play Population Process Production Proteins Publications Research Personnel Resolution Role Sampling Shapes Small Intestines Structure System Techniques Technology Tissue Sample Tissues Vision absorption brain tissue cell motility data dissemination data sharing experience gut microbiome host microbiome human disease ileum indexing insight interest jejunum member microbiome nutrient absorption preservation scale up single cell analysis single-cell RNA sequencing

项目摘要

ABSTRACT: Overall The small bowel and colon are organs critical for maintaining homeostasis of the human body by mediating nutritional absorption upon the ingestion of food. Though both organs are extensive in length, there are known differences in function and cellular heterogeneity within different portions of each. Also, a cross section anywhere in the bowel reveals a complex layering of components involved in absorption and secretion, motility of gut contents, circulation, and immunity. In this submission, we propose the establishment of the Stanford Tissue Mapping Center (TMC) to map the complexity of the the small bowel and colon with cell-to-cell resolution in histologic sections, both along their lengths and across multiple individuals. To accomplish this goal, we will collect tissues from brain-dead organ donors with explicit consent for distribution among the HuBMAP consortium and open access genome data sharing (GDS). Two sets of technologies will then be employed. Tissue samples will be subjected to single cell (sc) ATAC-seq and scRNA-seq. These ‘omic profiles will then be spatially mapped back to histologic sections using a highly multiplexed system of antibody-tagged target epitopes, which we call CO-Detection by indEXing (CODEX). An integrative analysis will be performed to identify proteins important to establishing the identity of each cell population within the tissue.

摘要：总体小肠和结肠是维持人体稳态的关键器官，在食物摄入后调节营养吸收。虽然这两个器官都很长，在每一个的不同部分内，在功能和细胞异质性方面存在已知的差异。还有，肠内任何部位的横截面都显示了参与吸收的成分的复杂分层以及分泌、肠道内容物的运动、循环和免疫。在本文件中，我们建议建立斯坦福大学组织绘图中心（TMC），肠和结肠，组织切片中细胞间分辨率，沿着其长度和横向多个个体为了实现这一目标，我们将从脑死亡的器官捐赠者那里收集组织，明确同意在HuBMAP联盟和开放获取基因组数据共享之间分发（GDS）。将采用两套技术。将对组织样本进行单细胞 (sc)ATAC-seq和scRNA-seq。然后将这些组学特征在空间上映射回组织学特征。使用抗体标记的靶表位的高度多重系统，我们称之为通过indEXing（CODEX）进行CO检测。将进行综合分析以鉴定蛋白质这对于确定组织内每个细胞群的身份是重要的。