Light-Seq: Spatially targeted profiling of transcriptomic states in cells and tissue

Light-Seq：细胞和组织转录组状态的空间靶向分析

基本信息

批准号：
10633918
负责人：
Peng Yin
金额：
$ 61.02万
依托单位：
HARVARD UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2023
资助国家：
美国
起止时间：
2023-05-01 至 2027-02-28
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10633918
关键词：
Address Adoption Antibodies Area Atlases Bar Codes Biological Biological Assay Biological Process Brain Cells Clinical Complex DNA Data Data Set Dissociation Fluorescent in Situ Hybridization Hand Health Human Image In Situ Individual Interstitial Cell of Cajal Libraries Light Location Maps Methods Morphology Mus Names Pathologist Pathology Population Preparation RNA Reaction Research Personnel Resolution Retina Sampling Slide Stains Surface System Technology Time Tissue Sample Tissues Transcript Work cDNA Library cell fixing cell type combinatorial cost effective density design direct application empowerment flexibility follow-up in situ imaging indexing interest mixed cell culture next generation sequencing parallelization preservation protein expression screening sequencing platform technology platform tool transcriptome transcriptome sequencing transcriptomic profiling transcriptomics

项目摘要

Summary We will develop a new spatial-omics platform, Light-Seq, for spatial indexing of intact biological samples using light-directed DNA barcoding in fixed cells and tissues followed by ex situ sequencing. Our light-directed barcoding strategy will enable user-directed, in situ selection of rare, disjoint cell populations for full- transcriptome sequencing based on morphology, location, or protein expression without dissociation. We will develop Light-Seq as a spatial-omic DNA barcoding platform capable of extracting the transcriptomic information from single-cells, scalable to uniquely address thousands of user-defined regions, and can be applied in both fixed and FFPE clinical samples for direct applications in human health. We envision that the Light-Seq platform will be a scalable, cost-effective, and flexible approach to spatial transcriptomics that allows the user to define spatial regions in tissue for NGS sequencing. Light-seq can thus serve as a low barrier-to-entry platform for spatial transcriptomics for many pathologists and researchers, and would be a key driver for a wider adoption of spatial transcriptomic tools.

概括我们将开发一个新的空间组学平台 Light-Seq，用于使用以下方法对完整生物样本进行空间索引在固定细胞和组织中进行光引导 DNA 条形码编码，然后进行异位测序。我们的光导条形码策略将能够实现用户指导的、稀有的、不相交的细胞群的原位选择，以实现全基于形态、位置或无解离的蛋白质表达的转录组测序。我们将开发 Light-Seq 作为能够提取转录组信息的空间组学 DNA 条形码平台从单细胞，可扩展到独特地解决数千个用户定义的区域，并且可以应用于固定和 FFPE 临床样本，可直接应用于人类健康。我们预计 Light-Seq 平台将是一种可扩展、经济高效且灵活的空间转录组学方法，允许用户定义用于 NGS 测序的组织中的空间区域。因此，Light-seq 可以作为一个低进入门槛的平台空间转录组学对许多病理学家和研究人员来说，并将成为更广泛采用的关键驱动力空间转录组工具。