Spatial transcriptomics: Technologies, applications and experimental considerations

Ye Wang

doi:10.1016/j.ygeno.2023.110671

2023-09-01

DOI：10.1016/j.ygeno.2023.110671

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摘要

En 中文

The diverse cell types of an organ have a highly structured organization to enable their efficient and correct function. To fully appreciate gene functions in a given cell type, one needs to understand how much, when and where the gene is expressed. Classic bulk RNA sequencing and popular single cell sequencing destroy cell structural organization and fail to provide spatial information. However, the spatial location of gene expression or of the cell in a complex tissue provides key clues to comprehend how the neighboring genes or cells cross talk, transduce signals and work together as a team to complete the job. The functional requirement for the spatial content has been a driving force for rapid development of the spatial transcriptomics technologies in the past few years. Here, we present an overview of current spatial technologies with a special focus on the commercially available or currently being commercialized technologies, highlight their applications by category and discuss experimental considerations for a first spatial experiment.

Keyword:

Spatial transcriptomics

RNA sequencing

10 x Visium

GeoMx DSP

CosMx SMI

MERFISH

Stereo-seq

Xienum

BMKMANU S1000

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Genomics

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China Medical University

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2.6W

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Qingdao University

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institute of bioorganic chemistry of the russian academy of sciences

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university of california los angeles

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University of California System

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