Spatial Transcriptomics: Constructing a Single-Cell Resolution Transcriptome-Wide Expression Atlas.
Abstract
The method described here aims at the construction of a single-cell resolution gene expression atlas for an animal or tissue, combining in situ hybridization (ISH) and single-cell mRNA-sequencing (scRNAseq).A high resolution and medium-coverage gene expression atlas of an animal or tissue of interest can be obtained by performing a series of ISH experiments, followed by a process of image registration and gene expression averaging. Using the overlapping fraction of the genes, concomitantly obtained scRNAseq data can be fitted into the spatial context of the gene expression atlas, complementing the coverage by genes.
Keywords
Spatial Transcriptomics
Gene expression
Image registration
Single-cell mRNA-seq
Spatial transcriptomics
MeSH terms
Animals
Gene Expression Regulation
Larva
Single-Cell Analysis
Software
Transcriptome
Authors
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