Gene expression atlas of a developing tissue by single cell expression correlation analysis.
PMID:31363221
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IF: 47.990
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Cited by: 51
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Abstract

The Drosophila wing disc has been a fundamental model system for the discovery of key signaling pathways and for our understanding of developmental processes. However, a complete map of gene expression in this tissue is lacking. To obtain a gene expression atlas in the wing disc, we employed single cell RNA sequencing (scRNA-seq) and developed a method for analyzing scRNA-seq data based on gene expression correlations rather than cell mapping. This enables us to compute expression maps for all detected genes in the wing disc and to discover 824 genes with spatially restricted expression patterns. This approach identifies clusters of genes with similar expression patterns and functional relevance. As proof of concept, we characterize the previously unstudied gene CG5151 and show that it regulates Wnt signaling. Our method will enable the leveraging of scRNA-seq data for generating expression atlases of undifferentiated tissues during development.

Keywords

Spatial Transcriptomics
Spatial Gene Expression
DistMap
Seurat

MeSH terms

Algorithms
Animals
Drosophila
Drosophila Proteins
Embryo, Nonmammalian
Female
Gene Expression Profiling
Gene Expression Regulation, Developmental
High-Throughput Nucleotide Sequencing
Sequence Analysis, RNA
Single-Cell Analysis
Wings, Animal

Authors

Bageritz, Josephine
Willnow, Philipp
Valentini, Erica
Leible, Svenja
Boutros, Michael
Teleman, Aurelio A

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