Visualization and analysis of gene expression in tissue sections by spatial transcriptomics.
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IF: 63.714
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Cited by: 995
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Abstract

Analysis of the pattern of proteins or messengerRNAs (mRNAs) in histological tissue sections is a cornerstone in biomedical research and diagnostics. This typically involves the visualization of a few proteins or expressed genes at a time. We have devised a strategy, which we call "spatial transcriptomics," that allows visualization and quantitative analysis of the transcriptome with spatial resolution in individual tissue sections. By positioning histological sections on arrayed reverse transcription primers with unique positional barcodes, we demonstrate high-quality RNA-sequencing data with maintained two-dimensional positional information from the mouse brain and human breast cancer. Spatial transcriptomics provides quantitative gene expression data and visualization of the distribution of mRNAs within tissue sections and enables novel types of bioinformatics analyses, valuable in research and diagnostics.

Keywords

Spatial Transcriptomics

MeSH terms

Animals
Brain
Breast Neoplasms
DNA, Complementary
Female
Gene Expression Profiling
Humans
Mice
Organ Specificity
RNA, Messenger
Sequence Analysis, RNA
Transcriptome

Authors

Ståhl, Patrik L
Salmén, Fredrik
Vickovic, Sanja
Lundmark, Anna
Navarro, José Fernández
Magnusson, Jens
Giacomello, Stefania
Asp, Michaela
Westholm, Jakub O
Huss, Mikael
Mollbrink, Annelie
Linnarsson, Sten
Codeluppi, Simone
Borg, Åke
Pontén, Fredrik
Costea, Paul Igor
Sahlén, Pelin
Mulder, Jan
Bergmann, Olaf
Lundeberg, Joakim
Frisén, Jonas

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