Visualization and analysis of gene expression in tissue sections by spatial transcriptomics

被引：2048

作者：

Stahl, Patrik L. ^{[1
,2
]}

Salmen, Fredrik ^{[2
]}

Vickovic, Sanja ^{[2
]}

Lundmark, Anna ^{[2
,3
]}

Navarro, Jose Fernandez ^{[1
,2
]}

Magnusson, Jens ^{[1
]}

Giacomello, Stefania ^{[2
]}

Asp, Michaela ^{[2
]}

Westholm, Jakub O. ^{[4
]}

Huss, Mikael ^{[4
]}

Mollbrink, Annelie ^{[2
]}

Linnarsson, Sten ^{[5
]}

Codeluppi, Simone ^{[5
,6
]}

Borg, Ake ^{[7
]}

Ponten, Fredrik ^{[8
]}

Costea, Paul Igor ^{[2
]}

Sahlen, Pelin ^{[2
]}

Mulder, Jan ^{[9
]}

Bergmann, Olaf ^{[1
]}

Lundeberg, Joakim ^{[2
]}

Frisen, Jonas ^{[1
]}

机构：

[1] Karolinska Inst, Dept Cell & Mol Biol, SE-17177 Stockholm, Sweden

[2] KTH Royal Inst Technol, Div Gene Technol, Sci Life Lab, SE-10691 Stockholm, Sweden

[3] Karolinska Inst, Div Periodontol, Dept Dent Med, SE-14104 Huddinge, Sweden

[4] Stockholm Univ, Dept Biochem & Biophys, Sci Life Lab, Box 1031, SE-17121 Solna, Sweden

[5] Karolinska Inst, Dept Med Biochem & Biophys, Div Mol Neurosci, SE-17177 Stockholm, Sweden

[6] Karolinska Inst, Dept Physiol & Pharmacol, SE-17177 Stockholm, Sweden

[7] Lund Univ, Dept Clin Sci Lund, Div Oncol & Pathol, SE-22381 Lund, Sweden

[8] Uppsala Univ, Dept Immunol Genet & Pathol, SE-75185 Uppsala, Sweden

[9] Karolinska Inst, Dept Neurosci, Sci Life Lab, SE-17177 Stockholm, Sweden

来源：

SCIENCE | 2016年 / 353卷 / 6294期

基金：

瑞典研究理事会;

关键词：

CELL RNA-SEQ; ORGANIZATION;

D O I：

10.1126/science.aaf2403

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Analysis of the pattern of proteins or messenger RNAs (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.

引用

页码：78 / 82

页数：5

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