NanoString nCounter Technology: High-Throughput RNA Validation

Angela Goytain; Tony Ng

doi:10.1007/978-1-4939-9904-0_10

NanoString nCounter Technology: High-Throughput RNA Validation

Methods Mol Biol. 2020:2079:125-139. doi: 10.1007/978-1-4939-9904-0_10.

Authors

Angela Goytain^{1

2}, Tony Ng^{3

4

5}

Affiliations

¹ Department of Pathology, University of British Columbia, Vancouver, BC, Canada. Angela.Goytain@vch.ca.
² Jack Bell Research Centre, Vancouver, BC, Canada. Angela.Goytain@vch.ca.
³ Department of Pathology, University of British Columbia, Vancouver, BC, Canada.
⁴ Department of Pathology, British Columbia Cancer Agency, Vancouver, BC, Canada.
⁵ Department of Pathology, Vancouver General Hospital, Vancouver, BC, Canada.

PMID: 31728967
DOI: 10.1007/978-1-4939-9904-0_10

Abstract

NanoString nCounter is a multiplex nucleic acid hybridization technology that enables reliable and reproducible assessment of the expression of up to 800 genes or 228 gene fusions in 12 samples in a single assay. The technique works well with a variety of starting materials from fresh or formalin-fixed tissues, cell lysates or biological fluid samples. As low as 1 ng RNA input per sample is needed. In addition to gene expression, copy number variation, single nucleotide variation and chimeric RNAs can be analyzed. In this chapter, we discuss the design, setup, and performance of a NanoString-based RNA assay for gene expression or fusion transcript assessment.

Keywords: Chimeric RNA; DNA; Gene expression; Molecular barcode; NanoString; Probe hybridization; RNA; nCounter.

MeSH terms

Computational Biology / methods
Databases, Genetic
Gene Expression Profiling / methods*
High-Throughput Nucleotide Sequencing* / methods
Molecular Probes
Nucleic Acid Hybridization / methods*
RNA* / chemistry
RNA* / genetics
Sequence Analysis, RNA* / methods
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Substances

Molecular Probes
RNA