NanoString nCounter

nCounter® Analysis System from Nanostring Technologies is a medium-high throughput gene expression quantification system that is based on direct multiplexed measurement of gene expression.

CodeSets

• Expression Analysis
  • Pre-built panels: off-the-shelf preassembled CodeSets, ready to be run. Visit the Nanostring website for an up-to-date overview of these off-the-shelf CodeSets.
  • Virtual panels: Select your CodeSet from lists of genes representing  specific genetic pathways, disease states and biological processes.
  • Custom CodeSets: Have your own CodeSet designed by providing a list of your genes.
  • miRNA Expression (Human, Mouse, and Rat)
  • miRGE: miRNA and mRNA expression analysis in one single assay. A number of 5-30 miRNA and 100-200 mRNA molecules can be selected for analysis
• CNV Analysis
  • CNV Custom CodeSet: Investigate up to 800 different putative CNV regions
  • Cancer CN Assay: copy number quantification for 86 genes commonly amplified or deleted in cancer

Basic Bioinformatics Analysis

For each experiment, we perform a data quality control of which you will receive a detailed report in PDF format. This report contains a description of the experiment (which samples have been run on which position of the cartridge), analysis of positive and negative controls, and scaling factors, and correlation heatmaps. We will also normalize the data according to the Nanostring Data Analysis Guidelines using a scaling approach against the positive controls.

More detailed bioinformatics analysis can be performed within VIB Nucleomics Core bioinformatics service.

Deliverables

Next to the raw data, you will receive a detailed quality control report and an Excel or tab-delimited text file containing the normalized data (but also the data of each intermediate step during data pre-processing) for each sample.