Related Experiment Video
Updated: May 26, 2026
10:37
Perturbations of Circulating miRNAs in Irritable Bowel Syndrome Detected Using a Multiplexed High-throughput Gene Expression Platform
Published on: November 30, 2016
NanoStriDE: normalization and differential expression analysis of NanoString nCounter data
Christopher D Brumbaugh1, Hyunsung J Kim, Mario Giovacchini
1Department of Biomolecular Engineering, University of California at Santa Cruz, Santa Cruz, CA 95064, USA.
BMC Bioinformatics
|December 20, 2011
Summary
A new web application, NanoStriDE, simplifies the interpretation of RNA sequencing data from the NanoString nCounter analysis system. It normalizes raw counts, performs differential gene expression analysis, and visualizes results in a heatmap for biologists.
Area of Science:
- Molecular Biology
- Bioinformatics
- Genomics
Background:
- The NanoString nCounter analysis system offers precise digital quantification of RNA transcripts.
- It utilizes color-coded molecular barcodes and single-molecule imaging for high sensitivity.
Purpose of the Study:
- To develop a user-friendly web application for analyzing NanoString nCounter data.
- To facilitate differential gene expression analysis and visualization.
Main Methods:
- Designed a web application compatible with modern browsers.
- Accepts raw count data from the NanoString nCounter system.
- Normalizes data and performs differential expression analysis.
Main Results:
- The application generates a heatmap visualizing differential gene expression results.
- Provides an accessible platform for interpreting complex RNA data.
Conclusions:
- NanoStriDE enables biologists to easily interpret differential expression analysis from NanoString nCounter data.
- The tool is freely accessible online under the GPL v2 license.
