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DNA Microarrays

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

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Updated: Apr 19, 2026

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning

Published on: March 15, 2011

A set of external reference controls/probes that enable quality assurance between different microarray platforms.

Hideo Akiyama¹, Yoji Ueda¹, Hitoshi Nobumasa¹

¹New Projects Development Division, Toray Industries, Inc., Kamakura, Kanagawa 248-8555, Japan.

Analytical Biochemistry

|December 8, 2014

Summary

This summary is machine-generated.

This study introduces novel RNA external standards for calibrating and validating various gene expression platforms. These standards help identify assay issues and ensure reliable results across microarray, RT-PCR, and sequencing methods.

Keywords:

Cross-platform DNA microarray Dynamic range External RNA standards Multiplatform calibration

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Last Updated: Apr 19, 2026

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning

Published on: March 15, 2011

Performing Custom MicroRNA Microarray Experiments

Performing Custom MicroRNA Microarray Experiments

Published on: October 28, 2011

Probe-based Real-time PCR Approaches for Quantitative Measurement of microRNAs

Probe-based Real-time PCR Approaches for Quantitative Measurement of microRNAs

Published on: April 14, 2015

Area of Science:

Molecular Biology
Genomics
Biotechnology

Background:

RNA external standards are crucial for ensuring data consistency across different microarray platforms.
Their adoption in the research community remains limited despite their importance.

Purpose of the Study:

To describe a novel set of RNA external standards and probe pairs for multiplatform validation.
To evaluate assay performance and identify sources of variation in gene expression analysis.

Main Methods:

RNA external standards were added to total RNA samples prior to amplification and labeling.
Concentration-response curves were generated using DNA microarrays, quantitative real-time PCR (RT-PCR), and next-generation sequencing.
Assay performance, dynamic range, and limit of detection were assessed across platforms.

Main Results:

The study successfully confirmed the dynamic range and limit of detection for each tested platform.
The approach identified problematic assays and potential sources of analytical variation.
Multiplatform calibration and validation were demonstrated as feasible using the developed standards and probes.

Conclusions:

The developed RNA external standards enable robust calibration and validation of gene expression assays.
This methodology enhances the reliability and comparability of results across diverse molecular profiling platforms.
Implementation of these standards can improve the accuracy of clinical sample analysis.