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Related Concept Videos

DNA Microarrays02:34

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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Related Experiment Video

Updated: Jun 25, 2026

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning
09:27

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning

Published on: March 15, 2011

Quality assessment of microarray data in a multicenter study.

Kellie J Archer1, Valeria R Mas, Thomas R O'Brien

  • 1Virginia Commonwealth University, 730 East Broad Street, Theater Row, Richmond, VA 23298-0032, USA. kjarcher@vcu.edu

Diagnostic Molecular Pathology : the American Journal of Surgical Pathology, Part B
|February 14, 2009
PubMed
Summary

Multicenter microarray studies require strict protocol adherence. This study found consistent protocols and quality evaluation are crucial for reliable gene expression data across different centers and labs.

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07:04

Performing Custom MicroRNA Microarray Experiments

Published on: October 28, 2011

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Multicenter microarray studies face challenges in protocol standardization and adherence.
  • Ensuring data quality and reproducibility is critical for reliable results.

Purpose of the Study:

  • To evaluate the impact of technical factors (center, laboratory, preservation method) on RNA quality and microarray data reproducibility.
  • To assess adherence to established protocols in a multicenter setting.

Main Methods:

  • Kruskal-Wallis test for center-specific RNA quality differences.
  • Mixed effects analysis of variance for laboratory and preservation method effects on gene expression.
  • Evaluation of RNA, cRNA yield, and gene expression reproducibility.

Main Results:

  • One center violated tissue handling protocols; however, preservation methods (frozen/RNAlater) showed no significant impact on RNA quality.
  • A significant laboratory effect was observed for cRNA yield, but it did not affect overall sample quality.
  • Consistent protocols across all steps are essential for reproducible gene expression values.

Conclusions:

  • Consistent protocols for sample collection, RNA extraction, and microarray processing are vital for reliable gene expression data.
  • Regular evaluation of sample quality throughout the data acquisition process is essential for multicenter studies to ensure protocol compliance.