Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Comprehensive comparison of six microarray technologies.

Carole L Yauk1, M Lynn Berndt, Andrew Williams

  • 1Mutagenesis Section, Environmental and Occupational Toxicology Division and Biostatistics and Epidemiology Division, Health Canada, Ottawa, Ontario, Canada. carole_yauk@hc-sc.gc.ca

Nucleic Acids Research
|August 31, 2004
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Cross-study analysis identifies estrogen depletion and exposure duration as key determinants of bisphenol A transcriptomic potency in MCF-7 cells.

Toxicology reports·2026
Same author

Effects of plyometric training on performance-related metrics in track and field athletes: a systematic review and meta-analysis of randomized controlled trials, with preliminary evidence on injury prevention.

BMC sports science, medicine & rehabilitation·2026
Same author

Dermatologic conditions associated with HIV among US adults across different racial and ethnic groups: A retrospective cohort study using TriNetX.

Journal of the American Academy of Dermatology·2026
Same author

Evaluation of Type 1 Error Rates in Duplex Sequencing for Mutagenicity Testing Using Vehicle Control Data and Simulation Analyses.

Environmental and molecular mutagenesis·2026
Same author

Prevalence and incidence of fibromyalgia and associated severity in the United States using MarketScan.

Pain reports·2026
Same author

Psilocybin Decreases Preference for Large Rewards Accompanied by Increased Activity of Parvalbumin Neurons With Perineuronal Nets in the Medial Prefrontal Cortex.

The European journal of neuroscience·2026
Same journal

Correction to 'scSuperAnnotator: A platform for benchmarking comparison and visualizing automated cellular annotation methods for scRNA-seq data'.

Nucleic acids research·2026
Same journal

Correction to 'Differentiable partition function calculation for RNA'.

Nucleic acids research·2026
Same journal

Deployment of non-canonical splicing in tunicate genomes is mediated by divergent U2AF function and changing m6A modification in U1 and U6 snRNA.

Nucleic acids research·2026
Same journal

Bacillus subtilis DnaB forms multiple protein-protein interactions essential for DNA replication initiation.

Nucleic acids research·2026
Same journal

Multiple forms of protein-protein and DNA binding are exhibited by BrxC from the BREX phage restriction system.

Nucleic acids research·2026
Same journal

Biosynthesis of glycosylated 5-hydroxycytosine in the DNA of diverse viruses.

Nucleic acids research·2026
See all related articles

Different microarray technologies show high correlation, with biological differences driving most gene expression variation. Top platforms minimize technical variability for accurate differential expression analysis.

Area of Science:

  • Molecular Biology
  • Genomics
  • Bioinformatics

Background:

  • Microarray technology is widely used in biological research, but variations in applied methods raise questions about data correlation.
  • Ensuring high-quality microarray data through Minimal Information About a Microarray Experiment (MIAME) guidelines and public data availability is a recent focus.
  • Limited understanding exists regarding how different microarray technologies impact transcriptional profiles and differential expression outcomes.

Purpose of the Study:

  • To comprehensively evaluate the influence of various microarray technologies on gene expression profiling.
  • To assess the consistency and correlation among different reporter systems, labeling techniques, and hybridization protocols.
  • To determine the extent to which technological variations affect the detection of differential gene expression.

Related Experiment Videos

Main Methods:

  • Utilized six platforms: four oligonucleotide and two cDNA-based, to compare gene expression between two sample types.
  • Evaluated intra-platform consistency (reproducibility) and inter-platform correlation among replicates.
  • Assessed the impact of reporter systems (short oligonucleotides, long oligonucleotides, cDNAs), labeling, and hybridization on transcriptional profiles.

Main Results:

  • Top-performing microarray platforms demonstrated low technical variability, enhancing the ability to detect differential gene expression.
  • High correlation was observed among the leading platforms, indicating technological concordance.
  • Biological differences, not technological variations, were identified as the primary source of variation in the gene expression data.

Conclusions:

  • The choice of microarray technology has a minimal impact on the overall correlation of transcriptional profiles when high-performing platforms are used.
  • Biological variability is the dominant factor influencing gene expression data, overshadowing technological differences.
  • Standardization and selection of robust microarray platforms are crucial for reliable gene expression analysis and discovery.