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 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...

You might also read

Related Articles

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

Sort by
Same author

Microtopography screening to modulate the mitogenic effects of aqueous humor on human tenon fibroblasts.

Frontiers in bioengineering and biotechnology·2026
Same author

A coordinated transcriptional program controls de novo Golgi biogenesis.

The EMBO journal·2026
Same author

Human microglial transitions at the Aβ-tau inflection point associate with divergent pathways to dementia and resilience.

Nature medicine·2026
Same author

Flow Enabled Target Capture Halbach-based magnetic enrichment increases circulating tumor cell capture from blood in metastatic cancer patients.

Molecular oncology·2026
Same author

Assessing the de novo paradigm in sporadic early-onset Alzheimer disease trios.

Molecular psychiatry·2026
Same author

Clinical Clues to the Diagnostic Yield of Genetic Testing in Adults With Late-Onset Behavioral Change.

Neurology. Genetics·2026

Related Experiment Video

Updated: Jun 14, 2026

Global Gene Expression Analysis Using a Zebrafish Oligonucleotide Microarray Platform
13:14

Global Gene Expression Analysis Using a Zebrafish Oligonucleotide Microarray Platform

Published on: August 10, 2009

Delineation of amplification, hybridization and location effects in microarray data yields better-quality

Marc Hulsman1, Anouk Mentink, Eugene P van Someren

  • 1Delft Bioinformatics Lab, Delft University of Technology, Mekelweg 4, Delft 2628 CD, The Netherlands. m.hulsman@tudelft.nl

BMC Bioinformatics
|March 30, 2010
PubMed
Summary

This study introduces a novel probe-specific normalization method for oligonucleotide arrays, significantly improving gene expression analysis by correcting technical variations. The approach enhances the detection of differentially expressed genes, especially in challenging datasets.

More Related Videos

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer
08:20

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer

Published on: May 21, 2019

Performing Custom MicroRNA Microarray Experiments
07:04

Performing Custom MicroRNA Microarray Experiments

Published on: October 28, 2011

Related Experiment Videos

Last Updated: Jun 14, 2026

Global Gene Expression Analysis Using a Zebrafish Oligonucleotide Microarray Platform
13:14

Global Gene Expression Analysis Using a Zebrafish Oligonucleotide Microarray Platform

Published on: August 10, 2009

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer
08:20

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer

Published on: May 21, 2019

Performing Custom MicroRNA Microarray Experiments
07:04

Performing Custom MicroRNA Microarray Experiments

Published on: October 28, 2011

Area of Science:

  • Genomics
  • Bioinformatics
  • Statistical Modeling

Background:

  • Oligonucleotide arrays are essential high-throughput biological tools.
  • Normalization is critical for accurate array data comparison but remains challenging.
  • Existing methods struggle to correct significant technical effects in datasets.

Purpose of the Study:

  • To develop an improved normalization method for oligonucleotide arrays.
  • To address limitations of current normalization techniques in correcting technical variations.
  • To enhance the analysis and interpretation of gene expression data.

Main Methods:

  • Decomposition of probe-specific amplification, hybridization, and array location effects.
  • Development of statistical models to estimate probe signal variations based on properties.
  • Probe-specific, model-based normalization contrasting with intensity distribution methods.
  • Novel background correction integrating background information for probe weighting.

Main Results:

  • Demonstrated significantly improved analysis of oligonucleotide array data.
  • Achieved probe-specific normalization by modeling technical effects.
  • Showcased enhanced detection of differentially expressed genes compared to existing methods.
  • Validated performance on spike-in datasets, even with experimental variability.

Conclusions:

  • Detailed modeling and correction of technical effects are crucial for accurate gene expression analysis.
  • The proposed method offers improved analytical power, particularly with limited arrays or batch effects.
  • This approach enhances the reliability of findings from oligonucleotide array experiments.