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

RealSpot: software validating results from DNA microarray data analysis with spot images.

Zhongming Chen1, Lin Liu

  • 1Department of Physiological Sciences, Oklahoma State University, Stillwater, Oklahoma 74078, USA.

Physiological Genomics
|February 3, 2005
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

Sandwich-type electrochemical biosensor for glycoproteins detection based on dual-amplification of boronic acid-gold nanoparticles and dopamine-gold nanoparticles.

Biosensors & bioelectronics·2013
Same author

Structural insights into cellulolytic and chitinolytic enzymes revealing crucial residues of insect β-N-acetyl-D-hexosaminidase.

PloS one·2013
Same author

Ultrastructural study on dynamics of lipid bodies and plastids during ripening of chili pepper fruits.

Micron (Oxford, England : 1993)·2013
Same author

Resveratrol protects against age-associated infertility in mice.

Human reproduction (Oxford, England)·2013
Same author

Receptor for advanced glycation end products: a new theraputic target for chronic obstructive pulmonary disease?

Archives of medical research·2013
Same author

Decreased plasma IL-35 levels are related to the left ventricular ejection fraction in coronary artery diseases.

PloS one·2013
Same journal

Regulation of RGS2 is an important piece to the puzzle of syncytiotrophoblast dysfunction in preeclampsia.

Physiological genomics·2026
Same journal

Maternal Estradiol Impacts Fetal HPA Axis and Pulmonary Transcriptomes in Sheep.

Physiological genomics·2026
Same journal

OBESITY AS AN EPIGENETIC CONTINUUM: DEVELOPMENTAL ROOTS, ADIPOSE REMODELING, AND THE LIMITS OF REVERSIBILITY.

Physiological genomics·2026
Same journal

<i>Akkermansia muciniphila</i>: a member of the gut microbiota that modulates intestinal stem cell function.

Physiological genomics·2026
Same journal

Differential gene transcription following intravenous injection of air bubbles in rats with varying resistance to decompression sickness (DCS).

Physiological genomics·2026
Same journal

Genomic informational field theory to identify genetic associations of a complex trait using a small sample size.

Physiological genomics·2026
See all related articles

RealSpot software validates DNA microarray results by linking spot images with data, improving biological knowledge discovery. This tool enhances experimental reliability by enabling efficient quality control and data verification.

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • DNA microarrays are crucial for gene expression analysis.
  • Current methods often lack validation of analysis results against raw spot images.
  • This gap can lead to inaccuracies in biological knowledge discovery.

Purpose of the Study:

  • To introduce RealSpot, a novel software package for validating microarray data analysis.
  • To enable direct association of spot image quality with gene expression data.
  • To enhance the reliability of microarray experiments.

Main Methods:

  • RealSpot splits hybridization images into individual spots within a spreadsheet.
  • It associates microarray data with spot images for validation.

Related Experiment Videos

  • Built-in functions include quality analysis, data organization, ANOVA, and gene ontology association.

    • Main Results:

    • RealSpot efficiently validated spot quality, correcting ~0.3% of falsely assigned qualities across 77 slides.
    • 1,641 differentially expressed genes were validated against spot images in ~30 minutes.
    • Inconsistencies were identified in 6 of 48 genes within a k-mean cluster.

    Conclusions:

    • RealSpot provides an efficient method for validating microarray results.
    • Directly linking data to spot images significantly improves experimental reliability.
    • This software empowers experimentalists to enhance the accuracy of gene expression studies.