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Related Concept Videos

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Visualization and Quantification of High-Dimensional Cytometry Data using Cytofast and the Upstream Clustering Methods FlowSOM and Cytosplore
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Quality Visualization of Microarray Datasets Using Circos.

Martin Koch1, Michael Wiese2

  • 1Pharmaceutical Institute, Rheinische Friedrich Wilhelms University Bonn, An der Immenburg 4, Bonn 53121, Germany. martin.koch@uni-bonn.de.

Microarrays (Basel, Switzerland)
|September 9, 2016
PubMed
Summary
This summary is machine-generated.

This study introduces Circos plots for visualizing microarray data quality control. These plots offer a clear, circular view of individual array quality and outliers in Affymetrix datasets.

Keywords:
circosquality monitoringyaqcaffy

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Area of Science:

  • Bioinformatics
  • Genomics
  • Data Visualization

Background:

  • Quality control and normalization are critical steps in microarray data analysis.
  • Existing quality assessment methods lack a standardized visualization for individual microarray quality.
  • Affymetrix Human Genome platforms (GPL 96, GPL570, GPL571) are widely used.

Purpose of the Study:

  • To present a novel and convenient method for visualizing microarray quality control results.
  • To enable clear depiction of individual microarray quality and outliers.
  • To facilitate initial quality assessment of Affymetrix datasets.

Main Methods:

  • Utilizing Circos plots for data visualization.
  • Representing various quality measurements in a circular format.
  • Applying the method to standard quality control tests for microarray data.

Main Results:

  • Circos plots provide a comprehensive visualization of quality measurements for each array.
  • Outliers within microarray datasets are readily identifiable.
  • The method is effective for initial quality estimation of Affymetrix datasets.

Conclusions:

  • Circos plots offer a valuable tool for visualizing microarray quality control.
  • This method enhances the assessment of individual array quality and data integrity.
  • The approach is particularly useful for analyzing publicly available Affymetrix datasets.