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Microarrays 2012, 1(2), 84-94; doi:10.3390/microarrays1020084

Quality Visualization of Microarray Datasets Using Circos

Pharmaceutical Institute, Rheinische Friedrich Wilhelms University Bonn, An der Immenburg 4, Bonn 53121, Germany
* Author to whom correspondence should be addressed.
Received: 25 June 2012 / Revised: 25 July 2012 / Accepted: 3 August 2012 / Published: 7 August 2012
(This article belongs to the Special Issue Feature Papers)
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Quality control and normalization is considered the most important step in the analysis of microarray data. At present there are various methods available for quality assessments of microarray datasets. However there seems to be no standard visualization routine, which also depicts individual microarray quality. Here we present a convenient method for visualizing the results of standard quality control tests using Circos plots. In these plots various quality measurements are drawn in a circular fashion, thus allowing for visualization of the quality and all outliers of each distinct array within a microarray dataset. The proposed method is intended for use with the Affymetrix Human Genome platform (i.e., GPL 96, GPL570 and GPL571). Circos quality measurement plots are a convenient way for the initial quality estimate of Affymetrix datasets that are stored in publicly available databases.
Keywords: circos; yaqcaffy; quality monitoring circos; yaqcaffy; quality monitoring
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Koch, M.; Wiese, M. Quality Visualization of Microarray Datasets Using Circos. Microarrays 2012, 1, 84-94.

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