Intensity and spatial distribution of raw log intensity ratios of slide 3 of the SW480/620 experiment

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Taken from "Model selection and efficiency testing for normalization of cDNA microarray data"

Genome Biology 2004;5(8):R60-R60.

Published online 30 Jul 2004

PMCID:PMC507885.

Copyright © 2004 Futschik and Crompton; licensee BioMed Central Ltd. This is an Open Access article: verbatim copying and redistribution of this article are permitted in all media for any purpose, provided this notice is preserved along with the article's original URL.

The MA-plot indicates a strong bias towards the Cy3 channel for low spot intensities . The spatial MXY-plot shows uneven distribution of positive (red squares) and negative (green squares). The columns with consistently negative correspond to empty control spots. The axis labels and refer to the spot location as determined by the QuantArray scanning software.