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Figure 6 | BMC Bioinformatics

Figure 6

From: Normalization and expression changes in predefined sets of proteins using 2D gel electrophoresis: A proteomic study of L-DOPA induced dyskinesia in an animal model of Parkinson's disease using DIGE

Figure 6

3Dyes-I plots for gel 4 and 12. 3Dyes-I plots for gel 4 and 12 before and after normalization using different methods. Each MCy5, MCy 3 and MCy 2 -spot value are calculated as the Cy5, Cy3 or Cy2-value divided by the average intensity I, (log2Cy5+ log2Cy3+ log2Cy2)/3. The red line in each plot shows the Lowess smoothing of the entire data in the plot and should ideally be a straight line on zero. Both the 'SC-quantile' and 'SC-2D+quantile' methods remove intensity dependant bias. The values for extreme observations are more or less unaffected after spatial loess normalization.

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BMC Bioinformatics

ISSN: 1471-2105

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