Transcription Profiling of Signal Transduction


Supplemental Figures

 

Figure S01 - Setting up the cut-off limits. Data from four self -self hybridizations were computed to establish the limits of the random variations in the SUCAST microarray experiments. Eight intervals were set integrating the probability density function to 99,5%, for different signal intensity levels. The horizontal bars indicate the cut-off ratio limits, while the vertical lines delimit the intensity intervals. M = log2(R), where R is the normalized intensity ratio between the channels; S = log2[(Cy3 + Cy5 + Cy3'+Cy5')/4], refers to the mean signal intensities for the two spot replicates. (see eps file)
Figure S02 - Assessing individual variability. Expression profiles in leaf samples were compared using pair-wise Pearson correlations. The scatter plots show the dispersion of the log ratios (M) among the leaf samples LV-1, LV-2, LV-a, LV-b and LV-c. The correlation values are shown in blue. (see eps file)
Figure S03 - Hierarchical clustering of SUCAST genes according to their expression profile in different tissues. 217 elements with differential expression in the two biological samples of at least one of the six tissues analyzed were clustered (Euclidian distance, UPGMA). The median intensity ratios of each gene in each sample, in relation to the control, were used as input data. Green: ratio <= 0.5-fold; red: ratio >= 2-fold; black: no differential expression. SAS IDs and annotation are shown. (see eps file)
Figure S04 - SUCAST expression profile matrix. Expression patterns derived from tissue pair-wise comparisons. The expression ratios from each tissue against pool hybridizations were used to calculate "virtual ratios" between each pair of tissues. The patterns derived were clustered. The results from the tissue against pool hybridizations are shown in the last 12 columns. The green areas denote lower expression in the tissue indicated than in the others (<0.5x), red areas show higher expression (>2x), and yellow indicates that the expression is similar in both tissues being compared. White areas correspond to data excluded from the analysis due to low quality hybridization in some experiments.