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Statistically significant interactors were identified by measuring the mean spot intensity for the microarray sectors and using a Z-score of three (P = 0.002) as a cutoff value (Figure 1D).
The filtered data was normalized by background subtraction and centering to each channel's mean spot intensity.
A set of 17 peptidase genes revealed intermediate expression levels (mean spot intensity 800 to 3000).
The signal for each spot was calculated by subtracting the median local background from the mean spot intensity.
Firstly, the spot intensities were corrected for local background (mean spot intensity minus mean spot background intensity).
Initial quality filtering was based on mean spot intensity and number of informative spots, resulting in 11,913 passed features.
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Mean spot intensities from images were quantified using ProScanArray ® Express(Perkin-Elmer) with background subtraction.
After data extraction using ImaGene 8.0 (BioDiscovery), print-tip Loess normalization was performed on mean spot intensities.
We show that reliable data were achieved only for mean spot intensities within the range of 200 to 50 000.
Mean spot intensities and standard errors were calculated for 26 selected spots that were detectable in more than 70% of all gels of the cultivars and replicates.
After automated data extraction using Imagene 8.0 (BioDiscovery, El Segundo, CA, United States of America), print-tip loess normalization was performed [ 44] on mean spot intensities.
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