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To reduce the effect of the longitudinal difference between the two GOES satellites on the SEP intensities, the data collected from GOES 13 and 15 are averaged.
After normalization of the intensities, the data were filtered to exclude spots with intensities less than twice the background (150 pixels) in either channel and finally, only spots with a normalized ratio greater than 1.5 were considered, since a minimum of 1.4-fold change in differential expression can be accurately detected [27].
After background adjustment, summarization, and normalization of the raw intensities, the data were analyzed using affy (19) and limma (14).
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If the raw peak height of PT1 was lower than 1,000 in fluorescence intensity, the data were omitted.
To account for dye specific signal intensity the data was quantile-normalized with respect to the dye-channels.
Considering the weak average intensities of the data sets, the Rmerge of ∼10% is very acceptable.
In order to adapt differing total intensities between measurements at different times, the intensity data of each data set was normalized by the total intensity of the data set.
Conventional wisdom suggests gun law opponents overpower advocates with their intensity, but the data say otherwise.
A maximum-intensity projection through the data stack was calculated.
For any segmentation algorithm, it is important that the intensity ranges of the data are consistent.
The multilevel model used for the intensity data included the exact same variables as the size model.
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