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The local background intensities of all individual genes were subsequently averaged, resulting in the mean background intensity of a particular membrane.
The Cy5 and Cy3 intensity channels were separately normalized using the mean difference between the median foreground intensity and the median background intensity of a set of representative probes.
This is the essence of Weber-Fechner's law, which states that the maximal response to a change in signal is inversely proportional to the background signal or, in other words, that the ratio of the smallest increment and the background intensity of a signal is constant.
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The centrosomal signal was defined by summing the intensity from an area representing the centrosome and subtracting the background intensity of an identical area.
Recruitment intensity was analyzed using a macro written for ImageJ that calculated the ratio of intensity of a circumscribed laser spot A to the adjacent area B such that an RFU for each data collection point was calculated by the equation RFU = (A − C /(B − C), where C is the background intensity of an unpopulated area of the image.
URR coverage was defined as the percentage of spots called "present" when local background-subtracted intensity of a spot exceeded the average background intensity of all spots in that channel [ 31].
For example, the Cy3 intensity value of one spot was 500, the local background intensity was 50 and the average background intensity of all spots in the Cy3 channel was 100.
To derive a p-value, some programs [ 7, 13] assume a globally uniform background intensity of tags, an assumption known to fail in ChIP experiments.
clusters) is studied via an auxiliary Poisson measure on the space of configurations in X="⊔nXn, with intensity measure defined as a convolution of the background intensity of cluster centres and the probability distribution of a generic cluster.
Throughout the UV-B treatment, all plantlets were exposed to a background intensity of photosynthetically active radiation (PAR, 80 μmol m-2 s-1) provided by cool-white fluorescent lamps.
The immunoreactive signal intensity was analyzed with ImageJ software, with a grayscale background intensity of less than 20 (11.6 ± 0.55; mean ± s.e.m., max 19.9 gray).
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