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We display the results as grayscale heat map plots where the horizontal axis shows the position of the sliding window, the vertical axis determines the period, and the intensity of the periodic signal Q*(P) for the given period and window position is signified by the level of grey in the plot area (black indicates a strong periodicity while white refers to absence of a significant periodic signal).
For instance, the magnitude a gene that is both strongly periodic and strongly expressed is higher than that of a gene with strong periodicity but weak expression by an exponential factor.
Strong periodicity in the sample (crystallinity).
After the Fourier transformation, there is strong peak if an image has strong periodicity.
In a stationary time series with strong periodicity, secondary peaks would be nearly as high as the initial peaks.
If all values are within a zone without strong periodicity and (specially) tendencies, then we can assume convergence.
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As expected, the measured time series of UV irradiances exhibit strong periodicities in solar cycle and solar rotation.
Indeed, the S. cerevisiae genome shows strong periodicities of other dinucleotides.
This may or may not mean that, actually, the periodicity in these cases is just due to passive sequence exclusion effects caused by strong periodicities of other dinucleotides [5].
For example, both Pcellmax (maximum light-saturated photosynthesis – a measure of photosynthetic capacity) and αcellmax (maximal instantaneous light utilization – a measure of photosynthetic efficiency, see Materials and Methods) had strong periodicities (Figure 3B), with the former reaching a maximum at mid-day, and the latter reaching one closer to dusk.
These correlations indicate that sequence motifs known to be important for nucleosome positioning in vitro exhibit strong periodicities in genomic nucleosome libraries and that the intranucleosomal patterns of occurrence in these libraries is related to their activities in in vitro reconstitutions.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com