Figure 4.

Cell subpopulations can be identified, examined, and scored. (a) On a density plot of individual cell data (log scale: X-axis = integrated intensity of nuclear DNA; Y-axis = nuclear area), two populations were gated (white boxes) and a random selection of cells within each subpopulation is shown in the montages on the right (b); all gated cells present in a particular sample can also be marked (c). Samples can be scored (d) for the number of gated cells and total cells in each sample, the enrichment of that percentage relative to the overall percentage of positive cells in the entire experiment (“Enrichment”; for example, the first image listed in the table has 19.311-fold more cells in the subpopulation than typical in the experiment overall), and the left- and right-tail log10 p-values (a measure of the statistical significance of the enrichment, based on the number of cells in the sample). (e) Gates for anaphase/telophase and late prophase/metaphase (data is plotted for all human HT29 cells in the experiment [7]. X-axis = integrated nuclear intensity of DNA, log scale; Y-axis = mean nuclear intensity of phospho-histone H3). Random cells falling within the gates are shown in the center of each 34 x 34 mm subimage.

Jones et al. BMC Bioinformatics 2008 9:482   doi:10.1186/1471-2105-9-482
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