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On average, the calculated cell length along the long axis in the deletion strain was 1.95 μm (n = 200), compared to 1.42 μm in the WT cells (n = 200) and 1.55 μm in the Ga5DH-complemented cells.
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Using a similar approach, others have attempted to define classes of microglia morphology, such as the rod-shaped microglia, by calculating cell length to cell width and the number of polar vs. planar branches [ 36].
3D coordinates of the somitocoel centroid, basal and apical ends of rostral and caudal somite cells were used to calculate the cell length ( = Euclidean distance between the cell's apical and basal ends), and centripetal alignment of fusiform epitheloid cells ( = angle formed between the somitocoel's centroid, and the cell's basal [vertex] and apical ends; Figure S1A).
Next, we calculated the overall cell length of all three groups and found significant longer cells in the PKD2-OE cells in line with increased differentiation (Figure 6D).
Efficiencies were calculated for various cell lengths and scribing areas in between cells (interconnection dead zone widths).
Briefly, cell length was calculated by multiplying the number by 55 nm (representing the thickness of each section).
Cell geometry was calculated as the ratio of cell length (medial length of the cell parallel to the anteroposterior axis of the embryo) to cell height (medial length of the cell perpendicular to the anteroposterior axis of the embryo).
To calculate the LRI index, the average cell length (mm) in each of the individual root portions (proximal and distal) was multiplied by the density of all initiation events in each of the portions and by 100 (details of the method are described in Dubrovsky et al., 2009).
To assess the shape and growth of chondrocytes, we measured cell length and width and calculated the length-to-width ratio in live embryos labeled with membrane tethered GFP (Figure 4C,D).
Based on these measured lengths, we calculated fractional shortening (in % of resting cell length, %RCL).
Cell length of exodermal cells was calculated and compared.
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