For clarity of comparison, the fluorescence is plotted as the change in fluorescence over the background fluorescence, multiplied by -1 (i.e., -ΔF/F0).
(Here, for clarity, we assume that the fluorescence intensity is sufficiently high, so that the shot noise in the photon counts can be neglected).
For clarity, micrographs with the corresponding fluorescence intensity graphs from two individual killing events are shown exemplifying the two observed types of events (Figs. 6C D).
Because we wanted to visualize GFP-labeled neurons, we decided to use CLARITY so that some native fluorescence (i.e., GFP and tdTomato) would remain intact, although we found that CLARITY causes a loss of mCherry and BFP fluorescence.
However, for the sake of visual clarity, plots were made of the fluorescence emission versus temperature.
The widespread use of fluorescent proteins in mammalian systems has been successfully adapted for use in zebrafish, which are well-suited to the use of fluorescence because of their optical clarity and external development.
Diamond sellers, or diamantaires, deploy an extensive nomenclature of technical terms to describe their wares — not just the famous Four C's of color, clarity, cut and carat weight, but also dimensions, fluorescence, inclusions (flaws), polish and symmetry.
Because the CLARITY-based clearing process completely degraded the native fluorescence of BFP, we sliced the brains into 1 mm sections and stained them with an anti-BFP antibody to reveal the injection sites.
Following frame 10, gamma settings of GFP fluorescence signal intensity were altered to aid clarity of rhoptry neck localization.
CLARITY-based brain clearing did not preserve native BFP fluorescence, so brains were physically sectioned and stained with an anti-BFP antibody to label the injection site of AAV-FLEX-TVA in each animal.
