line profile tool  (MathWorks Inc)

Journal: Frontiers in Bioengineering and Biotechnology

Article Title: Design of Hydrogel Silk-Based Microarrays and Molecular Beacons for Reagentless Point-of-Care Diagnostics

doi: 10.3389/fbioe.2022.881679

Figure Lengend Snippet: Effect of the percentage of GC content on the hybridization kinetics of the MB-target. Mean ± standard deviation from 6 independent microarrays measuring the mean fluorescence from at least 6 spots for each microarray. Three MBs with different stems were assayed consisting of 40 (blue), 60 (red) and 100 (fuchsia) % GC content in their stem. Arrow indicates the time of target application to the microarrays. Mean fluorescence was obtained from regions of interest (ROI) using the plot profile function from ImageJ for each microarray spot and measured overtime (see ). Then, means from all spots measured overtime were used to calculate the final mean ± standard deviation (see ).

Article Snippet: All microarray data were analyzed using the ImageJ line profile tool and Igor Pro v7 (WaveMetrics, Portland, OR, United States).

Techniques: Hybridization, Standard Deviation, Fluorescence, Microarray

Journal: The Journal of Biological Chemistry

Article Title: Ca 2+ -dependent Focal Exocytosis of Golgi-derived Vesicles Helps Phagocytic Uptake in Macrophages *

doi: 10.1074/jbc.M116.743047

Figure Lengend Snippet: Role of voltage-gated Ca2+ channels in establishing the PIP3 gradient during phagocytosis. A, RAW264.7 macrophages were transfected with AKT-PH-mCherry. At 24 h, cells were incubated with GFP expressing E. coli for 5 min. In parallel, we also had AKT-PH-mCherry-expressing cells that were pretreated with EGTA (3 mm), loperamide (100 μm), amlodipine (100 μm), or wortmannin (5 μm) followed by incubation with GFP expressing E. coli for 5 min. Samples were fixed at 5 min and analyzed by confocal microscopy. The arrows in the far right image in each of the panels highlight the fluorescence intensity measurements for the analysis presented in B (scale bar, 4 μm). DIC, differential interference contrast. B, images in A (arrows) were analyzed using intensity profile line tool in the NIS elements software (see “Materials and Methods”). The data represent median from more than 20 fields for each case.

Article Snippet: PIP 3 Gradient Analysis The gradient of fluorescence in the AKT-pH mCherry experiments was determined using “intensity profile line tool” in NIS-Elements (NIKON).

Techniques: Transfection, Incubation, Expressing, Confocal Microscopy, Fluorescence, Software