The largest database of trusted experimental protocols

64 protocols using metavue software

1

Mitochondrial ROS in Basilar Arteries

Check if the same lab product or an alternative is used in the 5 most similar protocols
To assess mitochondrial levels of reactive oxygen species (ROS), basilar
arteries from individual animals were incubated in warm, aerated HEPES (5
mM)-buffered PSS for one hour. Whole vessels were then incubated in 5 μM
MitoSOX- Red (Molecular Probes Invitrogen Detection Technologies) in PSS for 30
minutes, rinsed, and mounted on microscopy slides. Fluorescence (excitation 510
nm and emission 580 nm) was assessed along the length of vessel with a Nikon
Eclipse E-80i microscope using MetaVue software (Molecular Devices Inc.).
Generally, a vessel spanned 4–5 visual fields at 20×
magnification. An average fluorescence value was calculated for each vessel by
dividing the sum of fluorescence values for each visual field by the number of
visual fields for that vessel.
+ Open protocol
+ Expand
2

Quantitative Analysis of Atherosclerotic Plaque Characteristics

Check if the same lab product or an alternative is used in the 5 most similar protocols
Digital images of the plaques were obtained using AxioObserver.Z1 microscope (Zeiss, Jena, Germany). Plaque area and thickness were measured using ImageJ software. Plaque area was calculated by measuring the surface delimited by the internal elastic lamina and distracting the surface of the lumen. The results were normalized to total vessel cross-sectional area for each arterial section to eliminate variations due solely to vessel size. The minimum fibrous cap thickness at each plaque section and the media thickness at the thickest region of the plaque were measured for each section. Intima–media thickness (IMT) was calculated.
To analyze the macrophage load in the plaques, the color threshold for immunostained cells was manually adjusted in the images until the computerized detection matched the visual interpretation (MetaVue Software; Molecular Devices LLC, San Jose, CA, USA). The numbers of immunoreactive cells were additionally digitally counted (NIS-Elements; Nikon Instruments, Düsseldorf, Germany) in the representative areas of 0.2 mm2 in the plaque shoulders, lipid core, and fibrous cap. Analyses were carried out by two independent observers (BL, IC). The intra- and interobserver variability was lower than 10%.
+ Open protocol
+ Expand
3

Kinetics and Effects of SprG Expression

Check if the same lab product or an alternative is used in the 5 most similar protocols
For the kinetic assays, strains containing the relevant plasmids were grown overnight in BHI. The cultures were then diluted to 1/100 in BHI, then grown in 96-well microtiter plates for 135 min at 37°C until the exponential growth phase (14 (link)). To induce expression of SprG1, SprG2, SprG3 and SprG4, the cultures were then incubated with 1 or 2 μM of aTc. For the kinetics, the optical absorbance at 600 nm (OD600) was measured at 30-min intervals using a Synergy 2 multi-mode reader (Biotek). To determine the effects of SprG induction on bacterial growth, cultures were prepared by 2-fold serial dilutions of exponential phase cultures on BHI plates containing 1 or 2 μM aTc, then incubated for 24 h at 37°C. For the cell death experiments, cultures were incubated for 135 min, washed with 9‰ saline solution, then stained with a LIVE/DEAD bacterial viability kit (Invitrogen). Pictures of fluorescence-labeled cells were captured with a Leica DM RXA2 microscope and a CoolSNAP HQ charge-coupled device camera using Metavue software (Molecular Devices).
+ Open protocol
+ Expand
4

Quantifying Renal Tissue Markers

Check if the same lab product or an alternative is used in the 5 most similar protocols
Tissue was processed as described [56 (link)]. Immunohistochemical detection of chemerin, collagen I, collagen IV, α-smooth muscle actin (SMA), ED-1, myeloperoxidase (MPO), CD3, CD4, CD8a, and CD163 was performed in methyl Carnoy-fixed tissue sections. Antibodies used are described in Supplementary Table S1. The specificity of the chemerin antibody was confirmed by staining in control tissue: rat skin, lung and testes (see Supplementary Figure S6). Interstitial collagens I and IV were quantified in 30 medium-power views (magnification x200) by means of an 11 × 11-point grid or by densitometric analysis using MetaVue software (Molecular Devices, Sunnyvale, CA, USA). The percentage of grid points corresponding with a stained area or the percentage of stained area in relation to the total area was calculated. SMA, ED-1, MPO, CD3, CD4, CD8a, and CD163 positive cells were counted in 20 medium-power cortical views. All histological evaluations were done by a single investigator blinded to the group assignment.
+ Open protocol
+ Expand
5

Fluorescent Microscopy of Protein Expression

Check if the same lab product or an alternative is used in the 5 most similar protocols
For observation under the microscope of fluorescent protein expression, culture plates were placed on the stage of an inverted digitized fluorescence microscope (Leica DMIRB, Wetzlar, Germany). Cells were observed with a Leica 20X objective and the L4 block filter (Exc: BP480/40; Em: BP527/40) for GFP expression and mCherry-T filter (Exc: BP560/40; Em: BP630/75) for Tomato expression. Imaging was obtained with a Coolsnap fx camera (Roper) and the metavue software (Molecular Devices, LLC).
+ Open protocol
+ Expand
6

Staining Extracellular E. coli in Bladder Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
Infected bladder cells were washed four times with PBS and then, to stain extracellular bacteria only, incubated with a polyclonal rabbit anti-E. coli IgG antibody (Thermo Scientific) at a 1/200 dilution in EpiLife-10% goat serum (Sigma) for 30 min at 37°C and 5% CO2. Samples were washed three times in PBS and then fixed in 3% paraformaldehyde. To permeabilize the bladder cell plasma membrane, samples were incubated in 0.1% Triton X-100 in PBS for 4 min. The capsule was then stained using anti-K1 Ab and donkey anti-mouse Alexa Fluor 594 (secondary Ab to anti-K1) as described above. Donkey anti-rabbit IgG Cy5 (1/500 dilution [Abcam]) and DAPI were also added to the secondary Ab mixture to stain the anti E. coli Ab and cell nuclei, respectively. Samples were washed three times with PBS between each step and mounted with Mowiol.
Images were collected on an Olympus BX51 upright microscope using a 60×/0.30 Plan Fln objective and captured using a Coolsnap ES camera (Photometrics) through MetaVue software (Molecular Devices). Images were processed using ImageJ software (41 ).
+ Open protocol
+ Expand
7

Cytospin-based Cell Staining Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
Sorted cells were mounted on superfrost slides using a Cytospin centrifuge (Cytospin 4; Thermo Fisher Scientific) operating for 5 min at 500 rpm. Cells were fixed with ice-cold methanol and stored at room temperature. Cells were subsequently stained with hematoxylin and acidic eosin and mounted with DPX. Images were collected on an Axioskop upright microscope (ZEISS) using a 100× objective and captured using a CoolSNAP ES camera (Photometrics) through MetaVue software (Molecular Devices). Images were then analyzed and processed using ImageJ (National Institutes of Health) and Image-Pro Premier software (Media Cybernetics).
+ Open protocol
+ Expand
8

ALA-Phototherapy and Cell Migration

Check if the same lab product or an alternative is used in the 5 most similar protocols
The effects of ALA/light stress on migration properties of PC3 and DU145 cells was assessed by a gap closure (also known as “wound healing”) assay, which measures departure of cells from the general population on a flat surface [23 (link)]. Cells were seeded in 35-mm dishes and allowed to grow to at least 90% confluency, then sensitized with ALA-generated PpIX as specified in Sect. 2.3. After sensitization, a linear scratch was produced midway across the monolayer, using a sterile 200 μl pipette tip. The cells were then irradiated for 15 min (~1 J/cm2 light fluence) in the absence vs. presence of an iNOS inhibitor and placed back in the incubator. At various times up to 48 h, cells in and around the gap region were observed and photographed using a Nikon Eclipse TS100 microscope with CoolSnap ES Photometrics camera and MetaVue software from Molecular Devices (Sunnyvale, CA). Extent of gap closure relative to a dark control and how iNOS inhibition affected this was determined by analysis of representative images at each post-irradiation time point [23 (link)]. For each reaction condition, data were obtained from at least six separate experiments.
+ Open protocol
+ Expand
9

Fluorescent Imaging of Cellular Structures

Check if the same lab product or an alternative is used in the 5 most similar protocols
Images were collected on an Olympus BX51 upright microscope using a 40x/ 0.75 Plan Fln or 60x/ 0.65-1.25 Plan Fln objective and captured using a Coolsnap EZ camera (Photometrics) through MetaVue Software (Molecular Devices). Specific band pass filter sets for DAPI, FITC and Texas Red were used for visualizing DAPI, GFP and phalloidin-Atto590, respectively. Images were processed and analysed using ImageJ (http://rsb.info.nih.gov/ij).
+ Open protocol
+ Expand
10

Pseudo-IB Formation Assay

Check if the same lab product or an alternative is used in the 5 most similar protocols
P and N recombinant proteins in buffer consisting of 20 mM Tris-HCl (pH 8.5) and 150 mM NaCl were coincubated at different P/N molecular ratios on glass slides, and the molecular-crowding agent Ficoll was added to the droplets of solution. Then coverslips were laid on the droplets. Pseudo-IBs were then observed with a Nikon TE200 inverted microscope equipped with a Photometrics CoolSNAP ES2 camera. Images were processed using MetaVue software (Molecular Devices) and ImageJ software.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!