The largest database of trusted experimental protocols

7 protocols using 4 6 diamidino 2 phenylindole dapi

1

Visualizing FLAG-tagged MCM2 Protein

Check if the same lab product or an alternative is used in the 5 most similar protocols
Ten thousand OVTOKO and OVISE cells, which overexpressed FLAG-MCM2-FL and 3×FLAG-MCM2-ΔN, were cultured on Falcon® 4 Well Culture Slides (BD Falcon NJ, USA). Cells were fixed in 100% ethanol at −20° C for 20 min and then incubated with rabbit monoclonal anti-FLAG antibody (Sigma) at a 1:100 dilution in PBS for 1 h at room temperature. Then, they were stained with a TRITC-conjugated anti-rabbit antibody (Dako Cytomation, Glostrup, Denmark) at a 1:100 dilution for 20 min at room temperature. Slides were washed three times with PBS and mounted with mounting medium (Dako Cytomation) containing 4′,6-diamidino-2-phenylindole (DAPI, Abbott Molecular Inc., Des Plaines, IL, USA). Images were acquired using a FV1200 laser-scanning microscope (OLYMPUS, Tokyo, Japan) with a 1,000× objective.
+ Open protocol
+ Expand
2

Quantifying DNA Damage in Breast Tumor Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
Snap-frozen tissue sections derived from seven organotypic breast tumors or MCF-7 cells were fixed in 4% paraformaldehyde (PFA) (Sigma-Aldrich), and incubated with a primary antibody to phospho-histone H2AX (pSer139) (γH2AX, 1:700, Sigma-Aldrich) for 16 h at 22°C. Anti-rabbit 647 or 548 Alexa Fluor-conjugated was used as a secondary antibody (Molecular Probes, Invitrogen), and nuclei were stained with 4′,6-diamidino-2-phenylindole (DAPI) (Abbott Laboratories, Abbott Park, IL, USA). Slides were scored by fluorescence microscopy using an AxioImager Z1 microscope (Carl Zeiss, Göttingen, Germany) and photographed images were arranged with Photoshop. For each sample, 100 cells were analyzed and the H2AX phosphorylation index was calculated as a percentage of γH2AX-positive cells
[26 (link)].
+ Open protocol
+ Expand
3

Exosomal miR-23a Internalization in Endothelial Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
The exosomes were isolated from the HGC-27 cells transfected miR-23a inhibitor, NC-inhibitor, miR-23a mimic or NC-mimic (exo-miR-23a inhibitor, exo-NC-inhibitor, exo-miR-23a mimic, or exo-NC-mimic). The PBS-suspended exosomes were mixed with carboxy fluorescein succinimidyl ester (CFSE) (C1031, Beyotime Institute of Biotechnology, Shanghai, China) at a volume ratio of 10:1, and incubated at 37°C for 10 min, which was then terminated with 100 μL stop buffer followed by incubation at 4°C for 30 min. After 3-min centrifugation at 14,000 rpm, the fluorescence-labeled exosomes resuspended in 200 μL PBS were then mixed with exosome-free medium. The exosomes were co-cultured with the 50–60% confluent HUVECs. HUVECs were incubated only with PBS as control. Meanwhile, exo-miR-23a mimic was co-cultured with HUVECs transfected with overexpressed (oe)-PTEN or oe-NC. After incubation in 24-well plates for 48 h, the nuclei of the HUVECs were stained with 4',6-diamidino-2-phenylindole (DAPI, Abbott, USA) and subsequently observed under a confocal microscope (FV10i, Olympus Optical Co., Ltd, Tokyo, Japan) to determine the internalization of exosomes derived from the GC cells. Finally, the expression of miR-23a was quantified by RT-qPCR.
+ Open protocol
+ Expand
4

Immunostaining of Focal Adhesions

Check if the same lab product or an alternative is used in the 5 most similar protocols
Glass 8-well Millicel EZslides (Merck Millipore, Ireland) were covered in fibronectin (10 μg/ml, R&D). Fixated cells were blocked and incubated with primary antibodies [αSMA and active ITGA5 (SNAKA51, Millipore, USA)] overnight. Slides were incubated with secondary fluorescent antibodies (Bethyl Laboratories, USA). 4',6-diamidino-2-phenylindole (DAPI) (1000 ng/ml, Abbott, USA) was used for nuclei staining. Actin fibers were stained using Phalloidin-Fluorescein isothiocyanate (FITC) (Tocris Biosciences). Confocal images were taken with a Nikon Ti2E microscope equipped with a Yokogawa W1 spinning disk system and a Plan Apo 60x oil NA1.4 objective using a 405 nm and 561 nm laser. Images were analyzed using Fiji.
+ Open protocol
+ Expand
5

Fluorescence In Situ Hybridization Assay

Check if the same lab product or an alternative is used in the 5 most similar protocols
Four-micron tissue microarray (TMA) or whole tissue sections were mounted on standard glass slides and baked at 60°C for at least two hours, then de-paraffinized and digested using methods previously described (25 (link)). The following DNA probes were co-hybridized: CDK4 (labeled in red; Empire Genomics), which maps to 12q14.1; CEP2 (labeled in aqua; Empire Genomics); and, CEP12 (labeled in green; Abbott Molecular/Vysis, Inc.). Final probe concentrations and hybridization conditions followed manufacturer’s recommendations. Tissue sections and probes were co-denatured, hybridized at least 16 hrs at 37°C in a darkened humid chamber, washed in 2X SSC at 70°C for 10 min, rinsed in room temperature 2X SSC, and counterstained with DAPI (4′,6-diamidino-2-phenylindole, Abbott Molecular/Vysis, Inc.). Slides were imaged using an Olympus BX51 fluorescence microscope. Individual images were captured using an Applied Imaging system running CytoVision Genus version 3.9.
+ Open protocol
+ Expand
6

Break-apart FISH Assay for Sarcoma Diagnosis

Check if the same lab product or an alternative is used in the 5 most similar protocols
Break-apart FISH was performed on 4-μm FFPE whole tissue sections of 5 cases (2 MPNST, 1 dedifferentiated liposarcoma, 1 alveolar rhabdomyosarcoma, and 1 sarcomatoid mesothelioma), which were baked at 60°C for at least two hours then de-paraffinized and digested using methods described previously.21 (link) The Vysis LSI SS18 (Cen, SpectrumGreen), Vysis LSI SS18 (Tel, SpectrumOrange), and CEP18 (D18Z1, SpectrumAqua) probes were co-hybridized to tissue sections following manufacturer’s directions (Abbott Molecular/Vysis, Inc.). Tissues and probes were co-denatured at 80°C, hybridized at least 16 hours at 37°C in a darkened humid chamber, washed in 2X SSC at 71°C for two minutes, rinsed in room temperature 2X SSC, and counterstained with DAPI (4’,6-diamidino-2-phenylindole, Abbott Molecular/Vysis, Inc.). Slides were imaged using a Zeiss AX10 fluorescence microscope. Individual images were captured using an Applied Imaging system running CytoVision Genus version 7.5.
+ Open protocol
+ Expand
7

FISH Protocol for FFPE Tissue Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
FISH was performed on 5 micron formalin-fixed paraffin-embedded (FFPE) tissues, which were baked at 60°C for at least two hours, then de-paraffinized and digested using methods described previously (55 (link)). See supplemental experimental procedures for probes used in this study. Tissue sections and probes were co-denatured, hybridized at least 16 hrs at 37°C in a darkened humid chamber, washed in 2X SSC at 70°C for 10 min, rinsed in room temperature 2X SSC, and counterstained with DAPI (4′,6-diamidino-2-phenylindole, Abbott Molecular/Vysis, Inc.). Slides were imaged using an Olympus BX51 fluorescence microscope. Individual images were captured using an Applied Imaging system running CytoVision Genus version 3.9 and all aberrations detected by FISH were reviewed and confirmed by a cytogeneticist (AHL).
+ 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!