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10 protocols using 4 6 diamidino 2 phenylindole dapi c1002

1

Antibodies and Reagents for Cell Death Signaling

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Rabbit monoclonal anti-MLKL (#14993), anti-pMLKL (S358, used in western blot, #91689), anti-RIPK3 (#13526), anti-pRIPK3 (#91702) and rabbit polyclonal anti-ZBP1 (#60968), anti-cleaved Caspase-3 (#9661) were acquired from Cell Signaling Technology (Beverly, MA, USA). Rabbit polyclonal anti-IL-1β (A16288) was purchased from Abclonal (Wuhan, China). Rabbit polyclonal anti-CD45 (20103-1-AP), anti-α-tubulin (11224-1-AP) and mouse IgG (B900620) were obtained from Proteintech (Chicago, IL, USA). Rabbit monoclonal anti-pMLKL (S358, used in IFA, ab187091), anti-CD3 (ab237721), anti-CD4 (ab183685), anti-CD8 (ab217344) and anti-MPO (ab208670) were acquired from Abcam (Cambridge, UK). Rabbit monoclonal anti-pMLKL (S345, used in IHC, MA5-32752) was obtained from Thermo Fisher (Waltham, MA, USA). Rabbit polyclonal anti-CD68 (BA3638) was acquired from Boster Biological Technology (Wuhan, China). Mouse monoclonal antibody anti-Z-DNA (Ab00783-3.0) was purchased from Absolute antibody (Oxford, UK). Rabbit-anti-SARS-CoV-2-NP antibody and mouse-anti-SARS-CoV-2-NP (SR24) antibody were made in house. GSK872 (HY-101872) was acquired from MedChemExpress (New Jersey, USA). 4,6-diamidino-2-phenylindole (DAPI, C1002) was obtained from Beyotime (Shanghai, China).
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2

Immunofluorescent Staining of Tight Junctions

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Colorectal tissues were fixed in paraformaldehyde, L-Lysine and NaIO4 (Periodate-Lysine-Paraformaldeyde buffer) and then were washed, dehydrated in 20% sucrose and included in optimal cutting temperature (OCT) cryo-embedding medium. Sections (10 µm-thick) were rehydrated with 0.1 M Tris HCl pH 7.4 buffer, blocked with 0.3% Triton X-100, Tris-HCl buffer 0.1 M containing 2% FBS. Slides were incubated with anti-ZO-1 FITC (sc-33725, Santa Cruz) for 2 h. Nuclei were counterstained with 4’,6-diamidino-2-phenylindole (DAPI) (C1002, Beyotime) and mounted with Vectashield (Burrello et al., 2019 (link)). Images were captured under a fluorescence microscope.
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3

Characterization of CTSS and IgA in Kidney

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The levels of CTSS expression and IgA accumulation in the kidney tissues were characterized by immunofluorescence. Briefly, the kidney tissue sections (4 μm) were subjected to antigen retrieval process and probed with FITC-anti-IgAα (1:100, Abcam) or rabbit anti-CTSS (1:50, Santa Cruz, Biotech) overnight at 4°C. After being washed, the bound rabbit anti-CTSS antibodies were detected with Cy3-conjugated goat anti-rabbit IgG (1:200, Beyotime, China), followed by nuclearly stained with 4′,6-diamidino-2-phenylindole (DAPI, C1002, Beyotime). The immunofluorescent signals were observed under a fluorescent microscope (Nikon).
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4

Cardiomyocyte Death Assessment Protocol

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Human-induced pluripotent stem cell-derived cardiomyocytes were separated and placed in 6-well plates (Corning, New York, USA). The combined staining of α-actinin (ab137346, Abcam), immunoglobulin G (IgG) H&L (Alexa Fluor® 488) (ab150077, Abcam), and propidium iodide (PI) 1 μg/ml (ST511, Beyotime, Shanghai, China) was used to detect cardiomyocyte death. The nucleus was stained with 4′,6-diamidino-2-phenylindole (DAPI) (C1002, Beyotime, Shanghai China) and the dead cells were labeled with PI to pass through the damaged cell membrane. A Nikon A1R HD25 confocal microscope was used to capture images. The total number of cells in the PI-positive and five randomly selected fields was counted using ImageJ software by a researcher blinded to the treatment assignments. A manual pipeline (CellProfiler, Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard in Cambridge) was used to determine the cell surface area (22 (link)). Briefly, 5 to 6 random pictures were taken with 20X magnification and 150–200 cells/per condition were analyzed in order to determine cell size following the instructions of the software.
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5

Berberine's Chondroprotective Effects

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Berberine (PHR1502), tert-butyl hydroperoxide (TBHP) (458139), dimethyl sulphoxide (DMSO) (D2650), 3-methyladenine (3-MA) (M9281) and type II collagenases (1148090) were purchased from Sigma-Aldrich (St Louis, MO, USA). Cell-Counting Kit-8 (CCK-8) (CK04) was purchased from Dojindo (Kumamoto, Japan). Primary antibodies against Collagen II (ab34712), Aggrecan (ab3778), MMP-13 (ab39012), ADAMTS-5 (ab41037), Bax (ab32503), Bcl-2 (ab59348), Cytochrome C (ab90529), P62 (ab56416) and GAPDH (ab8245) were purchased from Abcam (Cambridge, MA, USA). LC3 (12741S), Beclin-1 (3495S), ATG7 (8558S) and Cleaved-caspase3 (9664S) antibodies were acquired from CST (Beverly, MA, USA). Dulbecco's modified Eagle's medium (DMEM)/F12 (11320082), and fetal bovine serum (FBS) (10099141) were purchased from Gibco (Grand Island, NY, USA). FITC-labeled and horseradish peroxidase-labeled secondary antibodies (BS10000, BS13278) were purchased from Bioworld (MN, USA). 4', 6-diamidino-2-phenylindole (DAPI) (C1002) was obtained from Beyotime (Shanghai, China).
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6

Cell Migration Assay Using Transwell

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Cells (2×103) were resuspended in 200μl of serum-free medium and seeded on the top chamber of the 8.0μm pore, 6.5mm polycarbonate transwell filters (Corning). The full medium (600μl) containing 10% FBS was added to the bottom chamber. The cells were allowed to migrate for 24h at 37°C in a humidified incubator with 5% CO2. The cells attached to the lower surface of membrane were fixed in 4% paraformaldehyde at room temperature for 30mins and stained with 4,6-diamidino-2-phenylindole (DAPI) (C1002, Beyotime Inst Biotech, China), and the number of cells on the lower surface of the filters was counted under the microscope. A total of 5 fields were counted for each transwell filter.
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7

MALAT1 Expression in Placental Tissues

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The FISH assay was performed in paraffin-embedded placental tissues. Carboxyfluorescein (FAM)-labeled, MALAT1-specific probes were designed and synthesized by Siwega (Wuhan, China), and the probe sequence was 5′-GATTCTGTGTTATGCCTGGTTAGGTATGAGC-3′. Briefly, paraffin-embedded tissues were de-waxed and rehydrated. After prehybridization in PBS, the tissues were hybridized overnight at 37°C in hybridization solution. Then, cell nuclei were counterstained with 4′,6-diamidino-2-phenylindole (DAPI; C1002; Beyotime, Jiangsu, China). Images were obtained using a fluorescence microscope (200× magnification; Nikon, Tokyo, Japan).
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8

In Vitro Cell Culture Protocol for Studying PEDV

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Porcine kidney epithelial cells (LLC-PK1) used in this study were cultured in modified Eagle's medium (MEM, Life Technologies, 11095098) with 10% fetal bovine serum (FBS, Gibco, 10,099,141) at 37°C in a humidified atmosphere of 5% CO2. Swine testis epithelial cells (ST) and African green monkey kidney epithelial cells (MARC-145) were grown in Dulbecco' Modified Eagle's Medium nutrient (DMEM, Sigma-Aldrich, D6429) with 10% FBS at 37°C with 5% CO2. Anti-STAT1 antibody (14994) and anti-Phospho-STAT1 antibody (9167) were purchased from Cell Signaling Technology (CST). Anti-ISG15 antibody (ab285367) was purchased from Abcam. Anti-β-actin antibody (60,008–1), Horseradish peroxidase (HRP)-conjugated anti-mouse IgG antibody (SA00001-1), and HRP-conjugated anti-rabbit IgG antibody (SA00001-2) were obtained from Proteintech Group. The monoclonal antibody (Mab) against PEDV N protein was made in our laboratory (49 (link)). 4' 6-diamidino-2-phenylindole (DAPI, C1002) was purchased from Beyotime. poly(I:C) LMW (low molecular weight) was obtained from In vivoGen.
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9

Immunofluorescence Analysis of Smooth Muscle Markers

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When the cells transfected with mimic control/miR-30c-5p mimic/inhibitor control/miR-30c-5p inhibitor were 70–80% confluent, they were fixed with 4% paraformaldehyde. Antibodies against SMαA (1:100), SM22α (1:250), SMMHC (1:50), and h1-calponin (1:150) were incubated with the fixed cells overnight at 4 °C followed by incubation with the fluorescent-labeled secondary antibody (SA00013-2/SA00013-4, Proteintech, Rosemont, IL, USA) for 1 h. The nuclei were stained with 4′,6-diamidino-2-phenylindole (DAPI: C1002, Beyotime, China) for 5 min before being photographed by immunofluorescence microscope and analyzed using Image J.
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10

Cardiomyocyte Isolation and Culture

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GT type A (V900863, 300 Bloom from porcine skin), PCL (440744, average Mw = 80,000 Da), acetic acid (HAc; 338826, ≥99.8%), and 2, 2, 2-trifluoroethanol (TFE; T63002, ≥99.0%) were purchased from Sigma Aldrich (United States) and were used as received without further purification. Dulbecco’s modified Eagle medium nutrient mix F12 (DMEM/F12, 11330033), fetal bovine serum (FBS; 10099-141C), penicillin-streptomycin (15140-122), and trypsin (25200-056) were purchased from Thermo Fisher Scientific (United States). Anti-cardiac troponin T (ab45932) and anti-vimentin (ab92547) primary antibodies were purchased from Abcam (United Kingdom). Anti-rabbit IgG fluorescent secondary antibody (4412S) was purchased from Cell Signaling Technology (United States). 4′, 6-Diamidino-2-phenylindole (DAPI; C1002) was purchased from Beyotime Biotechnology (China). The neonatal rat/mouse cardiomyocyte isolation kit (nc-6031) was purchased from Cellutron Life Technologies (United States). Live/dead cell viability assay kits (L3224) were purchased from Thermo Fisher Scientific (United States). Cell Counting Kit-8 (CCK-8; CK04) was purchased from Dojindo Laboratories (Kumamoto, Japan). A modified hematoxylin-eosin (H-E) staining kit (G1121) was purchased from Solarbio Technology (China).
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