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955 protocols using ab150077

1

Extracellular Matrix Analysis in Tooth Regeneration

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To examine extracellular matrix formation, three paraffin sections of each tooth (n = 4) on day 28 were immunostained using rabbit anti-periostin (ab92460, 1:500; abcam, Cambridge, UK) and goat anti-rabbit Alexa 488-conjugated secondary antibody (ab150077, 1:200; abcam) followed by counterstaining with Hoechst 33342. The positive area relative to the regenerated area was analyzed using a BZ9000 BIOREVO fluorescence microscope. The ratio of periostin-positive cells to Hoechst 33342-positive cells in the regenerated tissue on day 28 was calculated in three sections of each tooth (n = 4).
Furthermore, immunohistological analysis was performed using a rabbit anti-asporin/periodontal ligament-associated protein 1 (PLAP-1) (ab58741, 1:500; abcam) antibody with a goat anti-rabbit Alexa 488-conjugated secondary antibody (ab150077, 1:200; abcam) followed by counterstaining with Hoechst 33342. The positive area relative to the regenerated area was analyzed using a BZ9000 BIOREVO fluorescence microscope. The ratio of PLAP-1-positive cells to Hoechst 33342-positive cells in the regenerated tissue on day 28 was calculated in three sections of each tooth (n = 4).
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2

Immunofluorescent Staining of Sclerostin, β-Catenin, and Cx43 in MLO-Y4 Cells

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MLO‐Y4 cells were washed with PBS, fixed with 4% paraformaldehyde for 10 min and permeabilized with 0.1% Triton X‐100 for 5 min. Then, the cells were incubated with a rat anti‐mouse primary antibody against sclerostin (Abcam, 86465) mouse anti‐mouse primary antibody against β‐catenin (Proteintech, 66379) and rabbit anti‐mouse primary antibody against Cx43 (Abcam, ab11370) for 12 h at 4°C. Following three washes in PBST, the cells were incubated with goat anti‐rat Alexa Fluor®‐594 (Abcam, ab150160) secondary antibody, goat anti‐mouse Alexa Fluor®647 (Abcam, ab150115) secondary antibody and goat anti‐rabbit Alexa Fluor®488 (Abcam, ab150077) secondary antibody for 1 h in a dark room. Then cells were washed in PBST and nuclei were stained with DAPI for 5 min. These stained cells were observed under a laser‐scanning confocal microscope LSM880 (Zeiss) with an excitation wavelength of 594, 647 and 488 nm.
To detect cleaved‐caspase‐3, MLO‐Y4 cells were incubated with rabbit anti‐mouse primary antibody against cleaved‐caspase‐3 (CST, 9664T) and then incubated with goat anti‐rabbit Alexa Fluor®488 (Abcam, ab150077) secondary antibody. MLO‐Y4 cells were observed with an excitation wavelength of 488 nm.
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3

Western Blot Analysis of Fibrosis Markers

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Total proteins were extracted from tissues or fibroblasts using a Total Protein Extraction Kit (Sangon) according to the manufacturer’s instructions, and then the protein concentration was measured with an Enhanced BCA Protein Assay Kit (Beyotime). After the samples were denatured at 100°C for 10 min, equal amounts of protein extract were subjected to electrophoresis in 10% SDS-PAGE gels and then transferred to PVDF membranes (Biosharp). The membranes were blocked with 5% nonfat milk in PBS at room temperature for 1 h and then incubated overnight at 4°C with primary antibodies. Subsequently, the membranes were incubated with horseradish peroxidase-conjugated secondary antibodies for 1 h, and signals were detected using ECL western blotting Substrate (Tanon). The antibodies used were as follows: anti-uPA (PA5-34638, Invitrogen), anti-uPAR (ab103791, ab221680, Abcam), anti-PAI-1 (ab66705, Abcam), anti-Collagen I (ab260043, Abcam; bs-10423, Bioss), anti-α-SMA (ab124964, Abcam; 19245, Cell Signaling), anti-GAPDH (ab181602, Abcam), anti-SMAD1+SMAD5 polyclonal(bs-2973R, Bioss), anti-rabbit IgG (ab150077, Abcam), anti-phospho-SMAD1+SMAD5(Ser463+Ser465) polyclonal antibody (bs-3418R, Bioss), Anti-MADH7/SMAD7(Abcam, ab216428), Anti-PPAR Gamma (ser112) Polyclonal Antibody (Bioss, bs-3737R), anti-rabbit IgG (ab150077, Abcam), and anti-rabbit IgG (8889, Cell Signaling).
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4

Integrin and Focal Adhesion Analysis

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MDA-MB-231 cells (4 × 103 cells/well) were serum-starved overnight and then cultured in complete medium in 24-well plates for 18 hr. The cells were stained with anti-integrin β1 (00562-T46, SinoBio, China) and anti-TLN1 (26520–1-AP, Proteintech, Rosemont, IL) at final dilution of 1:200 overnight at 4°C, followed by Alexa Fluor 647 (ab150115, Abcam) and Alexa Fluor 488 (ab150077, Abcam) staining. Or stained with Alexa Fluor 488 (ab150077, Abcam)-labelled anti-vinculin (26520–1-AP, Proteintech, Rosemont, IL) with final dilution of 1:200 overnight at 4°C and washed with PBS. And stained with rhodamine-labelled phalloidin (CA1610, Solarbio, China) with final dilution of 1:200 for 1 hr at room temperature, followed by nuclear staining with DAPI (5 µg/ml, UE, D4054, China). The cells were imaged under a confocal microscope (Zeiss, LSM800). The cell length and numbers and sizes of FAs were measured for 20 randomly selected cells from each group in a blinded manner.
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5

Immunohistochemical Analysis of Tumor ECM

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Excised mouse or human tumors, or 3D spheroids, were washed with PBS and embedded in HistoPrep tissue embedding medium, snap-frozen in liquid nitrogen, and kept at −80 °C. Then the frozen tumor blocks were cut into 10 μm sections, fixed in acetone-methanol (1:1) mixture for 15 min, and air-dried at room temperature.
To determine ECM components, cryosections were immunostained with rabbit monoclonal anti-fibronectin primary antibodies (ab2413, Abcam), rabbit polyclonal anti-type I collagen antibodies (ab34710, Abcam), rabbit polyclonal anti-laminin antibodies (ab11575, Abcam), and sheep polyclonal anti-hyaluronic acid antibodies (ab53842, Abcam). Secondary antibodies were goat anti-rabbit IgG labeled with Alexa Fluor 488 (ab150077, Abcam) or donkey anti-sheep conjugated with Alexa Fluor 568 (ab150077, Abcam). Primary and secondary antibodies were applied at dilutions of 1:200 and 1:300, respectively.
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6

Immunofluorescence Analysis of Autophagy and Neuronal Markers

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Spinal cord tissue sections were treated with blocking solution (10% BSA and 2% Triton X-100, 1:1) for 2 h and incubated with primary antibodies (rabbit anti-rat LC3, ab128025, Abcam; mouse anti-rat NeuN, MAB377, Merck Millipore) at 4°C overnight. PC12 cells were fixed in 4% paraformaldehyde-0.1 mol/l PBS solution, treated with 10% normal goat serum for 1 h, and incubated with rabbit anti-rat LC3 (ab128025, Abcam) at 4°C overnight. After PBS washing, the sections were incubated with fluorescein-labeled secondary antibodies (goat anti-rabbit IgG Alexa Fluor 488, ab150077, Abcam; goat anti-mouse IgG Alexa Fluor 647, ab150115, Abcam) at room temperature in the dark for 2 h; the cells were incubated with goat anti-rabbit IgG Alexa Fluor 488 (ab150077, Abcam) at room temperature in the dark for 2 h. Nuclei were stained with DAPI. Images were captured using a fluorescence microscope (TCS SP2, Leica) and imported into ImageJ for processing. The channels were split, and the channels of the two target proteins were reserved. False colors were added to the two channels which were processed using the Coloc 2 plug-in.
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7

Immunofluorescent Staining of Activated Cells

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The cells were fixed with 4% paraformaldehyde (GBCBIO, G0528) for 30 min, washed with PBS 3 times, and then sealed at room temperature for 1 h in 0.1% Triton X-100 (Roche, 10789704001) and 5% BSA. The cells were incubated overnight with rabbit anti-GFAP, iNOS, and arginase 1 (Abcam; ab33922, ab178945, and ab96183) at 4°C, and the second antibody (Abcam; ab150077 and ab7481) was colocalized with FITC-labeled Alexa Fluor 488 or Alexa Fluor 555 on the next day (ab150077 and ab7481). The cells were incubated at room temperature for 1 h, stained with DAPI (Sigma, D9542) for 10 min, washed with PBS 3 times, and photographed using a confocal microscope.
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8

Subcellular Localization and Neuronal Viability

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To detect the subcellular distribution of the NF-kB p65 subunit, BV2 cells were seeded into a 24-well-plate and treated with LPS in the absence/presence of FGF21 for 6 h. Then, the cells were fixed with 4% paraformaldehyde. After permeabilization, cells were incubated with monoclonal rabbit anti-mouse NF-κB (p65) (1:200, 8242, Cell Signaling Technology, USA) at 4°C overnight, followed by incubation with the second antibody (Goat Anti-Rabbit IgG H&L; Alexa Fluor® 488, 1:500, ab150077, Abcam) and DAPI nuclei staining (0100-20, SBA), and then the immunoreactivity was visualized using a Nikon ECLIPSE 80i (Nikon, Japan).
The microtubule-associated protein 2 (MAP-2) staining was used to quantify the neuronal cell viability and membrane integrity. Briefly, SH-SY5Y cells were seeded into a 24-well-plate and then incubated with PBS, LPS-CM, and FGF21-CM for 24 h; 4% paraformaldehyde incubation for 20 min was used to fix the cells at 37°C. After permeabilization, cells were incubated with monoclonal rabbit anti-human MAP-2 (1:200, #8707S, Cell Signaling Technology) at 4°C overnight, followed by incubation with the second antibody (Goat Anti-Rabbit IgG, Alexa Fluor®, 488, 1:500, ab150077, Abcam, USA) and DAPI (0100-20, SBA) nuclei staining. The immunoreactivity was visualized using a Nikon ECLIPSE 80i (Nikon, Japan).
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9

Immunohistochemical Analysis of Caveolin-3

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6-μm-thick cut sections were taken from the deparaffinized process described above and rehydrated positively charged slides for immunohistochemical assay. For antigen retrieval, the sections were kept in Antigen Unmasking Solution (Vector Laboratories) in 90 °C for 20 min and incubated an with anti-cav-3 antibody (1:500 dilution) (ab150077, Abcam, Cambridge, UK) for one night. It was incubated all sections with secondary antibody Alexa 488 (1:1000 dilution) (ab2912, Abcam, Cambridge, UK) and Cy3-conjugated donkey anti-mouse IgG antibody (1:1000 dilution) (ab150077, Abcam, Cambridge, UK) during one h. Finally, the sections were examined using a Zeiss LSM 5 PASCAL laser scanning confocal microscope.
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10

Quantifying Autophagy in Cell Lines

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6‐10B and SUNE1 cells were seeded on 24‐well plates and fixed with 4% paraformaldehyde for 30 minutes, followed by 20 minutes incubation with 0.1% Triton X‐100. After being blocked with 5% BSA in PBS, cells were incubated with anti‐LAMP2 (1:1000, ab25631; Abcam) and anti‐LC3 (1:2000, #12741; Cell Signaling Technology) antibodies at 4°C overnight. Cells were then incubated with secondary antibodies (1:2000, ab150077 and ab150115; Abcam) for 2 hours at room temperature. Finally, signals were viewed with a fluorescence microscope (Olympus).
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