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15 protocols using ab184665

1

Proteomic Analysis of Ovarian Tissues

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Ovarian tissues were homogenized in RIPA buffer (Thermo Scientific, Rockford, IL, USA) and centrifuged at 12,000 × g for 20 min. The protein content of samples was determined using a BCA protein assay kit (Bio-Rad Laboratories, Carlsbad, CA). Aliquots of each sample were separated via 12% SDS-PAGE and then transferred onto a nitrocellulose membrane, which was blocked with non-fat milk for 1 h. The membranes were probed overnight at 4°C with antibodies against the following proteins: HO-1 (ab68477; 1:2000; Abcam); NRF2 (ab92946; 1:3000; Abcam), TNF-α (SAB5700627; 1:1000; Sigma), IL-1β (AB1413-I; 1:4000; Sigma), IL-6 (SAB5700632; 1:2000; Sigma); MVH (ab13840; 1:3000; Abcam); OCT4 (ab184665; 1:2000; Abcam); Ki67 (ab16667; 1:4000; Abcam), PCNA (mAb2586; 1:3000; Cell Signaling Technology), ATM (ab199726; 1:2000; Abcam), RAD51 (ab176458; 1:3000; Abcam), and GAPDH (ab181602; 1:3000; Abcam). After washing with PBST buffer solution three times, the membranes were incubated with appropriate horseradish peroxidase-conjugated secondary antibodies (Beyotime Institute of Biotechnology) for 1 h at 25 °C, and the protein bands were visualized using an enhanced chemiluminescence kit (Thermo Fisher Scientific Inc.). The blots were scanned and normalized to GAPDH for quantification.
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2

Immunoprecipitation and Immunoblotting of OCT4

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For IP, anti-OCT4 antibody (ab184665, Abcam, UK) was incubated with protein A/G beads (Millipore, USA) at room temperature for 1 h. Next, the supernatant of cell lysis was incubated with beads conjugated with anti-OCT4 at 4 °C overnight, followed by elution with loading buffer at 98 °C for 5 min, and then subjected to IB. IB was performed in accordance with our previous study (Zhu et al. 2020a (link)). The protein blots were visualized in ChemiDoc XRS (Bio-Rad, USA) using chemiluminescence (NCM Biotech; China). The details of primary antibodies and secondary antibodies were listed in Additional file 5: Table S5. The intensity of protein blots quantified by ImageJ software was normalized to that of GAPDH, which was expressed as the ratio of the control group.
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3

Immunofluorescence Assay for Pluripotency Markers

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Cells were washed twice with PBS on 96-well plate, fixed in 4% polyoxymethylene for 20 min at room temperature, permeabilized with 0.5% Triton X-100 for 15 min and then blocked with 1% BSA -TBST for 30 min. Cells were incubated with primary antibodies (OCT4, ab184665, Abcam, USA; MVH, ab270534, Abcam, USA) overnight at 4 °C. The fluorescence-labeled secondary antibody (A-11004, A32731, Thermo, USA) was incubated for 1 h at room temperature. Nuclei were stained by DAPI (D1306, Invitrogen, USA) for 10 min. Images were examined with an Olympus microscope(IX73, Olympus, Japan).
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4

Western Blot Analysis of Stem Cell Markers

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Western blot was conducted as previously described [19 (link)]. The proteins were extracted from the breast cancer specimens using RIPA lysis buffer (Beyotime, Shanghai, China). BCA Protein Assay Kit was used to evaluate the protein concentration. The protein was separated from the sample buffer using SDS-PAGE, transferred into PVDF membranes and blocked with 5% skim milk for 1 h. The primary antibodies were provided by Abcam Company, including anti-Nanog (ab109250, 1:1000), anti-Oct4 (ab184665, 1:1000), anti-SOX2 (ab137385, 1:1000). The member was incubated at 4 °C overnight and then incubated with horseradish peroxidase-conjugated secondary antibodies. Immunoblots were visualized by ECL detection system (Pierce, Rockford, IL, USA).
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5

Immunostaining Protocol for Circulating Tumor Cells

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CTCs were fixed with 4% paraformaldehyde (Santa Cruz Biotechnology) for 10 min and permeabilized with PBS containing 0.5% Triton X-100 for 5 min at RT. Nonspecific binding was blocked with 5% goat serum in PBS containing 0.1% Triton X-100 for 30 min at RT. Immunostaining was performed at 4 °C overnight with primary antibodies, followed by fluorescence-conjugated secondary antibodies at a concentration of 5 μg/mL (Thermo Fisher Scientific). Images were captured with the Zeiss LSM710 confocal microscope equipped with 64× NA 1.4 oil DIC (Carl Zeiss). Antibodies used for staining were as follows: rabbit anti-ALDH1 (bs-10162R, Bioss, 1:200), mouse anti-pan-CK (4545, Cell Signaling Technology, 1:3000), rabbit anti-EpCAM (ab71916, Abcam, 1:200), rabbit anti-NANOG (ab21624, Abcam, 1:800), mouse anti-OCT4 (ab184665, Abcam, 1:500), rat anti-CD44 (ab40983, Abcam, 1:400), mouse anti-CD45 (ab33533, Abcam, 1:200), goat anti-rabbit (A-11037), goat anti-rabbit (A-110340), and goat anti-mouse (A-11032).
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6

Immunofluorescence Colocalization of SOX15 and OCT4

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Immunofluorescence staining was performed on formalin-fixed, paraffin-embedded tissue. Heat Antigen Retrieval was performed in 10mM Sodium Citrate Buffer pH6. Nonspecific background staining was blocked by incubating in 0.05% fish skin in PBS. The rabbit polyclonal anti-SOX15 antibody (Abcam, ab55960, Cambridge, UK) and the mouse monoclonal anti-OCT4 antibody (Abcam, ab184665, Cambridge, UK) were applied at a dilution of 1:100 and incubated over night at 4°C. Secondary antibodies from Alexa (life technologies CA, USA, goat anti-mouse IgG: Fluor 546 (red), A-11018, goat anti-rabbit IgG, Fluor 488 (green), A11070) were diluted 1:1000 with 0.05% fish skin and incubated with 1μg/ml DAPI at room temperature for one hour. The slides were mounted with Fluoromount-G (Southern Biotech 0100-01, AL, USA). Colocalization of SOX15 and OCT4 was analyzed at 630x and 945x magnification using a Zeiss LSM 700 photomicroscope and LSM software (Zeiss, Göttingen, Germany).
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7

Protein Extraction and Western Blot Analysis

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Total protein extraction was carried out with a RIPA lysis buffer (Beyotime Biotechnology). The protein concentration was determined by the BCA Protein Assay Kit (Pierce Biotechnology). Equivalent proteins were electrophoresed on 10% SDS‐PAGE gel and subsequently transferred to polyvinylidene fluoride (PVDF) membranes. Thereafter, membranes were blocked in 5% skim milk, followed by incubation with primary antibody at 4°C overnight, probed by appropriate secondary antibody at room temperature for 1 hour and then visualized with chemiluminescence molecular imaging system (Bio‐Rad). The following primary antibodies were applied: anti‐USF1 ((ab125020; Abcam), anti‐E‐cadherin (sc‐8426; Santa Cruz), anti‐vimentin (sc‐6260; Santa Cruz), β‐actin (sc‐7963; Santa Cruz), anti‐Nanog (ab109250; Abcam), anti‐SOX2 (ab137385; Abcam) and anti‐OCT4 (ab184665; Abcam). β‐actin served as the loading control.
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8

Immunofluorescence Staining of Cell Markers

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Cells were fixed with 4% paraformaldehyde for 10 min and permeabilized with 0.5% Triton X-100 for 5 min at room temperature. Nonspecific binding was blocked with 5% goat serum in PBST (0.1% Triton X-100 in PBS) for 30 min at room temperature. Immunostaining was performed at 4 °C overnight with primary antibodies, followed by fluorescence-conjugated secondary antibodies (Invitrogen). Images were captured with Zeiss LSM710 confocal microscope at CSA Optical Imaging Facility. Primary antibodies used in immunofluorescence staining were as follows: mouse anti-γH2AX (1:400, 05–636, Millipore), mouse anti-pan-CK (1:3000, 4545, Cell Signaling Technology), rabbit anti-EpCAM (1:200, ab71916, Abcam), mouse anti-CD45 (1:200, ab33533, Abcam), rat anti-CD44 (1:400, ab40983, Abcam), rabbit anti-ALDH1 (1:200, bs-10162R, Bioss), rabbit anti-NANOG (1:800, ab21624, Abcam), mouse anti-OCT4 (1:500, ab184665, Abcam).
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9

Western Blot Analysis of Lung Cancer Markers

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Proteins extracted from fresh tissues (lung adenocarcinoma cancer tissue and paracancerous tissues) and cells were subjected to 10% sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and then transferred onto Immobilon-P Membrane (IPVH100010–26.5*3.75, Millipore). The membranes were blocked with tris-buffered saline with Tween 20 containing 5% non-fat milk for 2.5 h at room temperature. After washing by TBST, and followed by incubation with rabbit polyclonal anti-CD133 (1:1000) (ab19898, Abcam), mouse monoclonal anti-OCT4 antibody (1:1000) (ab184665, Abcam), rabbit polyclonal anti-XPC antibody (1:1000) (ab155025, Abcam), rabbit monoclonal anti-GAPDH antibody (1:1000) (#5174, Cell Signaling Technology) rabbit monoclonal anti-β-Actin antibody (1:1000) (#4970,Cell Signaling Technology) overnight at 4°C. The following day, the membranes were incubated with secondary goat anti-rabbit H&L (HRP) (ab6721, Abcam) at room temperature for 2 h. Protein bands were developed using the ECL Western blotting Substrate (PE0010, Solarbio) for about 10 s, and then visualized on the Western blotting detection system (Bio-Rad, United States).
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10

Comprehensive Stem Cell Marker Analysis

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The following primary antibodies were used in the study including anti-CXCR4 (ab124824, AbCam), anti-TRAIL (AF1121, R&D), anti-c-Kit (AF1356, Novus Biological), anti-CD47 (ab175388, Abcam), anti-Fasl (ab15285, Abcam), anti-PDL1 (NBP1-76769, Novus Biological), anti-CD4 (ab183685, Abcam), anti-SSEA1 (ab16285, Abcam), anti-Oct4 (ab184665, Abcam), anti-Sox2 (MAB2018R-100, R&D), anti-Nanos3 (ab70001, Abcam), anti-Ifitm3 (ab109429, Abcam), anti-Stellar (Invitrogen, PA5-34601), anti-PRDM14 (ab187881, Abcam), anti-Vasa (ab27591, Abcam), anti-DAZL (NB100-2437, Novus biologicals), anti-SMAD2 (ab33875, Abcam).
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