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11 protocols using ab80261

1

Quantitative Western Blot Analysis of SOX4

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Total proteins were extracted from 786O and ACHN cells using radioimmunoprecipitation-assay buffer (Beyotime, Haimen, China) supplemented with a protease-inhibitor cocktail (Hoffman-La Roche) and then quantified using Bradford reagent (Sigma-Aldrich, St Louis, MO, USA). Then, the same amount of proteins (40 μg) was resolved by sodium dodecyl sulfate polyacrylamide-gel electrophoresis and transferred onto polyvinylidene difluoride membranes (Merck Millipore, Billerica, MA, USA). After immersion in 5% skimmed milk for 1 hour at room temperature, the membranes were incubated overnight at 4°C with appropriate primary antibodies against SOX4 (ab80261 1:500) and GAPDH (ab8245 1:2,000; Abcam, Cambridge, UK). Following probing with HRP-conjugated secondary antibody (ab205718 or ab6789 1:5,000; Abcam) for 1 hour at room temperature, specific protein bands were visualized using an electrochemiluminescence Western blotting substrate (Thermo Fisher Scientific).
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2

Epigenetic Regulation in Cell Differentiation

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ATRA (All-trans-retinoic acid), 5-aza-2-deoxycytidine (DAC), trichostatin A (TSA) and anti-PADI4 (P4874) were purchased from Sigma (St. Louis, MO). Cl-amidine was from Cayman Chemical Company in USA. pGL3-basic vector and Dual Luciferase Reporter Assay System were from Promega Corp. Antibody specific to SOX4 (ab80261), H3R17Me (Ab8284), H3Cit (Ab5103), DNMT1 (ab13537), DNMT3a (ab2850), DNMT3b (ab2851), Tubulin (ab126165), Lambin B (ab16048) and horseradish peroxidase coupled secondary antibodies were obtained from Abcam (Cambridge, MA, USA). Anti-GAPDH (sc-47724) and anti-PU.1 antibody (sc-365208) were from Santa Cruz Biotechnology Anti-human CD11b antibody (11–0113) was from eBiosciences in San Diego of USA.
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3

Western Blot Analysis of EMT Markers

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50 μg of protein samples from lysed cells went through 10% SDS-PAGE before transfer to nitrocellulose membranes. The membranes were blocked with skim milk for 2 h. Thereafter, the primary antibodies against SOX4 (1:1,000, catalog no. ab80261, Abcam, UK), E-cadherin (1:1,000, catalog no. ab76055, Abcam, UK), vimentin (1:1,000, catalog no. ab925475, Abcam, UK), fibronectin (1:1,000, catalog no. ab24135, Abcam, UK), CCT4 (1:1,000, catalog no. 21524-1-AP, Proteintech, IL, USA), and GAPDH (1:1,000, catalog no. ab1816025, Abcam, UK) were incubated with the membranes overnight, and horseradish peroxidase (HRP)-conjugated secondary antibodies were used for subsequent incubation. Immunocomplex visualization was enhanced using enhanced chemiluminescence (ECL) reagent (Applygen, Beijing, China).
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4

Western Blot Analysis of Apoptosis and EMT Markers

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Cell lysates were prepared with total protein extraction kit (Solarbio) on ice and the concentration of total protein was measured by using bicinchoninic acid protein assays kit (Beyotime). Proteins were mixed with loading buffer and subjected to the boiled water bath for 5 min, followed by separation through sodium dodecyl sulfate-polyacrylamide gel electrophoresis and membrane transfer using nitrocellulose membranes (Millipore, Billerica, MA, USA). Following the treatment of Western Blocking Buffer (Beyotime), the membranes were interacted with anti-B-cell lymphoma-2 (Bcl-2, ab196495, 1 : 2000 dilution, Abcam, Cambridge, MA, USA), anti-cleaved caspase 3 (c-caspase 3, ab2302, 1 : 1000 dilution, Abcam), anti-E-cadherin (ab15148, 1 : 500 dilution, Abcam), anti-matrix metalloprotein-9 (MMP-9, ab38898, 1 : 1000 dilution, Abcam), anti-SOX4 (ab80261, 1 : 1000 dilution, Abcam) or anti-GAPDH (ab9485, 1 : 3000 dilution, Abcam) as a loading control and corresponding secondary antibody. Enhanced chemiluminescence reagent (Yeasen Biotech, Shanghai, China) was used for the development of protein signals.
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5

Western Blot Analysis of Apoptosis Markers

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Radio-Immunoprecipitation Assay (RIPA) lysis buffer with cocktail, an effective protease inhibitor (HYK0010, MCE, USA), was used to collect total proteins from myocardial tissues or cells. Protein samples were separated by 15% sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) and then were transferred onto polyvinylidene fluoride (PVDF) membrane (88,518, Thermo, USA). The Primary antibodies including β-actin (sc-47,778, Santa Cruz Biotechnology, 1:1000), cleaved-Caspase 3 (9661, Cell Signaling Technology, 1:1000), cleaved-Caspase 9 (9501, Cell Signaling Technology, 1:1000), BCL2 associated X (Bax) (ab32503, ABcam, 1:1000) or SOX4 (ab80261, ABcam, 1:500) were added to probe specific protein on PVDF membrane. The bands of proteins were detected using Odyssey Infrared Imaging System (Gene Company Limited, Hongkong, China) [20 ].
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6

Western Blot Analysis of Cellular Proteins

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Cells were lysed by RIPA lysis buffer (Beyotime) to isolate proteins, and then protein concentrations were analyzed using the bicinchoninic acid (BCA) protein assay kit (Takara). Extracted proteins were separated by an SDS-PAGE minigel, and then transferred onto PVDF membranes. After blocking by 5% fat-free milk powder in TBST buffer, membranes were interacted with primary antibodies against SOX4 (ab80261, Abcam, Cambridge, MA, USA), PCNA (ab29, Abcam), Bax (ab32503, Abcam), Cleaved caspase 3 (ab2302, Abcam), Bcl-2 (ab692, Abcam), N-cadherin (ab18203, Abcam), Vimentin (ab92547, Abcam), E-cadherin (ab15148, Abcam), as well as GAPDH (ab181602, Abcam) at 4 °C overnight, followed by incubated with the HRP-conjugated secondary antibody (ab205781, Abcam). Finally, signal visualization was performed by ECL Substrates (Millipore, Billerica, MA, USA).
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7

Protein Extraction and Western Blot Analysis

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The total protein extracted from the cell lysate using RIPA buffer (Beyotime, Shanghai, China) was quantified by a BCA assay kit (Beyotime). After 10% sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE), the separated proteins were electrotransferred onto the polyvinylidene fluoride (PVDF) membrane (Millipore, Boston, MA). Subsequently, the membrane was blocked with 5% skimmed milk and probed with the following primary antibodies from Abcam (Cambridge, UK) rabbit anti-α-SMA (ab32575, 1:2500), rabbit anti-collagen I (ab34710, 1:2500), rabbit anti-SOX4 (ab80261, 1:1500), rabbit anti-DKK1 (ab93017, 1:1500), rabbit anti-β-actin (ab8226, 1:5000), rabbit anti-CD63 (ab134045, 1:1000), rabbit anti-CD81 (ab109201, 1:5000), rabbit anti-CD9 (ab92726, 1:1000), rabbit anti-Alix (ab88388, 1:1000), rabbit anti-TSG101 (ab125011, 1:1000), and rabbit anti-calnexin (ab92573, 1:20000) at 4 °C in the dark. Subsequently, the membrane was re-probed with horseradish peroxidase (HRP)-combined immunoglobulin G (IgG) antibodies (ab6721, 1:5000, Abcam) for 2 h followed by enhanced chemiluminescence (BB-3501, Ameshame, UK) for immunodetection. The protein bands were imaged and analyzed by the BIO-RAD imaging system (California).
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8

Western Blot Protocol for Protein Detection

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Proteins were separated by 10% SDS‐polyacrylamide gel electrophoresis, then transferred to Hybond membranes. We blocked membrances for 1.5 hours at room temperature using 5% fat‐free. Then, primary antibodies purchased from Abcam, including SOX4 (ab80261, 1:1000) and β‐actin (ab8227, 1:5000) were incubated overnight at 4°C. And then, the membrane was washed three times with TBST and the secondary antibodies were added for 1 hour at room temperature. Finally, protein was visualized using an enhanced chemiluminescence system and visualized after X‐ray film exposure.
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9

Immunohistochemical Analysis of SOX4 in Melanoma

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Malignant melanoma tissue microarray was purchased from US Biomax (Rockville, MD), which contained 18, 62, and 20 cases of melanocytic nevus, primary melanoma, and metastatic melanoma, respectively. Detailed information can be viewed at http://www. biomax.us/tissue-arrays/Melanoma/ME1004e. Tissue microarray staining was performed by standard immunohistochemistry procedures. The slide was incubated overnight using anti-SOX4 antibody ab80261 (polyclonal rabbit IgG, Abcam, Cambridge), which was used at a dilution of 1:100. Mayer's hematoxylin was used for nuclear counter staining. The number of positively stained cells and intensity of positive staining on melanocytic cells were independently scored by two pathologists in a blinded manner. The extensional immunoreactivity score standard was used as follows: (i) the number of cells with positive staining ( 5%: 0; 6e25%: 1; 26e50%: 2; 51e75%: 3; and >75%: 4) and (ii) the staining intensity (colorless: 0; pallide-flavens: 1; yellow: 2; brown: 3). The staining grade was stratified as absent (0 score), weak (1e4 score), moderate (5e8 score), or strong (9e12 score).
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10

Immunohistochemical SOX4 Expression Analysis

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Immunohistochemical analysis of SOX4 was performed on tissue samples with the EnVision two-step method as previously described [30] . Conventional dewaxing and antigen microwave thermal retrieval was performed on four-micron-thick serial sections of formalin-fixed and paraffin-embedded tissues. The sections were incubated in a 3% hydrogen peroxide solution to block endogenous peroxidase activity. Primary antibodies (Rabbit anti-human SOX4 monoclonal antibody, 1:400; ab80261, Abcam, Cambridge, MA, USA) were applied to the sections at a refrigerated temperature of 4 o C overnight. Next, the sections were incubated for 20 minutes at room temperature. Polymerase auxiliary agent was then added and incubated for another 30 minutes at room temperature. Subsequently, secondary antibodies (Bioss, Beijing, China) were applied. The reaction product was visualized by incubation with the substrate/chromogen 3, 3′-diaminobenzidine (DAB, D8001, Sigma-Aldrich, St. Louis, MO, USA). Finally, the sections were counterstained with 0.02% Hematoxylin (H3136, Sigma-Aldrich, St. Louis, MO, USA).
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