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7 protocols using mmp 2

1

Cell line authentication and antibody validation

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C4-2, HEK293, Phoenix and 22Rv1 cell lines were purchased from ATCC. AURKA, Actin and YBX1 antibodies were bought from Santa Cruz Biotech (Santa Cruz, CA, USA). N-cadherin, CD44, Slug and Snail antibodies were bought from One World Lab (San Diego, CA, USA). E-cadherin, MMP-2 and Vimentin antibodies were obtained from Bioss (Woburn, MA, USA). All validated antibodies were used at 1-1000 dilution. Details of antibodies are provided in Supplementary Table S1.
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2

Western Blot Analysis of Signaling Pathways

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After culturing the transfected SK-RG cells for 48 hours, the total protein was extracted, the protein concentration was measured, and the loading amount was calculated. The total protein was separated by 6%-15% sodium dodecyl sulfate-polyacrylamide gel and transferred on a PVDF membrane, then blocked in 1×TBST solution of 5% nonfat dry milk for 2 h. Incubation was then performed with antibodies against mTOR (1:1000, Proteintech), p-S6K (1:1000, Proteintech), p-mTOR, P27(1:500; Bioworlde), cyclin D1 (1:500; Bioworlde), MMP9 (1:1000, Boster), MMP2 (1:1000, Bioss) and β-actin (1:1000, ZSGB-Bio). Added horseradish peroxidase-conjugated goat anti-rabbit antibody or goat anti-mouse antibody, and react at room temperature for 2 h. After developing with the luminescent agent, the gel imaging system took pictures, and the protein bands were analyzed in grayscale using Image J.
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3

Tumor Protein Analysis by Western Blot

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On day 21 post implantation, animals were euthanized, tumor tissue was processed and western blots were performed as previously described [13 (link)]. Protein concentrations were determined using the Pierce BCA protein assay kit (Thermo Scientific, Rockford, IL, USA). Primary antibodies included CA IX (1:1000; Proteintech, Chicago, IL), HIF-1α (1:500; Bioss, Woburn, MA), NF-κB (1:1000; Cell Signaling Technology), phosphorylated NF-κB (p-NF-κB; 1:1000; Cell Signaling Technology), CD31 (1:5000; Novus Biologicals, Littleton, CO), VEGF (1:1000; Santa Cruz Biotechnology, Dallas, TX), VEGF receptor 2 (VEGFR2; 1:5000; Novus Biologicals), MMP-2 (1:500; Bioss), MMP-9 (1:600; Novus Biologicals), Vimentin (1:200, Santa Cruz Biotechnology), zona occudins-1 (ZO-1; 1:200; Biorbyt, Cambridge, UK), Occludin (1:40; Biorbyt), Aquaporin-1 (1:1000; Abcam, Cambridge, UK) and Aquaporin-4 (1:1000; Abcam), and β-actin (1:6000; Abcam). Densitometry was used to determine the ratio of the target to β-actin (VisionWorks LS 7.1 software; UVP, Upland, CA).
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4

Western Blot Analysis of EMT and PI3K/Akt Pathway Markers

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Cells were lysed in RIPA lysis buffer (Beyotime Biotechnology, China) containing protease inhibitor cocktail. BCA protein quantification kit (Vazame, China) was used to detect the protein concentration. Equal amounts of protein were separated by SDS-PAGE and then transferred to PVDF membrane. After blocking with 5% BSA for 1 h, the membranes were incubated overnight at 4 °C with the indicated primary antibodies, followed by incubation with HRP-labeled secondary antibody for 1 h at room temperature. Primary antibodies were purchased from Cell Signaling Technology (E-cadherin, 1:1000, #3195; N-Cadherin, 1:1000, #13,116; Snail, 1:1000, #3879; MMP-2, 1:1000, #40,994; MMP-9, 1:1000, #13,667; Phospho-Akt, 1:1000, #4060; Akt, 1:1000, #4691; PI3K, 1:1000, #3011), Bioss (Phospho-PI3KCA, 1:1000, bs-5570R), Proteintech (TEAD4, 1:2000, 12,418–1-AP; Vimentin, 1:1000, 10,366–1-AP), and ImmunoWay (GAPDH, 1:10,000, YM3209). Secondary antibodies were purchased from Elabscience (Goat Anti-Rabbit IgG (H + L), 1:10,000, E-AB-1003; Goat Anti-Mouse IgG(H + L), 1:10,000, E-AB-1001).
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5

Western Blot Analysis of Liver Proteins

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Total proteins were extracted from liver tissue and cells using radio-immunoprecipitation buffer (RIPA). 80 μg of sample proteins were separated by in 10 or 12% SDS-PAGE gel, and transferred onto PVDF membranes (Millipore Corporation, Billerica, MA, USA) by electrobloting. The membranes were blocked for 60 min in a buffer containing 0.1% Tween-20 and 5% milk. The membranes were incubated overnight at 4 °C with primary antibodies against α-SMA, Col-1, MMP-2 (Bioss, Beijing, China), Smad7 (Novus Biologicals, Littleton, USA), Wnt1 (Abcam, Cambridge, MA, USA), Wnt5a (Novus Biologicals, Littleton, USA), β-catenin, GSK-3β (ProteinTech Group, Chicago, USA), NFAT5 (Santa Cruz, CA, USA). Immune complexes were detected with horseradish peroxidase (HRP)-conjugated secondary antibodies (ProteinTech Group, Chicago, USA), and then were visualized by ECL method. β-actin (Boster, Wuhan, China) was served as a loading control. Intensity of each protein band of interest was quantified by densitometry using Quantity One 4.6.3 software (Bio Rad).
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6

Immunofluorescence Staining of Key Markers

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A total of 3×105 cells were seeded on glass coverslips overnight and then fixed for 15 min with 4% paraformaldehyde. Blocking buffer (5% normal serum and 0.5% Triton™ X−100) was used for blocking for 1 h. Next, coverslips were incubated with specific primary antibodies overnight at 4°C. The primary antibodies were as follows: KLF4 (#BS90773, BioWorld, Nanjing, China), BMI1 (#10832-1-AP, Proteintech, Rosemont, IL, USA), MMP2 (#bs-0412R, Bioss, London, UK), MMP9 (#bs-4593R, Bioss, London, UK), Ki67 (#ab15580, Cambridge, UK). The cells were then incubated in fluorochrome−conjugated secondary antibody and stained with DAPI (Cell Signalling Technology, Danvers, MA, USA), and slides were examined under a slide scanner.
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7

Protein Analysis of EMT Markers

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Cells were harvested, together with the calculation of protein concentration through the use of a protein assay kit (Bio-Rad Laboratories, Inc., Hercules, CA, USA). Three days subsequent to the transfection with the miR-3147 mimics or siRNA-Smad4, the total protein was obtained (6 (link)). In respect of immunoblotting, the membrane was incubated with antibodies against E-cadherin (1:500, ab15148; Abcam, Cambridge, UK), N-cadherin (1:500, ab18203; Abcam), Vimentin (1:500, ab24525; Abcam), matrix metalloproteinase 2 (MMP-2; 1:300; BIOSS, Beijing, China), MMP-9 (1:300; BIOSS) or GAPDH (1:10,000, ab181602; Abcam). Rinsing of the membrane was performed, followed by incubation with anti-mouse or anti-rabbit IgG (H+L)-HRP conjugate (1:10,000; Invitrogen; Thermo Fisher Scientific, Inc.) antibody. We made use of the Image J software (National Institute of Health, Bethesda, MD, USA) in order to analyze the results.
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