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304 protocols using mmp 9

1

Quantitative Immunoblotting of Lung Cell Markers

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The levels of ITGαV (Santa Cruz. Cat. Sc-10729; dilution 1:200), fibronectin (Santa Cruz. Cat. Sc-80205; dilution 1:1000), vimentin (Santa Cruz. Cat. Sc-373717; dilution 1:1000) and MMP-9 (Santa Cruz Cat. SC-21733; dilution 1:200) were measured in A549 lysates by immunoblotting using denaturing polyacrylamide gels at 12%. The same proteins were measured in MLE-12 and RLE-6TN lysates: vimentin (Abcam, Cat. Ab92547; dilution 1:200), fibronectin (Abcam, ab45688; dilution 1:200), ITGαV (Santa Cruz, Cat. sc-10729; dilution 1:200), and MMP-9 (Santa Cruz, Cat. sc-6840; dilution 1:200). Gels were transferred to nitrocellulose membrane (Osmonics, Westboroug, MA) and blocked with fat free milk at 5% in TBS/0.1% Tween. Membranes were incubated with primary antibody specific for each protein overnight. The secondary antibody was used coupled to peroxidase (anti-rabbit, anti-goat or anti-mouse, Zymed, CA). Proteins were visualized by chemiluminescence (Pierce, USA) and normalized against beta-tubulin. (Biolegend Cat. 622102).
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2

Protein Expression Analysis in ASMCs

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ASMCs were homogenized using RIPA lysis buffer (Thermo) to obtain total proteins. The proteins were then quantified and separated on 10% SDS-PAGE gel, shifted to polyvinylidene difluoride (PVDF) membranes (Millipore, USA), blocked in 5% skim milk, hatched in specific primary antibodies including IGF1R (1:2000, Santa Cruz, USA), MMP-9 (1:1000, Santa Cruz), MMP-9 (1:1000, Santa Cruz, USA), Bax (1:1000, Abcam, USA), Bcl-2 (1:1000, Abcam, USA), cleaved caspase-3 (1:1000, Abcam, USA), and GAPDH (1:1000, Proteintech, China) at 4°C overnight. Next day, the membranes were visualized after incubation with HRP-conjugated secondary antibodies (Proteintech, China) and ECL solution (Millipore).
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3

Immunohistochemical Analysis of Tissue Markers

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Tissues were fixed in 4% paraformaldehyde for at least 24 hours, dehydrated and paraffin embedded. Sections were cut at 5 μm from representative formalin‐fixed, paraffin wax‐embedded blocks and floated onto positively charged slides (SuperFrost Plus; Menzel‐Glaser, Portsmouth, NH, USA). The slides were dewaxed in xylene and rehydrated through graded ethanol. Histological sections were incubated with primary goat antibodies against Ki67, VEGF, MMP9 and TSP‐1 (Santa Cruz Biotechnology, Dallas, TX, USA) overnight at 4°C. Sections were washed in PBS and incubated with FITC‐conjugated (1:200, Proteintech, Chicago, IL, USA) goat anti‐rabbit IgG for 1 hour. Sections were then counterstained with DAPI for 10 minutes. The images were acquired with a microscope (Olympus). The staining intensity and distribution was graded, and the immunoreactive score was calculated as intensity of the staining multiplied by the percentage of positive distribution which has been described in our previous study.18
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4

Investigating Cell Signaling Pathways

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DMEM, fetal bovine serum (FBS), and phosphate buffered saline (PBS) were purchased from Gibco (Grand Island, NY). Primary antibodies for SCAI, MMP-9, E-cadherin, and β-actin were obtained from Santa Cruz Biotechnology Co., Ltd. (Santa Cruz, CA, U.S.).
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5

Quantifying Molecular Signaling Pathways

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We used antibodies against Src, p-Src, Snail, TGFβ, Lrp5, Runx2 (Cell Signaling, Danvers, MA, USA), DRD1, DRD2 (Abcam, Cambridge, MA, USA), MMP9 (Santa Cruz Biotechnology, Dallas, Texas, USA), TH (Novus Biologicals, Centennial, CO, USA), CCN4 (R&D Systems, Minneapolis, MN, USA), and β-actin (Sigma). Protein levels were assayed using a SuperSignal West Femto maximum sensitivity substrate (Thermo-Fisher). The level of dopamine in the serum was determined using an ELISA kit (MyBioSource, San Diego, CA, USA). We also employed a mouse XL cytokine array (R&D Systems, Minneapolis, MN, USA) and determined the expression of 111 cytokines and chemokines in mouse serum samples.
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6

Quantifying Protein Expression and Signaling

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Antibodies against CaMKIIα, ERK1/2, phospho (p)-ERK1/2, p38, p-p38, MMP2, MMP9, TIMP-1 and GAPDH were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, United States). KN-93 (2-[N-(2-Hydroxyethyl)]-N-(4-methoxybenzene-sulfonyl)] amino-N-(4- chlorocinnamyl)-N-methylbenzylamine), KN-92 (2-[N-(4-Methoxybenzenesulfonyl)] amino-N-(4-chlorocinnamyl)-N-methylbenzylamine), PD98059 and SB203580 were obtained from Calbiochem (La Jolla, CA, United States). Other chemicals of the highest purity were purchased from Sigma (St. Louis, MO, United States).
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7

Pathway Analysis of Protein Expression

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Cells were lyzed with RIPA buffer and total 30 μg of protein was loaded on 6–12% SDS-PAGE. After transferring to PVDF membranes, each membrane was blotted with the appropriate antibodies. Anti-PARP, -p-EGFR, -EGFR, -p-STAT3, -STAT3, -p-JAK1, -p-JAK2, -p-AKT, and -AKT antibodies were purchased from Cell Signaling (Danvers, MA, USA). Anti-p-SRC, -SRC, -p-ERK1/2, -ERK1/2, -VEGF, -Cyclin D, -MMP-9, -Survivin, and -Tubulin were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Immunofluorescence assays for p-STAT3 nuclear translocation in MDA-MB-231 cells were done with anti-p-STAT3 antibody and anti-Alexa Fluor-488 antibody (Invitrogen, Eugene, OR, USA). For the counter staining, TOPRO-3 (Invitrogen, Eugene, OR, USA) was used to stain the nucleus. Images were obtained with Olympus FV10i Self-Contained Confocal Laser System.
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8

Immunoblot Analysis of Apoptosis Markers

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Immunoblot analyses were performed as described previously [10 (link)]. Antibodies specific for MMP9 (Santa Cruz Biotechnology, Inc., Dallas, TX, USA; sc-6841), Bid (Cell Signaling Technology, Boston, MA, USA, #2002), cleaved-PARP (Cell Signaling, #5625), cleaved-caspase 3 (Cell Signaling, #9664), and GAPDH (Santa Cruz; sc-32233) were used. Immunoreactive proteins were detected by chemiluminescence using X-ray films.
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9

Immunoblot Analysis of Cell Signaling

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The immunoblot procedure was performed as described previously [14 (link)]. Antibodies specific for cyclin E, CDK2, CDK4, fascin, MMP-9, vimentin, and Ub (Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), cyclin D, (Abcam, San Francisco, CA, USA), N-cadherin (Thermo Fisher Scientific Inc.), and GAPDH (Merck Millipore, Billerica, MA, USA) were employed. Band intensities were calculated using Image Gauge software (Fujifilm, Tokyo, Japan). The intensities of target gene expression were normalized to GAPDH signals for lysate and fascin signals for supernatant proteins.
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10

Immunohistochemical Analysis of Tumor Markers

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Immunohistochemistry was performed to test target proteins expression in samples from clinical patients and tumour xenographs by standard protocols. Briefly, paraffin sections (4 μm) were deparaffinized and rehydrated, and heat-induced antigen retrieval was conducted in sodium citrate buffer (10 mM, pH 6.0). Endogenous peroxidases were blocked by incubation in 0.3% H2O2. The sections were then incubated with primary antibodies against FMNL3 (Cat. #HPA023201; Sigma, Germany), E-cadherin (Cat. #3195 S; Cell Signaling, MA, USA), Vimentin (Cat. #5741 S; Cell Signaling) and MMP-9 (Cat. #sc-21733; Santa Cruz) at 4 °C overnight. Non-immune IgG was used as a negative control. Antigenic sites were visualized using a SP9000 and DAB kits (ZSGB-BIO, Beijing, China). The immunoreactive scores (IRS) of FMNL3, E-cadherin, Vimentin and MMP-9 were calculated as follows: 0, negative; 1, weak; 2, moderate; or 3, strong. The percentage of positive cells was scored as follows: 1, 0–9% positive cells; 2, 10–50% positive cells; and 3, >50% positive cells. The two scores were multiplied together and samples with a total IRS of 0, 1–3, 4–6 and 7–9 were considered as (−), (+), (++) and (+++), respectively.
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