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482 protocols using mmp 9

1

Investigating Inflammatory Mediators in Lung Injury

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The primary antibodies used for western blotting included: MMP9 (ab228402, Abcam, USA), β-actin (RM2001, Beijing Ray, Beijing, China).
The primary antibodies used for IHC included: S100A9 (ab242945, Abcam), Ly6G (ab238132, Abcam), CD11b (ab133357, Abcam), F4/80 (70,076 S, CST, Danvers, MA, USA), IL-1β (12,242 S, CST), MMP9 (ab228402, abcam).
The primary antibodies used for immunofluorescence (IF) included: CD11b (ab133357, Abcam), F4/80 (70,076 S, CST), IL-1β (12,242 S, CST), MMP9 (ab228402, abcam), SPC (ab211326, abcam).
The primary antibodies used for flow cytometry included: TruStain FcX anti-mouse CD16/CD32 antibody (Biolegend, 101,319), FITC anti-mouse/human CD11b (Biolgend, 101,205), PE/Cyanine7 anti-mouse Ly-6G (Biolegend, 127,617), Alexa Fluor 647 Rat anti-mouse S100A9 (BD Pharmingen, 565,833) and PE anti-mouse IL-1β (Thermo, 12-7114-80).
Other reagents included: Cultrex Basement Membrane Extract (R&D, Minneapolis, MN, USA); recombinant murine IL-1β (Peprotech, Rocky Hill, USA), murine SAA3 (General Biol, China); IKK 16, JNK-IN-7, Losmapimod and Ravoxertinib (MedChemExpress, Monmouth Junction, NJ, USA).
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2

Comprehensive Immunohistochemical Profiling of Tumor Samples

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Tissue microarray sections were antigen-retrieved, incubated with antibodies targeting MTAP (1:100, Proteintech), Ki-67 (1:200, abcam), MMP-9 (1:50, Epitomics), and CD31 (1:50, BD Pharmingen), and detected using the ChemMate EnVision kit. The cutoff value of < 10% cytoplasmic reactivity to define aberrant MTAP loss was previously described [22 (link)]. The scoring criteria of determining the levels of intratumoral microvessel density [18 (link)] and MMP-9 expression by H-score method [19 (link)] were as previously reported. Whole sections of xenografted specimens were stained with MTAP (1:50, Proteintech), cyclin D1 (1:100, Epitomics), cyclin E (1:20, Abcam), Ki-67 (1:200, abcam), MMP-9 (1:50, Epitomics), CD31 (1:50, BD Pharmingen), and TUNEL (Roche) for labeling apoptotic cells.
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3

Nitroxoline Inhibits Tumor Progression

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Nitroxoline was obtained from Jiangsu Asieris Pharmaceuticals, Co., Ltd. (Taizhou, Jiangsu, China) and was dissolved in phosphate-buffered saline (PBS). The following antibodies were used for Western blot analysis: N-cadherin (#13116, CST, Billerica, MA, USA), Slug (#9585, CST), MMP-2 (#87809, CST), MMP-9 (ab38898, Abcam, Cambridge, United Kingdom), β-actin (#4970, CST), Bcl-2 (#3498, CST), and cleaved caspase-3 (#9664, CST). The following antibodies were used for immunohistochemistry and flow cytometry: Ki-67 (#12202, CST), CD31 (ab28364, Abcam, Cambridge, United Kingdom), MMP-9 (ab38898, Abcam, Cambridge, United Kingdom), FITC-labeled anti-CD11b antibody (553310, BD Bioscience, San Jose, CA, USA), PE-labeled anti-Gr-1 (553128, BD Bioscience).
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4

Western Blot Analysis of Proteins

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The protein extract was dissolved in a cell lysis buffer containing 1% protease inhibitor. Protein concentration of the homogenized lysates was measured using a BCA method (Sangon, Shanghai, China). Equal amount of protein was separated by SDS-PAGE and then transferred to PVDF membranes (Millipore, Billerica, MA, USA). Membranes were probed overnight at 4°C with the following primary antibodies: rabbit polyclonal antibody against human TIPE2 (1:300; BOSTER, Wuhan, China), rabbit monoclonal antibody against VEGF (1:2000; Millipore, CA, USA), the matrix metalloproteinase 9 (MMP-9) and urokinase-PA (u-PA) (1:1000; EPITOMICS, Hangzhou, China), mouse monoclonal antibody against Rac1 (1:300; Abcam, Hongkong), β-actin (1:1000; ZSGB-Bio, Beijing, China), followed by secondary antibodies (1:2000; goat anti rabbit or mouse IgG, ZSGB-Bio) conjugated with peroxidase for 1 h at room temperature. After washing, signals were visualized by eECL Western Blot Kit (CWBIO).
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5

Antibody Characterization for Signaling Pathways

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The antibodies against cMet, Akt and ERK, and phosphorylation-specific antibodies against phospho-Met (Y1234/1235), Akt (Ser308 and Ser473) and ERK (Thr202/Tyr204) were purchased from Cell Signaling Technology (Danvers, MA, USA). The antibodies against Her2, MMP9, Ki-67, caspase-3, cleaved caspase-3, poly(ADP-ribose) polymerase (PARP), cleaved PARP and glyceraldehyde 3-phosphate dehydrogenase (GAPDH) were obtained from Epitomics, Inc. (Burlingame, CA, USA). Horseradish peroxidase-conjugated secondary antibodies were sourced from Santa Cruz Biotechnology, Inc. (Santa Cruz, CA, USA). Luteolin was purchased from Sigma-Aldrich (St. Louis, MO, USA). LY294002 and PD98059 were obtained from Selleck Chemicals LLC (Houston, CA, USA).
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6

Immunohistochemical Analysis of MMP-2 and MMP-9

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For immunohistochemical examination, 3 μm-thick serial sections from paraffin-embedded tissue, were prepared with deparaffinizing, rehydrating and quenching endogenous peroxidase. Then sections were microwaved in 10 mM sodium citrate buffer (pH 6.0) for antigen retrieval. Each section was incubated with rabbit monoclonal MMP-2 or MMP-9 (1: 100, Epitomics, USA) for 1 hour at room temperature and overnight at 4°C. Following the reaction with anti-rabbit IgG (1∶50000, Jackson, USA) for 15 minutes, the sections were treated with aminoethyl carbazole and counterstained with Mayer's hematoxylin. Images of H&E stain and immunohistochemical examination were both processed by a Nikon eclipse 80i microscope with NIS Elements software (Media Cybernetics, Silver Spring, USA).
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7

Investigating Cellular Signaling Pathways

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Fetal bovine serum (FBS), Dulbecco’s modified Eagle medium (DMEM), 1640 and expression vector pcDNA3.0 were purchased from Invitrogen (Invitrogen, USA). Mouse and rabbit secondary antibodies for immunohistochemistry (IHC) were purchased from Cell Signaling (CST, USA). Anti-HA and anti-CDK11 polyclonal antibodies were purchased from Santa Cruz Biotechnology (Dallas, Texas, USA). VEGF, CD31, CD34, integrin β3, mmp3 and mmp9 were all purchased from Epitomics Company (Abcam, Cambridge, MA USA). Anti-GAPDH antibodies was purchased from Proteintech (Beijing, China). A dual luciferase reporter assay system was purchased from Promega (Beijing, China).
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8

Investigating RAGE Signaling Pathway

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Phenylmethylsulfonyl fluorides (PMSF), bovine serum albumin (BSA), DL-Glyceraldehyde, and PD98059 were purchased from Sigma (St. Louis, MO, USA). DMEM media, fetal bovine serum (FBS), penicillin, streptomycin, Hanks Balanced Salt Solution (HBSS), trypan blue, and Lipofectamine RNAiMAX were purchased from Invitrogen (Carlsbad, CA, USA). GAPDH (Cat No.: MAB374) was purchased from Chemicon (Temecula, CA, USA). ERK (Cat No.: SC-94), p-ERK (Cat No.: SC-7383), RAGE (Cat No.: SC-94), and RAGE siRNA (Cat No.: SC-36374) were purchased from Santa Cruz biotechnology (Santa Cruz, CA, USA). MMP2 (Cat No.: 2763-S) and MMP9 (Cat No.: 2551-S) were purchased from Epitomics (Burlingame, CA, USA). Nitrocellulose membranes were purchased from PALL corp. (Ann Arbor, MI, USA). Enhanced chemiluminescence (ECL) was purchased from Millipore (Billerica, MA, USA). Wst-1 kit was purchased from Clontech Laboratories, Inc. (Mountain View, CA, USA). Culture-Insert was purchased from ibidi (Verona, WI, USA).
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9

Investigation of TGF-β1 Signaling Pathway

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BBR was obtained from Sigma and was dissolved at a concentration of 100 mM in dimethyl sulfoxide (DMSO, Sigma-Aldrich) as a stock solution (stored at -20°C). It was then diluted to working concentrations with cell culture medium. The maximum final concentration of DMSO was less than 0.1% for each treatment, and was also used in controls. Recombinant human TGF-β1 was purchased from Peprotech. Rabbit monoclonal antibodies against human E-cadherin, Slug, Snail, Vimentin, MMP-2 and MMP-9 were purchased from Epitomics. P-Smad2/3(Ser423/425) and Smad 2/3 were purchased from Cell Signaling. Matrigel (BD Biosciences) and 24-well transwells (Corning) were used.
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10

Immunofluorescence of NF-κB, MMP-9, and HO-1

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Immunofluorescence was conducted as previously described [10 (link)]. The primary antibodies were used as follows: NF-κB (cell signaling), MMP-9 (Abcam), and HO-1 (Abcam). The representative images were obtained using a confocal laser scanning microscope (ZEISS, Dresden, Germany).
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