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26 protocols using vimentin

1

Immunohistochemical Analysis of EMT Markers

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4 μm-thin formalin fixed and paraffin-embedded slides were incubated with the rabbit anti-mouse ZEB1, Vimentin, E-cadherin, N-cadherin, TGF-βand SMAD-7 (Bioworld Technology, Dublin, OH, USA), respectively overnight at 4°C. Antibody concentration was 1:1000. The samples were then labeled with horseradish peroxidase-conjugated streptavidin (Invitrogen) and the chromogenic reaction that was developed using Liquid DAB Substrate Pack according to the manufacturer’s instructions. The stained cells from random and non-overlapping fields were counted under a magnification of × 400 [15 (link),26 ].
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2

Western Blot Analysis of Signaling Proteins

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1×106 cells or tumor tissues were collected and lyzed in the protein extraction buffer (Novagen, Madison, WI, USA) by following the manufacturer's protocol. 12% sodium dodecyl sulfate polyacrylamide gel electrophoresis was performed and the proteins (10 μg/lane) were transferred onto a PVDF membrane blocked with 4% dry milk in Tris-buffered saline with Tween-20 for 1 h at 20ºC. The membrane was then incubated with the goat anti-mouse IL-21, the rabbit anti-mouse/human ZEB1 (I-18, Santa Cruz Biotechnology Company, USA), the rabbit anti-mouse/human Phospho-Smad2 /Smad3, TGF-β1, Vimentin, E-cadherin, N-cadherin, SMAD-7, (Bioworld Technology, USA), and the rabbit anti-mouse/human Gli1/Gli2 antibody, (ABcam Company, USA), respectively for overnight at 4ºC. The membrane was rinsed for 5 min with an antibody wash solution for 3 times before adding to it the goat anti-rabbit or the rabbit anti-goat fluorescence secondary antibody. Immunoreactive bands were detected by Odyssey scanning instrument (LI-COR Odyssey Imaging System, USA ) [30 (link)].
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3

Protein Expression Analysis via Western Blot

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1 × 106 different cells were collected and lyzed in the protein extraction buffer (Novagen, Madison, WI, USA) by following the manufacturer’s protocol. 12% sodium dodecyl sulfate-polyacrylamide gel electrophoresis was performed and the proteins (10 μg/lane) were transferred onto a PVDF membrane blocked with 4% dry milk in Tris-buffered saline with Tween-20 for 1 h at 20°C, and then incubated with the goat anti-mouse IL-21 (I-18, Santa Cruz Biotechnology Company, Santa Cruz, CA, USA), rabbit anti-mouse ZEB1, Vimentin, E-cadherin, N-cadherin, TGF-βand SMAD-7 (Bioworld Technology, Dublin, OH, USA), respectively for overnight at 4°C. The membrane was rinsed for 5 min with an antibody wash solution for 3 times before adding goat anti-rabbit or rabbit anti-goat fluorescence secondary antibody for 1 h at 20°C. Immunoreactive bands were detected by Odyssey scanning instrument (LI-COR Odyssey Imaging System, USA) [16 ].
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4

Western Blotting Analysis of Key Proteins

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Western blotting was performed as described previously [19 (link)]. The following primary antibodies were used: LKB1 (ab15095, 1:100) from Abcam (Cambridge, UK); E-cadherin (BS1097, 1:500), vimentin (BS1776, 1:500), β-actin (BS6007 M, 1:10,000), p-CHK2 (p-T68) (BS4043, 1:500), and γ-H2AX (p-S139) (BS4760, 1:500) from Bioworld Technology (Nanjing, Jiangsu, China); and SIK1 (51045-1-AP, 1:1000) and ZEB1 (21544-1-AP, 1:1000) from Proteintech Group (Wuhan, Hubei, China). All primary antibodies were incubated with the blot at 4°C overnight. The signals were detected with an Odyssey Infrared Imaging system (LI-COR, Lincoln, NE, USA). For quantification of the protein levels, the intensity of each strip was analyzed by Image J software (NIH, Bethesda, MD, USA). The average intensities of the proteins were normalized to β-actin. The relative protein levels are presented as mean ± standard deviation (SD).
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5

Immunohistochemical Analysis of E-cadherin and Vimentin

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Immunohistochemistry was performed according a previously reported method (47 (link)). Briefly, tissues were fixed in 4% buffered formalin at room temperature for 24 h. 5-µm paraffin-embedded continuous sections were de-waxed in xylene and rehydrated in graded alcohol. Next, the endogenous peroxidase activity was quenched by incubating the slices in 3% (v/v) H2O2 in methanol. Antigen-retrieval was performed by incubating the sections in citrate buffer (pH 6.0) and the non-specific binding was blocked using 5% bovine serum albumin at 37°C for 30 min. After incubation overnight with E-cadherin (catalogue number, 3195T; 1:200; Cell Signaling Technology, Inc.) and Vimentin (catalogue number, MB9006; 1:100; Bioworld Technology, Inc.) at 4°C, the sections were subsequently washed with phosphate-buffered solution, and then incubated with biotinylated immunoglobulin G and SABC (catalogue number, SA1020; Wuhan Boster Biological Technology, Ltd.) for 1 h. Image acquisition was performed with a light microscope (Nikon Solar Eclipse Ti-S; Nikon Corporation).
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6

Immunohistochemical Analysis of KIF3B

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Briefly, after deparaffinization and hydration, the slides were inactivated endogenous peroxidase by using 3% hydrogen peroxide and heat-pretreated in ethylene diamine tetraacetic acid (PH 8.0) by a microwave oven for 5 min. Then, anti-KIF3B (Abcam, USA, ab152976, 37°C, 2h, 1:200) and secondary antibody (37°C, 30 min) were incubated. Sections were stained with Diaminobenzidine (DAB) and counterstained with hematoxylin. PBS was used as negative control. Other antibodies were as follows: β-catenin, CyclinD1, C-myc, p-GSK-3βser9, E-cad, Vimentin, MMP-2 and MMP-9 (Bioworld Technology, all at dilution 1:200), Dvl2, MMP-7, Slug and Snail (Bioss, all at dilution 1:200). Independent Histologic and IHC evaluation were conducted by two pathologists. IHC staining of KIF3B was scored as described previously (43 (link), 44 (link)). The scores of staining intensity (0, none; 1, weak; 2, intermediate; and 3, strong) and positive tumor cell proportion (0, none; 1, <1/100; 2, 1/100 to 1/10; 3, 1/10 to 1/3; 4, 1/3 to 2/3; and 5, > 2/3) were summed up to obtain a total score (ranging from 0 to 8).
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7

Immunofluorescence Analysis of Nicotine-Treated hUC-MSCs

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Nicotine-treated hUC-MSCs were fixed in 4% paraformaldehyde for 30 minutes, permeabilized for 10 minutes with 0.1% Triton-X 100 blocked with 5% bovine serum albumin (BSA), and incubated with rabbit monoclonal rabbit monoclonal anti-N-cadherin (1:200), Vimentin (1:100), β-catenin (1:200) and FAP (1:500) (Bioworld Technology) antibodies overnight at 4°C, followed by incubation with Cy3-labeled anti-rabbit IgG secondary antibody (1:800) at 37°C for 45 minutes in the dark. Finally, the nuclei were counterstained with Hoechst 33342 (1:200; Sigma-Aldrich). Fluorescent images were acquired at 200× using an inverted fluorescence microscope (Ti-S, Nikon).
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8

Protein Expression Analysis by Western Blot

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Proteins were extracted with RIPA buffer and resolved using 10% sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). The proteins in the SDS-PAGE gel were transferred onto polyvinylidene fluoride (PVDF) membranes (BioRad, Berkeley, CA, USA). Proteins were detected by using primary antibodies to human E-cadherin (1: 500) (Bioworld Technology, Louis Park, MN, USA), vimentin (1: 1000) (Bioworld Technology, Louis Park, MN, USA), KAT7 (1: 500) (Abcam, Cambridge, MA, USA), Wnt (1: 500) (Abcam, Cambridge, MA, USA), β-catenin (1: 500) (Abcam, Cambridge, MA, USA), H2A.X (1: 500) (Abcam, Cambridge, MA, USA), and GAPDH (1: 2000) (Proteintech, Chicago, IL, USA). Peroxidase-conjugated secondary antibody (1: 2000) (Abcam, Cambridge, MA, USA) was added to the PVDF membranes and visualized using a Tanon chemiluminescence System (Tanon Science & Technology Co., Ltd, Shanghai, China). Western blot bands were quantified using the Tanon Gel Image System (Tanon Science & Technology Co., Ltd, Shanghai, China).
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9

Baicalin and 5-FU Combination Therapy

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Baicalin with 98% purity was purchased from National Institute for the Control of Pharmaceutical and Biological Product (Hangzhou, China); 5-FU was obtained from Yuanye Biological Technology (Shanghai, China). Baicalin and 5-FU were dissolved in dimethyl sulfoxide (DMSO). TGF-β1 was purchased from PeproTech and treated cells for 12 h in this study. Antibodies for Smad3, p-Smad3, Smad2, p-Smad2 and Smad4 were purchased from Cell Signaling Technology (Boston, MA, USA). Antibodies for Smad7, Akt, p-Akt, Cyclin B1, Cyclin D1, P21, P53, Parp-1, Caspase 3, XIAP, Survivin and β-actin were purchased from Santa Cruz Biotechnology Inc. (Santa Cruz, CA. USA). Antibodies for CD133, CD44, Nanog, OCT4, SOX2, Bcl-2, Bax, P27, Caspase8, Caspase9, Snail, Twist and Slug were obtained from Proteintech (Rosemont, IL, USA). Antibodies for TGF-β1, N-Cadherin, E-Cadherin, Vimentin, Cytokeratin 18, Claudin 1, NF-κB-p65 and Cyclin E1 were purchased from Bioworld Technology Inc. (St Louis, MN, USA).
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10

Antibody-Based Protein Analysis Protocol

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Antibodies specific for c-Myc (Cell Signaling Technology, Beverly, MA) and β-actin (Sigma, St. Louis, MO) were used for Western blot analysis. For immunostaining analysis, antibodies specific for the following proteins were used: ER, PR, SMA, and K5 (Novus Biologicals, Littleton, CO); K14, vimentin, and p63 (Bioworld Technology, Louis Park, MN); K8 (Abcam, Cambridge, MA); c-Myc (9E10) and HA probe (Santa Cruz Biotechnology, Santa Cruz, CA); claudin 3 and claudin 4 (Invitrogen). An antibody specific for Id1 (C-20, Santa Cruz Biotechnology) were used for both Western blot and immunostaining analysis.
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