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60 protocols using ab180714

1

Immunohistochemical Analysis of EMT Markers

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Immunohistochemistry was carried out following the manufacturer’s recommendations. Tissue sections were embedded in paraffin and deparaffinized with xylene for 15 min, fixed with 100% ethanol for 10 min, and then rehydrated. The prepared slices were treated with methanol solution containing 3% hydrogen peroxide for 10 min to block endogenous peroxidase activity. Sections were washed twice with PBS and then incubated with antibodies against Snail, E-cadherin, Slug, ZEB1, Twist, Vimentin and Survivin overnight (dilutions 1:200, 1:100, 1:100, 1:50, 1:75, 1:200, and 1:100) at 4°C. All sections were subjected to a heat-induced antigen retrieval process. Sections were again washed with PBS twice and then incubated with the corresponding secondary antibody under ambient conditions for 30 min. Then, after color development with 3-amino9-ethylcarbazole for 15 min, the slides were counterstained with hematoxylin. Finally, an optical microscope was used to observe the slides. Negative and positive controls were used to optimize staining. EMT inducers (Snail, Slug, ZEB1, and Twist) and EMT markers (E-cadherin, Vimentin, and Survivin) were also used. Rabbit anti-human polyclonal antibodies against Snail (ab180714), E-cadherin (ab15148), Slug (ab180714), ZEB1 (ab87280), Twist (ab49254), Vimentin (ab45939), and Survivin (ab469) were purchased from Abcam (Cambridge, United Kingdom).
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2

Protein Expression Analysis by Western Blot

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Total protein was extracted from cells. Protein concentration was measured using a bicinchoninic acid kit (Thermo). Protein (30 μg) was subjected to polyacrylamide gel electrophoresis at 80 V for 35 min and 120 V for 45 min. After the electrophoresis was completed, proteins were transferred to a polyvinylidene fluoride membrane. Membrane was blocked by 5% skim milk at ambient temperature for 1 h. Membranes were incubated with rabbit anti-FOXK1 (1:1,000, ab18196; Abcam), rabbit anti-Snail (1:1,000, ab180714; Abcam), rabbit anti-MMP-2 (1:1,000, ab97779; Abcam), rabbit anti-MMP-9 (1:1,000, ab73734; Abcam), rabbit anti-Bcl-2 (1:2,000, ab182858; Abcam), rabbit anti-Bax (1:2,000, ab32503; Abcam), rabbit anti-E-cadherin (1:500,000, ab76319; Abcam), rabbit anti-N-cadherin (1:2,000, ab18203; Abcam), and rabbit anti-glyceraldehyde-3-phosphate dehydrogenase (GAPDH; 1:2,500, ab9485; Abcam) at 4°C overnight. Membranes were incubated with horseradish peroxidase-labeled goat anti-rabbit IgG antibody (1:10,000, ab6721; Abcam) for 1 h at ambient temperature after PBST washing. Membranes were washed three times with PBST buffer for 10 min each. After development with an optical luminometer (GE, Boston, MA, USA), gray intensity of protein bands was measured by Image ProPlus 6.0 (Media Cybernetics, Rockville, MD, USA).
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3

Immunohistochemical Analysis of FOXK1, Snail, MMP-2, and E-cadherin

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Sections were dewaxed with xylene and dehydrated with gradient alcohol. Sections were heated with 0.01 M citrate solution and allowed to cool down to room temperature after 20 min. After being maintained with 0.01 M PBS for 5 min, 3% hydrogen peroxide was added for 15 min to remove endogenous peroxidase. After PBS washing for 15 min, the sections were blocked with goat serum at 37°C for 20 min. The sections were incubated with primary rabbit anti-FOXK1 (1:1,000, ab18196; Abcam), rabbit anti-Snail (1:1,000, ab180714; Abcam), rabbit anti-MMP-2 (1:1,000, ab37150; Abcam), and rabbit anti-E-cadherin (1:500,000, ab76319; Abcam) overnight at 4°C. PBS served as NC instead of primary antibody. Sections were washed three times with PBS and incubated with goat anti-rabbit IgG (1:1,000, ab150117; Abcam) at 37°C for 30 min. Sections were rinsed with PBS for 15 min and incubated with streptavidin-biotin complex (Boster, Wuhan, P.R. China) at 37°C for 30 min. Color was developed by 3,3′-diaminobenzidine (DAB), followed by staining with hematoxylin for 1 min. Sections were washed with water for 1 min, followed by reaction in 1% hydrochloric acid and washing under running water. Sections were dehydrated and stained with saturated aluminum carbonate for 30 s, rinsed for 1 min, and treated with xylene for 15 min.
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4

Immunohistochemical Characterization of Cancer Markers

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Formalin-xed, para n-embedded tissue blocks of the resected and biopsied specimens were cut into 3µm-thick sections, depara nized, and rehydrated. Each section was used for immunostaining. Immunohistochemical analyses were performed using an autostainer (Benchmark XT system; Roche Diagnostics, Basel, Switzerland) according to the manufacturer's instructions. The primary antibodies used in this study were as follows: a mouse monoclonal antibody against CD138 (clone B-A38, Cell Marque, CA, USA); a mouse monoclonal antibody against E-cadherin (clone 36, Roche Diagnostics); a mouse monoclonal antibody against N-cadherin (clone 6G11, DAKO Japan Co. Ltd., Kyoto, Japan); a rabbit polyclonal antibody against Slug (ab38551, Abcam, Cambridge, UK); and a rabbit polyclonal antibody against Snail (ab180714, Abcam).
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5

Western Blot Analysis of EMT Markers

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The RECs were seeded into 6-well plates and treated as described earlier. The cells were lysed in radioimmunoprecipitation assay buffer containing protease inhibitors and phosphatase inhibitors. Proteins were separated by 10% SDS–polyacrylamide gel electrophoresis and transferred onto nitrocellulose membranes, which were blocked with 5% skim milk. The blots were incubated with primary antibodies against E-cadherin (1:1000; ab1416; Abcam), vimentin (1:1000; ab92547; Abcam), AKT (MAB2055; R&D Systems, MN, USA), phosphorylated (p)AKT (1:1000; ab38449; Abcam), SMAD2/3 (AF3797; R&D Systems), pSMAD2/3 (1:1000; ab63399; Abcam), SNAIL/SLUG (1:1000; ab180714; Abcam), and β-tubulin (1:2000; ab15568; Abcam). The blots were incubated with horseradish peroxidase-conjugated secondary antibodies [anti-mouse (1:10,000; Abcam) and anti-rabbit (1:10,000; Sigma-Aldrich)] and visualized using an enhanced chemiluminescent system through gel documentation with an Amersham Imager 600. In addition to conventional Western blotting, automated protein separation and immunoblotting of the Western blots were performed using a Jess system (ProteinSimple, Bio-Techne, MN, USA). The proteins were normalized following the manufacturer’s instructions to normalize sample loading variability.
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6

Immunohistochemical Analysis of Platelet, EMT, and Immune Markers

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EPA was investigated by immunostaining for CD42b. CD42b (GPIbα) is platelet activation specific marker involved in the process of coagulation (20 (link)). All specimens were fixed in 10% formalin, embedded in paraffin, and cut into the 3-µm tissue sections. The specimens were deparaffinized through a graded series of xylene and ethanol. For antigen retrieval, sections were pretreated in 1 mM citrate buffer (pH 6.0), and autoclaved for 10 min at 120°C. Endogenous peroxidase block was used by peroxidase block solution provided with the EnVision kit for 20 min. After blocking endogenous peroxidase, sections were incubated with 5% normal goat serum for 20 min to block nonspecific staining. Sections were subsequently incubated for 2 h at room temperature with anti-platelet antibody (1:100 dilution, anti-CD42b rabbit monoclonal; Abcam), anti-SNAIL antibody (1:50 dilution, anti-SNAIL rabbit polyclonal antibody, ab180714; Abcam), anti-FOXP3 antibody (1:50 dilution, anti-FOXP3 mouse monoclonal, 236A/E7; Abcam), or anti-CD33 antibody (1:100 dilution, anti-CD33 mouse monoclonal antibody, NCL-L-CD33; Leica Biosystems). After the sections were washed in Phosphate-buffered saline: PBS, immunoreactivity was visualized by EnVision reagent (Dako Co.), and the slides were developed with diaminobenzidine and counterstained with hematoxylin.
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7

Immunoblotting for EMT and Stemness Markers

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For immunoblotting, antibodies against STAT1 (#9172), phospho-STAT1 (#9171), Smad2/3 (#5678), and phospho-Smad2 (#3108) were acquired from Cell Signaling Technology (Danvers, MA, USA). Anti-β-actin (sc-4778), -Klf4 (sc-166229), -HDAC4 (sc-5245), and -Sp1 (sc-17824) antibodies were obtained from Santa Cruz Biotechnology (Santa Cruz, CA, USA) and antibodies against E-cadherin (ab15148), N-cadherin (ab18203), vimentin (ab137321), Snail (ab180714), Twist (ab175430), Bmi1 (ab126783), Sox2 (ab97959), and Oct4 (ab109183) were obtained from Abcam (Cambridge, MA, USA). LY2109761 and trichostatin A (TSA) were purchased from Cayman Chemical (Ann Arbor, MI, USA) and Sigma-Aldrich/Merck KGaA, respectively. The STAT1-shRNA vector was acquired from Origene (Rockville, MD, USA).
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8

Comprehensive Protein Expression Analysis

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Total protein was extracted from cells and tissues, and the protein concentrations were measured using a BCA kit (Thermo Fisher Scientific, USA). The proteins were then separated by sodium dodecyl sulfate (SDS)-polyacrylamide gel electrophoresis and transferred onto a nitrocellulose (NC) membrane. The membranes were blocked with Tris-buffered saline-Tween (TBST) solution containing 5% skim milk. Next, the membranes were incubated with anti-Cldn7 antibody (ab27487, 1:1000; Abcam), anti-Sox9 antibody (ab185230, Abcam), anti-Olfm4 antibody (ab105861, Abcam), anti-Ki67 antibody (ab16667, Abcam), anti-β-catenin antibody (ab32572, Abcam), anti-cyclin D1 antibody (ab134175, Abcam), anti-C-myc antibody (ab32072, Abcam), anti-E-cadherin antibody (ab40772, Abcam), anti-Snail-1 antibody (ab180714, Abcam) or anti-vimentin antibody (ab8978, Abcam) at 4 °C overnight, followed by an incubation with a donkey anti-rabbit IgG antibody (ab175780; Abcam) or anti-goat IgG antibody (ab175780; Abcam). Finally, a Western blot scanner was used to visualize the blots. Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) was used as the cytoplasmic internal reference, and lamin B1 was used as the nuclear internal reference.
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9

Western Blot Analysis of Renal Proteins

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Renal cortical tissues were lysed with radioimmunoprecipitation assay (RIPA) buffer, and proteins were extracted for western blot analysis as described previously [26 (link)]. After proteins were transferred to a polyvinylidene difluoride (PVDF) membrane, it was further blocked with 5% (w/v) non-fat milk in Tris buffered saline (TBST) for 1 h at 37°C. Blots were probed with diluted primary antibody, including anti-TGF-β1 (ab25121, Abcam, Cambridge, UK), anti-pSmad2/3 (ab63399, Abcam, Cambridge, UK), anti-Smad2/3 (ab63672, Abcam, Cambridge, UK), anti-snail (ab180714, Abcam, Cambridge, UK), and β-actin (Santa Cruz Biotechnology, Inc.). After hybridization, the membrane was washed and hybridized with 1 : 5000 (v/v) dilutions of goat anti-rabbit IgG, horseradish peroxidase-conjugated secondary antibody (Santa Cruz Biotechnology, Inc.). The signal was generated by adding enhanced chemiluminescent reagent. β-actin was used as an internal control. Ratio for the protein examined was normalized against β-actin and expressed as mean ± SD.
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10

Immunohistochemical Analysis of EMT Markers

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Formalin-fixed, paraffin-embedded tissue blocks of the biopsied specimens were cut into 3-μm-thick sections, deparaffinized, and rehydrated. Each section was used for immunostaining. Immunohistochemical analyses were performed using an autostainer (Benchmark XT system; Roche Diagnostics, Basel, Switzerland) according to the manufacturer’s instructions. The primary antibodies used in this study were as follows: mouse monoclonal antibody against CD138 (clone B-A38, 1:100, Cell Marque, CA, USA); mouse monoclonal antibody against E-cadherin (clone 36, pre-diluted, Roche Diagnostics); mouse monoclonal antibody against N-cadherin (clone 6G11, 1:25, DAKO Japan Co. Ltd., Kyoto, Japan); rabbit polyclonal antibody against Slug (ab38551, 1:500, Abcam, Cambridge, UK); and rabbit polyclonal antibody against Snail (ab180714, 1:100, Abcam). I-VIEW DAB universal kit (cat-no. 518100032) was used as a detection system.
Negative controls consisted of slides run with an unspecific mouse IgG (I-2000-1, Vector Laboratories, CA, USA) or unspecific rabbit IgG (I-1000-5, Vector Laboratories).
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