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226 protocols using imager 600

1

Western Blot Quantification of Protein Levels

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Protein levels were determined using western blotting. Proteins were extracted with RIPA lysis buffer (Solarbio, Beijing, China) containing a protease inhibitor cocktail (Solarbio, Beijing, China) on ice. The concentration of proteins was measured using the bicinchoninic acid (BCA) assay (Solarbio, Beijing, China). The protein samples were resolved by sodium dodecyl sulfate‒polyacrylamide gel electrophoresis (SDS‒PAGE) and then transferred to polyvinylidene fluoride (PVDF) membranes. Then, the membranes were incubated with 5% nonfat milk for 1 h, followed by incubation with primary antibodies (Tubulin, Bax, Bcl2, Notch1 ICD, and Hes1) at 4 °C overnight. The membranes were incubated with the appropriate secondary antibodies for 2 h at 25 °C and then washed using Tris-buffered saline-Tween 20 (TBST). Finally, the proteins were detected using an electrochemical luminescence (ECL) kit (Biosharp, Shanghai, China), and the western band was detected using Amersham Imager 600 Software.
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2

Protein Expression Analysis in HEK293 Cells

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HEK293 cells were lysed in RIPA buffer containing protease inhibitors after plasmid transfection. The protein concentration in each sample was measured using the BCA protein assay kit. The samples were boiled in SDS-PAGE loading buffer at 100 °C for 5–10 min and separated using SDS-PAGE. The separated proteins were transferred to PVDF membranes and blocked in a solution of 5% milk in PBST for 1 h at room temperature. The membrane was incubated with the primary antibodies overnight at 4℃. The primary antibodies used are as follows: GAPDH (1:6000, 60004-1-Ig, Proteintech), LDLR (1:1000, ab286156, Abcam), HA (1:3000, 51064-2-AP, Proteintech). The membranes were incubated with the corresponding rabbit or mouse secondary antibodies at room temperature for one hour. Finally, Amersham Imager 600 software was used to measure the sample signals.
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3

Protein Expression Analysis in Cultured Cells

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The bottom surface of the cultured dishes was washed with prechilled (4 °C) PBS, and the cells were then scraped and centrifuged. Pelleted cells were mixed with RIPA buffer containing protease inhibitors and incubated on ice. Protein extract was separated by SDS‒PAGE (Boster Biological Technology, Wuhan, China) and transferred to polyvinylidene fluoride (PVDF) film (millpore, USA). The PVDF film was removed and marked with a ballpoint pen, and the target strips were cut. Then, the strips were incubated in 10% skim milk powder for 1-2 h and incubated with antibody diluted in accordance with the product manual at 4 °C overnight. The antibodies were used as before, and the dilution ratios were COL1A1, 1:200; E-cad, 1:150; α-SMA, 1:200, CTGF: 1:150, SRF 1:200, vim 1:200, and β-actin: 1:1000 (santa cruze Biotechnology, CA, USA). Then, the strips were incubated with diluted rabbit/mouse secondary antibody (Boster Biological Technology, Wuhan, China) and visualized in a developer using chemiluminescence reagents. The gray values of the bands on the strips were measured with Amersham Imager 600 software.
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4

Protein Extraction and Western Blot Analysis

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Protein was extracted from AC16 cells by 100 μL containing 1 mM phenylmethyl sulfonyl fluoride (PMSF) and then isolated by 10% polyacrylamide gel electrophoresis (PAGE). And transfer it to a polyvinylidene fluoride (PVDF) film (Sigma-Aldrich Chemical Company, USA). Next, 5% skim milk was stirred and incubated at room temperature for 2 h, then the film was mixed with primary antibody (Bcl-2,ab194583; Bax,ab182733; JAK2,ab32101; STAT3,ab109085) or α-Tublin primary antibody (1:2000; 2125S, CST), etc. were treated overnight at 4 °C and then associated with secondary antibodies (1:2000; Santa Cruz Biotechnology, Dallas) incubated at room temperature for 2 h. Protein Western blot bands were detected using an electrochemical luminescence (ECL) kit (Biosharp, Shanghai, China) and Amersham Imager 600 Software.
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5

Purification and EMSA of His-tagged DrRRA

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His-tagged DrRRA was expressed using the pET30a (+) plasmid in E. coli strain BL21 and purified with His-tagged beads (Invitrogen, USA). The purified proteins were used in EMSA. EMSAs were performed according to the manufacturer’s instructions (Odyssey Infrared EMSA kit, LI-COR). DNA fragments used for Cy5-labeled probes were amplified by PCR with the labeled primers (Table S1). The Cy5-labeled DNA probe (40 ng) was incubated with different quantities of DrRRA protein and a positive dr_0997 probe at 30°C for 30 min in binding buffer (20 μL). After incubation for 30 min, the solution, including protein-bound and free DNA, was separated by electrophoresis on 4.0% native polyacrylamide gels with 0.5× TBE buffer (44.5 mM Tris-HCl, 44.5 mM boric acid, and 1 mM EDTA, pH 8.0) at 100 V and 4°C. The gel was detected by an Amersham Imager 600.
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6

Western Blot Protein Analysis

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Equal concentrations of protein samples were resolved on a 10% SDS-PAGE gel transferred to polyvinylidene fluoride membrane for immunoblotting. The blot was blocked for 1 h at room temperature with 5% nonfat dry milk in Tris-buffered saline with 0.1% Tween-20 (blocking buffer). The membrane was incubated with primary antibody diluted in the blocking buffer for 1 h at room temperature or overnight at 4 °C. The membrane was washed with 0.1% TBST three times for 15 min each. The membrane was incubated with horseradish peroxidase–conjugated secondary antibody diluted in the blocking buffer for 1 h at room temperature. The membrane was washed with 0.1% TBST three times for 15 min each and developed using an ECL kit (Millipore). The blots were imaged on an Amersham Imager 600 and band intensity was quantified using Image J software.
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7

Characterization of Tumor-Specific Antigens

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The whole protein profile was characterized by SDS–PAGE. Briefly, the final protein concentration was quantified to be 2 mg mL-1 by the BCA method. Then, the samples were mixed with a loading buffer (Novex) and heated for 3 min at 100 °C. Then 20 μL of each sample was loaded into BeyoGel™ Plus PAGE Precast Gel (Hepes, 4–15%, 10-well) and proteins of different molecular weights were separated by electrophoresis at 150 V for 40 min. Finally, the gels were stained with Coomassie brilliant blue and imaged.
B16F10 tumor-specific antigens were evaluated by western blotting assay. Briefly, the proteins on the gel were transferred to a polyvinylidene fluoride (PVDF) membrane. Then, the membrane was blocked with 5% bovine serum albumin and incubated with primary antibodies against sodium potassium ATPase (Na+/K+-ATPase), Glycoprotein 100 (gp100) and Melanoma antigen recognized by T-cells 1 (MART1). The secondary anti-goat or anti-mouse IgG antibody was incubated with the corresponding primary antibodies prior to ECL imaging. The chemiluminescence of the substrate was imaged by a chemiluminescence imager (Amersham Imager 600, USA).
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8

Immunoprecipitation of Jedi Protein

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Two mg total protein per samples was pre-cleared with 1:1 mixture of Protein A/G sepharose beads (Invitrogen catalog no. 101041 and 101241, respectively). Anti-Jedi rabbit polyclonal antibody5 (not commercially available) or control serum were incubated with the samples overnight at 4 °C and pulled down with Protein A/G beads. After washing with lysis buffer, samples were denatured and run on an SDS-PAGE acrylamide gel, transferred to a nitrocellulose membrane, and blocked with 5% milk. IPs were immunoblotted with mouse anti-Jedi monoclonal5 (not commercially available) or mouse anti-Tubulin (Calbiochem catalog no. CP06) primaries and anti-mouse secondaries (Promega catalog no. W402B) and developed on an Amersham Imager 600 version 1.2.0. Some western blots were developed on film in a dark room.
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9

Western Blot Protein Detection Protocol

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The reactions, which were resuspended in 1× SDS protein sample buffer, were heated at 95 °C for 5 min. After electrophoresis, the proteins were transferred onto polyvinylidene difluoride membrane (Merck) via a semidry transfer method. The membrane was incubated with blocking buffer (1% skim milk and 1× Tris buffered saline with Tween 20 [TBS-T]) at room temperature for 1 h and supplemented with anti-FLAG antibodies (Sigma, #F1804; 1:10,000 dilution) or anti-HA antibodies (abcam, #ab130275; 1:10,000 dilution), anti-tubulin antibodies (Sigma, #T6074; 1:10,000 dilution), anti-NtSGS3 antibodies (29 (link)) (1:10,000 dilution), and anti-NtRDR6 antibodies (1:5,000 dilution) at 4 °C overnight. The membrane was washed with 1× TBS-T and then incubated with blocking buffer (1% skim milk and 1× TBS-T) with anti-mouse immunoglobulin G (IgG)–horseradish peroxidase (HRP) antibodies (MBL, #330; 1:25,000 dilution) or anti-rabbit IgG-HRP antibodies (Jackson, #111-035-003; 1:20,000 dilution) at room temperature for 1 h. After washing with 1× TBS-T, the membrane was treated with Immobilon Western Chemiluminescent HRP Substrate (Millipore). Images were acquired using the Imager 600 (Amersham) or FUSION FX (VILBER).
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10

Western Blot Analysis of HIF-1α and ITGβ1

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The cells treated with PBS or DS were harvested, lysed, subjected to SDS-polyacrylamide gel electrophoresis and transferred to polyvinylidene fluoride (PVDF) membranes. The membranes were blocked with 10% skim milk for 1.5 h at room temperature, and the immunoreactivity levels were evaluated by hybridization with the following antibodies: rabbit polyclonal anti-HIF-1α (1:1,000), anti-ITGβ1 (1:500) and anti-β-actin (1:1,000) antibodies and goat anti-rabbit IgG (1:6,000). The signal was then detected by chemiluminescence using an ECL kit and exposure in a darkroom or an Amersham Imager 600 instrument. For grey value analysis with Quantity One, the target/internal relative grey scale value indicates the corresponding protein expression level. HIF-1α and ITGβ1 expression levels in cells were compared between the experimental and control groups at several time-points.
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