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Quantity one analysis software version 4

Manufactured by Bio-Rad

Quantity One analysis software, Version 4.6, is a tool for analyzing and quantifying data from gel-based experiments, such as Western blots, Northern blots, and Southern blots. It provides a user-friendly interface for image capture, editing, and analysis. The software supports a variety of image file formats and offers features for background subtraction, band detection, and volume quantification.

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4 protocols using quantity one analysis software version 4

1

Quantitative Western Blot Analysis

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Standard Western blot analysis was carried out using primary anti-FOXM1 (sc-502; Santa Cruz Biotechnology), anti-Met (sc-161; Santa Cruz Biotechnology), anti-phosphorylated Met (Tyr1234/Tyr1235 [#8218]; Cell Signaling Technology), anti-AKT (#9272; Cell Signaling Technology), anti-phosphorylated AKT (Ser472 [#9271]; Cell Signaling Technology), anti-p44/42 ERK1/2 (#9102; Cell Signaling Technology), anti-phosphorylated p44/42 ERK1/2 (Thr202/Tyr204 [#8201]; Cell Signaling Technology), anti-STAT3 (#9132; Cell Signaling Technology), and anti-phosphorylated STAT3 (Tyr705 [#9135]; Cell Signaling Technology) antibodies. Anti-mouse (Cell Signaling Technology) and anti-rabbit (Santa Cruz Biotechnology) antibodies were used as secondary antibodies. Equal protein-sample loading was monitored using an anti-GAPDH antibody (Santa Cruz Biotechnology). The bands were quantified using Quantity One analysis software, Version 4.6 (Bio-Rad) and the results of fold changes were expressed as numbers in italic font under individual blot.
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2

Quantitative Western Blot Analysis

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Standard Western blot analysis was carried out using primary anti-FOXM1 (sc-502; Santa Cruz Biotechnology), anti-Met (sc-161; Santa Cruz Biotechnology), anti-phosphorylated Met (Tyr1234/Tyr1235 [#8218]; Cell Signaling Technology), anti-AKT (#9272; Cell Signaling Technology), anti-phosphorylated AKT (Ser472 [#9271]; Cell Signaling Technology), anti-p44/42 ERK1/2 (#9102; Cell Signaling Technology), anti-phosphorylated p44/42 ERK1/2 (Thr202/Tyr204 [#8201]; Cell Signaling Technology), anti-STAT3 (#9132; Cell Signaling Technology), and anti-phosphorylated STAT3 (Tyr705 [#9135]; Cell Signaling Technology) antibodies. Anti-mouse (Cell Signaling Technology) and anti-rabbit (Santa Cruz Biotechnology) antibodies were used as secondary antibodies. Equal protein-sample loading was monitored using an anti-GAPDH antibody (Santa Cruz Biotechnology). The bands were quantified using Quantity One analysis software, Version 4.6 (Bio-Rad) and the results of fold changes were expressed as numbers in italic font under individual blot.
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3

RT-PCR Analysis of β3 Gene Expression

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The total RNA was isolated using RNA fast 2000 kit (Fastagen, Shanghai, China) according to the manufacturer's protocols. The RNA was subsequently reverse transcribed into cDNA using Prime Script RT Master Mix Perfect Real-Time kit (DRR036A; Takara Bio, Inc., Otsu, Japan) according to the manufacturer's protocols. The primers sequences used (Sangon Biotech Co., Ltd., Shanghai, China) were: β3, forward 5′-GCCAGCACCATCTCTTTACC-3′ and reverse 5′-GCACTCTCTCCCTTTGAGGA-3′, with a length of 112 bp; β-actin, forward 5′-TGACGTGGACATCCGCAAAG-3′ and reverse 5′-CTGGAAGGTGGACAGCGAGG-3′, with a length of 205 bp. The cycling protocol for PCR involved incubating the samples at 94°C for 2 min followed by 35 cycles of denaturation at 94°C for 30 sec, annealing at 55°C for 30 sec, and extension at 72°C for 30 sec, with a final cycle of incubation at 72°C for 2 min. The amplification products were analyzed by electrophoresis (Beijing Junyi, Beijing, China) in agarose gels and detected under UV illumination (Bio-Rad Laboratories, Inc., Hercules, CA, USA) after staining with nucleic acid dye (DuRed; FanBo Biochemicals, Beijing, China). Images were analyzed using a quantitative analysis system (Quantity One Analysis Software, version 4.6.2; Bio-Rad Laboratories, Inc.).
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4

Western Blot Analysis of Protein Markers

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Total proteins of each cell group were prepared using RIPA buffer containing 1 mmol/l PMSF and a protease inhibitor cocktail (Beyotime Institute of Biotechnology). Proteins were quantified using the BCA assay kit (Beyotime Institute of Biotechnology). Total proteins (30 µg/lane) from each lysate were separated by 10% SDS-PAGE and then transferred onto PVDF membranes. Membranes were blocked in blocking buffer (5% non-fat dry milk and 1% Tween-20 in PBS) for 2 h at room temperature. The membranes were incubated with the primary antibodies against DJ-1, E-cadherin, vimentin, N-cadherin, β-actin, LRP6, p-LRP6, Axin1 and β-catenin overnight at 4˚C, and then incubated with HRP-conjugated rabbit or anti-mouse antibody at room temperature for 2 h. Immunoreactive signals were visualized using ECL detection reagent (Thermo Fisher Scientific, Inc.) with the Molecular Imager Chemi Doc XRS system (Bio-Rad Laboratories, Inc.). The bands were quantified using Quantity One analysis software version 4.62 (Bio-Rad Laboratories, Inc.). The value of each protein was normalized to the β-actin level in the same sample.
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