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6 protocols using rabbit pab

1

Western Blot Analysis of Cellular Proteins

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Proteins from whole cell lysates were separated by SDS-polyacrylamide gel electrophoresis (PAGE) with NuPAGE Novex Bis-Tris precast 4 to 12% gradient gels (Invitrogen, Carlsbad, CA, USA) and transferred to nitrocellulose membranes. The primary antibodies anti-actin (Mouse mAB; Sigma Life Science and Biochemicals), anti-TIMP1 (Rabbit pAB; Cell Signaling Technology, Inc., Danvers, MA, USA), anti-CoL1A1 (Rabbit pAB;Thermo Fisher, Rockford, IL, USA), phosphorylated and unphosphorylated NFκB (RelA) (Rabbit pAB; Cell Signaling Technology, Inc., Danvers, MA, USA), phosphorylated NRF2 (Rabbit mAB; abcam, Cambridge, MA, USA), unphosphorylated NRF2 (Rabbit pAB; abcam), and phosphorylated and unphosphorylated SMAD3 (Rabbit mAB; Cell Signaling Technology, Inc.) were incubated overnight at 4°C. The secondary antibody, anti-mouse IgG (Donkey mAB; amersham Biosciences, Piscataway, NJ, USA), and anti-rabbit IgG (Sheep mAB; amersham Biosciences) were incubated for 60 minutes at room temperature.
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2

Immunofluorescent Labeling of Protein Markers

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DUX4-FL was detected with rabbit anti-DUX4-FL mAb E5524 (link) used at 1:200 dilution (Epitomics, Burlingame, CA). Myosin heavy chain (MyHC) isoforms were detected with mouse mAbs F59 or MF20 (Developmental Studies Hybridoma Bank, Iowa City, IA) used at 1:10 dilution of hybridoma supernatant. Activated caspase-3 was detected with a rabbit pAb (Cell Signaling Technologies, Beverly, MA) used at 1:100. TDP-43 was detected with either rabbit anti-TARDBP pAb (cat. 10782-2-AP; Proteintech, Chicago, IL) or mouse anti-TDP-43 mAb (cat. 60019-2; Proteintech). Ubiquitinated proteins were detected with mouse mAb FK2 (MBL, Woburn, MA) which reacts with K29-, K48-, and K63 mono- and poly-ubiquitinated proteins, but not free ubiquitin. V5 epitope tag was detected using either mouse anti-V5 mAb (Life Technologies, Grand Island, NY) or a rabbit pAb (EMD Millipore). GFP was detected with a rabbit pAb (Santa Cruz Biotechnology, Dallas, TX). Primary antibody binding was visualized with appropriate species-specific secondary antibodies (Life Technologies) conjugated to either Alexa Fluor 488 or Alexa Fluor 594 and used at 1:500. Nuclei were stained with bisbenzimide.
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3

Protein Expression and Immunoblotting

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Cells were lysed in ice-cold lysis buffer containing Hepes 50 nM, pH 7.5, EDTA 1 mM, pH 7, NaCl 150 mM, Naf 100 mM, Na3VO4 1 mM, Triton X-100 1%, and Proteinase Inhibitor Cocktail. Cell lysates were migrated in 12% SDS-PAGE (Sodium Dodecyl Sulfate–PolyAcrylamide Gel Electrophoresis). The following primary antibodies were used: anti-RAD51 (1/1000), anti-BMI1 (#2830, Cell Signaling, 1/1000), anti-LIG4 (MA5-32775, Thermo, 1/1000), anti-ATR (sc1887, Santa Cruz, 1/1000), and anti-phospho-ATR (2853 s, Cell Signaling, 1/1000), anti-ERCC1 (sheep mAb, Gift from C. Lachaud (CRCM, Marseille), 1/1000), and anti-MLH1 (BD Biosciences, 1/1000). Detection of vinculin (V9131, Sigma, 1/2000) or GAPDH (Rabbit pAb, Cell Signaling, 1/5000) was used as loading control.
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4

Western Blot Analysis of Src Pathway

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Western blot analysis was carried out using antibodies targeting phospho-(Y416)-Src Rabbit pAb (Cell Signaling Technology, Danvers, MA, USA, Cat# 2101, RRID:AB_331697), Src (L4A1) Mouse mAb (Cell Signaling Technology Cat# 2110, RRID:AB_10691385), and PARP (46D11) Rabbit mAb (Cell Signaling Technology Cat# 9532, RRID:AB_659884). Mouse monoclonal antibodies were used in conjunction with anti-mouse IgG, HRP-linked Antibody (Cell Signaling Technology Cat# 7076, RRID:AB_330924). Rabbit polyclonal antibodies were used in conjunction with anti-rabbit IgG, HRP-linked Antibody (Cell Signaling Technology Cat# 7074, RRID:AB_2099233). Equal loading was assessed using vinculin (Abcam Cat# ab129002, RRID:AB_11144129) or β-actin (Cell Signaling Technology Cat# 3700, RRID:AB_2242334) targeting antibodies.
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5

Western Blot Analysis of hBMSCs

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A lysis buffer containing 50 mM Tris–HCl at pH 7.4, 150 mM NaCl, 0.1% SDS, 1% Nonidet P-40, 1 mM PMSF, and protease inhibitor cocktail (10 mg/mL leupeptin, 10 mg/mL pepstatin A, and 10 mg/mL aprotinin) was used to lyse the hBMSCs on ice for 30 min for Western blot analysis. The protein parts were collected by centrifugation under the condition of 15,000 g at 4°C for 10 min, subjected to 10% SDS–PAGE, and finally transferred onto nitrocellulose membranes. The transferred membranes were blocked by 5% BSA and cultured with specific antibodies at 4°C overnight. An enhanced chemiluminescence detection system (#WBKLS0500, Millipore, Billerica, MA, United States) was used in accordance with the manufacturer’s instructions for visualization after adding the horseradish peroxidase–labeled secondary antibody. The primary antibodies used were as follows: Runx2 mouse mAb (1:1000, #ab76956, Abcam, United States), Smad1 Rabbit mAb (1:1000, #6944, Cell Signaling Technology, United States), phospho-Smad1/5/8 Rabbit pAb (1:1000, #4086, Cell Signaling Technology, United States), and GAPDH Rabbit mAb (1:1000, # 2118, Cell Signaling Technology, United States).
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6

Cardiac Protein Expression Analysis

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The heart was homogenized in radioimmunoprecipitation assay (RIPA) buffer (50 mM Tris-HCl, pH 7.4, 150 mM NaCl, 50 mM β-glycerophosphate, 30 mM NaF, 2 mM EDTA, 2 mM EGTA, 30 mM Na4P2O7, 2 mM Na3VO4, 1% Triton X-100) containing protease inhibitors (cOmpleteTM, Roche). The homogenate was centrifuged at 1000 g to pellet the nucleus and debris. The heat-dissociated proteins (40 µg/lane) were fractionated by SDS-PAGE (Mini-PROTEAN® TGX, Bio-Rad) and detected with Western blot by chemiluminescence (SuperSignalTM West Pico PLUS, Thermo Fisher Scientific). Blots developed on the chemiluminescence film (Amersham Hyperfilm ECL; GE Healthcare) were quantified using ImageJ software (NIH). The antibodies used for Western blot are as follows:Y1135-phosphorylated IGF-1 receptor β (pIGF1Rβ; Rabbit mAb; DA7A8; Cell Signaling Technology), IGF-1 receptor-β (IGF1Rβ; Rabbit pAb; 3027; Cell Signaling Technology), Y694-phosphorylated signal transducer and activator of transcription 5 (pSTAT5; Rabbit mAb; C11C5; Cell Signaling Technology), total STAT5 (Rabbit mAb; D206Y; Cell Signaling Technology), cleaved caspase 3 (Rabbit mAb; 9664; Cell Signaling Technology), total caspase 3 (Rabbit mAb; 8610; Cell Signaling Technology), and β-actin (HRP-conjugated Rabbit mAb; 3683; Cell Signaling Technology).
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