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21 protocols using p16ink4a

1

Western Blot Analysis of Cell Signaling

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Cell lysates were prepared using RIPA buffer (9806, Cell Signaling) supplemented with protease and phosphatase inhibitors (11836153001 and 4906845001; Roche) according to manufacturer's instructions. Lysates were mixed with 4× Loading Buffer (928‐40004, Li‐Cor) and denatured at 95°C for 5 min prior to electrophoresis. SDS‐PAGE was performed with the NuPAGE® electrophoresis system (Thermo Fischer) including 4%–12% Bis‐Tris gels (Thermo Fischer, # NP0336BOX) and MES SDS Running Buffer (NP0002; Thermo Fisher) according to the manufacturer's instructions. Western blotting onto nitrocellulose membranes (10600002; GE Healthcare) was performed inside an XCell II™ Blot Module (Thermo Fischer) for 1 h at 30 V constant (25 mM Tris‐BASE; 192 mM Glycine, 20% (v/v) Methanol transfer buffer). Membranes were washed with TBS (15 mM Tris–HCl pH 7.6; 136 mM NaCl) and blocked with TBS Blocking Buffer (927‐50000, Li‐Cor). Primary antibodies were incubated at 4°C overnight according to manufacturer's instructions. The following antibodies were used: Phospho‐Histone H2A.X (Ser139) (2577, Cell Signaling), Cyclin D1 (2978, Cell Signaling), Lamin B1 (13435, Cell Signaling), p16Ink4a (80772, Cell Signaling), p21Cip1 (2948, Cell Signaling), GAPDH (2118, Cell Signaling), FLAG (740001, Thermo Fischer), pMLC (3675, Cell Signaling), and alpha‐SMA (ab5694, Abcam).
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2

Western Blot Analysis of Cell Signaling

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The cultured cells were solubilized in lysis buffer (150 mmol/L NaCl, 50 mmol/L Tris–HCl, 5 mmol/L EDTA–2Na, 1% Triton X-100, and 1 tablet/10 mL complete mini EDTA-free) and centrifuged at 15,000 × g at 4 °C for 30 min. Samples were separated by SDS-PAGE and then transferred to PVDF membranes. The membranes were first blocked in a buffer containing 25 mmol/L Tris–HCl (pH 7.4), 150 mmol/L NaCl, 0.1% Tween 20, and 4% skim milk for 1 h and then incubated with primary antibodies at 4 °C overnight. This was followed by incubation with horseradish peroxidase-conjugated secondary antibodies for 1 h. Primary antibodies against human p21Waf1/Cip1, p16INK4a, phosphorylated H2AX (Ser139, γ-H2AX), retinoblastoma (Rb), phosphorylated Rb (Ser780, pRb), cyclin D, and caspase-3 were all purchased from Cell Signaling Technology, Inc. (Beverly, MA, USA). Antibodies against human cyclin A (Novocastra Laboratories Ltd., Newcastle, UK), p16INK4a (BD Biosciences, Inc., Farmingdale, NY, USA), Ki-67 (Dako from Agilent, Santa Clara, CA, USA), p62/SQSTM1, and β-actin (Santa Cruz Biotechnology, Santa Cruz, CA, USA) were also used. The immunoreactive proteins were then detected by enhanced chemiluminescence (GE Healthcare, Fairfield, CT, USA). Immunoblots were quantified using the CS Analyzer 3.0 software (ATTO, Tokyo); β-actin expression was used as the internal control.
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3

Aortic Protein Expression Analysis

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The total aortic protein was extracted with lysis buffer. The DC protein assay kit (Bio-Rad Laboratories, Hercules, CA, United States) was applied to measure the concentration of each sample. The protein abundance was detected with antibodies against Sirt-1 (cat. no. 2028, Cell Signaling Technology, Danvers, MA, United States), p16INK4A (CDKN2A, cat. no. 10883-1-AP, Proteintech Group Inc., Rosemont, IL, United States), adiponectin receptor-1 (AdipR-1, ab70362), β-actin monoclonal antibody (1: 1000, AC-15, Sigma-Aldrich), and p21 (ab109199, both from Abcam, Cambridge, United Kingdom). The membranes then were incubated with the secondary antibodies. The protein contents calculated from western blots were normalized by loading β-actin.
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4

Protein Expression Analysis of ECFC

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Western-blot analysis was performed as previously described45 (link). Briefly, ECFC were grown on plates treated or not with 50 ng/mL sCD146, then washed in PBS, scraped off the plates and lysed with 200 μl denaturing lysis buffer (150 mM NaCl, 10 mM TrisHCl pH 8, 1 mM EDTA, NP40 10% and protease inhibitors) for 10 minutes at 4 °C. After centrifugation (12,000 g, 10 minutes, 4 °C) to eliminate cell debris and nuclei, proteins were quantified by protein assay (BCA Protein Assay Kit, Pierce). Then, 30 μg of protein were mixed with NuPAGE lithium dodecylsulfate (LDS) sample buffer (Invitrogen) and NuPAGE sample-reducing agent (Invitrogen). The samples were separated by electrophoresis on 4–12% gradient NuPage SDS-polyacrylamide gels(Life Technologies). After transfer, membranes were blocked with BSA 4% and incubated with a primary antibody and a secondary antibody coupled to peroxidase before detection with the ECL kit (Pierce).
Antibodies against p16INK4a, p21WAF, SIRT1, p53, VE-Cadherin, α-SMA, Vimentin and Actin were purchased from Cell Signaling Technology. Antibodies against PECAM-1, Oct-4, Sox-2, KLF-4 and c-MYC were purchased from Santa Cruz Biotechnology. The antibody against Nanog was purchased from R&D systems. All antibodies were used at the recommended dilution for immunoblotting.
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5

Protein Extraction and Western Blot Analysis

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Cells or tissues were lysed by a freeze-thaw cycle in ice-cold lysis buffer [1% Nonidet P-40, 50 mM Tris-HCl (pH 7.5), 150 mM NaCl, 1 mM EDTA (pH 8.0), 1 mM NaF] followed by sonication in the presence of a protease inhibitor cocktail (Roche). Samples were centrifuged for 20 min at 14,000 × g at 4 °C, and the supernatants were collected. Protein concentration was measured using a BCA Protein Assay Kit (Pierce). For each sample, 20–50 μg of proteins were prepared in 4X NuPAGE buffer (Invitrogen) and heated to 95 °C for 5 min prior to loading on a 4–12% SDS-PAGE gel (Invitrogen). After separation and transfer of the proteins to PVDF membranes (Amersham), the membranes were blocked with 5% nonfat dry milk and probed with appropriate primary antibodies followed by HRP-conjugated secondary antibodies (Cell Signaling) at a dilution of 1:5000. Bands were visualized using SuperSignal Chemiluminescent Substrate (Pierce) exposed on ECL Film (ISC BioExpress), or CCD camera. The following antibodies were used: p16INK4a, P-S6 (Cell Signaling), P-(Ser139)-H2AX (H2AXγ) (Cell Signaling), HO-1 (Enzo Laboratories), β-Actin (Sigma Aldrich), lamin A/C and GAPDH (Cell Signaling Technologies).
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6

Comprehensive Antibody Resource for Cell Biology

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Anti-PAR6β (BC31AP), anti-Lgl2 (N13AP), and anti-Lgl2-S653P antibodies have been described previously (Yamanaka et al., 2003 (link)). Anti-GP135 (3F2/D8) was a kind gift from George K. Ojakian (State University of New York, Brooklyn, NY). Other antibodies were purchased as follows: Lgl2 (Abnova, Taipei, Taiwan), Lgl1 (Sigma-Aldrich, St. Louis, MO), VprBP (Proteintech Group, Chicago, IL), DDB1 (Bethyl, Montgomery, TX), Cul4A (Bethyl), Cul4B (Proteintech Group), Cdt2 (Novus Biologicals, Littleton, CO), PKC iota (BD, Franklin Lakes, NJ), zonula occludens-1 (ZO-1; Santa Cruz Biotechnology, Dallas, TX), p27kip1 (BD), p16INK4a (Cell Signaling, Danvers, MA), p21Waf1/Cip1 (Santa Cruz Biotechnology), Skp2 (Santa Cruz Biotechnology), Cdh1 (Abcam, Cambridge, United Kingdom), cyclin A (Santa Cruz Biotechnology), cyclin B1 (Santa Cruz Biotechnology), HSP70 (Enzo Life Sciences, Farmingdale NY), EDD1 (Bethyl), glyceraldehyde-3-phosphate dehydrogenase (Abcam), β-Actin (Sigma-Aldrich), E-cadherin (Sigma-Aldrich), V5 (Invitrogen), HA (Roche, Basel, Switzerland), SBP (Santa Cruz Biotechnology), Myc (Millipore, Billerica, MA; Cell Signaling), BrdU (BD; Abcam), and normal rabbit immunoglobulin G (Cell Signaling).
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7

Chondroprotective Signaling Pathways Inhibition

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Recombinant rat IL-1β (501-RL-010) was obtained from R&D systems (Minneapolis, MN, USA). Antagonist AZ3451 was obtained from MedChem Express (Monmouth Junction, NJ, USA). The p38 MAPK inhibitor SB203580, the NF-κB nuclear translocation inhibitor JSH-23 and the P13K/AKT inhibitor LY294002 were obtained from Selleck chemicals (Houston, TX, USA). The antibodies against P38(#8690), phospho-P38(#4511), ERK ½ (#4695), phospho-ERK ½ (#4370), JNK (#9258), phospho-JNK (#9255), phospho-P65(#3033), phospho-IKBα (#2859), phospho–IKKαβ (#2697), IKKβ (#8943), AKT (#4685), Phospho-AKT (#4060), Phospho–PI3K (#17366), mTOR (#2983), Phospho-mTOR (#5536), COX2(#12282), Atg5 (#12994), Atg7(#8558), Atg12(#4180), Beclin1(#3495), LC3A/B (#12741), Cleaved Caspase-3 (#9664) and p16INK4A (#80772) were purchased from Cell Signaling Technology (Danvers, MA). Antibody against Collagen Type II(15943-1-AP), MMP1 (10371-2-AP), IKBα (10268-1-AP), P65 (10745-1-AP), Histone-H3(17168-1-AP), Cytochrome C (10993-1-AP), Caspase 3 (19677-1-AP), Bax (50599-2-Ig), Bcl-2 (12789-1-AP) and PI3K (20584-1-AP) were purchased from Proteintech Group (Wuhan, China). Antibodies against iNOS (ab3523), MMP13 (ab39012), PAR2 (ab180953), SOX9 (ab185966) and Aggrecan (ab36861) were supplied by Abcam (Cambridge, UK). Antibodies against ADAMTS5 (BA3020) and GAPDH (BM3876) were obtained from Boster (Wuhan, China).
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8

Cellular Senescence Pathway Analysis

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TRIzol reagent was obtained from Invitrogen (Carlsbad, CA, USA). Atorvastatin was purchased from Cayman (Ann Arbor, MI, USA). Recombinant human IL-6 and a human IL-6 Standard ABTS enzyme-linked immunosorbent assay (ELISA) Development Kit were purchased from Peprotech (Rocky Hill, NJ, USA). Trypan blue and propidium iodide (PI) were obtained from Sigma (St. Louis, MO, USA). Antibodies against p53, p21, p27, p14ARF, p16INK4a, p-STAT3, STAT3, β-gal, and β-actin were purchased from Cell Signaling Technology (Danvers, MA, USA). Antibodies against TERT were purchased from EMD Millipore (Temecula, CA, USA).
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9

Salidroside Modulates Cellular Senescence

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Salidroside (SAL) was purchased from the National Institute for the Control of Pharmaceutical and Biological Products (Beijing, China). Resveratrol (3,5,4′-trihydroxystilbene), H2DCFDA (2′,7′-dichlorodihydrofluorecein diacetate), NAO (nonyl acridine orange), and JC-1 (5,5′,6,6′-tetrachloro-1,1′,3,3′-tetraethyl benzimidazole carbocyanine iodide) were purchased from Sigma-Aldrich. Selisistat (EX-527) was from MedChemExpress (MCE). Dulbecco's modified Eagle's medium (DMEM), fetal bovine serum (FBS), and trypsin were obtained from Invitrogen, USA. Primary anti-PGC-1α antibody was obtained from Novus Biologicals, LLC, USA. Antibodies for SIRT1, Rb, p21Waf1, and p16INK4a were from Cell Signaling Technology, Inc. Anti-NFR-1 and anti-TFAM antibodies were Abcam products. Anti-p53 and anti-β-actin primary antibodies were purchased from Santa Cruz Biotechnology, Inc., USA.
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10

Protein Expression Analysis of Cell Lysates

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Cell lysates were prepared with PRO-PREP™ Protein Extraction Solution (iNtRON Bio-technology, Gyeonggi do, Korea). Total proteins were separated with a NuPAGE electrophoresis system (Thermo Fisher Scientific, Waltham, MA, USA) and transferred to polyvinylidene difluoride (PVDF) membranes. Immunoblotting was performed using primary antibody against p16INK4A, p21Waf1/Cip1 (Cell Signaling Technology, Danvers, MA, USA), MMP1, Col1A2, and β-actin (Santa Cruz Biotechnology, Inc., Dallas, TX, USA). Scanning densitometric values of bands were analyzed using the ImageJ, software version 1.52a (National Institutes of Health, Bethesda, MD, USA).
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