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8 protocols using anti cyclin e1

1

Cell Proliferation and Oxidative Stress Assays

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Ham’s F-12K medium, McCoy’s 5A medium, Dulbecco’s modified Eagle’s medium (DMEM), Minimum Essential Medium (MEM), 100 U/mL streptomycin, and 100 μg/mL penicillin were acquired from Gibco (Life Technologies, Waltham, MA, USA). Fetal bovine serum was obtained from BI (Biological Industries, Beit Haemek, Israel). An SRB assay kit was purchased from Bestbio (Shanghai, China). Cell cycle and apoptosis analysis kits were purchased from Yeasen Biotech (Shanghai, China). A Reactive Oxygen Species Assay Kit, cycloheximide (CHX), and Hoechst 33258 were obtained from Beyotime (Beyotime Biotechnology, Shanghai, China). Normal goat serum was purchased from Boster (Boster Biological Technology, Wuhan, China). Anti-Cyclin D1, anti-Cyclin E1, anti-P27, anti-GAPDH, anti-β-actin, anti-FOXO3A, anti-SKP2, anti-γH2AX, HRP-conjugated affinipure goat anti-rabbit, HRP-conjugated affinipure goat anti-mouse, and CoraLite488-conjugated affinipure goat anti-rabbit were purchased from Protein Tech (Proteintech group, Wuhan, China). Ultrapure water was produced with an ultrapure water system (Yipu Yida Technology, Nanjing, China). All of the analytically pure chemicals and solvents were purchased from Sinopharm Group (Shanghai, China).
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2

Evaluation of EV-D68 Infection on Cell Cycle Regulators

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Virus-infected or mock-infected cells were collected at various times after EV-D68 infection and washed once with PBS as previously described (Yu et al.). The following antibodies were used in Western blot analyses: anti-CDK2 (Cell Signal), anti-cyclinE1 (Proteintech), anti-CDK4 (Cell Signal), anti-CDK6 (Cell Signal), anti-cyclinD (Cell Signal), anti-CDK1 (Boster), anti-cyclinB1 (Santa Cruz), and anti-histone (GenScript). Secondary antibodies from mouse or rabbit were obtained from Jackson Immuno Research.
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3

Western Blot Quantification Protocol

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Total protein samples were extracted from tissues and cultured cells. Then, the samples were separated using 10–12% SDS-PAGE and transferred onto a polyvinylidene fluoride membrane. After blocking with 5% non-fat milk in Tri-buffered saline for 1.5 h, the membranes were incubated at 4°C overnight with target antibodies against the following proteins: anti-SHMT2 (1:1,000, 11099-1-AP; Proteintech, Wuhan, China), anti-GAPDH (1:10,000; 60004-1-Ig; Proteintech, Wuhan, China),anti-Cleaved-caspase 3 (1:1,000, #9661S; CST, United States), anti-Cyclin D1 (1:1,000, 60186-1-Ig; Proteintech, Wuhan, China), anti-Cyclin E1 (1:1,000, 11554-1-AP; Proteintech, Wuhan, China), anti-Bcl-2 (1:1,000, #2872T; CST, United States), anti-Bax (1:1,000, 50599-2-Ig; Proteintech, Wuhan, China), anti-NF-κB P65 (1:1,000, #8242T; CST, United States), anti-p-NF-κB P65 (Ser536) (1:1,000, #3033; CST, United States), anti-STAT3 (1:1,000, #9139; CST, United States), anti-p-STAT3 (Tyr705) (1:2000, #9145; CST, United States). GAPDH was used as an internal loading control. After washing three times with TBST, the membranes were incubated with species-special secondary antibodies at room temperature for 1 h. Next, the membranes were detected by the ChemiDocTM Touch Imaging System (Bio-Rad, Hercules, United States). Finally, relative protein expression levels were assessed using the image J software.
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4

Protein Expression Analysis by Western Blot

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Briefly, 50–100 μg of protein from each sample was separated by sodium dodecyl sulfate–polyacrylamide gel electrophoresis. The membrane was incubated with the following antibodies at 4°C overnight: anti–cleaved caspase-3 (9664, 1:500; Cell Signaling Technology), anti-Bcl2 (2876, 1:1,000; Cell Signaling Technology), anti–cyclin D1 (60186, 1:1,000; Proteintech), anti–cyclin E1 (11554, 1:1,000; Proteintech), and anti–β-actin (0061R, 1:2,000; Beijing Biosynthesis Biotechnology Co.). The blots were probed with horseradish peroxidase–conjugated goat anti-rabbit or goat anti-mouse immunoglobulin G (IgG) (1:1,000; Santa Cruz Biotechnology). Immunoreactive bands were visualized by enhanced chemiluminescence, and the blot signals were analyzed with the image analysis software ImageJ 1.52.
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5

Quantification of Cell Cycle Proteins

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As our previous studies (Yu et al., 2015 (link); Wang et al., 2017 (link)), virus-infected and mock-infected cells were collected at indicated times. The following antibodies were used: anti-cyclinE1 (Proteintech), anti-CDK2 (Cell Signal), anti-cyclinD (Cell Signal), anti-CDK6 (Cell Signal), anti-CDK4 (Cell Signal), anti-P53 (Cell Signal), anti-P21 (Proteintech), anti-P16 (Proteintech), anti-cyclinB1 (Santa Cruz), anti-CDK1 (Boster), anti-VP1 (Genetex) and anti-histone (GenScript). Secondary antibodies from mouse or rabbit were obtained from Jackson Immuno Research.
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6

Western Blot Analysis of Cell Signaling Proteins

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Cells were collected and placed into a protein lysis buffer on ice for 30 minutes. BCA protein assay kit (KeyGEN BioTECH, CAT#KGP903) was used to quantify protein concentration. The proteins were separated by 10% SDS‐polyacrylamide gel electrophoresis (SDS‐PAGE). Next, the sample was transferred to a polyvinylidene difluoride (PVDF) membrane with pore size of 0.45 μm (Merck Millipore, CAT# IPVH00010). The non‐specific binding sites on the membrane were blocked with 5% bovine serum albumin (Beyotime Biotechnology, CAT# ST023‐1000g) for 1h. After blocking, the membrane was first incubated with the primary antibody overnight at 4°C and then with the secondary antibody. Finally, super‐sensitive ECL assay kit was used (Beyotime Biotechnology, CAT# P0018AM) to show the immune response, and two‐colour infrared fluorescence imaging system (Bio‐Rad ChemiDoc MP) was used to image the spots. Following antibodies were used: anti‐METTL16 (SIGMA, HPA020352), anti‐Cdk2 (Abcam, cat#ab32147), anti‐Cdk6 (Abcam, cat#ab124821), anti‐cyclin D1 (Proteintech, cat#60186‐1‐Ig), anti‐cyclin E1 (Proteintech, cat#11554‐1‐AP), anti‐p21 (Proteintech, cat# 10355‐1‐AP) and anti‐GAPDH (Proteintech, cat#60004‐1‐Ig).
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7

Quantitative Western Blot Analysis of Cell Signaling

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Total proteins were extracted from cells utilizing Radioimmunoprecipitation Assay (RIPA) lysis buffer (Solarbio, China). Protein concentrations were then ascertained through the Bicinchoninic Acid (BCA) protein assay (Solarbio, China). Electrophoresis was performed on SDS–polyacrylamide gels, followed by transfer to PVDF membranes (Millipore, Carrigtwohill, Ireland). The membranes were then blocked with skim milk and incubated overnight at 4 °C with primary antibodies. After washing, a secondary antibody was applied and incubated at room temperature for 2 h. The antibodies used were anti-BLM (1:900 dilution; Bios, China), anti-Bax (1:5,000 dilution; Proteintech, USA), anti-PCNA (1:3,000 dilution; Proteintech, USA), anti-CDK6 (1:5,000 dilution; Proteintech, USA), anti-Cyclin D1 (1:5,000 dilution; Proteintech, USA), anti-Bcl-2 (1:2000 dilution; Proteintech, USA), anti-Cyclin E1 (1:1000 dilution; Proteintech, USA), anti-CDK2 (1:1000 dilution; Proteintech, USA), GAPDH (1:1000 dilution; Proteintech, USA), and goat-anti-rabbit, goat-anti-mouse secondary antibody (1:1,0000 dilution; Proteintech, USA). Subsequently, the results were quantified and images were processed using ImageJ software.
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8

Western Blot Profiling of Protein Expression

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The cells were prepared in RIPA buffer (Solarbio, #R0020). A BCA™ Protein Assay kit (Applygen, #P1511) was used to determine the protein concentration. The proteins (40 μg/sample) were separated by different polyacrylamide gel electrophoresis, transferred to PVDF membranes (Millipore, #IPVH00010), and incubated with the corresponding primary antibody at 4°C overnight. Then, the membranes were incubated with the corresponding secondary antibodies at room temperature for 1 h and measured with a chemiluminescence reagent ECL kit (Advansia, #K-12045-D50).
The primary antibodies used in the experiment used were: anti-PRPS1 (Proteintech, #15549-1-AP), anti-cyclin E1 (Proteintech, 11554-1-AP), anti-CDK2 (Proteintech, 10122-1-AP), anti-P16 (Proteintech, #10883-1-AP), anti-Bax (Proteintech, 50599-2-Ig), anti-Bcl2 (Proteintech, 12789-1-AP), anti-Cleaved-caspeas3 (CST, #9664), anti-MMP2 (Abcam, ab37150), anti-MMP9 (Abcam, ab76003), anti-MMP13 (Proteintech, 18165-1-AP), anti-E-Cadherin (Proteintech, 20874-1-AP), anti-N-Cadherin (Proteintech, 22018-1-AP), anti-Vimentin (Proteintech, 10366-1-AP), anti-NRF2 (Abcam, ab89443), anti-β-actin (Bioss, bs-0061R), and Tubulin (Abcam, #ab7291). The secondary antibodies used in the experiment were anti-rabbit IgG (Abcam, #ab6721) and anti-mouse IgG (Jackson ImmunoResearch Laboratories, 115-035-003).
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