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15 protocols using anti cytochrome c

1

Western Blot Analysis of Apoptosis and Mitochondrial Dynamics

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The cells were lysed with lysis buffer (Beyotime, Shanghai China) supplemented with a protease inhibitor solution (Beyotime) and centrifuged at 12 000 g for 10 min at 4 °C. Extracted proteins were separated on 10–15% sodium dodecyl sulfate polyacrylamide gels and transferred to nitrocellulose membranes. After blocking with 5% skim milk in Tris-buffered saline containing 0.1% Tween 20 (TBST) for 1 h at 37 °C, the membranes were incubated overnight with primary antibodies at 4 °C, washed with TBST, and then incubated with secondary antibodies. The western blot results were quantified by densitometric analysis using the Quantity One 4.6.9 software (Bio-Rad).
The following antibodies were used: anti-cleaved caspase-9 (9509T, CST), anti-cleaved caspase-3 (9664T, CST), anti-Bax (#2772, CST), anti-Bcl2 (#3498, CST), anti-cytochrome c (10093, Proteintech), VDAC rabbit mAb (4661, CST), anti-MFN1 (NBP1-71775, Novus Biologicals), DRP1 rabbit mAb (8570, CST), OPA1 rabbit mAb (80471, CST), anti-FIS1 (D122377-0025, BBI life sciences), anti-MFN2 (12186, Proteintech), anti-beta tubulin (10094, Proteintech), anti-PSD95 (20665, Proteintech), spinophilin rabbit mAb (14136, CST, Boston), HP-goat anti-mouse (ZB-2305, Zsbio, Beijing, China), HP-goat anti-rabbit (ZB-2301, Zsbio, Beijing, China), and Alexa Fluor 594 AffiniPure Goat Anti-Rabbit IgG (H+L) (33112ES60, Yeasen).
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2

Western Blot Analysis of Inflammatory Markers

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The radio immunoprecipitation assay (RIPA) strong lysate (Beyotime Biotechnology, Shanghai, China, P0013B) was used to lyse the spleen tissues for 30 min, after which they were centrifuged at 12,000× g for 15 min at 4 °C. The quantification of protein concentrations was performed using a BCA protein concentration detection kit (Beyotime Biotechnology, Shanghai, China, P0010). The tissue proteins were first incubated to primary antibodies at 4 °C overnight, and then to matching secondary antibodies for 1 h, and finally they were incubated using the LumiBest ECL substrate solution kit for visualization (ShareBio, Shanghai, China, SB-WB011). The protein band intensity was measured using Image-J software.
Antibodies used in this study: anti-TNF-α (Immunoway, Suzhou, China, YT4689, 1:1000), anti-IL-1β (Beyotime Biotechnology, Shanghai, China, AF7209), anti-NF-κB p65 (ABclone, Wuhan, China, A2547, 1:1000), anti-IFN-γ (Immunoway, Suzhou, China, YT2279, 1:1000), anti-Caspase-3 (Proteintech, Wuhan, China, 19677-1-AP, 1:1000) anti-Bcl-2 (ABclone, China, A19693, 1:1000), anti-Bax (Proteintech, China, 50599-2-lg, 1:1000), anti-Cytochrome C (Proteintech, China, 10993-1-AP, 1:1000), anti-β-actin (MultiSciences, Hangzhou, China, #HA-R1207-1-200, 1:1000), HRP Goat Anti-Rabbit IgG (H + L) (Abclone, China, #AS014, 1:4000), and HRP Goat Anti-Mouse IgG (H + L) (Abclone, China, #AS003, 1:4000).
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3

Mitochondrial Dysfunction and Cell Death

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TMZ, Compound C, AICAR, Mdivi1, MG132 and WY14643, were purchased from MedChemExpress company. MTT and N‐Acetyl‐L‐cysteine (NAC) were purchased from Sigma‐Aldrich. MitoTracker™ Red FM (M22425), Hoechst 33342 (H1399) and anti‐Ubiquitin WB Antibody (13–1600) were purchased from Invitrogen (Thermo Fisher Scientific, Inc.) (1:1,000). Anti‐phospho‐Ubiquitin (Ser65) (ABS1513‐I) was purchased from Merck KGaA company (1:1000). Anti‐P53 (21891–1‐AP), anti‐PINK1 (23274–1‐AP), anti‐Parkin (14060–1‐AP), anti‐Drp1 (12957–1‐AP), anti‐Opa1 (27733–1‐AP), anti‐Mfn1 (13798–1‐AP), anti‐Mfn2 (12186–1‐AP), anti‐Caspase‐9 (10380–1‐AP), anti‐BAX (50599–2‐Ig), anti‐Caspase‐3 (19677–1‐AP), anti‐VDAC1 (10866–1‐AP), anti‐Lamin B (12987–1‐AP), anti‐Cytochrome c (10993–1‐AP), and anti‐β‐actin (60008–1‐Ig) were purchased from ProteinTech Group, Inc., (Chicago, IL, USA) (1:1,000). Anti‐γ‐H2A.X (ab81299) was purchased from Abcam (1:1000). Anti‐AMPKα (2532) and p‐AMPKα (50081) were purchased from Cell Signaling Technology, Inc. (Massachusetts, USA) (1:1000). Anti‐phospho‐DRP1(Ser616) (DF2972) was purchased from Affinity Biosciences (1:1000). Anti‐phospho‐DRP1(Ser637) (6319S) was purchased from Cell Signaling Technology, Inc. (1:1,000).
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4

Immunoblotting Analysis of Apoptosis Markers

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The CVEC proteins were lysed in RIPA buffer containing protease inhibitors. Then, the protein concentrations were detected using the BCA Protein Assay Kit (Beyotime Biotechnology, Jiangsu, China). Next, the protein sample was electrophoresed by 8% SDS-PAGE and blocked with 5% bovine serum albumin and then was incubated with the primary antibody: anti-Bcl2 (Proteintech 60718-1-lg, Wuhan, Hubei, China), anti-Bax (Proteintech50599-2-lg, Wuhan, Hubei, China), anti-Caspase 3 (Cell Signaling Technology 9661s, Danvers, MA, United States), anti-Cytochrome C (Proteintech 10993-1-AP, Wuhan, Hubei, China), anti-p-AKT (Cell Signaling Technology 4060S, Danvers, MA, United States), anti-p-PI3K (Cell Signaling Technology 4228S, Danvers, MA, United States), and anti-GAPDH (Cell Signaling Technology 5174S, Danvers, MA, United States). Then, the primary antibody was washed out for 3 times and the membranes were incubated with a horseradish peroxidase (HRP)-conjugated goat anti-rabbit IgG secondary antibody (Cell Signaling Technology 7074S/7076S, Danvers, United States) for 1.5 h at room temperature. The intensity of immune response was observed the with Image J software (1.48u, National Institutes of Health, United States).
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5

Immunoblotting Analysis of EMT-related Proteins

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Whole cell lysates were prepared in RIPA buffer containing protease inhibitor cocktail (Thermo Fisher Scientific, Waltham, MA, USA).19 (link) Immunoblotting was performed with anti-MUC1-C (#MA5-11202, 1:100; Thermo Fisher Scientific), anti-ZEB1 (#3396, 1:1000 dilution; Cell Signaling Technology (CST), Danvers, MA, USA), anti-TWIST1 (ab50887, 1:1000 dilution; Abcam, Waltham, MA, USA), anti-BMI1 (#6964, 1:1000 dilution; CST), anti-MYC (#ab32072, 1:1000 dilution; Abcam), anti-SOX2 (#3579, 1:1000 dilution; CST), anti-GLUT1 (#ab115730, 1:100000 dilution; Abcam), anti-HK2 (#2867, 1:1000 dilution; CST), anti-SDHD (#NBP2-83505, 1:1000, NOVUS Biologicals, Centennial, CO, USA), anti-cytochrome c (#10993, 1:4000 dilution; Proteintech; Rosemont, IL, USA), anti-ND1 (#19703, 1:1000 dilution; Proteintech), anti-COX2 (#55070, 1:5000 dilution; Proteintech), anti-TFAM (#8076, 1:1000 dilution; CST), anti-TFB2M (#24411, 1:500 dilution; Proteintech), anti-mTERF3 (#ab230232, 1:1000 dilution; Abcam), anti-SOD2 (#13141, 1:1000 dilution; CST), anti-PRDX3 (#10664, 1:2000 dilution; Proteintech), and anti-β-actin (A5441; 1:50000 dilution; Sigma, St. Louis, MO, USA).
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6

Quantitative Western Blot Analysis

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As previously described48 (link), proteins (30–50 μg) were separated on 4–20 % SDS-polyacrylamide gels and transferred onto PVDF membranes. The PVDF membranes were then blocked with 3% BSA in TBST followed by incubation with anti-Cytochrome c (Proteintech, IL) antibodies at 4 °C for 12 hours. After washing three times, PVDF membranes were incubated with HRP conjugated secondary antibodies (Cell Signaling; Danvers, MA, USA) for 1 hour at room temperature. Membrane-bound proteins were detected and analyzed by CCD digital imaging system and Image J analysis software (Version 1.49; NIH, USA), respectively.
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7

Western Blotting with Diverse Antibodies

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Western blotting was carried out as described previously 15 (link), 21 (link), 22 (link). Anti-Bcl-2, anti-Mcl-1, anti-PARP1, anti-cytochrome C, anti-ERK, anti-p-ERK, anti-Bim, anti-TSHR, anti-HK2, anti-Bax, anti-cyclin D1, and anti-GAPDH antibodies were purchased from ProteinTech (Chicago, IL, USA); anti-GLUT1 (NB110-39113SS) antibody was acquired from Novusbio. Anti-Beclin1 (#3738), anti-p62 (#8025), anti-p27 Kip1 (#3688), anti-Bcl-xl (#2764), anti-LC3A/B (#12741), anti-Caspase-3 (#9662), anti- Caspase-9 (#9502), anti-Caspase-8 (#9746) antibodies were purchased from Cell Signaling Technology. For immunoprecipitation, cells were treated for 24 hours with Vemurafenib before harvesting. NP40 lysates and BRAF immunoprecipitates were prepared according to the previous publication using rabbit anti-BRAF antibody (Santa Cruz Biotechnology, sc-5284) and analyzed by immunoblot using mouse anti-CRAF antibody (Santa Cruz Biotechnology, sc-227) or inversely 23 (link).
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8

Elucidating Apoptosis and Metastasis Signaling

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The following primary antibodies were purchased from Cell Signaling Technology, Inc.: Anti-cleaved caspase-3 (cat. no. 9664), anti-cleaved caspase-9 (cat. no. 7237), anti-COX-2 (cat. no. 12282), anti-phosphorylated (p)-IκBα (cat. no. 2859), anti-IκBα (cat. no. 9242) and anti-β-actin (cat. no. 3700). Anti-rabbit IgG, HRP-linked antibody (cat. no. 7074; 1:5,000) and anti-mouse IgG, HRP-linked Antibody cat. no. 7076; 1:5,000) secondary antibodies were also purchased from Cell Signaling Technology, Inc. The following primary antibodies were purchased from ProteinTech Group, Inc.: Anti-cytochrome c (cat. no. 66264-1-Ig), anti-Bcl-2 (cat. no. 12789-1-AP), anti-Bax (cat. no. 50599-2-Ig), anti-Vimentin (cat. no. 10366-1-AP), anti-matrix metalloproteinase (MMP)-9 (cat. no. 10375-2-AP) and anti-N-cadherin (cat. no. 22018-1-AP). DMEM, FBS and trypsin were purchased from Gibco; Thermo Fisher Scientific, Inc. Other chemicals (such as NaCl and KCl) were obtained from Sigma-Aldrich; Merck KGaA.
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9

Protein Extraction and Western Blot Analysis

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Cells were harvested and lysed in radio immunoprecipitation assay (RIPA) buffer (Solarbio, China) supplemented with phenylmethylsulfonyl fluoride (PMSF) (a serine protease inhibitor, Solarbio, China) for 30 min. BCA kit (Solarbio, China) was used to determine the concentration of protein in the supernatant. Proteins were separated on a 10% SDS-PAGE gel and transferred to a PVDF membrane (Merck Millipore, USA), and then incubated overnight with primary antibody (4 °C) after being blocked for 2 h in nonfat milk solution (5%). The membrane was reacted with TBST-diluted HRP-conjugated secondary antibody for 2 h at room temperature. Protein bands were detected by Amersham Imager 600 System (General Electric Company, USA) using ECL Substrate (Beyotime Biotech, China), and quantified with Image J software. The primary antibodies contain anti-GAPDH (BBI, China), anti-GLUD1 (BBI, China), anti-E-cadherin (1:1000, Abcam, USA), anti-Vimentin (1:1000, Boster, China), anti-Cytochrome C (ProteinTech, USA), anti-BCL2 (ProteinTech, USA), anti-BAX (Wanleibio, China), anti-Caspase 3 (Wanleibio, China), anti-JNK (Wanleibio, China), anti-phospho-JNK (Wanleibio, China), anti-p53 (Cell Signaling Technology, USA), anti-p38 (Cell Signaling Technology, USA) and anti-phospho-p38 (Cell Signaling Technology, USA).
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10

Mtb-Induced Apoptosis Pathway Analysis

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Mycobacterium tuberculosis (Mtb), H37RA, was purchased from Becton, Dickinson and Company (NV, USA). Mineral oil was purchased from Sigma (MO, USA). Methotrexate (MTX) was purchased from Shanghai Sine Pharmaceutical Laboratories Co., Ltd (Shanghai, China). ChamQ SYBR qPCR Master Mix, HiScript® III RT SuperMix for qPCR (+gDNA wiper) and trizol were purchased from Nanjing Vazyme Biotech Co., Ltd (Nanjing, China). Primers for GAPDH, Bax, Bcl-2, cytochrome c and caspase-9 were purchased from Tsingke Biological Technology Co., Ltd (Beijing, China). Secondary antibody was purchased from Affinity (USA). Anti-caspase-9, anti-Bax, anti-Bcl-2 and anti-cytochrome c were purchased from Proteintech (USA). Anti-β-actin and anti-cleaved caspase-9 were purchased from Cell Signalling Technology (USA).
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