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43 protocols using anti α tubulin

1

Comprehensive Protein Extraction and Analysis

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Cells were washed with ice-cold Phosphate-Buffered Saline (PBS) and then lysed in Triton X-100-containing lysis buffer. The composition of the lysis buffer was as follows: 25 mM Tris-HCl (pH 7.5), 100 mM NaCl, 2.5 mM EDTA, 2.5 mM EGTA, 20 mM NaF, 1 mM Na3VO4, 20 mM Sodium β-Glycerophosphate, 10 mM Sodium Pyrophosphate, 0.5% Triton X-100, Roche protease inhibitor cocktail and 0.1% β-Mercaptoethanol. Lysates were precleared by centrifugation before use for Western blotting. Equal amounts of protein were loaded for Western blot analysis. All the following antibodies used were obtained from Cell Signaling Technology: anti-phospho-p38 (Thr180/Tyr182), anti-p38, anti-phospho-SAPK/JNK (Thr183/Tyr185), anti-SAPK/JNK, anti-phospho-ERK1/2 (Thr202/Tyr204), anti-ERK1/2, anti-Mcl-1, anti-phospho-Bad (Ser112), anti-Bad, anti-phospho-MEK1/2, anti-MEK1/2, anti-Grb2, anti-phospho-Akt (Thr308), anti-Akt, anti-phospho-STAT3 (Tyr705), anti-STAT3, anti-calnexin, anti-phospho-p70 S6K1 (Thr389), anti-p70S6K1, except for anti-p27 (BD Biosciences), anti-HIF-1α (BD Transduction Laoratories), anti-GAPDH (US Biological), anti-Glut1 (Abcam), anti-α-tubulin (Molecular Probes), anti-β-actin (Sigma), anti-FLAG M2 (Sigma), anti-V5 (Serotec) and anti-HA (Roche).
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2

Western Blot Analysis of Signaling Pathways

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Cells were washed with ice-cold Phosphate-Buffered Saline (PBS) and then lysed in Triton X-100-containing lysis buffer. The composition of the lysis buffer was as follows: 25 mM Tris-HCl (pH 7.5), 100 mM NaCl, 2.5 mM EDTA, 2.5 mM EGTA, 20 mM NaF, 1 mM Na3VO4, 20 mM Sodium β-Glycerophosphate, 10 mM Sodium Pyrophosphate, 0.5% Triton X-100, Roche protease inhibitor cocktail and 0.1% β-Mercaptoethanol. Lysates were pre-cleared by centrifugation before use for Western blotting. Equal amounts of protein were loaded for Western blot analysis. All the following monoclonal antibodies used were obtained from Cell Signaling Technology: anti-phospho-p70S6K (Thr389) (#9234), anti-phospho-p38 (Thr180/Tyr182) (#9215), anti-phospho-JNK1/2 (Thr183/Tyr185) (#4668), anti-phospho-ERK1/2 (Thr202/Tyr204) (#9101), anti-phospho-IκBα (Ser32) (#2859), and anti-IκBα (#9242), except for anti-p27 (BD Biosciences, #610241), anti-HIF-1α (BD Biosciences, #610959), anti-α-tubulin (Molecular Probes, #236-10501) and anti-V5 (Serotec, #MCA1360). All the antibodies were used at dilutions of between 1:10,000 and 1:5000. The Western blots shown are representative of at least two independent experiments.
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3

Cell Lysis and Western Blot Analysis

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Cells were washed with ice-cold Phosphate-Buffered Saline (PBS) and then lysed in Triton X-100-containing lysis buffer. The composition of the lysis buffer was as follows: 25 mM Tris-HCl (pH 7.5), 100 mM NaCl, 2.5 mM EDTA, 2.5 mM EGTA, 20 mM NaF, 1 mM Na3VO4, 20 mM sodium β-glycerophosphate, 10 mM sodium pyrophosphate, 0.5% Triton X-100, Roche protease inhibitor cocktail and 0.1% β-mercaptoethanol. Lysates were precleared by centrifugation before use for Western blotting. Equal amounts of protein were loaded for Western blot analysis. The following antibodies were used: anti-NRF2 (Cell Signaling Technology), anti-p27Kip1 (BD Biosciences), anti-α-tubulin (Molecular Probes), anti-β-actin (Sigma), anti-FLAG M2 (Sigma), anti-V5 (Serotec) and anti-HA (Roche).
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4

Multinucleation and Cell Viability Assay

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For the Multinucleation assay, cells were fixed and stained with anti-α-tubulin antibodies and Hoechst 33342 (Invitrogen). Then, cells were analyzed for the presence of more than one nucleus per cell. Cells connected by midbodies were considered multinucleated. The viability of cells was assayed using a cell counting kit-8 (Dojindo, Tokyo, Japan) according to the manufacturer’s instructions.
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5

Western Blot Analysis of Acetylated Proteins

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For cell‐based experiments, cells were washed three times in PBS and resuspended with lysis buffer containing 50 mM Tris, pH 7.5, 150 mM NaCl, 1% Nonidet P‐40, 1 mg/ml aprotinin, 1 mg/ml leupeptin, 1 mg/ml pepstatin, 1 mM Na3VO4, and 1 mM phenylmethylsulfonylfluoride (PMSF), and 25 mM NAM and trichostatin A (TSA) for 20 min and centrifuged for 20 min at 13,800 g; the insoluble fraction was discarded. The lysates were fractionated by SDS/PAGE and transferred to nitrocellulose filter (NC) membranes. The membranes were blocked for 1 h with Tris‐buffered saline with Tween 20 (TBST) containing 5% (mass/vol) nonfat dry milk. After incubation with primary antibodies (anti‐acetylated tubulin (K40) (Proteintech), anti‐α‐tubulin (Invitrogen), anti‐SIRT2(Abcam) or anti‐His (Abmart), each diluted 1:1000), the membranes were washed and incubated with HRP‐conjugated anti‐mouse (Cell Signaling Technology) or anti‐rabbit secondary antibodies (Cell Signaling Technology), followed by detection using ECL Western blotting substrate (Bio‐Rad).
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6

Antibodies and Lipids for Cell Biology

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Anti-His-tag (mouse), anti-Rac (mouse), anti-E-cadherin (rabbit), anti-GAPDH (rabbit), anti-histone H3 (rabbit), anti-α-tubulin (rabbit), anti-rabbit IgG (goat), anti-mouse IgG conjugated with Alexa Fluor® 488 (goat), anti-rabbit IgG conjugated with Alexa Fluor® 594 (goat) were purchased from Invitrogen (Oregon, USA); anti-mouse IgG was obtained from Dako (rabbit, California, USA). GDP and a non-hydrolyzable GTP analogue, guanosine 5′-[β,γ-imido]triphosphate (GppNHp), were obtained from Jena Bioscience GmbH (Jena, Germany). TC100 insect cell media, fetal bovine serum, antibiotics (penicillin and streptomycin) and 10% Pluronic F-68 were obtained from PAN-Biotech GmbH (Aidenbach, Germany). Phosphatidylserine (PS), Phosphatidylcholine (PC), phosphatidylethanolamine (PE) and sphingomyelin (SM), phosphatidylinositol 4,5-bisphosphate (PIP2), and Folch I and Folch III brain lipid extracts were purchased from Sigma-Aldrich (Munich, Germany). PIP3 is from Merck (Darmstadt, Germany). All other standard reagents, including detergents (Table S1 in File S1) were obtained from Carl Roth GmbH (Karlsruhe, Germany) or Merck-Millipore (Darmstadt, Germany).
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7

Immunostaining for Neural Development

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The procedure was almost the same with the Cell climbing immunofluorescence staining except that embryos were soaked in 0.5% or 1% Triton X-100 for one hour to four hours until otoliths were completely dissolved. Primary antibodies were as follows: anti-Sox2 (1: 400, Abcam), anti-HuC (1: 400, Invitrogen), anti-Islet1 (1: 200, Developmental Studies Hybridoma Bank), anti-α-tubulin (1: 400, Invitrogen), Hochest 33342 (1: 800, Invitrogen). Secondary antibodies (1: 400, Invitrogen) were Alexa-488 or Alexa-594 donkey anti-mouse IgG and goat anti-rabbit IgG. Embryos could be observed after washing in PBS with confocal microscopy (ZEISS, LSM710).
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8

Phosphorylation of Activation-Induced Cytidine Deaminase

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The antibodies used in this study were anti-pS38 (McBride et al., 2006 (link)), anti-AID (30F12 from Cell Signaling Technology or McBride et al. [2004] (link)), and anti–α-tubulin (Sigma-Aldrich). Anti-γH2AX (20E3), anti–histone H3 (D1H2), anti-CDC6 (C42F7), and phospho-substrate antibodies 9611, 2261, and 9621, all from Cell Signaling Technology. Anti-FLAG M2 agarose (Sigma-Aldrich) was used for Flag immunoprecipitation and eluted with Flag peptide. Immunoprecipitated AID or cell lysates (70 µg) were separated on 12% NuPAGE (Invitrogen), transferred to PVDF membrane, probed with anti-pS38 antibody, stripped, and probed with anti-AID and then anti–α-tubulin antibody. Band intensity was quantified with ImageJ, and the ratios of pS38 to AID or AID to H3 signals were calculated. Relative changes were normalized to control samples.
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9

Visualization of Cellulose Binding

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Sections were successively incubated at room temperature in a blocking solution [5% w/v milk powder protein/phosphate-buffered saline (PBS) and 0.05% v/v Tween solution] for 1 h and in solutions containing primary probes for 1 h. The dilutions of probes in 5% w/v milk/PBS/Tween solution were as follows: 1:200X dilution for Anti-α-Tubulin (Invitrogen), and 1:1000X dilution for the cellulose binding module CBM3a. Sections for Anti-α-Tubulin labeling were extensively washed (5 min, three times) then incubated in milk powder protein/PBS solution containing the FITC conjugated secondary antibody for 1 h followed by another extensive wash. Sections for CBM3a detection were incubated in 1:1000X anti-histidine antibody in buffer solution for 1 h. After an extensive wash, the sections were incubated in the presence of FITC conjugated secondary antibody for 1 h and washed again. Sections incubated without primary antibodies were used as negative controls. Wild type sections treated with lichenase (from Bacillus sp., Megazyme; 1:1000 dilutions) for 1 h prior to CBM3a labeling were also used as controls. Brightness and contrast adjustments were done using ImageJ (NIH, Bethesday, MD, USA2, 1997–2014).
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10

Western Blot Protein Detection

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Proteins were detected by western blot using anti-p24 (1:1,000 dilution, #3637, NIH), anti-Nopp 140 (1:5,000 dilution, a generous gift from U. Thomas Meier, Albert Einstein College of Medicine), anti-α-tubulin (1:8,000 dilution, #PA5–29444, Invitrogen), anti-FLAG (1:1,000 dilution, Sigma), anti-hemagglutinin (HA) (1:1,000 dilution, Sigma), and anti-glyceraldehyde-3-phosphate dehydrogenase (GAPDH) (1:5,000 dilution, Invitrogen). Secondary antibodies against rabbit and mouse IgG conjugated to IRDye 680LT or IRDye 800CW were obtained from Li-Cor (1:10,000 dilution). Bands were detected by scanning blots using the Li-Cor Odyssey imaging system in the 700 nm or 800 nm channels.
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