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8 protocols using anti gapdh

1

Western Blotting of Mammosphere Proteins

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Western blotting procedures were carried out as previously described (15 ). Briefly, cells were collected in RIPA lysis buffer (150mM NaCl, 1% NP40, 0.5% DOC, 50mM Tris-HCl at pH 8, 0.1% SDS, 10% glycerol, 5mM EDTA, 20mM NaF and 1mM Na3VO4, 1 μg/ml each of pepstatin, leupeptin, and aprotinin, 200 μg/ml phenyl-methylsulfonyl-fluoride). Lysates were cleared by centrifugation at 14,000 x g for 20 minutes at 4 °C and analyzed by SDS-PAGE and autoradiography. Lysates from mammospheres were collected 7 days after culture in mammosphere media. Corresponding adherent controls were put on mammosphere media 24 hrs after seeding and collected the next day. Antibodies were purchased from the following companies; Anti-OGT (Santa Cruz, Cell-Signaling), Anti-O-GlcNAc (Santa Cruz, Sigma), Anti-c-Myc (Novus), Anti-Actin (Santa Cruz), Anti-CD44, Anti-Fibronectin, Anti-Vimentin, Anti-NANOG (Cell-Signaling), Anti-K8/18 (Thermo-Fisher), Anti-K14 (Thermo-Fisher), Anti-GAPDH (Genscript), Anti-KLF8 (Sigma). Densitometry was performed using Image J Software (National Institutes of Health, Bethesda, MA).
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2

Immunoblotting of Phosphorylated GAPDH Proteins

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SDS-PAGE and subsequent immunoblotting were performed according to standard procedures [89 ]. GAPC1-GFP immunoblots were performed with Anti-GFP (ab290, Abcam) rabbit polyclonal antibody at a dilution of 1:8,000. Anti-cF6BP immunoblots were performed using rabbit polyclonal antibody at a dilution of 1: 5,000 (Agrisera). Anti-RIN4 immunoblotting used affinity purified antisera from rabbit at 1:3,000. Rabbit polyclonal antibodies anti-Histone 3 (ab1791, Abcam) and anti-psbO (ab65563, Abcam) were used at 1:1,000 and 1:3,000, respectively. Secondary goat anti-rabbit IgG-HRP conjugate (Biorad) was used at a dilution of 1:3,000 for detection via enhanced chemiluminescence (Pierce). GAPDH immunoblots were performed using anti-GAPDH (GenScript) goat polyclonal antibody at a dilution of 1:500. Secondary bovine anti-goat IgG-HRP (Santa Cruz Biotechnology) was used at a dilution of 1:3,000 for detection via enhanced chemiluminescence (Pierce). Plasmids containing the seven phosphorylating GAPDH cDNAs in a pET28a backbone were transfected into E. coli. Recombinant protein was purified on Ni-NTA Agarose beads (Qiagen) and used for Western blotting.
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3

Immunofluorescent and Immunoblotting Protocols

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Antibodies used for immunofluorescent staining were as follows: Brn3a (Chemicon, a gift from the Miguel Weil lab, Tel Aviv University), IKAP (Anaspec or Santa Cruz), DRQ5 (Cell Signaling), Isl-1 (DSHB) and TrkA (Almone). Antibodies used for whole-mount staining were anti-Cre (Abcam) and neuronal class III -tubulin (anti-Tuj-1; Covance) which were kind gifts from the Keren Avraham lab (Tel Aviv University) and the Avraham Yaron lab (Weizmann Institute). Secondary antibodies were donkey anti-rabbit conjugated to Alexa-594, donkey anti-mouse Alexa-488, and donkey anti-goat Alexa-647 (all from Invitrogen and used 1∶1000). DRG cultures were stained using Hoechst dye and calcein (Thermo Scientific).
For immunoblotting, the primary antibodies used were: anti-IKAP (Anaspec), anti-acetylated α-tubulin (Sigma), anti-HDAC6 (Abcam), anti-Hsc70 (Santa Cruz Biotechnology), anti-GAPDH (GenScript), anti-α-tubulin (Abcam), anti-histone H3K9 (Abcam), anti-histone H3 (Abcam), anti-histone H4 (Millipore), anti-JNK (Santa Cruz Biotechnology), anti-pJNK (Santa Cruz Biotechnology), anti-ERK (Cell Signaling), anti-pERK (Santa Cruz Biotechnology). Secondary antibodies donkey anti-rabbit IgG HRP (Abcam), donkey anti-goat IgG (Abcam), or goat anti-mouse IgG (Jackson) were used as appropriate.
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4

Western Blot Analysis of Protein Expression

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Cells were harvested as described above and lysed in Laemmli buffer (50mM Tris-HCl pH 6.2, 5% (v/v) β-mercaptoethanol, 10% (v/v) glycerol, 3% (w/v) SDS). Cell lysate was ran on 8-16% gradient gels (Biorad), transferred onto 0.2 um nitrocellulose membranes (Millipore) and blocked in 5% (w/v) milk in Tween 20-TBST (50mM Tris pH 7.5, 150mM NaCl, 0.05% (v/v) Tween 20). Blots were incubated with anti-Myc Tag (Cell Signaling #2276), anti-HA Tag (Cell Signaling #3724), anti-β Tubulin (GenScript #A01203-40), anti-TRA2β (Abcam #ab31353), anti-GAPDH (GenScript #A01622). Anti-mouse IR-Dye 680 or IR-Dye 800 conjugated anti-mouse or rabbit IgG secondary antibodies (LICOR) were used for infrared detection with a ChemiDoc MP Imaging System (Bio-rad). Protein expression was quantified using ImageLab 6.0 software (Biorad) and normalized first to a lane loading control and then expressed as fold change (FC) or Log2FC to experimental controls.
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5

Epilepsy-Associated Nedd4-2 Mutant Characterization

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Dimethyl sulfoxide (DMSO) was from Fisher Scientific. AMPA was from Cayman Chemical and NBQX was from Alomone Labs. Recombinant GluA1 and 14-3-3ε were from Origene. Recombinant Nedd4-2 was from Abnova. R18 was from Sigma-Aldrich. Cycloheximide, poly-D-lysine and Protein A/G beads were from Santa Cruz Biotechnology. The antibodies used in this study were purchased from Santa Cruz Biotechnology (anti-α-Tubulin), Cell Signaling (anti-Nedd4-2, anti-pan-14-3-3, anti-N-cadherin and anti-Ubiquitin), Millipore (anti-GluA1), Abcam (anti-MAP2), Thermo Scientific (anti-HA) and GenScript Corporation (anti-Gapdh). The epilepsy-associated mutations were generated using site-directed mutagenesis reagent (Agilent) to introduce mutations into pCI-HA-Nedd4-2 [15 (link)]. The primers used are as below.
S233L: 5’-GGACGTGTCCTCGGAGTTGGACAATAACATCAGAC-3’,
5’-GTCTGATGTTATTGTCCAACTCCGAGGACACGTCC-3’;
E271A: 5’- GGGCGGGGATGTCCCCGCGCCTTGGGAGACCATTTC-3’,
5’- GAAATGGTCTCCCAAGGCGCGGGGACATCCCCGCCC-3’;
H515P: 5’- CGTTTGAAATTTCCAGTACCTATGCGGTCAAAGACATC-3’,
5’- GATGTCTTTGACCGCATAGGTACTGGAAATTTCAAACG-3’.
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6

Western Blotting Analysis of Renal Proteins

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Total proteins were extracted from cultured cells or homogenized renal tissues using radioimmunoprecipitation assay (RIPA) buffer (Sigma), and western blotting analysis was performed as described previously18 (link). The following primary antibodies were used: rabbit polyclonal anti-Sirt1 (1:800; Sigma), anti-cleaved caspase-3 (1:1000; Cell Signaling Technology, Danvers, MA), anti-nitrotyrosine (1:1000; Santa Cruz), anti-AT1R (1:500; Millipore), anti-AT2R (1:500; Millipore), anti-NF-κB (p65) (1:5000; Enzo Life Science, Farmingdale, NY, USA), anti-acetyl (K310)-NF-kB p65 (1:1000; Abcam, Cambridge, MA), anti-phospho (Ser32)-IκBα (1:1000; Cell Signaling), anti-connective tissue growth factor (CTGF; 1:1000; Peprotech, Rocky Hill, NJ, USA), hamster monoclonal anti-monocyte chemotactic protein 1 (MCP-1; 1:500; Abcam), mouse monoclonal anti-fibronectin (1:400; Abcam), anti-GAPDH (1:2000; GenScript, Piscataway, NJ, USA), and anti-proliferating cell nuclear antigen (PCNA, 1:1000; GeneTex Inc., Irvine, CA). The secondary horseradish peroxidase (HRP)-conjugated antibodies included goat anti-rabbit IgG (Santa Cruz Biotechnology), goat anti-mouse IgG (PerkinElmer, Waltham, MA, USA), and goat anti-hamster IgG (Invitrogen) diluted 1:5000. Specific signals were visualized using Immobilon Western Chemiluminescent HRP Substrate (Millipore).
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7

Western Blot Analysis of Viral Proteins

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Total proteins were extracted with Laemmli sample buffer, boiled, and resolved in 10% SDS-PAGE gel, transferred onto polyvinylidene fluoride (PVDF) membrane, blocked with nonfat dry milk, and probed with indicated antibodies, respectively. Anti-GAPDH (#A01622, GenScript), anti-AAV2 Rep (clone 303.9, #03-65169, American Research Products), anti-AAV2 VP (clone A69, #03-61057, American Research Products), and anti-c-Myc (clone 9E10, #SC-40, Santa Cruz) were purchased; anti-HBoV1 NS and anti-HBoV1 NP1 were homemade and have been described previously.53 (link)
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8

Signaling Pathway Modulation in Thyroid Cells

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Cells were starved and pretreated with U0126 (5 μM), SB203580 (5 μM), H89 (10 μM), SP600125 (5 μM) or wortmannin (0.5 μM) for 1 h and then stimulated with 10 nM TSH for 60 min. Cells were lysed in lysis buffer (20 mM Tris-HCl, 150 mM NaCl, 2 mM EDTA and 1% Triton-X 100) with a protease inhibitor cocktail for 30 min at 4°C. Lysates were quantified using a BCA protein assay kit (Pierce) according to the manufacturer's instructions. Proteins in the lysate were separated by 10% SDS-PAGE and transferred to a PVDF membrane (Millipore). After blocking with 5% skimmed milk, the membranes were incubated with anti-PAK4 (1:1000), anti-p-PAK4 (1:1000), anti-PKA Cα(1:1000) (Cell Signaling Technology, Beverly, MA, USA), anti-TSHR (1:1000) (Santa Cruz), cAMP (1:1000) (Sigma) and anti-GAPDH (1:2000) (GenScript Corporation, Nanjing, China) antibodies. U0126, SB203580, H89, SP600125, wortmannin, and forskolin were purchased from BioTime Technology.
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