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9 protocols using gap 43

1

Western Blot Analysis of Brain Proteins

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Brain tissues were lysed with RIPA buffer containing a cocktail of protease inhibitors and phosphatase inhibitors. Lysate was centrifuged at 14,000 rpm at 4 °C for 15 min and the supernatant was collected. The total protein concentration was determined by using the Bradford assay (Bio-rad Laboratories, Hercules, CA, USA). Equal amounts of protein were loaded on 10% SDS-PAGE gel and then transferred onto a PVDF membrane (Millipore, Temecula, CA, USA). After blocking with 5% skim milk or 3% BSA, the membrane was incubated overnight at 4 °C with primary antibodies against BDNF, TrkB, PSD-95, Erk1/2, pErk1/2 (Abcam, Cambridge, UK), and GAP-43 (Santa Cruz Biotechnology, Santa Cruz, CA, USA). After washing with TBS-T, the membrane was incubated with the proper secondary antibody conjugated to HRP for 2 h at room temperature. Interested protein signals on the membrane were detected by using SuperSignal West Pico chemiluminescence substrate (Thermo Fisher Scientific, Rockford, IL, USA). The signal intensity of each band on the film was quantified by using ImageJ software (Java 8) and normalized to the corresponding β-actin (Cell Signaling Technology, Danvers, MA, USA) as an internal control.
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2

Bifidobacterium Modulates Retinal Protein Markers

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A western blot analysis was used to measure GAP‐43, GFAP, c‐fos, ERK, and p‐ERK expression in the retinas of the Bifidobacterium‐treated mice. The retinas were collected and lysed. An equal amount of protein was added to 10% SDS‐PAGE gels, electrophoresed, and transferred electrophoretically onto polyvinylidene difluoride membranes. The membrane was blocked with a blocking buffer (Tris‐buffered saline Tween‐20 (TBST), containing 5% nonfat dry milk) for 1 h at room temperature and then incubated overnight with primary antibodies directed against GAP‐43 (Santa Cruz Biotechnology, 1:100), GFAP (Abcam, 1:1000), c‐fos (Abcam, 1:1000), ERK (CST, 1:1000), p‐ERK (CST, 1:1000), and GAPDH (Proteintech, 1:1000). The membranes were washed with TBST for 30 min and then incubated with a secondary antibody (Proteintech, 1:5000) for 1 h at room temperature. Proteins were visualized using a molecular imaging system (Amersham Imager 600, GE Healthcare, Buckinghamshire, UK). The experiments were repeated three times.
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3

Semen Persicae Extract Bioactive Profiling

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The dried powder of herbal medicine Semen Persicae extract was purchased from a local Pharmaceutical company Nong's Company (Hong Kong). Antibodies against ERK1/2, phospho-ERK1/2, β3-tubulin, goat anti-rabbit IgG secondary antibody, and Alexa Fluor 594-conjugated goat anti-rabbit IgG antibody were obtained from Cell Signaling Technology (Boston, MA, USA). Monoclonal antibodies against growth associated protein-43 (GAP-43), microtubule associated protein 2 (MAP2), and glyceraldehyde-3-phosphate dehydrogenase (GAPDH) were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Fluorescein isothiocyanate conjugated phalloidin (FITC-phalloidin) and other chemicals were obtained from Sigma-Aldrich Co. (St. Louis, MO, USA) unless indicated otherwise.
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4

Molecular Mechanisms of PC12 Cell Differentiation

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If not otherwise state, all the reagents were purchased in Sigma-Aldrich (Germany). The PC12 rat pheochromocytoma cell line was obtained from ATCC (USA). RPMI 1640 medium was from PAA (Austria). Calf and horse sera were from BioChrom (UK). Alexa Fluor 488, Alexa Fluor 594 and M-MLV Reverse Transcriptase were from Life Technologies (USA). Protein Assay Kit was from Bio-Rad (USA). Total RNA isolation kit was from Epicentre Biotech. (USA). Maxima SYBR Green Master Mix was from Fermentas (Canada). Primary antibodies against calcineurin, GAP43, phosphoGAP43, GAPDH were from Santa Cruz Biotech. (USA). Primary antibodies against calmodulin, PMCA1, PMCA2, PMCA3, PMCA4 were purchased in Thermo Scientific (USA). Calcineurin cellular activity assay kit was from Enzo Life Sciences (USA). Primers were synthesized in the Institute of Biochemistry and Biophysics (Poland).
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5

MTT Assay for Cell Viability

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Dimethyl sulfoxide (DMSO) and [3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide] (MTT) was purchased from Sigma (St Louis, MO, USA). Dulbecco’s Modified Eagle’s Medium (DMEM), fetal bovine serum (FBS) were purchased from Gibco (Grand Island, NY). Antibodies for p-Raf, p-MEK, p-ERK1/2, ERK1/2, p-JNK, JNK, and β-actin were obtained from Cell Signaling Technology (Beverly, MA). Vimentin and Gap43 were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). HPLC-grade acetonitrile was obtained from Merck KGaA (Darmstadt, German).
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6

Hippocampal Protein Expression Analysis

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Western blot analysis was used to assess protein expression in the hippocampus. Protein (40 µg) was electrophoresed on 10% SDS-polyacrylamide gels and then transferred to a polyvinylidene difluoride membrane (Millipore Corporation, USA). The antibodies dilutions were 1:1000 for GAP-43 and MAP-2 (Santa Cruz, CA, USA), 1:2000 for CD31 (Abcam, Cambridge, UK), eNOS and phosphorylated eNOS antibody (Cell Signaling, Boston, USA). The specific reaction was visualized using a chemiluminescent substrate (GE Healthcare, UK). GAPDH was used to verify equal loading (1:3000, Sigma-Aldrich, Missouri, USA). The optical density of protein was measured using Image-Pro Plus software 5.0 (Rockville, MD, USA) according to the manufacturer’s instructions.
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7

Protein Extraction and Western Blot Analysis

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After transfection, cells were collected and cellular protein was extracted by RIPA lysis buffer (Beyotime Biotechnology, Shanghai, China). Protein concentration was quantified using BCA™ Protein Assay Kit (Pierce, Appleton, WI, USA), according to the manufacturer's recommendations. Equal amounts of proteins were separated on a sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) and blotted onto polyvinylidene fluoride (PVDF) membranes. The membranes were blocked with 5% skim milk for 1 h, and then probed with primary antibodies: S100A4 (sc-292281), vascular endothelial growth factor precursor (VEGF; sc-7269), matrix metallopeptidase 9 (MMP-9; sc-21733), GAP43 (sc-17790) or GAPDH (sc-365062; Santa Cruz Biotechnology, Santa Cruz, CA) at 4°C, overnight. Afterward, the membranes were incubated with the appropriate horseradish peroxidase-conjugated secondary antibodies. The bands were visualized by the ECL Plus Western Blotting Substrate (Thermo Scientific).19 (link)
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8

Biochemical and Immunological Assays for Neurodegeneration

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Dulbecco’s Modified Eagle’s Medium (DMEM), calf serum (CS), penicillin, streptomycin, Dimethyl sulfoxide (DMSO), MTT, and DCF-DA were purchased from Sigma-Aldrich Chemical Co. (St. Louis, MO, USA). A SOD kit was obtained from Dojindo Molecular Technologies (Rockville, MD, USA). Ethanol was purchased from Ethanol Supplies World Co., Ltd. (Jeonju, Republic of Korea). Dimethyl sulfoxide (DMSO), 2-thiobarbituric acid (TBA), trichloroacetic acid (TCA), o-phthaldialdehyde (OPT), acetylthiocholine, AChE, pyruvic acid, malic acid, mannitol, egtazic acid (EGTA), hydroxyethyl piperazine ethane sulfonic acid (HEPES), 5,5′,6,6′-tetrachloro-1,1′,3,3′-tetraethylbenzimidazolocarbocyanine iodide (JC-1), N,O-bis(trimethylsilyl)trifluoroacetamide(BSTFA), and all other reagents used were purchased from Sigma-Aldrich Chemical Co. (St. Louis, MO, USA).
The primary and secondary antibodies are listed below: ACh, AChE, SYP, PSD-95, GAP-43, TLR-4, NF-κB, IκB-α, IL-1β, TNF-α, BCL-2, BAX, caspase-3, ZO-1, occludin, claudin-1, and β-actin were purchased from Santa Cruz Biotech (Dallas, TX, USA). ChAT and Horseradish peroxidase (HRP)-conjugated anti-rabbit IgG secondary antibody were purchased from Cell Signaling Tech (Danvers, MA, USA). HRP-conjugated anti-mouse IgG secondary antibody purchased from Bio-Rad (Hercules, CA, USA).
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9

Immunofluorescence Characterization of Neural Cells

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Cells (50,000/well) were seeded on coverslips placed in 12-well dish. Once the cells attached to the cover slips, they were treated with specific drugs for 48 h. The cells were then fixed with acetone:methanol (1:1), permeabilized with 0.1% Triton X-100 for 10 min and blocked with 2% bovine serum albumin (BSA) for 2 h, followed by incubation with primary antibodies (overnight) against Nestin (Santa Cruz, SC-23927), GFAP (Sigma-Aldrich, St. Louis, MO, USA; G9269), GAP43 (Santa Cruz, SC-33705), Vimentin (Santa Cruz, SC-6260), NeuF-H (Cell Signaling Technology, Inc. Danvers, MA, USA, 2836), NCAM (Santa Cruz, SC-10735), and HIF-1α (Novus Biologicals, Littleton, CO, USA; NB 100-479), washed with PBS-PBST-PBS for 10 min each. The cells were further incubated with either Alexa-488 or Alexa-594 (A11034 or A11032, Molecular Probes, Eugene, OR, USA) secondary fluorescent antibodies and counterstained with Hoechst 33258 (Sigma-Aldrich, St. Louis, MO, USA) before mounting. The slides were viewed under a Zeiss Axioplan 2 microscope and images were taken using AxioCam camera (Carl Zeiss, Oberkochen, Germany).
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