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4 protocols using p rela

1

NF-κB Activation Assay in EPCs

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EPCs were pre-treated with FGF23 for 30 min followed by SDF-1 stimulation for 10 min. Treatment of NF-κB inhibitor (Helenalin) for 40 min was used as a positive control. Nuclear extracts were prepared using Nuclear/Cytosol Fractionation Kit (BioVision). EMSA was performed using the LightShift Chemiluminescent EMSA Kit (Thermo Scientific) according to the manufacturer’s instructions. The double-stranded oligonucleotide containing the NF-κB consensus sequence: 5′-CAGGGTCCCCTGGGCTTCCCAAGCCGCGCACCTCT-3′ presented in the promoter of CXCR4 at −130 to −164. Oligonucleotide probe was labeled with biotin at the both 5′ and 3′-end and incubated with nuclear extracts for 20 min at room temperature. For competition experiments, unlabeled CXCR4 probe was added at a 50-, 100- or 200-fold molar excess before the labeled probe. For the supershift assay, 2 µg of RelA (Santa Cruz, sc-8008X), p-RelA (Santa Cruz, sc-136548X) or p50 (Santa Cruz, sc-8414X) antibodies were pre-mixed with the nuclear extracts for 30 min on ice before adding the binding reaction mixture, further incubated for 20 min at room temperature. The resulting DNA–protein complexes were separated from the free oligonucleotides on 6% native polyacrylamide gel and transferred onto Immobilon-Ny+ Membrane (Millipore). The membrane was incubated with Streptavidin-HRP Conjugate, and then detected by chemiluminescence.
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2

Comprehensive Signaling Pathway Analysis

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Primary antibodies (Abs) -- OGG1 Ab (Cat # ab124741) and subtype-specific HRAS Ab (Cat# 1521–1) were purchased from Epitomics (Burlingame, CA, USA). pan-RAS Ab (Cat# 05–1072) was from Millipore (Billerica, MA) and KRAS (Cat # sc-30), NRAS (Cat# sc-3), RelA (Cat# sc-372), and p-RelA (Ser276, Cat # sc-101749) Abs from Santa Cruz Biotechnology (Dallas, TX, USA). The following Abs were purchased from Cell Signaling Technologies (Danvers MA, USA): RAF-1 (Cat# 9422), phosphorylated (p)-RAF-1 (Ser338 Cat# 9427), ERK 1,2 (Cat # 4695), p-ERK 1,2 (Thr202/Tyr204, Cat# 9101), MEK 1,2 (Cat# 9122), p-MEK1,2 (Ser217/221 Cat# 9154), MSK1 (Cat# 3489), p-MSK1 (Ser376) Cat# 9591), PI3K(p85, Cat #4292), p-PI3K (p85/Tyr458; p55/Tyr199, Cat# 4228), AKT (Cat #9272), p-AKT (Ser473, Cat# 4058), IKKα (Cat#2682), IKKβ (Cat#2370), p-IKKα/β (Ser176/180, Cat #2697), IκBα (Cat# 4814), and p-IκBα (Ser32/36 Cat# 9246). Secondary Abs, e.g., goat anti-rabbit, rabbit anti mouse and donkey anti-mouse, were from GE Healthcare (Pittsburgh, PA, USA).
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3

ChIP Assay for Transcription Factor Binding

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ChIP assay was performed by SimpleChIP® Plus Enzymatic Chromatin IP Kit (Cell Signaling) according to the manufacturer’s instructions. EPCs were pre-treated with FGF23 for 30 min followed by SDF-1 stimulation for 15 min. Treatment of NF-κB inhibitor (Helenalin) for 40 min was used as a positive control. The cells were fixed with 1% formaldehyde, sonicated, and sheared into 150–900 bp of DNA fragments by micrococcal nuclease for 20 min at 37 °C. A portion of the cross-linked protein–DNA complexes were reserved as input DNA, and then the rest protein–DNA complexes were immunoprecipitated with RelA (Cell Signaling, #8242, 1:500), p-RelA (Santa Cruz, sc-136548X, 1:500), p50 (Santa Cruz, sc-8414X, 1:500), GLP (Abcam, ab41969, 1:250), H3K9me2 (Abcam, ab1220, 1:250), p300 (Abcam, ab14984, 1:250) or control (Cell Signaling, #2729, 1:500) antibodies. PCR analyses were carried out for 36 cycles with the following primer pairs: (5′-CGGACTCACTACCGACCAC-3′ & 5′-CGTCACTTTGCTACCTGCTG-3′) were used for CXCR4; (5′-GGTACATCCTCGACGGCATCT-3′ & 5′-GTGCCTCTTTGCTGCTTTCAC-3′) were used for IL-6; (5′-ACTGAGAGTGATTGAGAGTGGAC-3′ & 5′-AACCCTCTGCACCCAGTTTTC-3′) were used for IL-8; and (5′-CTACCTCCACCATGCCAAGT-3′ & 5′-GCAGTAGCTGCGCTGATAGA-3′) are used for VEGF-A.
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4

Wogonin Extraction and Characterization

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Wogonin was isolated from S. baicalensis Georgi according to previous protocols [44 (link)]. Wogonin was of ≥ 99% or higher in all experiments, unless otherwise noted. Wogonin was dissolved in dimethyl sulfoxide (DMSO) as a stock solution (100 mM), stored at −20°C, and diluted to each of the designated concentrations in the buffer solution before each experiment. The final concentration of DMSO did not exceed 0.1%. IM was purchased from Melonepharma (Dalian, China). Primary antibodies of β-actin (1:2000), P-gp (1:500), NF-κB (1:500), p-RelA (1:500), IKKβ (1:500), IκBα (1:500) and Caspase 3 (1:500) were obtained from Santa Cruz (Santa Cruz, CA). p-Stat5 (1:1000), Stat5 (1:1000), Mcl-1 (1:1000), Bcl-2 (1:1000), BCR/ABL (1:1000), Bcl-× l (1:1000) and Lamin A (1:1000) were from Bioworld (OH, USA). RPMI-1640 (Gibico, Carlsbad, CA) and DAPI (Invitrogen, USA) were purchased. The IRDye 800 conjugated secondary antibodies were the products of Rockland Inc. (Philadelphia, PA). FITC-conjugated anti-human CD13 antibody and PE-conjugated anti-human CD34 antibody were purchased from eBioscience. Stat5 siRNA and IKKβsiRNA were from Santa Cruz Biotechnology. Stat5-luc Plasmid and NFκB-luc Plasmid were obtained from Beyotime (Nanjing, China).
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