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10 protocols using phosphor 4e bp1

1

Immunoblotting Analysis of Signaling Pathways

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Cells were lysed in NP40 buffer and analyzed by standard immunoblotting protocols. Antibodies used were directed against: ERK1/2, phospho-ERK1/2, phospho-STAT3, phosphor-Akt S473, IRS1, phospho-IRS1 S636/639, IGF-1R, phospho-S6 ribosomal protein, phosphor-4E-BP1, cyclin D1, cleaved caspase 3 (Cell Signaling, Danvers, MA, USA); β-catenin, SHP2, IRS1, GAPDH (Santa Cruz Biotechnology, Dallas, TX, USA); and α-tubulin (Sigma-Aldrich). Secondary antibodies were from Cell Signaling. Detection was done using Clarity Western ECL Substrate (Biorad, Hercules, CA, USA). Densitometric analysis was perfomed using Quantity One Software (Biorad).
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2

Investigating Hepatocarcinoma Cell Signaling

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Human hepatocarcinoma HepG2 cells were obtained from Cascade Biologics (Portland, OR). Dulbecco’s modified Eagle’s medium (DMEM) was purchased from Mediatech, Inc. (Herndon, VA). Fetal bovine serum (FBS) was obtained from Invitrogen Corporation (Carlsbad, CA). The following antibodies were purchased from Cell Signaling Technology (Beverly, MA): phosphor-mTOR (Ser2448), phosphor-AMPK (Thr172), AMPK-α, phosphor-S6K (Thr389), SREBP-1, fatty acid synthase (FAS), Ras homolog enriched in brain (Rheb), 78 kDa glucose-regulated protein (GRP78), phosphor-PERK, phosphor-eIF2α, eukaryotic translation initiation factor 4E binding protein 1 (4EBP1), and phosphor-4EBP-1 (Thr37/46). The antibody against β-actin was acquired from Santa Cruz Biotechnology (Santa Cruz, CA). All secondary antibodies were obtained from Jackson ImmunoResearch Laboratories, Inc. (West Grove, PA). AICAR (5-aminoimidazole-4-carboxyamide ribonucleoside) was procured from Toronto Research Chemicals, Inc. Compound C and rapamycin were purchased from Calbiochem (San Diego, CA). Tunicamycin, 4-phenyl butyric acid (PBA), palmitate, human recombinant insulin, and other chemicals were obtained from Sigma.
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3

Immunoblotting Analysis of Signaling Pathways

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Cells were lysed in NP40 buffer and analyzed by standard immunoblotting protocols. Antibodies used were directed against: ERK1/2, phospho-ERK1/2, phospho-STAT3, phosphor-Akt S473, IRS1, phospho-IRS1 S636/639, IGF-1R, phospho-S6 ribosomal protein, phosphor-4E-BP1, cyclin D1, cleaved caspase 3 (Cell Signaling, Danvers, MA, USA); β-catenin, SHP2, IRS1, GAPDH (Santa Cruz Biotechnology, Dallas, TX, USA); and α-tubulin (Sigma-Aldrich). Secondary antibodies were from Cell Signaling. Detection was done using Clarity Western ECL Substrate (Biorad, Hercules, CA, USA). Densitometric analysis was perfomed using Quantity One Software (Biorad).
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4

Metformin Signaling Pathway Analysis

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Metformin was purchased from Aladdin chemistry Co.Ltd and was diluted across a range of concentrations in culture media. Antibodies against total Akt, phosphor-Akt(Ser473), total Erk1/2, phosphor-Erk1/2, phosphor-Acetyl-CoA Carboxylase (Ser79), total Acetyl-CoA Carboxylase (Ser79), total p70 S6 kinase (Thr389), phosphor-p70 S6 kinase (Thr389), total AMPKα (Thr172), phosphor-AMPKα (Thr172), total 4E-BP1, phosphor-4EBP1, FASN and β actin were purchased from Cell Signaling Technology. AZD6244 and MK-2206 were from Selleckchem (Houston, Texas, USA).
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5

Protein Extraction and Western Blot Analysis

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Total proteins were extracted using CytoBuster Protein Extraction Reagent containing a protease inhibitor cocktail (Roche, Indianapolis, MN) and Phosphatase Inhibitor Cocktail (Roche). Western blot was performed as previously described with the following primary antibodies: LC3B (NB100-2220, Novus Biologicals, Littleton, CO), p62/SQSTM1 (H00008878, Novus Biologicals), cathepsin D (sc-10725, Santa Cruz), Lysosomal-associated membrane protein (LAMP2) (NBP1-71692, Novus Biologicals), Rubicon (8465, Cell Signaling Technology, Danvers, MA), phospho-AMPKα (2535, Cell Signaling), phospho-mTOR (2971, Cell Signaling), phosphor-p70 ribosomal protein S6 kinase (p70 S6 Kinase) (9205, Cell Signaling), phosphor-4E-BP1 (2855, Cell Signaling), ubiquitin (3936S, Cell Signaling), GRP78 (sc-13968, Santa Cruz Biotechnology, Santa Cruz, CA), phosphorylated inositol-requiring enzyme 1α (p-IRE1α) (NB100-2323, Novus Biologicals), IRE1α (3294, Cell Signaling), C/EBP homologous protein (CHOP) (2895, Cell Signaling), X-box binding protein 1 (XBP-1) (sc-7160, Santa Cruz), β-Actin (sc-4778, Santa Cruz), and GAPDH (sc-25778, Santa Cruz) .
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6

Immunoblotting for Signaling Proteins

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Antibodies against phosphor-AMPKα, AMPKα, phosphor-ACC, ACC, phosphor-mTOR, mTOR, phosphor-p70S6K, p70S6K, phosphor-4E-BP1, 4E-BP1, phorphor-NFκB p65, NFκB p65, IκBα, COX2, phosphor-STAT3, STAT3, Mcl-1, Bcl-xL, Bim, Bak, Bax, Bid, Puma and Bad were purchased from Cell Signaling Technology (Beverly, MA, USA). Antibodies against Bcl-2 and Protein A/G Agarose beads were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Metformin and aspirin as well as interleukin-6 (IL-6) were purchased from Sigma-Aldrich (St Louis, MO, USA). AZD-8055 was purchase from Invitrogen (Carlsbad, CA, USA).
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7

Molecular Pathway Regulation by Pharmacological Inhibitors

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Lanatoside C (lana.C), rottlerin, Ro318220, Gö6983 were purchased from Sigma Chemical Co. (St Louis, MO, USA). The above drugs were all dissolved in dimethylsulfoxide (DMSO). The non-conjugated primary antibodies were against C23 (nucleolin, Sigma Chemical Co., St Louis, USA), BID, caspase-8, caspase-9, PKCδ (Thr505), PKCδ, caveolin, phoshpo-p44/42 MAP kinas (Thr202/Tyr204), p44/42 MAP kinas (Thr202/Tyr204), phosho-SAPK/JNK (Thr183/Tyr185), p38 MAP kinase, phosho-mTOR, phosphor-p70 S6 kinase (Thr421/Ser424), phosphor-4E-BP1 (Thr37/46), phosho-eIF4E (Ser209), AKT (Cell signaling Technology, Beverly, MA, USA), AIF, Bcl-xl, Mcl-1, α-tubulin, PARP-1/2 (Santa Cruz Biotechnology Corp., Santa Cruz, CA, USA), caspase-2, caspase-6, caspase-7 (BD Biosciences, San Jose, CA, USA), phosho-AKT (Ser473, Epitomics Inc., Burlingame, CA, USA), caspase-3 (Imgenex, San Diego, CA, USA), β-actin (Millipore, Temecula, CA, USA). The secondary horseradish peroxidase (HRP)-conjugated anti-mouse and anti-rabbit IgGs were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). z-VAD-fmk was purchased from R&D system (Minneapolis, MN, USA).
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8

Quantitative Immunoblotting of Signaling Proteins

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Cells were lysed in a RIPA buffer (150 mM NaCl, 1.0% IGEPAL® CA-630, 0.5% sodium deoxycholate, 0.1% SDS, 50 mM Tris, pH 8.0.) with Halt Protease and Phosphatase Inhibitor Cocktail (Pierce) and then cleared by centrifugation. Protein concentration was estimated with a BCA assay (Pierce). Proteins present in cell lysates (30 μg) were resolved by SDS-PAGE and transferred onto polyvinylidene difluoride (PVDF) membrane. Membranes were stained with Ponceau S to confirm equal loading and probed, stripped with NewBlot™ PVDF Stripping Buffer (LI-COR), and reprobed with antibodies specific for phospho-AKT (Cell Signaling), AKT(Cell Signaling), phosphor-ERK (Cell Signaling), ERK (Cell Signaling), phospho-HER2 (Cell Signaling), HER2 (Sigma-Aldrich), phospho-HER3 (Cell Signaling), HER3 (Cell Signaling), AKT1(Cell Signaling), phosphor-4EBP-1(Cell Signaling) or actin (Santa Cruz). Immunoreactive proteins were detected and quantified using infrared fluorescence, IRDye® secondary antibodies, and Odyssey® imagers (LI-COR).
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9

Protein Expression Analysis by Western Blotting

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Cells were harvested and lysed with RIPA buffer (Beyotime, Shanghai, China). Cell lysates were subjected to standard Western blotting using antibodies against GRP78, XBP1s, ATF-4, CHOP, p62, phosphor-mTOR (Ser 2448), mTOR, phospho-p70 S6 Kinase (p70S6K, Thr389), p70S6K, phosphor-4EBP1(Thr 37/36), 4EBP1 (Cell Signaling Technology, Danvers, MA, USA), XDH (Abcam, Cambridge, UK), and GAPDH (Proteintech, Rosemount, IL, USA). The β-actin and LC3 antibody were purchased from Sigma-Aldrich (St. Louis, MO, USA).
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10

Comprehensive Antibody Validation Protocol

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The antibodies used in this study were from the following sources: EGFR (Santa Cruz Biotechnology, Dallas, Texas), HER2 (Cell Signaling Technology, Danvers, Massachusetts), HER3 (Cell Signaling Technology), HER4 (Cell Signaling Technology), HOXB7 (Invitrogen and Abcam, Cambridge, Massachusetts), ERα (Santa Cruz Biotechnology), MYC (Abcam), phosphor-MYC-Threonine 58 (Applied Biological Materials Richmond, Canada), phosphor-MYC-Serine 62 (Abcam), BCL-2 (Cell Signaling Technology), CyclinD1 (Cell Signaling Technology), Actin (Sigma-Aldrich, St. Louis, Missouri), phospho-p44/42 MAPK (Cell Signaling Technology), phospho-AKT-serine and threonine (Cell Signaling Technology), phospho-p70 (Cell Signaling Technology), phosphor-4EBP1 (Cell Signaling Technology), Flag tag (Sigma), AIB1 (Abcam), NCOR (Abcam), SRC-1 (Abcam), HDAC (Abcam), H3R17-di-methyl (Abcam), p300 (Invitrogen), FOXA1 (Abcam), PBX-1(Santa Cruz Biotechnology), PBX-2 (Abcam), Meis-1 (Abcam), PAX-2 (Abcam), and RNA polymerase II (EMD Millipore). For in vitro assays, 4-hydroxytamoxifen (5 mg), β-estradiol (1 g), 10058-F4, and 10074-G5 (5 mg) were used and purchased from Sigma.
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