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12 protocols using total c jun

1

Autophagy Regulation in Cell Signaling

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GPD was obtained from the Ambo Institute (Seoul, Republic of Korea). The antibody against LC3 was purchased from ABGENT Inc. (San Diego, CA), while antibodies against phosphorylated AMPKα (Thr172), total AMPKα, phosphorylated c-Jun NH2-terminal kinases (JNKs; Thr183/Tyr185), total JNK, Beclin-1, phosphorylated Bcl-2, cytochrome C, PARP, caspase-3, 7, 9, phosphorylated ATF2, ATF, phosphorylated c-Jun (Ser73), total c-Jun, phosphorylated mTOR (Ser2448) and total mTOR were purchased from Cell Signaling Technology (Danvers, MA). The antibodies against p62/SQSTM1, Bcl-2, α-tubulin and β-actin were purchased from Santa Cruz Biotechnology, Inc. (Santa Cruz, CA, USA). The BCA protein assay kit and mitochondrial isolation kit for cultured cells were obtained from Thermo Scientific (Rockford, IL). Puromycin was purchased from InvivoGen (San Diego, CA). 5-bromo-2′-deoxyuridine and anti-bromodeoxyuridine were purchased from Roche Applied Science (Indianapolis, IN).
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2

Western Blotting Analysis of Signaling Proteins

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Western blotting was performed as previously described (36 ) using the following antibodies: total FAK (BD Bioscience:610087), total p130Cas (BD Bioscience:610271); pY397FAK (Abcam, Cambridge, MA:ab81298); pY416Src (Cell Signaling, Danvers, MA:2101), total Src (Cell Signaling:2109), pY410p130Cas (Cell Signaling:4011), total c-Jun (Cell Signaling:2315), pS63c-Jun (Cell Signaling:2361); pY861FAK (Invitrogen, Carlsbad, CA:44–626G); α-tubulin (CALBIOCHEM, Burlington, MA:CP06). Phosphorylated protein expression was normalized to total protein for quantification using the Odyssey CLx imager (Li-Cor).
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3

Retinal Protein Expression Analysis

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Whole retina was gently removed at indicated time points after I/R injury and homogenized in mammalian protein extraction reagent (MPER, Thermo Fisher Scientific Inc, Rockford, IL). Total protein was quantified using DC™ Protein Assay (Bio-RAD, Life Science Research, Hercules, CA). Total retinal protein (50 μg) in Laemmli buffer (Bio-RAD) and 0.5 % β-mercaptoethanol was electrophoresed in 10 % SDS-PAGE gels. Gels were transferred to Immobilon-P PVDF transfer membrane (EMD Millipore, Billerica, MA) followed by blocking in 10 % non-fat milk. Membranes were incubated overnight in 4 °C with primary antibodies for pJNK (#9251), total JNK (#9252), phospho-c-Jun (pc-Jun) (#2631), total c-Jun (#9165), and GAPDH (#2118) from Cell Signaling Technology (Danvers, MA), followed by incubation with secondary antibody conjugated with horse radish peroxidase (Cell Signaling Technology) for 1 h at room teMPERature. Protein expression was detected using SuperSignal West Femto Chemiluminescent substrate (Thermo Fisher Scientific, Rockford, IL) and Alpha Innotech Gel Documentation System with Flourchem 8900 software (ProteinSimple, Alpha Innotech, Santa Clara, CA). Immunoblots were quantified using the ImageJ program (National Institutes of Health, Bethesda, MD) and expression was normalized to GAPDH.
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4

Naringenin Modulates Signaling Cascades

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Naringenin (95%), and chemical reagents, including Tris, NaCl, SDS and cycloheximide (CHX) were purchased from Sigma‐Aldrich (St. Louis, MO, USA). Specific antibodies against MMP‐1 were purchased from Upstate Biotechnology (Lake Placid, NY, USA). Antibodies specific to detect Ser217/221‐phosphorylated MEK, total MEK, Thr359/Ser363‐phosphorylated p90RSK, total p90RSK, Tyr180/182‐phosphorylated p38, total p38, Ser63‐phosphorylated c‐Jun, total c‐Jun, total c‐Fos and Ser265‐phosphrylated FRA1 were from Cell Signaling Biotechnology (Beverly, MA, USA). Antibodies specific to Thr202/Tyr204‐phosphorylated ERK1/2, total ERKs, total FRA1, alpha tubulin and lamin B were obtained from Santa Cruz Biotechnology (Santa Cruz, CA, USA). The antibody against β‐actin was obtained from Sigma‐Aldrich. The recombinant active ERK2 protein was obtained from Upstate Biotechnology. CNBr‐Sepharose 4B, glutathione‐Sepharose 4B, [γ‐32P] ATP and the chemiluminescence detection kit were purchased from GE Healthcare (Piscataway, NJ, USA). The protein assay kit was obtained from Bio‐Rad Laboratories (Hercules, CA, USA).
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5

Investigating Kinase Signaling Pathways

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Active Fyn, PP2, catalase, NAC were purchased from Merck Millipore (Billerica, MA). The Src substrate peptide (KVEKIGEGTYGVVYK) was purchased from SignalChem (Richmond, Canada). Antibodies specific to detect total MKK3/6, phosphorylated MKK3/6 (Ser189/207), total p38, phosphorylated p38 (Thr180/Tyr182), total MKK4, phosphorylated MKK4 (Ser257/Thr261), total JNKs, phosphorylated JNKs (Ser112), total c-Jun, phosphorylated c-Jun (Ser73), total PKCδ, phosphorylated PKCδ (Y313, T505 and S643), PARP, caspase-3, and caspase-9 were purchased from Cell Signaling Technology (Beverly, MA). Antibodies to detect total Fyn, total MSK, phosphorylated MSK1 (Ser376) and β-actin were purchased from Santa Cruz Biotechnology (Santa Cruz, CA).
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6

Western Blotting Protein Expression Analysis

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Western blotting was performed as previously described (36 ) using the following antibodies: total FAK (BD Bioscience:610087), total p130Cas (BD Bioscience:610271); pY397FAK (Abcam, Cambridge, MA:ab81298); pY416Src (Cell Signaling, Danvers, MA:2101), total Src (Cell Signaling:2109), pY410p130Cas (Cell Signaling:4011), total c-Jun (Cell Signaling:2315), pS63c-Jun (Cell Signaling:2361); pY861FAK (Invitrogen, Carlsbad, CA:44–626G); α-tubulin (CALBIOCHEM, Burlington, MA:CP06). Phosphorylated protein expression was normalized to total protein for quantification using the Odyssey CLx imager (Li-Cor).
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7

Molecular Characterization of HNSCC Cells

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Patient-derived HNSCC tumor cells were collected and processed as previously described [9 (link), 47 (link), 48 (link)]. Retroviral vector pMSCV-Blasticidine is a gift from Dr. Mathijs Voorhoeve (Duke-NUS Medical School, Singapore). GNA13 is cloned in pMSCV-Blast vector as described earlier [27 (link)]. Stable cell lines expressing either pMSCV-Vector or GNA13 are created as described earlier [27 (link)]. ShRNAs targeting GNA13 were cloned in modified pRetro-Super vector (gift from Dr. Mathijs Voorhoeve) and stable cell lines were generated using blasticidine selection as described [27 (link)]. RPMI or DMEM complete media with 10% FBS and 1% penicillin/streptomycin (GIBCO) is used to maintain the cell lines. For Western blots, antibodies used were as follows: Gα13 (ST1629, San Diego, CA, USA), α-tubulin (010M4813, Sigma, St Louis, MO, USA), p-cJun (Thr91, ab28853, Abcam, Cambridge, UK) total cJun (9165), p-ERK1/2 (Thr202/Tyr204, 9101), Total ERK1/2 (9102), and total IκB-alpha (4812) (Cell Signaling, Boston, MA, USA) and p-IκB-alpha (Ser32, Ma5-15087, Thermoscientific, Rockford, IL, USA). Gα13 antibody used for immunohistochemistry was purchased from Sigma (HPA010087).
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8

IGFBP1 and RANKL Signaling Pathway

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Recombinant mouse IGFBP1 (1588-B1-025), human IGFBP1 (871-B1-025), mouse RANKL (462-TR), human RANKL (390-TN-010), mouse MCSF (416-ML), as well as anti-IGFBP1 antibody (AF1240) were from R&D Systems. RGD-containing peptide (Gly-Arg-Gly-Asp-Thr-Pro) was from Sigma. Antibodies for p-ERK (#9101), total ERK (#4695), p-Akt (#4058), total-Akt (#2920), p-c-Jun (#9164) and total c-Jun (#9165) were from Cell Signaling; antibodies for IκBα (sc-371) and Itgb1 (sc-8978) were from Santa Cruz Biotechnology. RAW264.7 mouse macrophage cell line was from ATCC (TIB-71). Serum and cellular IGFBP1 was quantified by ELISA (Abnova, KA3054). Total and free serum IGF1 was quantified by ELISA (ALPCO, 22-IG1MS-E01).
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9

Hepatic Signaling Pathway Profiling

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Livers were homogenized and protein was extracted using radioimmunoprecipitation assay buffer (RIPA, Boston BioProducts, Ashland, MA) containing phosphatase and protease inhibitors (Sigma, St. Louis, MO). Protein concentrations were normalized to 100 μg using the bicinchoninic acid (BCA) method (Pierce Chemical Co., Rockford, IL). Protein samples were separated based on molecular weight and transferred to a polyvinylidene difluoride membrane (Millipore, Billerica, MA). Membranes were incubated with primary antibodies specific for total 5′ adenosine monophosphate-activated protein kinase (AMPK), phosphorylated (Thr172) AMPK, total acetyl-coA carboxylase (ACC), phosphorylated (Ser79) ACC, total p44/42 mitogen-activated protein kinase MAPK (Erk1/2), phosphorylated (Thr202/Tyr204) Erk1/2, total c-Jun N-terminal kinase (SAPK/JNK), phosphorylated (Thr183/Tyr185) SAPK/JNK, total c-Jun, phosphorylated (Ser73) c-Jun, total p38 mitogen-activated protein kinase (P38), and phosphorylated (Thr180/Tyr182) P38 (all antibodies from Cell Signaling Technology). β-actin (Abcam, Cambridge, MA) was used as a loading control. Blots were incubated with appropriate secondary antibodies conjugated to horseradish peroxidase (HRP; GE Healthcare, United Kingdom). Western blots were repeated at least twice to ensure reproducibility.
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10

Investigating Kinase Signaling Pathways

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Active Fyn, PP2, catalase, NAC were purchased from Merck Millipore (Billerica, MA). The Src substrate peptide (KVEKIGEGTYGVVYK) was purchased from SignalChem (Richmond, Canada). Antibodies specific to detect total MKK3/6, phosphorylated MKK3/6 (Ser189/207), total p38, phosphorylated p38 (Thr180/Tyr182), total MKK4, phosphorylated MKK4 (Ser257/Thr261), total JNKs, phosphorylated JNKs (Ser112), total c-Jun, phosphorylated c-Jun (Ser73), total PKCδ, phosphorylated PKCδ (Y313, T505 and S643), PARP, caspase-3, and caspase-9 were purchased from Cell Signaling Technology (Beverly, MA). Antibodies to detect total Fyn, total MSK, phosphorylated MSK1 (Ser376) and β-actin were purchased from Santa Cruz Biotechnology (Santa Cruz, CA).
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