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10 protocols using irdye800cw conjugated secondary antibody

1

Immunoblot Analysis of Protein Abundance

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Cell lysates or retrieved proteins were analysed by immunoblot with primary antibodies and IRDye 800 CW-conjugated secondary antibody (Rockland Immunochemicals, USA). The intensity of the fluorescence was scanned by Odyssey fluorescence scanner system (Li-Cor Biosciences, USA). Primary antibodies used in this study are listed in Supplementary Table 15.
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2

Quantifying α7nAChR Expression in Brain Tissues

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The expression of α7nAChR was evaluated after a 4-week estrogen pre-treatment. According to Guo et al. (2013) (link), brain tissue proteins were extracted. After subjecting equivalent protein amounts (50 μg) to SDS-PAGE, they were then transferred to a polyvinylidene fluoride membrane. After being blocked for 2 h with 5% BSA at room temperature, the membranes were incubated with an anti-α7-nAChR antibody (1:1000) or an anti-GAPDH antibody (1:20,000) before incubation with IRDye 800CW-conjugated secondary antibody (Rockland Immunochemicals, Inc.). The Odyssey Infrared Imaging System (Li-Cor Biosciences, Lincoln, NE, United States) was utilized for capturing the images, and ImageJ software (NIH) was used for analyzing them.
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3

Western Blot Protein Analysis Protocol

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Proteins were extracted from the tissue or cultured cells using a standard extraction reagent supplemented with the protease inhibitor (KANGCHEN; Shanghai, China). The protein concentration was determined using a BCA protein assay kit (Beyotime Institute of Biotechnology; Haimen, China). The proteins were separated using SDS PAGE and electro-transferred to nitrocellulose membranes as described previously [22 (link),23 (link)], and incubated with a primary antibody for 8–12 h at 4°C. Samples were then incubated with an IRDye800CW-conjugated secondary antibody (Rockland; Gilbertsville, PA, USA) for 1h at 25°C. The image was acquired with the Odyssey infrared imaging system (Li-Cor Bioscience; Lincoln, NE, USA). All immunoblotting experiments were repeated for at least 3 times.
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4

Protein Extraction and Immunoblotting Protocol

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Protein extraction and immunoblotting were performed as described previously [20 (link)]. Briefly, proteins were extracted from the tissue using a standard extraction reagent supplemented with a protease inhibitor (KANGCHEN; Shanghai, China). Protein concentrations were determined using a BCA protein assay kit (Beyotime Institute of Biotechnology; Haimen, China). Proteins were separated using SDS-PAGE, electrotransferred to nitrocellulose membranes and incubated with a primary antibody for 8–12 h at 4 °C (Table 3). The samples were then incubated with an IRDye800CW-conjugated secondary antibody (Rockland; Gilbertsville, PA, USA) for 1 h at 25 °C. Images were acquired with the Odyssey infrared imaging system (Li-Cor Bioscience; Lincoln, NE, USA). All immunoblotting experiments were repeated at least three times.

Primary antibodies used in Western blots.

AntibodyMolecular weight (kDa)Dilution
Beclin-1 (Cell Signaling Technology)601:500
LC3 (Novus Biologicals)14/161:500
p62 (Cell Signaling Technology)621:500
p-AMPK (Thr172) (Cell Signaling Technology)621:500
AMPK (Cell Signaling Technology)621:500
p-mTOR (Ser 2448) (Cell Signaling Technology)2891:500
mTOR (Cell Signaling Technology)2891:500
p-p70S6K (Ser371) (Cell Signaling Technology)701:500
p70S6K (Cell Signaling Technology)701:500
GAPDH (Beyotime Biotechnology)361:1000
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5

Quantifying CD3ζ Protein Expression

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Western blotting analysis for CE7R expression was performed using an anti-human CD3ζ chain (cytoplasmic tail)-specific monoclonal antibody 8D3 (BD Pharmingen), followed by goat anti-mouse IgM (mu chain) IRDye® 800CW conjugated secondary antibody (Rockland Immunochemicals Inc), and imaging with the Odyssey Infrared Imaging System (LI-COR).
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6

Quantifying Autophagy Markers in Tissues

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Total protein was isolated from murine BMDMs and colonic tissues using a standard extraction reagent supplemented with protease inhibitor (Kangchen; Shanghai, China). The concentration of extracted protein was determined using a bicinchoninic acid protein assay kit (Beyotime Institute of Biotechnology, Haimen, China). Proteins were then separated using SDS-PAGE and electro-transferred to nitrocellulose membranes as previous described [50 (link)]. Immunoblotting was performed using a Beclin-1 antibody (1:500; Cell Signaling Technology, Danvers, MA, USA), an LC3 antibody (1:500; Novus Biologicals, Littleton, CO, USA), and a p62 antibody (1:500; Cell Signaling Technology, Danvers, MA, USA). The membranes were then incubated with an IRDye800CW-conjugated secondary antibody (Rockland, Gilbertsville, PA, USA) for 1 h at 25 °C. Finally, images of the blots were obtained using an Odyssey infrared imaging system (Li-Cor Biosciences, Lincoln, NE, USA).
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7

Protein Expression Analysis of NF-κB Signaling

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Colon proteins were extracted using RIPA buffer supplemented with protease inhibitors (Shanghai Shenggong Co., Ltd., Shanghai, China). A total of 40 μg protein was separated by 10% sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE), and the gels were then electrotransferred onto nitrocellulose filter membranes (NC; Whatman, Alameda, CA, USA). The membranes were incubated with antibodies against total NF-κB (p65; Cat. no. 8424; 1:1,000), phosphorylated (p-)NF-κB (p65; Cat. no. 3033; 1:1,000), or GAPDH (Cat. no. 8884; 1:1,000) (all from Cell Signaling Technology, Beverly, MA, USA) overnight at 4°C. The membranes were then incubated with an IRDye 800CW-conjugated secondary antibody (Rockland, Hamburg, Germany) for 1 h at room temperature. Images were acquired using an Odyssey infrared imaging system (LI-COR Biosciences, Inc., Lincoln, NE, USA).
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8

Western Blot Quantification Protocol

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Cell lysates were electrophoresed by 10% SDS–polyacrylamide gel electrophoresis and transferred into a nitrocellulose membrane. Membrane was incubated with primary specific antibodies, followed by IRDye 800CW–conjugated secondary antibody (Rockland Immunochemicals, USA). The intensity of the fluorescence was scanned by the Odyssey fluorescence scanner system (LI-COR Biosciences, USA) and quantified by Quantity One software (Bio-Rad, USA). Primary antibodies used in this study are listed in table S12.
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9

Western Blot Analysis of Autophagy Markers

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Proteins were extracted from the colonic tissues or murine BMDM using a standard extraction reagent supplemented with the protease inhibitor (KANGCHEN; Shanghai, China). The protein concentration was determined using a bicinchoninic acid protein assay kit (Beyotime Institute of Biotechnology, Haimen, China). Proteins were then separated using sodium dodecyl sulfate polyacrylamide gel electrophoresis and electro-transferred to nitrocellulose membranes as described previously68 (link), and incubated with a primary antibody overnight at 4 °C. The samples were then incubated with an IRDye800CW-conjugated secondary antibody (Rockland, Gilbertsville, PA, USA) for 1 h at 25 °C. The image was acquired with the Odyssey infrared imaging system (Li-Cor Biosciences, Lincoln, NE, USA). All of the immunoblotting experiments were repeated at least five times. The following primary antibodies were used: Beclin-1 antibody (1:500; Cell Signaling Technology, Danvers, MA, USA), light chain 3 (LC3) antibody (1:500; Novus Biologicals, Littleton, CO, USA), and p62 antibody (1:500; Cell Signaling Technology, Danvers, MA, USA), CD68 antibody (1:300; Proteintech Group Inc., Chicago, IL, USA), and CD206 antibody (1:500; Proteintech Group Inc., Chicago, IL, USA).
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10

Western Blot Analysis of JAK2/STAT3 Signaling

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Proteins were extracted from muscle tissue using a standard extraction reagent supplemented with protease inhibitors (Kangchen, Shanghai, China). Protein concentration was determined using a bicinchoninic acid method (Beyotime). The proteins were separated using SDS-PAGE and electrotransferred to nitrocellulose membranes and then incubated with a primary antibody: p-JAK2 (Santa Cruz Biotechnology, Dallas, TX, USA, 1:500), JAK2 (Santa Cruz Biotechnology, Dallas, TX, USA, 1:500), p-STAT3 (Santa Cruz Biotechnology, Dallas, TX, USA, 1:500), STAT3 (Santa Cruz Biotechnology, Dallas, TX, USA, 1:500) for 8–12 h at 4 °C. Samples were then incubated with an IRDye800CW-conjugated secondary antibody (Rockland, Gilbertsville, PA, USA) for 1 h at 25 °C. The image was acquired with an Odyssey infrared imaging system (Li-Cor Bioscience, Lincoln, NE, USA). All immunoblotting experiments were repeated at least three times36 (link)37 (link).
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