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65 protocols using claudin 1

1

Antibody Validation for Protein Analysis

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Rabbit polyclonal anti-human MIIP antibody (HPA044948) was purchased from Sigma-Aldrich (St Louis, USA). The ITGB3 (#13166), ITGAV (#4711), β-catenin (#8480), FAK (#13009), p-FAK(Tyr 576/577, #3281), p-FAK(Tyr 397, #8556), AKT(#4691), p-AKT(Ser 473, #9271), E-cadherin (#3195), N-cadherin (#13116), Vimentin (#5741), Claudin-1(#13255), Myc-tag (#2278, #2276 S), Ubiquitin (#3933), and the HRP-conjugated goat anti-rabbit antibodies were obtained from Cell Signaling Technology (Beverly, USA). The VEGFA antibody (ab46154) was purchased from Abcam (Cambridge, UK). The HA antibody (#11867423001) was from Roche (Basel, Switzerland). The HRP-conjugated β-actin (HRP-66009) and GAPDH (HRP-60004) antibodies were obtained from Proteintech (Chicago, USA). The HRP-conjugated goat anti-mouse IgG were purchased from ZSGB-BIO (Beijing, China) respectively.
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2

Synthesis and Evaluation of Berberine Derivatives

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Berberine (B1), berberrubine (B2), 9-O-isoprenylberberrubine bromide (B3), 9-O-gernylberberrubine bromide (B4), and 9-O-farnesylberberrubine bromide (B5) were synthesized and provided by Dr. Jin-Yi Wu [7 (link)]. Dimethyl sulfoxide (DMSO), propidium iodide, crystal violet, chloroquine, rapamycin, 3-methyladenine (3-MA), paclitaxel (Taxol), and transforming growth factor beta (TGF-β) were purchased from Sigma-Aldrich (St. Louis, MO, USA). Primary antibodies such as phospho-CDK2 (2351-1; Epitomics; Burlingame, CA, USA), CDK4 (sc-601; Santa Cruz Biotechnology; Dallas, TX, USA), p27 (GTX100446; GeneTex; Irvine, CA, USA), caspase-3 (#9662; Cell Signaling Technology; Beverly, MA, USA), PARP (#9542; Cell Signaling Technology), GAPDH (GTX100118; GeneTex), LC3 (AP1802a; Abgent; San Diego, CA, USA), p62 (#5114; Cell Signaling Technology), N-cadherin (#4061; Cell Signaling Technology), E-cadherin (610182; BD Biosciences; Bedford, MA, USA), claudin-1 (#4933; Cell Signaling Technology), and snail (#3879; Cell Signaling Technology) as well as secondary antibodies such as rabbit antimouse antibody (GTX26728; GeneTex) and goat antirabbit antibodies (GTX213110; GeneTex) were purchased and used in this study. All chemicals and biochemicals used in this study were of analytical grade.
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3

Immunoblot Analysis of Cell Signaling

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Cell lysates were prepared at 75% of confluence by using 500 μL of radio-immunoprecipitation assay buffer (25 mM Tris-HCl at pH 7.6, 150 mM NaCl, 1% Nonidet P-40, 1% sodium deoxycholate, and 0.1% sodium dodecyl sulfate) in 10-cm culture dishes with a 20-minute incubation on ice. The protein concentrations of the lysates were measured with a Bio-Rad protein assay kit (Hercules, CA). Immunoblot analyses were performed as previously described [37 (link), 38 (link)]. β-Actin antibodies were obtained from Santa Cruz Biotechnology. HER2, Claudin-1, ZEB1, ZO-1, Fak, pFak, Smad, pSmad were purchased from Cell Signaling Technology. The secondary antibodies were the F(ab)2 fragment of donkey anti-mouse immunoglobulin (product NA931) or of donkey anti-rabbit immunoglobulin (product NA9340) linked to horseradish peroxidase from Amersham Biosciences (Little Chalfont, Buckinghamshire, UK). The immunoblot reagents were from an electrochemiluminescence kit (Amersham Biosciences, NJ, USA).
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4

Protein Expression Analysis by Western Blot

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Cell lysis, SDS-polyacrylamide gel electrophoresis and Western blottings were performed as previously described [13 (link)]. The immunoreaction was developed using the ECL prime Western blot detection system (GE Healthcare). The images of ECL signals were taken and analyzed using the Amersham Imager600 (AI600) and AI600 analysis software (GE Healthcare). The specific primary antibodies for Western blot analysis were 1:10,000 anti-β-actin (A5441, Sigma Aldrich, St. Louis, MO), 1:200 FOXM1 (sc-502 and sc-376471; Santa Cruz Biotechnology, Santa Cruz, CA), and 1:1,000 claudin-1 (13255S; Cell Signaling Technology; Denvers, MA).
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5

Protein Expression Analysis of Cell Lines

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Cells were lysed with lysis buffer (Roche), with 10% phosphor STOP and 10% protease inhibitor cocktail. Cell lysates were then collected after centrifugation at 12,000 rpm for 10 m at 4°C. 30μg of lysate protein was loaded and total cellular protein was separated with 8% SDS-polyacrylamide gel electrophoresis, then transblotted onto NC membrane (Life Technology). The membrane was probed with anti-ZIP4 (Proteintech, 1:2000), ZO-1, claudin-1, ZEB1(Cell signaling Technology 1:500), pFAK, FAK (Abcam, 1:1000), pPaxillin, Paxillin (Life tech, 1:1000), and anti-β-actin (Abcam, 1:10000) antibody at 4 °C overnight, and then washed three times with 0.1% Tween 20-TBS and incubated with horseradish peroxidase-linked or NIR-coupled secondary antibody (1:5000) for 2 h at room temperature. The membrane was washed three times with 0.1% Tween 20-TBS. The immunoreacted bands were detected using an enhanced chemiluminescent (ECL) plus reagent kit. We are using the Li-COR Odyssey Fc machine to detect both ECL and the NIR-labeled 2nd antibodies.
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6

Plasmid Preparation for Human Snail

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Preparation of the expression plasmid for human Snail was described previously [15 (link)]. Antibodies against actin and GAPDH were from Santa Cruz Biotechnology (Santa Cruz, CA). Antibodies for E-cadherin, N-cadherin, vimentin, CD44, Snail, and Claudin-1 were from Cell Signaling Technology Inc. (Beverley, MA,). G9a, H3K9me2, and H3k9Ac antibodies were from Abcam (Cambridge, MA).
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7

α-Tocopherol Effects on Intestinal Cell Line

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α‐Tocopherol (Cat: 258024) (Sigma‐Aldrich in China, Shanghai, China) was dissolved in dimethyl sulfoxide (DMSO) to prepare the stock solution of 100 mmol/L for cell culture experiments and added to the regular diet for animal studies. Antibodies against the following target proteins: Claudin 1, Occludin, Zo‐1, phospho‐nuclear factor kappa B (p‐NF‐κB), IL‐6, TNF‐α, and β‐actin were obtained from Cell Signaling Technology (Beverly, MA, USA). The intestinal porcine epithelial cell line (IPEC‐J2 cell line) from Animal Nutrition & Human Health Laboratory was cultured in Dulbecco's modified Eagle's medium (DMEM) (Hyclone, Logan, UT, USA) supplemented with 10% of fetal calf serum (Hyclone, Logan, UT, USA) and 1% of penicillin–streptomycin at 37°C, in humidified air containing 5% of CO2.
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8

Protein Interaction and Stability Analysis

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The antibodies listed below were utilized: USP40 (cat# sc-514248, Santa Cruz), USP40 (ab121234, Abcam), Claudin1 (cat# 13255, Cell Signaling Technology), Claudin1 (cat# sc-166338, Santa Cruz), Claudin1 (cat# 13050-1-AP, Proteintech), HA-tag (cat# 51064-2-AP, Proteintech), c-Myc (ab32072, Abcam), KLF4 (cat# 12173, Cell Signaling Technology), Ub (cat# sc-8017, Santa Cruz), and β-actin (cat# 66009-1-Ig, Proteintech). Cycloheximide (CHX, cat# S7418) and MG132 (cat# S2619) were purchased from Selleck.
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9

Immunohistochemical Analysis of Pancreatic Cancer

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Human pancreatic adenocarcinoma and surrounding benign tissues were collected and processed into 5-μm slides. Fixed tissue slides were incubated in 3% hydrogen peroxide solution to quench endogenous peroxidase activity for 15 m and were subsequently washed with PBS. The slides were then incubated in blocking buffer for 30 m at room temperature and stained with anti-hZIP4 antibody (Proteintech, 1:500), ZO-1 (NOVUS,1:100), claudin-1 (1:100, Cell Signaling Technology), ZEB1 (1:250, Sigma) and incubated overnight at 4°C. After washing with PBS, the section was incubated with polymer secondary antibody for 30 m (Vector Laboratories). Immune complexes were detected with diaminobenzidine (DAB) under a phase-contrast microscope. The sections were then mounted and observed under a phase-contrast microscope. The slides were scanned using Aperio scanning software and the positivity was analyzed automatically. The KPC mouse sections were obtained from Dr. Courtney Houchen. ZIP4, ZO-1 (Proteintech), claudin-1 (Proteintech), ZEB1 (Sigma), pFAK (Abcam) and pPaxillin (Lifetech) were stained in pancreatic cancer tissue of KPC mouse sections as above.
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10

Immunofluorescence Assay for Tight Junction Proteins

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AsPC-1 and Panc-1 cells were fixed with 4% PFA, blocked with PBS containing 4% BSA for 30 m at room temperature, and then incubated overnight at 4°C with the primary antibodies for ZIP4 (Proteintech), ZO-1, and claudin-1 (Cell Signaling Technology) diluted in the same buffer. After three washes, slides were incubated at room temperature for 1 h with secondary antibodies (1:200) and Hoechst (1 μg/ml) and were mounted with Prolong diamond antifade mounting (Life Technology). Sections were photographed using EVOS FLC (Life Technology).
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