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256 protocols using n cadherin

1

Comprehensive Protein Expression Analysis

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β-actin (Sigma Aldrich mouse monoclonal anti-β-actin, A2228, 1:2000), 42 kDa. N-cadherin (BD Biosciences mouse monoclonal anti-N-cadherin, 610921, 1:2000) 120 kDa. E-cadherin (BD Biosciences mouse monoclonal anti-E-cadherin, 610181, 1:2000) 120 kDa. Vimentin (Sigma-Aldrich goat polyclonal anti-Vimentin, V4630, 1:1000) 58 kDa. S100A10(BD Biosciences mouse monoclonal anti-S100A10, 610070, 1:2000) 11 kDa. Annexin A2 (BD Biosciences mouse monoclonal anti-Annexin II, 610069, 1:2000) 36 kDa. GAPDH (Biochain mouse monoclonal anti-GAPDH, Y3322, 1:2000) 36 kDa. p-S6K (Cell signaling rabbit monoclonal anti-pS6K, 9205 S, 1:1000) 70 kDa. FOXC2 (Bethyl laboratories rabbit polyclonal anti-FOXC2, A302-383A, 1:1000) 65–70 kDa. PAI-1 (Cell signaling rabbit monoclonal anti-PAI-1 D9C4, 11907, 1:2000) 48 kDa. uPAR (Santa Cruz rabbit polyclonal anti-uPA H149, sc-10815, 1:300) 55 kDa. p-ERK (Erk1/2) (Cell signaling rabbit polyclonal anti-Erk1/2 (Thr202/Tyr204), 9101, 1:1000) 42, 44 kDa.
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2

Western Blotting for Protein Analysis

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Equal amounts of protein were resolved by SDS-PAGE and transferred to polyvinylidene fluoride (PVDF) membrane (Millipore, USA). The membranes were blocked in 5% non-fat skim milk/TBST [20 mM Tris–HCl (pH 7.4), 150 mM NaCl, and 0.1%Tween-20] at room temperature for 1 h. Thereafter, they were detected with primary antibodies at 4°C overnight. Then, they were blotted for 1 h at room temperature with the help of an appropriate secondary antibody. Thereafter, enhanced chemiluminescence detection reagents were used (Amersham Pharmacia Biotech, USA). The primary antibody PRRX1was purchased from Abcam(UK). Caspase-3, Bcl-2, andγ-H2AX were purchased from Epitomics(UK). E-cadherin, ZO-1, Vimentin, N-cadherin were purchased from Becton, Dickinson and Company(USA). GAPDH was purchased from BOSTER(China).
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3

Immunofluorescence Staining of Confluent Cells

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Cells were seeded in 24-well plates and grown to confluence which typically required 3∼5 days. Cells were carefully washed with PBS and fixed in fresh 4% paraformaldehyde (PFA)/PBS at pH 7.4 for 10∼20 min at room temperature. After washing twice with PBS, PFA-fixed cells were permeabilized for 5 min in 0.2% Triton X-100 (Sigma-Aldrich) in PBS. Fixed cells were blocked in 10% BSA in PBS for 1 h at room temperature. As in our previous experiments [12] (link), primary antibodies, including rabbit anti-Na-K ATPase α1 (1∶100 dilution; Merck Millipore, Billerica, MA, USA), rabbit anti-zona occludens-1 (ZO-1; 1∶100; Invitrogen, Life Technologies), phospho-connexin 43 (1∶100; Merck Millipore), and N-cadherin (1∶100; Becton Dickinson), were incubated overnight at 4°C. Cells were washed twice with PBS and then incubated with a 1∶1000 dilution of FITC-labeled secondary antibodies (eBioscience, San Diego, CA, USA) in blocking buffer for 1 h at room temperature. After washing three times in PBS, all cells were stained with the DAPI nuclear marker (1∶5000; Invitrogen, Life Technologies) for 20 min at room temperature. A fluorescent mounting solution was added, the fluorescence was visualized on a Nikon Eclipse E-800 fluorescence microscope (Tokyo, Japan), and images were obtained with a spot digital camera.
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4

FGF5 and FGFR Signaling Pathway

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Recombinant Human FGF5 (R&D, 237-F5), anti-FGF5 antibody (Abcam, ab88118), anti-FGFR1 antibody (Abcam, ab10646), anti-FGFR2 antibody (Abcam, ab10648), CD206 antibody (R&D, AF2535), Phospho-ERK1/2 antibody (Cell Signaling, #9101), Total-ERK1/2 antibody (Cell Signaling, #9102), N-cadherin (Becton-Dickinson, 610920) and GAPDH antibody (EMD Millipore, MAB374) were used. Hoechst and species-specific secondary antibodies conjugated with Alexa Fluor 488 or 568 dyes were purchased from Invitrogen. Horseradish peroxidase (HRP) conjugated secondary antibodies for western blotting were purchased from Sigma.
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5

Western Blot Analysis of Protein Expression

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Proteins (30 μg) were resolved on a 4–12% Bis–Tris gradient SDS–PAGE under reducing conditions and transferred onto nitrocellulose membrane. The primary antibodies were RANKL, E-cadherin, vimentin, OPG, c-Met (Santa Cruz Biotechnology, Inc.), p-c-Met (Tyr-1230/34/35; Invitrogen), RANK (Amgen, Thousand Oaks, CA, USA), and N-cadherin (BD Transduction Laboratories, San Jose, CA, USA). AR (441), Chr-A (H-300), synaptophysin (SYP; D4), CD44 (DF1485), Sox-2 (Y-17), Nanog (5A10), LIN-28 (H-44) (Santa Cruz Biotechnology, Inc.), FOXA2 (D56D6; Cell Signaling Technology, Danvers, MA, USA), and PROM1 (CD133; Abnova, Taipei City, Taiwan) antibodies were used to detect neuroendocrine and stem cell differentiation. c-Myc (D84C12XP), Lamin A/C (Cell Signaling Technology), and Max (sc-197X) antibodies (Santa Cruz Biotechnology, Inc.) were used for nuclear protein detection.
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6

Protein Expression Analysis in Cells

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Immunoblot and immunofluorescence analysis were performed as previously described18 (link). Primary antibodies used were: SOX9 (AB5535, Millipore), phospho-SOX9 (ab59252, abcam), BMI1 (05-637, Millipore), E-cadherin (BD610181, BD Transduction Laboratories), Vimentin (M7020, DAKO), N-Cadherin (BD610920, BD Transduction Laboratories), phospho-S6 Ribosomal protein (Cell Signaling Technology®, #4858) and β-actin (AC-15, Sigma). For Western blot detection of primary antibodies, we used HRP-linked antibodies (Santa Cruz Biotechnology) and detection was performed by chemiluminescence using NOVEX ECL Chemi Substrate (ThermoFisher). For immunofluorescence, secondary antibodies conjugated with fluorochromes were used and nuclear DNA was stained with Hoechst 33342 (Sigma). Images were obtained at a 40x magnification.
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7

Immunoblotting of Signaling Proteins

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PHS was purchased from Avanti Polar lipids (Alabaster, AL). Antibodies specific to p-STAT3 (Tyr705, ##4113), p-AKT (Ser473, #4060), p-AKT (Thr308, #9275), p-P38 MAPK (Thr180/Tyr182, #9211), p38 MAPK (#9212), p-SAPK/JNK (Thr183/Tyr185, #4668), p-EGFR (Tyr1068, #2234), JNK (#9252), and SNAIL (#3879) were purchased from Cell Signaling Technology (Beverly, MA, USA). Antibody specific to NOTCH2 (07-1234) was purchased from Millipore Corp (Billerica, MA, USA). Antibodies specific to SOX2 (sc-20088), OCT4 (sc-9081), AKT (sc-7126), STAT3 (sc-7179), p-ERK (sc-7383), p-JAK1 (Tyr1022/Tyr1023, sc-101716), EGFR (sc-03, sc-120), Fibronectin (sc-69681), SLUG (sc-10437), TWIST (sc-15393), E-cadherin (sc-8426), and p-Tyrosine (sc-508) were purchased from Santa Cruz Biotechnology (Santa Cruz, CA). Vimentin (ab8978), Ki67 (ab15580), CD44 (ab157107) and CD24 (ab31622) were obtained from Abcam whereas anti-ZEB1 (HPA027524) and β-actin (#A1978) antibody were purchased from Sigma-Aldrich. Antibodies specific to β-catenin (#610153) and N-cadherin (#610921) were purchased from BD Transduction Laboratories. EGF, bFGF, and accutase were obtained from Sigma (St. Louis, MO, USA).
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8

Antibody Panel for Stem Cell Markers

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The primary antibodies used for Western blot and immunocytochemistry were ALDH1A1 (cat. no. ab6192), ALDH1A3 (cat. no. ab129815), CD133 (cat. no. ab1998), and E-Cadherin (cat. no. ab15148) from Abcam (Cambridge, UK). Santa Cruz Biotechnology (Dallas, TX, USA) used β-actin (cat. no. sc-47778), SLUG (cat. no. sc-166476), SNAIL (cat. no. sc-10432), ZEB1 (cat. no. sc-25388), and Twist (cat. no. sc-15393). CCL2 (cat. no. MAB679) from R&D SYSTEMS (Minneapolis, MN, USA) and CD44 (cat. no. 3570), Nanog (cat. no. 4893), Oct-4 (cat. no. 2750), and Sox2 (cat. no. 3579) from Cell Signaling Technology (Danvers, MA, USA) were used. CTNNAL1 (cat. no. NBP1-33341; NOVUS Biologicals, Englewood, NJ, USA), N-Cadherin (cat. no. 610920; BD Transduction, Franklin Lakes, NJ, USA), and Vimentin (cat. MA5-14564; Invitrogen, Thermo Fisher Scientific, Waltham, MA, USA) were used.
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9

Immunofluorescence Staining of Cell-Cell Junctions

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NMuMG cells were grown on coverslips, fixed with 4% paraformaldehyde in PBS and permeabilized with 0.2% Triton X-100 for 15 minutes at room temperature. Subsequently, cells were blocked for 20 minutes at room temperature in blocking solution (10% goat serum, 5% FCS and 0.5% BSA in PBS) followed by incubation with primary antibodies at 4°C overnight. These samples were washed three times with PBS for 10 minutes at room temperature following incubation with fluorochrome-labeled secondary antibody or Phalloidin-633 as well as Hoechst for DNA counterstain (20ng/ml) for 1 hour at room temperature. For mounting of the samples Immu-Mount (Thermo Scientific) reagent was used and samples were imaged with a confocal laser-scanning microscope (SP05, Leica). Data were processed with ImageJ software.
Antibodies used for immunofluorescence were E-Cadherin (13-1900, Invitrogen and 610182, BDTransduction Laboratories), N-Cadherin (610921, BD Transduction Laboratories), ZO-1 (617300, Invitrogen), Alexa Fluor-488 goat anti mouse IgG (H+L) (A11029, Invitrogen); Alexa Fluor-568 goat anti rabbit IgG (H+L) A11011 Invitrogen; and Alexa Fluor-633 goat anti rat IgG (H+L) A21094, Invitrogen, Alexa Fluor 633 Phalloidin (A22284, Invitrogen) was used to stain F-actin.
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10

Immunohistochemistry of Eye Tissue

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IHC was performed as previously described (Akula et al., 2020 (link)). Primary antibodies included AP-2β (1:50, Cell Signaling, 2509S, Danvers, MA), α-smooth muscle actin (αSMA, 1:100, Sigma Aldrich, A2547, Oakville, ON), myocilin (1:200, FabGennix, MYO-101AP, Frisco, TX), endomucin (1:100, eBioscience, 14–5851-82, San Diego, CA), Prox1 (1:100, Covance, 925201, Princeton, NJ), N-cadherin (1:100, BD Transduction, 610920, San Jose, CA), and Brn3a (1:100, sc-8429, Santa Cruz, CA) (Bassett et al., 2012 (link); Martino et al., 2016 (link); Robertson et al., 2013 (link); Taiyab et al., 2021 (link)) (Table 1). Alexa Fluor secondary antibodies (1:200, Invitrogen, Molecular Probes, Burlington, ON) were used to detect the primary antibodies, and slides were mounted with ProLong Gold containing DAPI (4′,6-diamidino-2-phenylindole) (Thermofisher, Waltham, MA). To analyze tdTomato expression for the fate mapping experiments, frozen sections of the eyes from control and AP-2β TMR KO mice crossed with the tdTomato mouse line were used. All sections were imaged using a Leica DM6 B microscope with a bright-field or fluorescence attachment, and images were acquired using a high-resolution camera and LasX imaging software.
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