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7 protocols using n cad

1

Immunohistochemical and Immunofluorescence Analysis of Skin Tissue

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For immunohistochemical staining, 4-μm-thick sections received antigen retrieval and endogenous peroxidase activity blocking. Then, the samples were incubated in goat serum for 30 min at room temperature to block the nonspecific antigen, followed by incubating in primary antibodies against K10 (1:200; Santa Cruz), K14 (1:200; Santa Cruz), and p-AKT (1:250; Affinity Biosciences) overnight at 4 ℃. Finally, the immune reactivities of the sections were determined using the HRP-streptavidin detection system (ZSGB-bio, Beijing, China). Images from above-mentioned sections were acquired with a BX63 fluorescence microscope (Olympus).
For immunofluorescence staining, 4-μm-thick sections received antigen retrieval and permeabilizing with 0.5% Triton X-100. After blocking with goat serum (Solarbio), primary antibodies against Ki67 (1:250; Affinity Biosciences), Cytokeratin (Pan) (1:200; Huabio, Hangzhou, China), E-cad (1:200; Affinity Biosciences), Vim (1:500; Abcam), and N-cad (1:200; Santa Cruz) were loaded and kept overnight at 4 ℃. Then, Alexa Fluor 488- and Alexa Fluor 594-conjugated secondary antibodies (Abcam) were loaded at room temperature for 2 h. The nuclei were stained with DAPI (Beyotime), with the images visualized via the LSM-980 confocal microscope (Carl Zeiss).
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2

Protein Expression Analysis Protocol

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Whole-cell protein was extracted with the RIPA lysis buffer containing protease inhibitor (Beyotime) and protein phosphatase inhibitor (Beyotime) on ice. Equal amounts of protein (30 μg) were loaded into 10% (w/v) SDS-PAGE and transferred to a polyvinylidene difluoride membrane (Millipore, St. Louis, MO, USA), with the membrane then incubated with primary antibodies at 4 °C overnight, followed by three series of TBST washing and 2 h of HRP-conjugated secondary antibodies incubation at room temperature. The proteins were visualized through chemiluminescence and imaged on a Gelview 6000 Pro (BLT Co., Ltd, Guangzhou, China). The protein bands were quantified by densitometry analysis using Image J software.
The primary antibodies used in this study included antibodies against GAPDH (1:1000; Affinity Biosciences), Vim (1:1000; Abcam), E-cad (1:1000; Affinity Biosciences), N-cad (1:1000; Santa Cruz, Cincinnati, OH, USA), PI3K (1:1000; Santa Cruz), AKT (1:1000; Santa Cruz), p-PI3K (1:1000; Affinity Biosciences), p-AKT (1:1000; Affinity Biosciences), and PTHR1 (1:1000; Affinity Biosciences).
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3

Western Blot Analysis of EMT Markers

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Equal amounts of extracted proteins were resolved and transferred to nitrocellulose membranes. Each membrane was incubated with one of the following antibodies: HIF-1α (mouse monoclonal; Abcam, Cambridge, UK), N-CAD, E-CAD (mouse monoclonal; Santa Cruz Biotechnology, Dallas, TX, USA), CYCLIND1, active CAS3, SNAIL (rabbit polyclonal; Cell Signaling Technology, Beverly, MA, USA), and β-Actin (mouse monoclonal; Sigma-Aldrich). After incubating with appropriate horseradish peroxidase-conjugated anti-mouse or anti-rabbit IgG antibodies (Thermo Fisher Scientific, Pittsburgh, PA, USA) and enhanced chemiluminescence solution (Thermo Fisher Scientific), signals were captured with an image reader (LAS-3000; Fuji Photo Film, Tokyo, Japan). Protein bands were then analyzed by densitometry.
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4

Antibodies and Reagents for Protein Analysis

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Antibodies against CITED2, PRMT5, β-tubulin, WDR77, RioK1, p300, β-CTN, Vimentin, TWIST, Snail, N-Cad, and ZEB1 were purchased from Santa Cruz Biotechnology (Santa Cruz, CA); anti-NCL, anti-dimethyl-arginine and anti-acetyl-lysine from Upstate Biotechnology (Lake Placid, NY); anti-p-AKT, anti-AKT and anti-E-cadherin from Cell Signaling (Danvers, MA); anti-FLAG, anti-MYC, and anti-HA from Sigma-Aldrich (St. Louis, MO); and anti-ERG and anti-α-SMA from Abcam (Cambridge, MA). MK2206 was purchased from Selleckchem. Human recombinant proteins of CITED2, PRMT5, P300, and NCL were purchased from Origene. Fetal bovine serum (FBS), dithiothreitol, G418 disulfate salts (G418), EPZ015666, Leptomycin B, Bay-11-7082, LY294002, Cycloheximide, Wortmannin, and others were obtained from Sigma-Aldrich. Sources and dilution factors of antibodies used are summarized in Supplementary Table 1.
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5

Embryo In Situ Hybridization and Immunofluorescence

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For in situ hybridization (ISH), embryos were fixed in 4% PFA in PBS overnight at 4°C, dehydrated in methanol and stored at −20°C. ISH was performed using antisense riboprobes as deSCRIBed previously38 (link). Immuno-fluorescence was carried out as previously deSCRIBed38 (link). Primary antibodies were used: COLL-IV (1:300, Millipore), FN-1 (1:300, Rockland), FOXA2 (1:1000, Abcam), LAMA-1 (1:300, Sigma), LAMB-1 (1:300, Abcam) and SOX17 (1:1000, R&D Systems) ITGA5 (1:300, Santa Cruz), E-CAD (1:300, Sigma), N-CAD (1:300, Santa Cruz), and SCRIB (1:200, Santa Cruz). Secondary Alexa-Fluor conjugated antibodies (Invitrogen) were used at a dilution of 1:1000. DNA was visualized using Hoechst-33342 (5 μg/mL, Molecular Probes). For cryosections, fixed embryos were taken through a sucrose gradient, embedded in O.C.T. (Tissue-Tek) and sectioned at 12 μm on a cryostat (CM3050S, Leica).
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6

Embryo In Situ Hybridization and Immunofluorescence

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For in situ hybridization (ISH), embryos were fixed in 4% PFA in PBS overnight at 4°C, dehydrated in methanol and stored at −20°C. ISH was performed using antisense riboprobes as deSCRIBed previously38 (link). Immuno-fluorescence was carried out as previously deSCRIBed38 (link). Primary antibodies were used: COLL-IV (1:300, Millipore), FN-1 (1:300, Rockland), FOXA2 (1:1000, Abcam), LAMA-1 (1:300, Sigma), LAMB-1 (1:300, Abcam) and SOX17 (1:1000, R&D Systems) ITGA5 (1:300, Santa Cruz), E-CAD (1:300, Sigma), N-CAD (1:300, Santa Cruz), and SCRIB (1:200, Santa Cruz). Secondary Alexa-Fluor conjugated antibodies (Invitrogen) were used at a dilution of 1:1000. DNA was visualized using Hoechst-33342 (5 μg/mL, Molecular Probes). For cryosections, fixed embryos were taken through a sucrose gradient, embedded in O.C.T. (Tissue-Tek) and sectioned at 12 μm on a cryostat (CM3050S, Leica).
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7

Characterization of Mitochondrial Dynamics Regulators

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Primary antibodies specific for p-PRAS40 (Thr246), DRP1, p-DRP1 (Ser616), and p-DRP1 (Ser637) were purchased from Cell Signaling Technology (Cell Signaling Technology, Beverly, MA, USA) and specific for mTOR, PRAS40, E-cad, N-cad, and Vimentin were purchased from Santa Cruz Biotechnology (Santa Cruz Biotechnology, Santa Cruz, CA, USA) and specific for α-tubulin and p-mTOR (Ser2448) were purchased from Abcam (Abcam, Cambridge, MA, USA) and specific for DYRK3 was purchased from Thermo Fisher Scientific (Thermo Fisher Scientific, Cleveland, OH, USA). Secondary antibodies specific for mouse IgG and rabbit IgG were purchased from Enzo Life Sciences (Enzo Life Sciences, Ann Arbor, MI, USA). Eagle’s Minimum Essential Medium (MEM), Hanks’ Balanced Salt solution (HBSS), Phosphate Buffered Saline (PBS), and fetal bovine serum (FBS) were acquired from WelGENE Inc (WelGENE Inc., Daegu, Korea). Penicillin, streptomycin, recombinant human EGF protein, Trizol, MitoTrackerTM Green FM and MitoSOXTM Red were obtained from Thermo Fisher Scientific (Thermo Fisher Scientific, Cleveland, OH, USA). SiRNAs specific for human DYRK3 and control siRNA were purchased from Bioneer (Bioneer, Daejeon, Korea).
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