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525 protocols using snail

1

Isolation and Characterization of Pancreatic CSCs

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NVP-LDE225 and NVP-BEZ-235 were obtained from Chemie Tek (Indianapolis, IN). Antibodies used against Gli1, Gli2, phospho-Akt, Akt, caspase-3, PARP, E-Cadherin, N-Cadherin, Vimentin, Sox-2, Oct-4, Nanog, c-Myc, phospho-Akt, phospho-PI3K, phospho-p70S6K, phospho-GSK3Kβ, phospho-4EBP1, Akt, p70S6K, GSK3Kβ, 4EBP1, Slug, snail, snail, patched 1, patched2, Smo, Sufu Bcl-XL, Bax, Bak, Bcl2, and β-actin were purchased from Cell Signaling Technology, Inc. (Danvers, MA). Enhanced chemiluminescence (ECL) Western blot detection reagents were purchased from Thermo Fisher Scientific Corporation (Waltham, MA).
Isolation and characterization of CD44+CD24+ESA+ pancreatic CSCs have been described elsewhere [54 (link)]. Pancreatic CSCs were grown in well-defined stem cell culture medium [54 (link)–56 (link)].
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2

Western Blot Analysis of EMT Markers

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Cells were washed with cold PBS, scraped into RIPA buffer and centrifuged. The cell lysates were subjected to 10% SDS-PAGE and transferred to a polyvinylidene fluoride (PVDF) hybridization transfer membrane. The primary antibodies used were as follows: CD44 (ProteinTech group), EGFR (Santa Cruz Laboratories), Snail (Cell Signaling Technology), p-EGFR (Santa Cruz Laboratories), p-AKT (Cell Signaling Technology), p-ERK (Santa Cruz Laboratories), KLF4 (Santa Cruz Laboratories), c-Myc (Santa Cruz Laboratories), Slug (Cell Signaling Technology), Snail (Cell Signaling Technology), Vinculin (Santa Cruz Laboratories). Secondary staining and detection were carried out in accordance with standard protocols (23 (link)).
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3

Protein Extraction and Western Blot Analysis

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Total protein was extracted from lung or A549 cells and homogenized in RIPA lysis buffer with protease inhibitor and phosphatase inhibitor cocktails before being quantified using a BCA protein assay kit (Shanghai EpiZyme Biotechnology Co., Ltd.). Total protein extraction was resolved by 10% acrylamide gel before being transferred to the nitrocellulose membrane. The nitrocellulose membrane was blocked for 1 h at room temperature with 5% non-fat milk. They were then incubated overnight at 4°C with the following specific primary antibodies: N-Cadherin (1:1,000), E-Cadherin (1:1,000), Vimentin (1:1,000), p-Smad2/3 (1:1,000), Snail (1:1,000) (all from Cell Signaling Technologies, Danvers, MA), α-Smooth muscle actin (α-SMA) (1:1,000, SinoBiological Inc., Beijing, China), Collagen I (1:1,000, Bioss, Beijing, China), and β-actin (1:5,000, Sigma-Aldrich). Finally, the membranes were incubated for 1 h at room temperature with horseradish peroxidase-conjugated anti-mouse or anti-rabbit secondary antibodies before exposing them to enhanced chemiluminescent reagents (Solarbio® Life Science, Beijing, China).
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4

Western Blot Analysis of EMT and Apoptosis Markers

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After the indicated treatment, cells were harvested and lysed in lysis buffer. Equal amount of proteins (10–30 μg) were separated by SDS-PAGE and transferred onto a nitrocellulose membrane (Millipore). The membranes were then blocked with 5% non-fatty dry milk in TBST for 2 h and probed overnight at 4°C with primary antibodies against the following proteins: 14-3-3ζ (1/1000, Abcam), E-cadherin (1/1000, Cell Signaling Technology), vimentin (1/1000, Cell Signaling Technology), Snail (1/1000, Cell Signaling Technology), Slug (1/1000, Cell Signaling Technology), Bcl-2 (1/1000, Cell Signaling Technology), Bcl-xL (1/1000, Cell Signaling Technology), MCL-1 (1/1000, Cell Signaling Technology), Bax (1/1000, Cell Signaling Technology), PARP (1/1000, Cell Signaling Technology), cleaved caspase-3 (1/1000, Cell Signaling Technology) and β-actin (1/2000, Cell Signaling Technology). The membranes were washed in TBST and then incubated in HRP-conjugated secondary antibodies (1/5000, Cell Signaling Technology) for additional 1 h. The specific protein bands on the membranes were visualized by enhanced chemiluminescence (Millipore).
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5

Investigating Apoptosis and EMT Markers

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DMEM, DMEM/F12, MEM and Opti-MEM media, TRIzol and Lipofectamine 2000, MitoSOX, and CellEvent Caspase-3/7 green detection kit were purchased from Invitrogen (Carlsbad, CA); Sorafenib from Enzo Life Sciences, Inc. (Farmingdale, NY), Ultra-low attachment plates and MTT from Millipore Sigma (Burlington, MA), FITC Annexin V Apoptosis Detection Kit from BD Biosciences (San Jose, CA), JC-1 dye, Doxycycline Hydrochloride, and Transwell inserts from Thermo-Fisher Scientific (Waltham MA). The antibodies utilized were obtained from the following sources: Ets-1 (Cell Signaling Technology, #14069), E-cadherin (BD Biosciences, #610181, N-cadherin (BD Biosciences, #610920), Vimentin (Cell Signaling Technology, #5741), Snail (Cell Signaling Technology, #3895), Slug (Cell Signaling Technology, #9585), Zeb2 (Cell Signaling Technology, #97885), GAPDH (Ambion, #AM4300), PARP (Cell Signaling Technology, #9542), Cleaved Caspase 3 (Cell Signaling Technology, #9664), Myc-tag (Cell Signaling Technology, #2276), GPX2 (Abcam, #137431), Cytochrome C (Cell Signaling Technology, #11940), COX IV (Abcam, #14744). RT2 profiler PCR Array Human Transcription Factors (PAHS-075Z) was from Qiagen (Germantown, MD).
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6

Cell Proliferation and Apoptosis Assay Protocol

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RPMI 1640, DMEM, fetal calf serum, trypsin, and antibiotics were purchased from Gibco (Grand Island, NY, USA). CellTiter 96AQueous One Solution Cell Proliferation Assay (MTS) were obtained from Promega (Madison, WI, USA). Primary antibodies against Bcl-2, Bax, Bim, Puma, AKT, GSK-3β, PRAP, Caspase-3,7,8,9, P53, P21, P27, and cyclin D1, cyclin E2, CDK2/4/6, β-catenin, E-cadherin, Vimentin, Snail, GAPDH, β-actin etc. were obtained from Cell Signaling Technology (Beverly, MA, USA). Goat anti-rabbit, and anti-mouse and rabbit anti-goat secondary antibodies were the product of Invitrogen (Carlsbad, CA, USA). Polyvinylidene fluoride (PVDF) membrane (Immobilon-P) was purchased from Millipore (Bedford, MA, USA). All other chemicals and reagents were of analytical reagent grade purchased from Sigma (St. Louis, MO, USA).
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7

Immunoblotting Analysis of Intracellular Signaling

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Cancer cells and BMFs were lysed with lysis buffer. Protein samples were subjected to SDS-polyacrylamide gels (Bio-Rad) electrophoresis. The gels were transferred onto nitrocellulose membranes (Bio-Rad). The membranes were probed with specific primary antibodies against JAK2 (Cat. 3230S), p-JAK2 (Cat. 3771S), STAT3 (Cat. 9139S), p-STAT3-Y705 (Cat. 76315), Met (Cat. 8198), p-Met (Cat. 3077), Smad2/3 (Cat. 5678), p-Smad2 (Cat.8828), vimentin (Cat. 3879) (Cell signaling Technology), snail (Cat. 92547), E-cadherin (Cat. ab15148), TGF-β1 (Cat. ab66043 ), and IL-6 (Cat. ab6672), and β-actin (Cat. ab6276) (Abcam), incubated with secondary antibodies conjugated to IR fluorophore, Alexa Fluor 680 (Molecular Probes), or IRdye 800 (Rockland Immunochemicals). Antigen-antibody complexes were visualized by the ECL system (Amersham Biosciences, Piscataway, NJ) and scanned using the Odyssey Infrared Imaging System (Li-Cor Biosciences). The experiments were repreated three times (n=3).
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8

Stemness and EMT Markers in Cancer

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CD24, CD44, CD133, Nanog, Oct4, Sox2, KLF4, c‐Myc, Gli1, Gli2, Patched1, Patched2, Smoothened, Bcl‐2, Cyclin D1, E‐cadherin, N‐cadherin, Snail, Slug and Nanog antibodies were obtained from Cell Signaling Technology (Danvers, MA). Shh protein and anti‐β‐actin antibody were purchased from Santa Cruz Biotechnology Inc (Santa Cruz, CA). α‐Mangostin (98% pure) was obtained from the LKT (St. Paul, MN). Accutase was purchased from Innovative Cell Technologies, Inc (San Diego, CA). Matrigel was purchased from BD Bioscience (San Jose, CA). Crystal violet was purchased from Sigma‐Aldrich (St. Louis, MO). TRIZOL was purchased from Invitrogen (Grand Island, NY). Luciferase assay kit was purchased from Promega.
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9

Western Blot Analysis of Stemness and EMT Markers

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Samples were collected in RIPA buffer (Sigma) containing Complete Protease Inhibitor Cocktail (Roche Diagnostics), and protein concentration was determined by Bio-Rad Protein Assay. Western blot analysis was performed using the following antibodies: KRAS (sc-30), Pan-RAS (sc-32), ERK1 (sc-271270), and c-Myc (sc-40) from Santa Cruz Biotechnology; Sox2 (#2748, #3579), Oct-4 (#2750), Nanog (#4893), Slug (#9585), Snail (#3879), phospho-ERK1/2 (#9101), RAS (#3965), MEK1/2 (Ser217/221) (#4694), phospho-MEK1/2 (Ser217/221) (#9121, #9154), CD44 (#3578, #3570), E-cadherin (#14472), vimentin (#3932) and cleaved caspase-3 (#9661) from Cell Signaling; N-cadherin (BD610920) and E-cadherin (BD610181) from BD Biosciences; Zeb1 (NBP-1-05987) from Novus Biologicals; and β-actin from Sigma.
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10

Western Blot Analysis of EMT Markers

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Cells in culture flasks or plates were lysed in ice‐cold buffer containing protease inhibitor cocktail (Roche). Equal amounts of protein samples were loaded and separated by SDS‐PAGE and transferred to PVDF membranes (Millipore) followed by non‐fat milk or BSA blocking. These blots were incubated at 4°C overnight with primary antibodies against ZEB2 (1:1000 dilution; Proteintech, 14026‐1‐AP), Cleaved‐PARP (1:1000 dilution; Cell Signaling, #9541), N‐cadherin (1:1000 dilution; Cell Signaling, #13116), E‐cadherin (1:1000 dilution; Cell Signaling, #14472), Vimentin (1:1000 dilution; GeneTex, GTX100619), Snail (1:1000 dilution; Cell Signaling, #3879) and GAPDH (1:5000, MB001, Bioworld) followed by incubation with horseradish peroxidase (HRP)‐conjugated secondary antibodies at room temperature. Immunoreactive bands on the blots were detected by ECL chemiluminescence kit (Millipore).
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