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6 protocols using ter119 apc

1

Multiparametric Flow Cytometry of Tumor Cells

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Cells were suspended in flow buffer (HBSS with 0.1% FBS and DNAse I) for analysis and sorting. Tumor single-cell suspensions were incubated with CD24-PE (553262, BD Biosciences), the endothelial cell marker, CD31-APC (102410, Biolegend), the leukocyte marker, CD45-APC (103112, Biolegend), and the erythrocyte marker, Ter119-APC (116212, Biolegend) according to manufacturer’s instructions for 20 min at 4°C. Following that, cells were rinsed and resuspended in flow buffer before sorting or analysis by FACSAria or FACSCanto instruments (BD Biosciences). The gating strategy for tumor cell sorting was shown in Figure 1—figure supplement 1B-C. For isolation of CD14+ cells, CD14-APC/Cy7 (123317, Biolegend) antibody was used and the gating strategy shown in Figure 5C.
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2

EGFR Signaling Pathway Regulation

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EGFR WT plasmid was a gift from Matthew Meyerson (Addgene plasmid # 11011) (22 (link)). Plasmids used for silencing Stat3 (TRCN71453, TRCN71454), Egfr (TRCN23482, TRCN23480) and Smad4 (TRCN25885, TRCN25881) were obtained from the Cincinnati Children’s Hospital Lenti-shRNA library core. Antibodies used for immunoblotting include Beta-Actin (Sigma A5441), Vinculin (Sigma V4505), EGFR (CST 4267), phospho-EGFR Y1068 (CST 3777), Jak2 (CST 3230), phospho-Jak2 Y1007/1008 (CST 3776), Stat3 (CST 9139), phospho-Stat3 Y705 (CST 9145), Smad2/3 (CST 3102), phospho-Smad2/3 (CST 8828), phospho-Smad2 (CST3101), Smad4 (CST 9515), Socs3 (CST 2932) and Pias3 (CST 9042). For flow cytometry, antibodies used were CD29-V450 (BD 562155), CD24-PE (BD553262), CD31-APC (Biolegend 102410), CD45-APC (Biolegend 103112), Ter119-APC (116212), Streptavidin-APCcy7 (Biolegend 405208) and CD61-biotin (eBioscience 13061185).
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3

Murine Skeletal Muscle Stem Cell Isolation

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Both TA muscles from 1 mouse were pooled, finely minced, and digested for 60 minutes at 37°C in DMEM with 0.2% (~5500 U/mL) collagenase type II and 2.5 U/mL dispase II. The resulting digest solution was filtered through a 70 μm cell strainer and then centrifuged at 350g for 5 minutes. Cells were resuspended and incubated for 30 minutes on ice with primary antibodies, including Sca-1-APC (BioLegend clone D7; 108112), CD45-AF488 (BioLegend clone 30-F11; 103121), CD11b-APC (BioLegend clone M1/70; 101212), Ter119-APC (BioLegend clone TER-119; 116212), CD29/β1-integrin-PE (BioLegend clone HMb-1; 102208), and CD184/CXCR-4-BIOTIN (BD Biosciences lot 6336587; 551968). Cells were then washed, centrifuged, and resuspended in PECy7-STREPTAVIDIN secondary antibody (eBioscience, Thermo Fisher Scientific, lot 4290713; 25-4317-82). The stained cells were filtered through a 35 μm cell strainer, propidium iodide viability dye was added (1 μg) (Thermo Fisher Scientific), and FACS was performed using a BD FACSAria III Cell Sorter (BD Biosciences). MuSCs, classified here as APC/FITC (Sca-1, CD11b, Ter119, CD45) double-negative and PE/PECy7 (β1-integrin/CXCR-4) double-positive cells, were sorted into TRIzol reagent (Thermo Fisher Scientific) and stored at –80°C.
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4

Single-cell isolation and analysis

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Dissociated cells were incubated in Flow buffer (DMEM/F12, 5 mM EDTA, 1% BSA, 1% FBS and 10U/ml DNAse (D4263-5VL Sigma-Aldrich)) during 25 minutes at 4 °C with the following antibodies: EpCAM-PE/Cy7 (PE; R-Phycoerythrin, Cy7; Cyanine, 1:100, Biolegend clone G8.8), CD45-APC (APC; Allophycocyanin, 1:100, Biolegend clone 30-F11), CD31-APC (1:100, Biolegend clone MEC13.3), Ter-119-APC (1:100, Biolegend clone TER-119). To exclude non-viable cells, DAPI (1:1000, Sigma-Aldrich) was added. Cells were then washed and filtered directly into FACS tubes (40 µm strainer). Analysis was carried out on a FACS-LSRII and sorting on a FACS-Aria III (Becton Dickinson). For cell sorting, RLT lysis buffer supplemented with Beta-mercaptoethanol was used for RNA extraction (Qiagen). FlowJo software was used for data analysis.
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5

Multiparametric Flow Cytometry Analysis

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Murine pre- and post-enrichment bone marrow cells were incubated with LIVE/DEAD™ Fixable Near-IR Dead Cell Stain (Thermo Fisher Scientific Inc., #L34975) and the anti-CD45-FITC (1:100, BioLegend, #103107), anti-mouse c-kit-APC (1:100, BioLegend, #105811) and anti-mouse CD11b-PErCP/Cy5.5 (1:100, BioLegend, #101227) primary antibodies. Samples were then analyzed in a NovoCyte flow cytometer (ACEA Biosciences Inc.). For zebrafish chimera cell analyses at 2 dpf, embryos were euthanized with tricaine in E3 medium (8-12 embryos per condition) and mechanically dissociated by sterile razor blades or 0.05% trypsin (Gibco™). A single-cell suspension was prepared by collecting dissociated tissue in 0.5 ml 0.9× PBS/2% FBS and passing the sample through a 40-µM nylon mesh. Samples were subjected to 3 nM DRAQ-7 Dead Cell Stain (Abcam, #ab109202) or LIVE/DEAD™ Fixable Near-IR Dead Cell Stain and incubated with the aforementioned antibodies or Ter119-APC (1:100, BioLegend, #116211), CD19-APC (1:100, BioLegend, #152409), CD3-APC (1:100, BioLegend, #100235), Gr1-APC (1:100, BioLegend, #108411), F4/80-APC (1:100, BioLegend, #123115) or CD11b-PE (1:100, BioLegend, #101207) and analyzed by flow cytometry on a BD FACSAria II (Becton Dickinson) or a NovoCyte flow cytometer. Data analysis was performed in FlowJo v10.
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6

Immune Cell Profiling in Cellular Signaling

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Escherichia coli O55:B5 LPS and oleic acid were purchased from Sigma-Aldrich. Everolimus and NVP-BEZ235 were provided by Novartis. Phospho-S6 (Ser240/244) and phospho-Akt (Ser473) were purchased from Cell Signaling Technology. TER-119-APC, CD4-APC (RM4-5), CD8a-PerCP (53-6.7), CD19-FITC (6D5), I-Ab-PE (AF6-120.1), CD11c-FITC (N418), and F4/80-APC (BM8) antibodies for flow cytometry were purchased from BioLegend.
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