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3 protocols using tim 3 clone f38 2e2

1

T Cell Phenotyping and Viability Assay

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For surface marker staining, 1 × 105 T cells were seeded in 96-well plates with indicated target cells (unirradiated) at a 2:1 E:T ratio unless otherwise noted. Experiments with 2.5 × 105 T cells were performed in 24-well plates. When indicated, γ-irradiated (100 Gy) K562 targets were used. When indicated, CD28 monoclonal antibody (clone CD28.2; eBiosciences) was applied at 10 μg/mL to provide CD28 costimulatory signal. Cell mixtures were incubated at 37 °C, and analyzed at the indicated time points with fluorescently labeled monoclonal antibodies binding CCR7 (clone REA108), CD19 (clone LT19), CD25 (clone BC96), CD27 (clone M-T271), CD45RA (clone T6D11), CD57 (clone TB03), PD-1 (PD1.3.1.3), PD-L1 (clone 29E.2A3), and Tim-3 (clone F38-2E2) (BioLegend and Miltenyi Biotec). V500-conjugated Annexin V (BD Biosciences) and Pacific Blue-conjugated Annexin V (BioLegend) were used to detect pre-apoptotic cells. CAR expression was probed with Protein L (Genscript) followed by PE-conjugated streptavidin (Jackson Immunoresearch) or with APC-conjugated polyclonal antibody binding human IgG Fcγ (Jackson Immunoresearch). EGFRt expression was probed with biotinylated Erbitux followed by PE-conjugated streptavidin. Analyses were performed on a MACSQuant VYB flow cytometer (Miltenyi Biotec) equipped with 405-, 488-, and 561-nm lasers. Data were processed using FlowJo software (TreeStar).
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2

Flow Cytometry Analysis of CAR T-Cells

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Cells were resuspended in FACS staining buffer (PBS + 3% fetal bovine serum) using the following antibodies: CD3 (clone OKT3, eBiosciences), PD-1 (clone J105, eBiosciences), TIM3 (clone F38–2E2, BioLegend), Lag3 (clone 3DS223H, Invitrogen). CARs were detected using a PE or APC-conjugated CD22, CD19 or CD33 protein. All changes in overall tumor or T cell counts reflect changes in absolute cell counts, which were determined using CountBright absolute counting beads (ThermoFisher). Cell viability was established using Live/Dead Aqua fixable staining kit (ThermoFisher), and data were acquired on an LSRII Fortessa Cytometer (BD). All data analysis was performed using FlowJo 9.0 or 10 software (FlowJo, LLC). See Supplementary Figure 6 for gating strategy.
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3

Comprehensive T cell Phenotyping Protocol

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All samples were analyzed with an LSR Fortessa (BD Bioscience) and data were analyzed using FlowJo software (FlowJo LLC). T cell phenotype was evaluated via:Zombie Yellow Fixable Viability Kit (BioLegend), human CD45 (clone HI30, BioLegend), mouse CD45 (clone 30F11, BioLegend), CD3 (clone OKT3, BioLegend), CD4 (clone A161A1, BioLegend), CD8 (clone SK1, BioLegend), CD19 (clone HIB19, BioLegend), CD27 (clone M-T271, BioLegend), CD62L (DREG-56, BioLegend), PD-1 (clone MIH4, BD Bioscience), TIM-3 (clone F38-2E2, BioLegend), CD45RO (clone UCHL1, BioLegend), CD45RA (HI100, BioLegend).
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