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4 protocols using apc pd 1

1

Comprehensive Immune Profiling of HIV-1 Infection

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HIV-1-infected PBMCs or purified CD4+ T cells were stained with fluorescently labeled anti-human antibodies (1:50 dilution) in the cell stain buffer (BioLegend) for 30 min at 4 °C, washed twice using the cell stain buffer, fixed in 2% paraformaldehyde (PFA), washed again once in PBS, and re-suspended in PBS before flow cytometry. Cell staining was quantified with a BD FACSCanto II cytometer. The data were analyzed using FlowJo software (version 10.7.1, Treestar). The following antibodies (BioLegend) were used for staining surface receptors: APC PD-1 (#329907), APC TIGIT (#372705), Alexa Fluor 647 LAG-3 (#369303), APC Tim-3 (#345012), APC-Cy7 Tim-3 (#345026), APC CD4 (#317416), and APC/Cy7 HLA-A, B, C (#311426). The following isotype controls were used in this study: APC Mouse IgGκ, Alexa Fluor 647 Mouse IgG1κ, APC Mouse IgG2aκ, APC Mouse IgG2bκ, APC/Cy7 Mouse IgG1κ, and APC/Cy7 Mouse IgG2aκ.
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2

Isolation and Phenotyping of Human Visceral Adipose Tissue

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Visceral adipose tissue was collected from male bariatric surgery patients with IRB approval (HUM00074075) from the University of Michigan and Ann Arbor Veterans Affairs Healthcare System. We did not include or exclude any bariatric surgery samples based on race. Sex and racial classifications were made by the participant and extracted from the medical record.
Tissue was finely minced using surgical scissors (DR Instruments) and then digested in 3 mg/mL collagenase II (Invitrogen; 17101015) for 30 minutes. Digested tissue was then processed in the same manner as digested murine adipose tissue to obtain single-cell suspensions of SVF.
Cells were incubated in Fc Block for 5 minutes on ice before staining with indicated antibodies for 30 minutes at 4°C. Anti-human antibodies used included the following: AF488-CD4 (catalog 317419), PerCPy5.5-CD3 (catalog 300429), APC-CD25 (catalog 356109), APCcy7-CD8 (catalog 344713), APC-PD1 (catalog 329907), and PE-FoxP3 (catalog 320107) from BioLegend, and Live/Dead Fixable Dead Cell Violet Stain Kit (catalog L34955) from Invitrogen.
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Dissociation and Phenotyping of ccRCC Immune Cells

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Peritumour tissue and ccRCC tissue from ccRCC patients were individually dissociated in 50 U/mml of Dispase II (S25046, YuanyeBio-Technology, China) on gentleMACS octo with Heater (Miltenyi Biotec, German) to enable efficient dissociation of lymphocytes from the tumour cells and stromal tissue. Staining steps were performed at 4 ℃ over 20 min with FACS buffer washes between steps. Flow cytometry antibodies were used: FITC-CD3 (Cat: 317305, Clone: OKT3, 1:20, Biolegend), PE-IFN-γ (Cat: 502508, Clone: 4SB3, 1:20, Biolegend), APC-PD-1 (Cat: 379207, Clone: A17188A, 1:20, Biolegend).
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4

Immune Cell Profiling of Mouse Tumors

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For mouse tissue, each tumor was minced using the mouse Tumor Dissociation Kit from Miltenyi Biotec (#130-096-730, Auburn, California, USA). All samples were then washed with flow cytometry buffer, and the cells were further passed through a 100 µm cell strainer. The samples were incubated for 30 min at 4°C in the dark with the following antibodies: APC-PD-1 (#135210), BV711-TIM3 (#134021), PE-IL-2 (#503808), FITC-IFN-γ (#505806), APC-Thy1.2 (#140331), Pacific Blue-Granzyme B (#515408), PE-TNFα (#506306), PE-CD4 (#100408), APC-perforin (#154304), APC-Annexin V (#640941) and FITC-CD8 (#100706) from BioLegend (San Diego, California, USA). Intracellular staining was performed after incubation of single-cell suspensions with BD GolgiStop from BD Biosciences (#AB_2869012, San Diego, California, USA) in medium for 4 hours using Intracellular Staining Permeabilization Wash Buffer and Fixation Buffer from BioLegend (#421002, San Diego, California, USA). Stained cell populations were acquired by LSRFortessa from BD Biosciences (Franklin, New Jersey, USA), and the results were analyzed by using FlowJo software from Tree Star (Ashland, Oregon, USA).
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