Journal: Frontiers in Oncology

Article Title: Inter and intra-tumor heterogeneity of paediatric type diffuse high-grade gliomas revealed by single-cell mass cytometry

doi: 10.3389/fonc.2022.1016343

Figure Lengend Snippet: Summary of the 15 antibodies used for the mass cytometry analysis.

Article Snippet: Anti-Human CD90 , 159Tb , Fluidigm , 3159007B , AB_2893063.

Techniques: Mass Cytometry

Journal: Frontiers in Oncology

Article Title: Inter and intra-tumor heterogeneity of paediatric type diffuse high-grade gliomas revealed by single-cell mass cytometry

doi: 10.3389/fonc.2022.1016343

Figure Lengend Snippet: CyTOF single-cell analysis of surface antigens in PDHGG patient-derived cell lines. t-SNE maps showing the expression of 10 surface markers (CD31, CD34, CD63, CD36, CD29, CD90, CD140a, CD49c, CD56 and CD61) in each of the eight different PDHGG patient-derived cell lines analyzed through mass cytometry technique. The color gradient refers to the intensity of the expression of the considered marker, in a blue to red scale indicating low and high intensity respectively.

Article Snippet: Anti-Human CD90 , 159Tb , Fluidigm , 3159007B , AB_2893063.

Techniques: Single-cell Analysis, Derivative Assay, Expressing, Mass Cytometry, Marker

Journal: Frontiers in Oncology

Article Title: Inter and intra-tumor heterogeneity of paediatric type diffuse high-grade gliomas revealed by single-cell mass cytometry

doi: 10.3389/fonc.2022.1016343

Figure Lengend Snippet: List of the cell antigens used together with the molecular function and reported expression.

Article Snippet: Anti-Human CD90 , 159Tb , Fluidigm , 3159007B , AB_2893063.

Techniques: Expressing, Migration, Mutagenesis

Journal: eLife

Article Title: Short senolytic or senostatic interventions rescue progression of radiation-induced frailty and premature ageing in mice

doi: 10.7554/eLife.75492

Figure Lengend Snippet: Muscle fibre cross-sectional area in oxidative ( A ) and non-oxidative ( B ) fibres from irradiated mice at 16 months of age. Frequencies of p21-positive myonuclei in oxidative ( C ) and glycolytic ( D ) fibres. ( E ) Telomere-associated foci (TAF) frequencies in myonuclei. Data are from at least five animals/group.

Article Snippet: p21 Waf1/Cip1 , 159Tb , 3159026 A , Fluidigm.

Techniques: Irradiation

Journal: eLife

Article Title: Short senolytic or senostatic interventions rescue progression of radiation-induced frailty and premature ageing in mice

doi: 10.7554/eLife.75492

Figure Lengend Snippet: Immunostaining and blotting methods.

Article Snippet: p21 Waf1/Cip1 , 159Tb , 3159026 A , Fluidigm.

Techniques: Immunostaining, Plasmid Preparation, Avidin-Biotin Assay, Immunohistochemistry-IF

Journal: eLife

Article Title: Short senolytic or senostatic interventions rescue progression of radiation-induced frailty and premature ageing in mice

doi: 10.7554/eLife.75492

Figure Lengend Snippet: List of metal conjugated antibodies for stress response pathway analysis by CyTOF.

Article Snippet: p21 Waf1/Cip1 , 159Tb , 3159026 A , Fluidigm.

Techniques:

Journal: eLife

Article Title: Short senolytic or senostatic interventions rescue progression of radiation-induced frailty and premature ageing in mice

doi: 10.7554/eLife.75492

Figure Lengend Snippet:

Article Snippet: p21 Waf1/Cip1 , 159Tb , 3159026 A , Fluidigm.

Techniques: Recombinant, Staining

Journal: Cell metabolism

Article Title: Multiplexed in Situ Imaging Mass Cytometry Analysis of the Human Endocrine Pancreas and Immune System in Type 1 Diabetes

doi: 10.1016/j.cmet.2019.01.003

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: 159Tb-CD68 (Clone KP1) , Fluidigm , Cat#3159035D.

Techniques: Software

Journal: Cell

Article Title: Single-cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment

doi: 10.1016/j.cell.2018.05.060

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Biological Samples Breast carcinoma Fresh operative tissue samples at MSKCC N/A Normal breast tissue Fresh operative tissue samples at MSKCC N/A Lymph node Fresh operative tissue samples at MSKCC N/A Peripheral blood Patient venipuncture at MSKCC N/A Antibodies anti-CD45 ab Biolegend RRID:AB_2566372 DAPI Stain Calbiochem SCR_014366 anti-Foxp3 ab Thermo Fisher RRID:AB_1834364 anti-CD3 ab Biolegend RRID:AB_1575008 anti-CD4 ab Biolegend RRID:AB_571945 anti-CD16 ab Biolegend RRID:AB_314207 anti-CD56 ab BD Biosciences RRID:AB_396853 anti-CD8 ab Biolegend RRID:AB_528885 anti-CD19 ab Biolegend RRID:AB_2562015 anti-CD11b ab Biolegend RRID:AB_2563395 anti-CD45 Y89 Fluidigm RRID:AB_2261851 anti-CD235ab BioLegend RRID:AB_314620 anti-CD61 BioLegend RRID:AB_1227584 anti-CD196/CCR6 Pr141 Fluidigm Cat:3141014A anti-CD19 142Nd Fluidigm RRID:AB_2651155 anti-CD278/ICOS 143Nd Fluidigm Cat:3143025B anti-CD270 144Nd Fluidigm Cat:3144022B anti-CD4 145Nd Fluidigm RRID:AB_2661789 anti-CD8a 146Nd Fluidigm Cat:3146001B anti-CD11c 147Sm Fluidigm RRID:AB_2687850 anti-CD14 148Nd Fluidigm Cat:3148010B anti-CD127 149Sm Fluidigm RRID:AB_2661792 anti-TIGIT eBioscience Cat:16-9500-82 anti-CD123 151Eu Fluidigm RRID:AB_2661794 anti-CD95/Fas 152Sm Fluidigm Cat:3152017B anti-CD45RA 153Eu Fluidigm Cat:3153001B anti-TIM3 154Sm Fluidigm Cat:3154010B anti-CD39 BioLegend RRID:AB_940438 anti-CD274/PD-L1 156Gd Fluidigm Cat: 3156026B anti-CD27 158Gd Fluidigm Cat: 3158010B anti-CD357/GITR 159Tb Fluidigm Cat: 3159020B anti-CD28 160Gd Fluidigm Cat: 3160003B anti-CD152/CTLA4 161Dy Fluidigm Cat: 3161004B anti-FoxP3 162Dy Fluidigm RRID:AB_2687650 anti-CD33 163Dy Fluidigm RRID:AB_2687857 anti-CD45RO 164Dy Fluidigm Cat: 3164007B anti-CD223/LAG3 165Ho Fluidigm RRID:AB_2687859 anti-Ki67 BD RRID:AB_396287 anti-CD197/CCR7 167Er Fluidigm Cat:3167009A anti-CD154/CD40L 168Er Fluidigm Cat: 3170011B anti-CD25 169Tm Fluidigm RRID:AB_2661806 anti-CD3 170Er Fluidigm RRID:AB_2661807 anti-CD226 171Tb Fluidigm Cat: 3171013B anti-CD38 172Yb Fluidigm Cat: 3172007B anti-CD137/4–1BB 173Yb Fluidigm Cat: 3173015B anti-CD279/PD-1 174Yb Fluidigm Cat: 3174020B anti-CD194/CCR4 175Lu Fluidigm Cat: 3175021A anti-CD56 176Yb Fluidigm RRID:AB_2661813 anti-CD11b 209Bi Fluidigm Cat: 3209003B Critical Commercial Assays inDrop platform Custom-built droplet microfluidics platform; Klein et al., 2015 ; Zilionis et al., 2017 .

Techniques: Staining, Antibody Labeling, Software, Diffusion-based Assay

Journal: Methods in molecular biology (Clifton, N.J.)

Article Title: Flow Cytometry and Mass Cytometry for Measuring the Immune Cell Infiltrate in Atherosclerotic Arteries

doi: 10.1007/978-1-0716-1924-7_47

Figure Lengend Snippet: CyTOF panel as published in Winkels et al. [ 9 ]

Article Snippet: TCR-γ/S , 159Tb , GL3 , Fluidigm , 3159012B , Commercial.

Techniques: Conjugation Assay

Journal: Cell

Article Title: A blood atlas of COVID-19 defines hallmarks of disease severity and specificity

doi: 10.1016/j.cell.2022.01.012

Figure Lengend Snippet:

Article Snippet: CD22 (HIB22)-159Tb , Fluidigm , Cat# 3159005B, RRID: AB_2892688.

Techniques: Mass Cytometry, Flow Cytometry, Recombinant, Staining, Selection, Antibody Labeling, Labeling, Isolation, Sample Prep, Luminex, Quantitative Proteomics, Generated, Gene Expression, Clone Assay, Marker, Expressing, Mass Spectrometry, Derivative Assay, RNA Sequencing, Sequencing, Illumina Sequencing, Software, Variant Assay

Journal: Cell Reports Medicine

Article Title: OX40 agonism enhances PD-L1 checkpoint blockade by shifting the cytotoxic T cell differentiation spectrum

doi: 10.1016/j.xcrm.2023.100939

Figure Lengend Snippet:

Article Snippet: Anti-human CD161 (clone HP-3G10) (159Tb) , Fluidigm , Cat# 3159004B; RRID: AB_2756421.

Techniques: Recombinant, Purification, Staining, Cell Isolation, Transgenic Assay, Software, Gene Expression

Journal: Cell reports

Article Title: A FLCN-TFE3 Feedback Loop Prevents Excessive Glycogenesis and Phagocyte Activation by Regulating Lysosome Activity

doi: 10.1016/j.celrep.2020.01.042

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Anti-pMAPKAPK2 [T334] (27B7)-159Tb , Fluidigm , Cat#3159010A; RRID: AB_2661828.

Techniques: Purification, Blocking Assay, Recombinant, Transfection, Flow Cytometry, Magnetic Beads, Lysis, Extraction, SYBR Green Assay, Staining, shRNA, Sequencing, Plasmid Preparation, Software

Journal: iScience

Article Title: Temporal and spatial dynamics of immune cells in spontaneous liver transplant tolerance

doi: 10.1016/j.isci.2023.107691

Figure Lengend Snippet: List of metal-labeled antibodies used for mass cytometry

Article Snippet: Anti-CD279 (PD-1) , Fluidigm , 3159024C.

Techniques:

Journal: iScience

Article Title: Temporal and spatial dynamics of immune cells in spontaneous liver transplant tolerance

doi: 10.1016/j.isci.2023.107691

Figure Lengend Snippet: T cell exhaustion in mouse liver transplantation (A) Representative triple immunofluorescence staining of CD8α, PD-1, and TIM3 in hepatic allografts on POD14. Image data are representative of three independent experiments. Scale bar = 20 μm. (B) Representative histogram of CFSE dilution of CD8 + T cells in each group (n = 4 for each group). (C) Quantitative data of the proportion of CFSE dim proliferating CD8 + T cells in each group (n = 4 for each group). Values are shown as the mean ± SEM. Statistical analysis by one-way ANOVA followed by a post hoc test. ∗∗∗∗p < 0.0001. (D) Representative histogram of molecular markers on CD8 + T cells from Naïve SPCs, POD14 SPCs, and POD14 GILs, as evaluated by flow cytometry. Data are representative of four independent experiments.

Article Snippet: Anti-CD279 (PD-1) , Fluidigm , 3159024C.

Techniques: Transplantation Assay, Immunofluorescence, Staining, Flow Cytometry

Journal: iScience

Article Title: Temporal and spatial dynamics of immune cells in spontaneous liver transplant tolerance

doi: 10.1016/j.isci.2023.107691

Figure Lengend Snippet: CD86 expression on CD8 + T cells in GILs (A) Representative histogram of CD86 expression on CD8 + T cells of Naïve spleen cells (SPCs), postoperative day (POD)14 SPCs, and POD14 graft-infiltrating lymphocytes (GILs). Data are representative of four independent experiments. (B) Quantitative data of the median fluorescence intensity (MFI) of CD86 expression on CD8 + T cells of Naïve SPCs, POD14 SPCs and POD14 GILs, as evaluated by flow cytometry (n = 4 for each group). Statistical analysis by one-way ANOVA followed by a post hoc test. ∗∗∗∗p < 0.0001. Values are shown as the mean ± SEM. (C) The gating strategy of CD86 low , CD86 mid , and CD86 high CD8 + T cell subsets based on the CD86 expression level ( Left ). The proportion of CD86 low , CD86 mid , and CD86 high CD8 + T cell subsets among CD8 + T cells of Naïve SPCs, POD14 SPCs, and POD14 GILs, as evaluated by flow cytometry (n = 4 for each group) ( Right ). ∗∗∗∗p < 0.0001 by one-way ANOVA with Tukey’s post hoc test vs. POD14 SPCs. Values are shown as the mean ± SEM. (D) Representative immunofluorescence staining of CD86, CD8β, and PD-1 in a hepatic allograft on POD14. Image data are representative of three independent experiments. Scale bar = 10 μm. (E) Representative histogram of PD-1, TIM-3, and CD39 expression on CD86 low , CD86 mid , and CD86 high CD8 + T cell subsets of Naïve SPCs, POD14 SPCs, and POD14 GILs. Data are representative of four independent experiments. (F) Quantitative data of the MFI of PD-1, TIM-3, and CD39 expression on CD86 low , CD86 mid , and CD86 high CD8 + T cell subsets of Naïve SPCs, POD14 SPCs, and POD14 GILs, as evaluated by flow cytometry (n = 4 for each group). Statistical analysis by one-way ANOVA followed by a post hoc test. ∗p < 0.05, ∗∗p < 0.01, ∗∗∗p < 0.001, ∗∗∗∗p < 0.0001. Values are shown as the mean ± SEM. (G) The mRNA expression level of CD86 in CD8 + T cells of Naïve SPCs, POD14 SPCs, and POD14 GILs. Statistical analysis by one-way ANOVA followed by a post hoc test. ∗∗∗∗p < 0.0001. Values are shown as the mean ± SEM. (H) The representative flow cytometry analysis of CD86 and CTLA-4 expression on CD8 + T cells of POD14 GILs. Data are representative of three independent experiments.

Article Snippet: Anti-CD279 (PD-1) , Fluidigm , 3159024C.

Techniques: Expressing, Fluorescence, Flow Cytometry, Immunofluorescence, Staining

Journal: iScience

Article Title: Temporal and spatial dynamics of immune cells in spontaneous liver transplant tolerance

doi: 10.1016/j.isci.2023.107691

Figure Lengend Snippet:

Article Snippet: Anti-CD279 (PD-1) , Fluidigm , 3159024C.

Techniques: Transplantation Assay, Recombinant, Staining, Cell Isolation, Software, Cytometry, Flow Cytometry