Flow Cytometry Datasets Associated with Single-cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment research

UID: 10386

Author(s): Cornish, Andrew Erickson* * MSK affiliated

Description: The purpose of the dataset from the Flow Repository: "To determine the degree to which populations of intratumoral T cells, especially but not limited to T regs, initially found in single cell RNA sequencing data may be reproduced in mass cytometry data."

From the description on Flow Repository: The data included for each of the 3 patients (BC12, BC13, and BC14, respectively) is presented in nine total files. For each of the patients the following three files are provided: 1) Raw data, with all cells (includes both barcoded stock PBMCs as well as TILs from the patient). 2) Debarcoded and bead-normalized TILs (with PBMCs and beads removed). 3) Beads removed from file 2) above."
Timeframe: 2018

Subject of Study

Subject(s)

Subject Gender

Female

OncoTree Cancer Type(s)

Breast

Access via FlowRepository

Accession #: FR-FCM-ZYJP
Access Restrictions: Free to All
Access Instructions: FlowRepository is a database of flow cytometry experiments where you can query and download data collected and annotated according to the MIFlowCyt standard. It is primarily used as a data deposition place for experimental findings published in peer-reviewed journals in the flow cytometry field.
Associated Publications: Azizi E, Carr A, Plitas G, et al. Single-cell map of diverse immune phenotypes in the breast tumor microenvironment. Cell. 2018; 174(5):1293-1308.e36.
Data Type: Analytical Chemistry
Software Used: CyTOF Bead Normalization
Bead-based normalization tool for mass cytometry data

CyTOF cell debarcoder
The single cell debarcoder is a tool for the deconvolution of a barcoded FCS file into separate FCS files of each barcode population.
Dataset Format(s): FCS
Dataset Size: 864.3 MB

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