REAGENT or RESOURCE | SOURCE | IDENTIFIER |
---|---|---|
Antibodies | ||
Goat F(ab’)2 Anti-Human Kappa-UNLB | Southern Biotech | Cat#2062-01; RRID: AB_2795736 |
All antibodies used for cytometry | Various | Table S1 |
Biological Samples | ||
Leukocyte reduction chamber from human blood | Stanford Blood Center | stanfordbloodcenter.org |
Whole blood from healthy donors | Obtained under informed consent with IRB approval | n/a |
Human tonsil | Stanford Hospital, adult tonsilectomy from adults with obstructive sleep apnea | stanfordhealthcare.org |
Human lymph node | Stanford Hosptial, biopsy sample of recovered lymphoma patient | stanfordhealthcare.org |
Human bone marrow from healthy donors | AllCells | allcells.com |
Chemicals, Peptides, and Recombinant Proteins | ||
Ficoll-Paque Plus | GE Healthcare | Cat#300-25 |
RPMI 1640 media | Thermo Fisher Scientific | Cat#21-870-092 |
GlutaMAX supplement | Thermo Fisher Scientific | Cat#35050-061 |
Fetal bovine serum USDA approved lot | Omega Scientific, Inc. | Cat#FB-01 |
Benzonase nuclease | Sigma-Aldrich | Cat#E1014-25KU |
Recombinant human CD40L | BioLegend | Cat#591704 |
Human TruStain FcX (Fc Receptor Blocking Solution) | BioLegend | Cat#422302 |
Bovine Serum Album (BSA) Heat-shock Treated | Thermo Fisher Scientific | Cat#BP1600-100 |
Cell-ID Intercalator-Ir | Fluidigm | Cat#201192A |
Cell-ID Cisplatin | Fluidigm | Cat#201064 |
Saponin from quillaja bark | Sigma-Aldrich | Cat#S7900-25G |
Calibration Beads, EQ, Four Element | Fluidigm | Cat#201078 |
7-AAD Viability Staining Solution | BioLegend | Cat#420404 |
Streptavidin Particles Plus | BD Biosciences | Cat#557812 |
Critical Commercial Assays | ||
Cell-ID 20-Plex Pd Barcoding Kit | Fluidigm | Cat#201060 |
Maxpar X8 Antibody Labeling Kit | Fluidigm | Cat#201176B |
IMag Cell Separation Magnet | BD Biosciences | Cat#552311 |
QIAamp DNA Micro Kit | QIAGEN | Cat#56304 |
immunoSeq Human B Cell - survey resolution | Adaptive | adaptivebiotech.com |
Deposited Data | ||
Mass cytometry data | This study |
flowrepository.org/id/FR-FCM-Z2MA flowrepository.org/id/FR-FCM-Z2MC |
Software and Algorithms | ||
RStudio | Rstudio | rstudio.com |
MATLAB | MathWorks | mathworks.com/products/MATLAB.html |
Cytobank | Cytobank | cytobank.org |
CellEngine | Primity Bio | cellengine.com |
Other | ||
Custom code for analysis | This study | github.com/davidrglass/atlas |