Antibodies |
|
smCD3-APC-H7 (clone SK7) |
Becton Dickinson (BD) |
Cat# 560176; RRID:AB_1645475
|
CD19-PC7 (clone J3-119) |
Becton Dickinson (BD) |
Cat# IM3628 |
CD20-V450 (clone 2H7) |
BioLegend |
Cat# 302320; RRID:AB_10638575
|
CD27-BV605 (clone L128) |
Becton Dickinson (BD) |
Cat# 562656 |
CD38-APC-R700 (clone HIT2) |
Becton Dickinson (BD) |
Cat# 564980 |
|
Biological samples |
|
Peripheral blood of patients with active COVID-19 disease and after recovery |
This paper |
N/A |
Peripheral blood of healthy individuals before and after vaccination with the seasonal flu vaccine (VaxxigripTetra2020/2021) |
This paper |
N/A |
|
Chemicals, peptides, and recombinant proteins |
|
Phusion HS II |
Thermo Fisher |
Cat# 564980 |
|
Critical commercial assays |
|
LEGENDplex Human B Cell Panel (13-plex) |
BioLegend |
Cat# 740527 |
Anti-SARS-CoV-2-ELISA IgA |
Euroimmun AG |
Cat# EI 2606-9601 A |
Anti-SARS-CoV-2-ELISA IgG |
Euroimmun AG |
Cat# EI 2606-9601 G |
Anti-SARS-CoV-2-ELISA NCP |
Euroimmun AG |
Cat# EI 2606-9601-2 G |
Chromium Next GEM Single Cell 5' Library and Gel Bead Kit v1.1 |
10X Genomics |
Cat# 1000167 |
Tube, Dynabeads™ MyOne™ SILANE |
10X Genomics |
Cat# 2000048 |
Chromium Next GEM Chip G Single Cell Kit |
10X Genomics |
Cat# 1000127 |
Chromium Single Cell V(D)J Enrichment Kit, Human B Cell |
10X Genomics |
Cat# 1000016 |
Chromium Single Cell 5' Library Construction Kit, |
10X Genomics |
Cat# 1000020 |
Single Index Kit T Set A |
10X Genomics |
Cat# 1000213 |
ANAScreen |
Orgentec |
Cat# ORG 538 |
Rheumatoid Factor Screen |
Orgentec |
Cat# ORG 522S |
Anti-Phospholipid Screen IgG/IgM |
Orgentec |
Cat# ORG 529 |
|
Deposited data |
|
NGS single-cell RNA sequencing data |
This paper |
EMBL-EBI Array Express: E-MTAB-11011
|
IGH NGS Sequencing data from COVID-19 patients |
iReceptor Public Archive |
ID IR-Binder-000001 |
NGS Sequencing data of SARS-CoV-2-specific BCRs |
Ehling et al. (2021) |
|
NGS Sequencing data of SARS-CoV-2-specific BCRs |
Galson et al. (2020) |
|
NGS Sequencing data of SARS-CoV-2-specific BCRs |
Vita et al. (2019) |
|
NGS Sequencing data of human B cells |
Dunn-Walters Lab (Stewart et al., 2021) |
EMBL-EBI: E-MTAB-9544
|
|
Oligonucleotides |
|
BIOMED2-FR1 (IGH) |
van Dongen et al. (2003) |
N/A |
|
Software and algorithms |
|
R Studio version 3.5.1 |
RStudio, Boston, USA |
https://rstudio.com/products/rstudio/ |
GraphPad Prism 8.0.2 |
GraphPad Software, La Jolla, CA, USA |
https://www.graphpad.com/scientificsoftware/prism/ |
FlowJo v10 |
Becton Dickinson |
https://www.flowjo.com/solutions/flowjo |
MiXCR (3.0.8) |
Bolotin et al. (2015) |
https://mixcr.readthedocs.io/en/master/ |
Cell Ranger software (v3.1.0) |
10X Genomics |
https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest |
Seurat (v 3.2.0) |
Satija Lab |
https://satijalab.org/seurat/ |
Slingshot 1.4.0 |
Street et al. (2018) |
https://bioconductor.org/packages/release/bioc/html/slingshot.html |
IMGT/HighV-QUEST |
Brochet et al., 2008 |
http://www.imgt.org/HighV-QUEST/home.action |
FastTreeMP |
Price et al., 2009 |
http://www.microbesonline.org/fasttree/ |
Archaeopteryx viewer (0.9928 beta) |
Han and Zmasek, 2009 |
https://sites.google.com/site/cmzmasek/home/software/archaeopteryx |