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. 2021 Feb 6;2(2):100194. doi: 10.1016/j.xcrm.2021.100194
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
Anti-hCD8 Biolegend 313904
Anti-CCR7 Biolegend 353226
Anti-CD45RA Beckman Coulter IM2711U
Biological samples
Healthy donors blood mononuclear cells and blood mononuclear cells and tumor infiltrating lymphocytes from cancer patients Biobank from the Center of Experimental Therapeutics, Department of Oncology, Centre Hospitalier Universitaire Vaudois, Lausanne, Switzerland. Protocol 235/14 and 2016-02094, 2016-02166 and 2017-00490
Chemicals, peptides, and recombinant proteins
CMV variant peptides Peptide & Tetramer Core Facility, University of Lausanne N/A
HIV variant peptides Peptide & Tetramer Core Facility, University of Lausanne N/A
Other peptides Peptide & Tetramer Core Facility, University of Lausanne N/A
pMHC NTAmers Peptide & Tetramer Core Facility, University of Lausanne N/A
RPMI GIBCO 61870-010
MEM NEAA GIBCO 11140-035
2-Mercaptoethanol GIBCO 31350-010
Sodium Pyruvat GIBCO 11360-033
HEPES Bio Concept 5-31F00H
Pen/strep Bio Concept 4-01F00H
Human Serum Biowest S419H-100
FBS Biowest S-1810-500
IL2 Novartis Proleukina, PZN02238131
DAPI Sigma-Aldrich 10236276001
Incomplete Freund Adjuvant Sigma-Aldrich F5506-10ML
ODN1826 Invivogen Tlrl-1826-5
Critical commercial assays
Human-Interferonγ release assay Mabtech 3420-2APT-10
Human-CD8 isolation kit Milteny 130-045-201
Murine-Interferonγ release assay Mabtech 3321-4APT-10
Experimental models: cell lines
T2 cells ATCC CRL-1992
CD4 blasts cells In house N/A
Experimental models: organisms/strains
HLA-A2.1/DR1 mice Pajot et al.66 N/A
Software and algorithms
NetMHCpan4.1 Reynisson et al.15 http://www.cbs.dtu.dk/services/NetMHCpan/
MHCflurry1.6.1 O’Donnell et al.13 https://github.com/openvax/mhcflurry
HLAthena Sarkizova et al., 201916 http://hlathena.tools/ (executable shared by the authors, private communications)
NetChop3.0 Nielsen et al.47; Stranzl and Lundegaard21 http://www.cbs.dtu.dk/services/NetCTLpan/
TAP Peters et al.48; Stranzl and Lundegaard21 http://www.cbs.dtu.dk/services/NetCTLpan/
IEBD immunogenicity predictor Calis et al.29 http://tools.iedb.org/immunogenicity/
NetMHCstabpan1.0 Rasmussen et al.14 http://www.cbs.dtu.dk/services/NetMHCstabpan/
MixMHCpred2.1 Gfeller et al.12 https://github.com/GfellerLab/MixMHCpred
Prism version 8.0.0 GraphPad Software, Inc N/A
FlowJo 9.6.4 FlowJo, LLC N/A
Other
Chromium-51 radionuclide Perkin Elmer NEZ030S002MC