other:
Clinical Proteomics:Article Title: De novo protein sequencing of antibodies for identification of neutralizing antibodies in human plasma post SARS-CoV-2 vaccination
Article Snippet: For the negative controls in ELISA testing of the recombinant antibodies, we used human IgG antibodies purchased from Sigma Aldrich (I4506) (Fig. C). .. Human plasma was obtained from Innovative Research Inc (IPLASK2E50ML, single donor human plasma with K2 EDTA) for testing the titer shown in Fig. . For the positive controls, we used the following antibodies: Anti-SARS-CoV-2 Spike RBD Neutralizing Antibody, Human IgG1 AS35 (Acro Biosystems, clone AS35, lot no. S35-21CHF1-ZS) (see Fig. B, C), and Anti-Spike RBD Neutralizing Antibody, S1N-M122 (Clone AM122) from Acro Biosystems (see Fig. ). .. Uncoupled antigen was removed by washing wells three times with 200 μL of 0.03% Tween in PBS (PBS-T), followed by blocking with SuperBlock buffer (Thermo-Fischer).
Recombinase Polymerase Amplification:Article Title: Safety and immunogenicity of SARS-CoV-2 self-amplifying RNA vaccine expressing an anchored RBD: A randomized, observer-blind phase 1 study.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse anti-human CD154-FITC (clone: TRAP1) BD Biosciences cat# 555699; RRID: AB_396049 Mouse anti-human CD3-BUV615 (clone: SP34-2) BD Biosciences cat# 751249; RRID: AB_2875266 Mouse anti-human CD4-PE-Cy5.5 (clone: S3.5) Thermo Ficher Scientific cat# MHCD0418; RRID: AB_10376013 Mouse anti-human CD8-BUV563 (clone: RPA-T8) BD Biosciences cat# 612914; RRID: AB_2870200 Mouse anti-human CD27-PE-Cy5 (clone: 1A4CD27) Beckman coulter cat# 6607107 Mouse anti-human CD45RO-BUV805 (clone: UCHL1) BD Biosciences cat# 748367; RRID: AB_2872786 Mouse anti-human IFN-g-BV786 (clone: 4S.B3) BioLegend cat# 502542; RRID: AB_2563882 Mouse anti-human TNF-BV650 (clone: MAb11) BioLegend cat# 502938; RRID: AB_2562741 Rat anti-human IL-13-BV421 (clone: JES10-5A2) BD Biosciences cat# 563580; RRID: AB_2738290 Mouse anti-human IL-21-Ax647 (clone: 3A3-N21) BD Biosciences cat# 560493; RRID: AB_1645421 Mouse anti-human IL-4-PE-Cy7 (clone:8D4-8) BD Biosciences cat# 560672; RRID: AB_1727547 Mouse anti-human IL-17A-BV605 (clone: BL168) BioLegend cat# 512326; RRID: AB_2563887 Rat anti-human IL-2-BUV737 (clone: MQ117H12) BD Biosciences cat# 612836 Mouse anti-human CD107A-BV711 (clone: H4A3) BioLegend cat# 328640; RRID: AB_2565840 Mouse anti-human MIP1b-Alexa700 (clone: D21-1351) BD Biosciences cat# 561278; RRID: AB_10612008 Anti-SARS-CoV-2 Spike RBD Neutralizing Antibody, Human IgG1 (AS35) ACROBiosystems cat# SAD-S35 Anti-SARS-CoV-2 Spike RBD Neutralizing Antibody, Human IgG2 (AS35) ACROBiosystems cat# SAD-S66 Anti-SARS-CoV-2 Spike RBD Neutralizing Antibody, Human IgG3 (AS35) ACROBiosystems cat# SAD-S67 Anti-SARS-CoV-2 Spike RBD Neutralizing Antibody, Human IgG4 (AS35) ACROBiosystems cat# SAD-S68 Mouse anti-Human IgG1 Fc Secondary Antibody, HRP Thermo Fisher Scientific cat# MH1715; RRID: AB_2539710 Mouse Anti-Human IgG2 Fc-BIOT HP6002 SouthernBiotech cat# 9070-08; RRID: AB_2796638 Mouse Anti-Human IgG3 Hinge-BIOT HP6050 SouthernBiotech cat# 9210-08; RRID: AB_2796700 Mouse Anti-Human IgG4 Fc-BIOT HP6025 SouthernBiotech cat# 9200-08; RRID: AB_2796692 Biological samples Human PBMCs This study This study Chemicals, peptides, and recombinant proteins Benzonase Nuclease, Purity >90% MERCK Millipore cat# 70746 (Continued on next page) Cell Reports Medicine 4, 101134, August 15, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER BD GolgiPlug BD Biosciences cat# 555029 BD GolgiStop BD Biosciences cat# 554724 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific cat# L23105 Cytofix/Cytoperm kit BD Biosciences cat# 554714 RBD protein SinoBiological cat# 40592-VNAH Peroxidase Substrate Solution B KPL cat# 50-65-02 TMB Peroxidase Substrate KPL cat# 50-76-02 HRP-conjugated streptavidin Thermo Fisher Scientific cat# N100 Peptide sequence for T cell analysis (See Table S5) This paper N/A TransIT-LT1 Mirus Bio MIR2300 pCAGG -SARS-CoV-2-Wuhan spike This paper N/A pCAGG -SARS-CoV-2- Delta spike This paper N/A pCAGG -SARS-CoV-2- Omicron BA.2 spike This paper N/A VSVDG-Luc/G Matsuura et al.31 N/A VSVDG-Luc/SARS-CoV-2 Wuhan spike This paper N/A VSVDG-Luc/SARS-CoV-2 Delta spike This paper N/A VSVDG-Luc/SARS-CoV-2 Omicron BA.2 spike This paper N/A Luciferase assay system Promega E1500 Critical commercial assays V-PLEX SARS-CoV-2 Panel 7 (ACE2) multiplexed immunoassay kit Meso Scale Diagnostics Cat# K15440U-2 and K15440U-4 Deposited data SARS-COV-2 Wuhan signal sequence GenBank YP_009724390.1 amino acids [aa] 1–13 of S SARS-COV-2 Wuhan RBD sequence GenBank YP_009724390.1 amino acids [aa] 327–531 of S Influenza hemagglutinin (HA) sequence GenBank P03452.2 [aa] 518-565 SARS-CoV-2 Wuhan spike gene GenBank NC_045512.2 SARS-CoV-2 Delta spike gene GenBank QWA53965.1 SARS-CoV-2 Omicron spike gene GenBank UFO69279.1 Experimental models: Cell lines HEK239T cells ATCC CRL-3216 Vero cells ATCC CCL-81 Software and algorithms Discovery Workbench software 4.0 Meso Scale Diagnostics https://www.mesoscale.com/en/ products_and_services/software FlowJo 10.7.1 BD Biosciences https://www.flowjo.com/ GraphPadPrism version 8 GraphPad Software, Inc. https://www.graphpad.com GraphPadPrism version 9 GraphPad Software, Inc. https://www.graphpad.com Article ll OPEN ACCESS
Recombinant:Article Title: Safety and immunogenicity of SARS-CoV-2 self-amplifying RNA vaccine expressing an anchored RBD: A randomized, observer-blind phase 1 study.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse anti-human CD154-FITC (clone: TRAP1) BD Biosciences cat# 555699; RRID: AB_396049 Mouse anti-human CD3-BUV615 (clone: SP34-2) BD Biosciences cat# 751249; RRID: AB_2875266 Mouse anti-human CD4-PE-Cy5.5 (clone: S3.5) Thermo Ficher Scientific cat# MHCD0418; RRID: AB_10376013 Mouse anti-human CD8-BUV563 (clone: RPA-T8) BD Biosciences cat# 612914; RRID: AB_2870200 Mouse anti-human CD27-PE-Cy5 (clone: 1A4CD27) Beckman coulter cat# 6607107 Mouse anti-human CD45RO-BUV805 (clone: UCHL1) BD Biosciences cat# 748367; RRID: AB_2872786 Mouse anti-human IFN-g-BV786 (clone: 4S.B3) BioLegend cat# 502542; RRID: AB_2563882 Mouse anti-human TNF-BV650 (clone: MAb11) BioLegend cat# 502938; RRID: AB_2562741 Rat anti-human IL-13-BV421 (clone: JES10-5A2) BD Biosciences cat# 563580; RRID: AB_2738290 Mouse anti-human IL-21-Ax647 (clone: 3A3-N21) BD Biosciences cat# 560493; RRID: AB_1645421 Mouse anti-human IL-4-PE-Cy7 (clone:8D4-8) BD Biosciences cat# 560672; RRID: AB_1727547 Mouse anti-human IL-17A-BV605 (clone: BL168) BioLegend cat# 512326; RRID: AB_2563887 Rat anti-human IL-2-BUV737 (clone: MQ117H12) BD Biosciences cat# 612836 Mouse anti-human CD107A-BV711 (clone: H4A3) BioLegend cat# 328640; RRID: AB_2565840 Mouse anti-human MIP1b-Alexa700 (clone: D21-1351) BD Biosciences cat# 561278; RRID: AB_10612008 Anti-SARS-CoV-2 Spike RBD Neutralizing Antibody, Human IgG1 (AS35) ACROBiosystems cat# SAD-S35 Anti-SARS-CoV-2 Spike RBD Neutralizing Antibody, Human IgG2 (AS35) ACROBiosystems cat# SAD-S66 Anti-SARS-CoV-2 Spike RBD Neutralizing Antibody, Human IgG3 (AS35) ACROBiosystems cat# SAD-S67 Anti-SARS-CoV-2 Spike RBD Neutralizing Antibody, Human IgG4 (AS35) ACROBiosystems cat# SAD-S68 Mouse anti-Human IgG1 Fc Secondary Antibody, HRP Thermo Fisher Scientific cat# MH1715; RRID: AB_2539710 Mouse Anti-Human IgG2 Fc-BIOT HP6002 SouthernBiotech cat# 9070-08; RRID: AB_2796638 Mouse Anti-Human IgG3 Hinge-BIOT HP6050 SouthernBiotech cat# 9210-08; RRID: AB_2796700 Mouse Anti-Human IgG4 Fc-BIOT HP6025 SouthernBiotech cat# 9200-08; RRID: AB_2796692 Biological samples Human PBMCs This study This study Chemicals, peptides, and recombinant proteins Benzonase Nuclease, Purity >90% MERCK Millipore cat# 70746 (Continued on next page) Cell Reports Medicine 4, 101134, August 15, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER BD GolgiPlug BD Biosciences cat# 555029 BD GolgiStop BD Biosciences cat# 554724 LIVE/DEADTM Fixable Blue Dead Cell Stain Kit Thermo Fisher Scientific cat# L23105 Cytofix/Cytoperm kit BD Biosciences cat# 554714 RBD protein SinoBiological cat# 40592-VNAH Peroxidase Substrate Solution B KPL cat# 50-65-02 TMB Peroxidase Substrate KPL cat# 50-76-02 HRP-conjugated streptavidin Thermo Fisher Scientific cat# N100 Peptide sequence for T cell analysis (See Table S5) This paper N/A TransIT-LT1 Mirus Bio MIR2300 pCAGG -SARS-CoV-2-Wuhan spike This paper N/A pCAGG -SARS-CoV-2- Delta spike This paper N/A pCAGG -SARS-CoV-2- Omicron BA.2 spike This paper N/A VSVDG-Luc/G Matsuura et al.31 N/A VSVDG-Luc/SARS-CoV-2 Wuhan spike This paper N/A VSVDG-Luc/SARS-CoV-2 Delta spike This paper N/A VSVDG-Luc/SARS-CoV-2 Omicron BA.2 spike This paper N/A Luciferase assay system Promega E1500 Critical commercial assays V-PLEX SARS-CoV-2 Panel 7 (ACE2) multiplexed immunoassay kit Meso Scale Diagnostics Cat# K15440U-2 and K15440U-4 Deposited data SARS-COV-2 Wuhan signal sequence GenBank YP_009724390.1 amino acids [aa] 1–13 of S SARS-COV-2 Wuhan RBD sequence GenBank YP_009724390.1 amino acids [aa] 327–531 of S Influenza hemagglutinin (HA) sequence GenBank P03452.2 [aa] 518-565 SARS-CoV-2 Wuhan spike gene GenBank NC_045512.2 SARS-CoV-2 Delta spike gene GenBank QWA53965.1 SARS-CoV-2 Omicron spike gene GenBank UFO69279.1 Experimental models: Cell lines HEK239T cells ATCC CRL-3216 Vero cells ATCC CCL-81 Software and algorithms Discovery Workbench software 4.0 Meso Scale Diagnostics https://www.mesoscale.com/en/ products_and_services/software FlowJo 10.7.1 BD Biosciences https://www.flowjo.com/ GraphPadPrism version 8 GraphPad Software, Inc. https://www.graphpad.com GraphPadPrism version 9 GraphPad Software, Inc. https://www.graphpad.com Article ll OPEN ACCESS
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