Reagents and tools table
| Reagent/resource | Reference or source | Identifier or catalog number |
|---|---|---|
| Experimental models | ||
| Human PBMCs | Six healthy volunteers (ethics NL84281.091.23, Arnhem-Nijmegen) | N/A |
| Heparinized whole blood | Same donors; collected in EDTA Vacutainer tubes | N/A |
| Recombinant DNA | ||
| Antibodies | ||
| Oligonucleotides and other sequence-based reagents | ||
| Chemicals, enzymes, and other reagents | ||
| EDTA Vacutainer tubes (10 mL) | Becton Dickinson (Vacutainer system) | Cat# 367525 |
| Ficoll-Paque PLUS | Cytiva (formerly GE Healthcare) | Cat# 17-1440-02 |
| LPS (E. coli O55:B5) | Sigma-Aldrich | Cat# L2880 |
| Poly(I:C) | InvivoGen | Cat# tlrl-pic |
| RPMI 1640 Medium (Dutch modification) | Gibco | Cat# 21875034 |
| Sodium pyruvate | Gibco | Cat# 11360070 |
| GlutaMAX | Gibco | Cat# 35050061 |
| Gentamicin | Centraform | Cat# 2275 |
| Sphingomyelin (porcine brain-derived) | Sigma-Aldrich | Cat# 383907-91-3 |
| Sphingomyelin (chicken yolk-derived) | Sigma-Aldrich | Cat# 85187-10-6 |
| IL-1β DuoSet ELISA kit | R&D Systems | Cat# DY201-05 |
| IL-6 DuoSet ELISA kit | R&D Systems | Cat# DY206-05 |
| TNF-α DuoSet ELISA kit | R&D Systems | Cat# DY210-05 |
| IFN-γ ELISA kit | Sanquin | Cat# 75-0528-46 |
| Software | ||
| R | R Foundation for Statistical Computing | v4.3.2 |
| ggplot2 (R package) | CRAN | v3.4.3 |
| Shiny (R package) | CRAN | v0.13.1 |
| MetaboAnalyst | MetaboAnalyst.ca | v5.0 |
| WGCNA (R package) | Bioconductor | v1.71 |
| metafor (R package) | CRAN | v3.8.1 |
| TwoSampleMR (R package) | CRAN | v0.5.6 |
| corr.test (psych R package) | CRAN | v2.2.9 |
| Other | ||
| Agilent 6520 Q-TOF MS | Agilent Technologies | Model 6520 |
| Agilent 1100 LC pump | Agilent Technologies | Series 1100 |
| Gerstel MPS2 autosampler | Gerstel | MPS2 |
| Ella platform | ProteinSimple | Simple Plex cartridge |