KEY RESOURCES TABLE
| Reagent or resource | Source | Identifier |
|---|---|---|
| Antibodies | ||
| Mouse anti-β-amyloid | Biolegend | RRID:AB_2715854 |
| Goat anti-PSD95 | Abcam | RRID:AB_298846 |
| AF700 anti-human IFNAR1 | R&D Systems | RRID:AB_2920857 |
| FITC anti-human CD45 | BioLegend | RRID:AB_2566368 |
| PE anti-human IFNAR2 | Miltenyi Biotec | RRID:AB_2652221 |
| Mouse anti-AT8 | Invitrogen | RRID:AB_223647 |
| Mouse anti-CD43 | Invitrogen | RRID:AB_763493 |
| Mouse anti-CD45 | Invitrogen | RRID:AB_11063696 |
| Mouse anti-CD68 | Invitrogen | RRID:AB_10987212 |
| Mouse anti-GAPDH | Santa Cruz Biotechnologies | RRID:AB_627679 |
| Mouse anti-human nuclei | Millipore | RRID:AB_827439 |
| Mouse anti-Ki67 | Thermo Fisher Scientific | RRID:AB_2341197 |
| Mouse anti-MAP2 | Santa Cruz Biotechnologies | RRID:AB_1126219 |
| Mouse anti-PHF1 | Dr. Peter Davies, Albert Einstein College of Medicine | N/A |
| Rabbit anti-Synapsin 1 | Millipore | RRID:AB_90757 |
| Rabbit anti-CD235 | Invitrogen | RRID: AB_2544630 |
| Rabbit anti-Ferritin | Sigma-Aldrich | RRID:AB_259684 |
| Rabbit anti-Iba1 | Wako | RRID:AB_839504 |
| Rabbit anti-IFNAR2 | Invitrogen | RRID:AB_2545779 |
| Rabbit anti-Ki67 | Cell signaling | RRID:AB_2687446 |
| Rabbit anti-TMEM119 | Invitrogen | RRID:AB_2648507 |
| Donkey anti-goat 488 | Invitrogen | RRID:AB_2534102 |
| Donkey anti-goat 594 | Invitrogen | RRID:AB_142540 |
| Donkey anti-goat 647 | Invitrogen | RRID:AB_2535864 |
| Goat anti-mouse 488 | Invitrogen | RRID:AB_2534088 |
| Goat anti-mouse 594 | Invitrogen | RRID:AB_2534091 |
| Goat anti-mouse 647 | Invitrogen | RRID:AB_2535804 |
| Goat anti-rabbit 488 | Invitrogen | RRID:AB_2536097 |
| Goat anti-rabbit 594 | Invitrogen | RRID:AB_2534095 |
| Goat anti-rabbit 647 | Invitrogen | RRID:AB_2535813 |
| Bacterial and Virus Strains | ||
| IFNAR1 shRNA | Santa Cruz | sc-35637-V |
| IFNAR2 shRNA | Santa Cruz | sc-40091-V |
| Control shRNA | Santa Cruz | sc-108080 |
| Biological samples | ||
| Human brain tissue samples | NIH NeuroBioBank | See Table S3 for detailed information |
| Human brain tissue samples | UCI-ADRC | See Table S4 for detailed information |
| Chemicals, peptides, and recombinant proteins | ||
| 2-Mercaptoethanol | Gibco | Catalog# 21985-023 |
| 4% paraformaldehyde | Thermo Fisher Scientific | Catalog# J19943-K2 |
| Adult brain dissociation kit | Miltenyi Biotec | Catalog# 130-107-677 |
| Ascorbic acid | Sigma | Catalog# A4403 |
| B27-RA | Thermo Fisher Scientific | Catalog# 12587010 |
| BDNF | Peprotech | Catalog# 450-02 |
| BMP4 | Peprotech | Catalog# 120-05ET |
| CHIR99021 | Biogems | Catalog# 2520691 |
| Compensation beads | Miltenyi Biotec | Catalog# 01-2222-41 |
| Dibutyryl cAMP | Sigma | Catalog# D0260 |
| DMEM/F12 | HyClone | Catalog# SH3002201 |
| D-Sucrose | Fisher Bioreagents | Catalog# BP220-212 |
| FGF-2 | Peprotech | Catalog# 100-18B |
| GDNF | Peprotech | Catalog# 450-10 |
| GlutaMAX | Gibco | Catalog# 35050-061 |
| GM-CSF | Peprotech | Catalog# 300-03 |
| Growth factor reduced matrigel | Corning | Catalog# 354230 |
| hLIF | Millipore | Catalog# LIF1005 |
| IL-3 | Peprotech | Catalog# 200-03 |
| IL-34 | Peprotech | Catalog# 200-34 |
| Matrigel | Corning | Catalog# 354277 |
| M-CSF | Invitrogen | Catalog# PHC9501 |
| Mini-PROTEAN TGX Gels | Bio-rad | Catalog# 4561043 |
| Mouse cell depletion cocktail | Miltenyi Biotec | Catalog# 130-104-694 |
| M-PER Mammalian protein extraction reagent | Thermo Fisher Scientific | Catalog# 78501 |
| mTeSR 1 | Stemcell Technologies | Catalog# 85850 |
| mTeSR plus | Stemcell Technologies | Catalog# 100-0276 |
| N2 | Thermo Fisher Scientific | Catalog# 17502048 |
| Neurobasal | Thermo Fisher Scientific | Catalog# 21103-049 |
| Pierce BCA Protein assay kit | Thermo Fisher Scientific | Catalog# 23225 |
| Pierce ECL Western blotting substrate | Thermo Fisher Scientific | Catalog# 32106 |
| ReLeSR | Stemcell Technologies | Catalog# 100-0484 |
| RNeasy Kit | Qiagen | Catalog# 74004 |
| SB431542 | Stemgent | Catalog# 04-0010-05 |
| SCF | Peprotech | Catalog# 300-07 |
| Taqman Gene expression Master Mix | Applied Biosystem | Catalog# 4369016 |
| Tau (total) human ELISA kit | Invitrogen | Catalog# KHB0041 |
| Triton X-100 | Sigma | Catalog# T9284 |
| TRIzol | Thermo Fisher Scientific | Catalog# 15596026 |
| TrypLE Express | Thermo Fisher Scientific | Catalog# 12605028 |
| Tween 20 | Fisher Bioreagents | Catalog# BP337-100 |
| VEGF | Peprotech | Catalog# 100-20 |
| X-Vivo 15 | Lonza | Catalog# 04-418Q |
| Y-27632 | Tocris | Catalog# 1254 |
| Critical commercial assays | ||
| Chromium Next GEM Single Cell 3' GEM, Library & Gel Bead Kit v3.1 | 10x Genomics | Catalog# 1000128 |
| Chromium Next GEM Chip G Single Cell Kit | 10x Genomics | Catalog#1000127 |
| Deposited data | ||
| RNA-seq data | This paper | NCBI GEO: GSE189227 |
| scRNA-seq data | This paper | NCBI GEO: GSE189227 |
| Single Index Kit T Set A | 10x Genomics | Catalog#1000213 |
| Experimental Model | ||
| Cell lines | Coriell Institute for Medical Research | See Table S1 for detailed information |
| Mice: Rag2-/-hCSF1 | The Jackson Laboratory | Stock no:017708 |
| Oligonucleotides | ||
| qPCR primers | Thermo Fisher Scientific | See Table S11 for detailed information |
| Software and algorithms | ||
| Adobe Illustrator | Adobe | https://www.adobe.com/products/illustrator.html |
| Adobe Photoshop | Adobe | https://www.adobe.com/products/photoshop.html |
| BioRender | BioRender.Inc | https://biorender.com/ |
| Cell Ranger v6.1.1 | 10x Genomics | https://github.com/10XGenomics/cellranger |
| Cluster Profiler 4.0.5 | https://guangchuangyu.github.io/software/clusterProfiler/ | |
| Clampfit 10.5 | Molecular Devices | https://support.moleculardevices.com/s/ |
| FlowJo_V10 | TreeStar | https://www.flowjo.com/solutions/flowjo/ |
| g:Profiler | e104_eg51_p15_3922dba | https://biit.cs.ut.ee/gprofiler/gost |
| GraphPad Prism 9.2.0 | GraphPad | https://www.graphpad.com/scientific-software/prism/ |
| ImageJ | NIH | https://imagej.net/software/fiji/ |
| Imaris 9.5.1 | Bitplane | https://imaris.oxinst.com |
| Monocle v 1.0.0 | https://cole-trapnell-lab.github.io/monocle3/ | |
| R 4.1.0 | https://www.r-project.org | |
| RStudio | RStudio | https://www.rstudio.com/products/rstudio/download/ |
| Seurat v4.0.4 | https://satijalab.org/seurat/ | |
| Zen 2.3 | Carl Zeiss | N/A |