REAGENT or RESOURCE | SOURCE | IDENTIFIER |
---|---|---|
Antibodies | ||
Mouse anti-ACSA-2-APC | Miltenyi Biotec | Cat#130-116-142; RRID: AB_2727422 |
Rat anti-CD11b-BV421 | BD | Cat#562605; RRID: AB_11152949 |
Mouse anti-O4-PE | Miltenyi Biotec | Cat#130-117-357; RRID: AB_2733886 |
Rabbit anti-IBA1 | WAKO | Cat#019–19741; RRID:AB_839504 |
Chemicals, peptides, and recombinant proteins | ||
Actinomycin D | Sigma-Aldrich | Cat#A1410-5 MG |
Lipofectamine 2000 | Thermo Fisher Scientific | Cat#11668019 |
Critical commercial assays | ||
miRVana Paris Kit | Life Technologies | Cat#AM1556 |
miRNeasy Micro Kit | Qiagen | Cat#217084 |
miRCURY LNA RT Kit | Qiagen | Cat#339340 |
Superscript II reverse transcriptase | Thermo Fisher Scientific | Cat#18064071 |
Neuron Isolation Kit, mouse | Miltenyi Biotec | Cat#130-115-390 |
Adult Brain Dissociation Kit, mouse and rat | Miltenyi Biotec | Cat#130-107-677 |
ChromiumSingleCell3 v3 | 10X Genomics | Version 3, CG000183 |
ChromiumNextGEMSingleCell3 | 10X Genomics | Version 3.1, CG000204 |
Deposited data | ||
Single-cell RNA sequencing (FASTQ and metadata) | Gene Expression Omnibus, NCBI | GEO: GSE230333 |
Experimental models: Cell lines | ||
Human induced pluripotent cell line (iPSC) | Sigma-Aldrich | Cat#IPSC0028 |
Experimental models: Organisms/strains | ||
C57BL/6 (C57BL/6JRj) | The Jackson Laboratory | RRID:IMSR_JAX:000664 |
Thy1-YFP-16 mice (B6.Cg-Tg(Thy1-YFP)16Jrs/J) | The Jackson Laboratory | RRID:IMSR_JAX:003709 |
Oligonucleotides | ||
miR-132 antagomiR (locked nucleic acid (LNA)-, 3′-cholesterol-modified oligonucleotide) | Qiagen | Cat# 500150; Design ID: 280412 |
Scramble LNA antagomiR control | Qiagen | Cat# 500150; Design ID: 280407 |
miR-132 miRIDIAN mimic; UAAC AGUCUACAGCCAUGGUCG (MIMAT0000426) |
Dharmacon | Cat# C-300599-06 |
Control miRIDIAN mimic; UCACA ACCUCCUAGAAAGAGUAGA (MIMAT0000039) |
Dharmacon | Cat# CN-001000-01 |
Primer mmu-miR-132-3p; UAA CAGUCUACAGCCAUGGUCG |
Qiagen | Cat# 204129 |
Primer mmu-miR-212-3p; UAAC AGUCUCCAGUCACGGCCA |
Qiagen | Cat# 206022 |
mRNA primers (for full sequence, see Table S6) | IDT | Custom primer sets |
Software and algorithms | ||
FIJI | Schindelin et al.166 | https://fiji.sc/ |
Encori | Li et al.62 | https://starbase.sysu.edu.cn/ |
Magma | De Leeuw et al.165 | https://ctg.cncr.nl/software/magma |
Palantir | Setty et al.103 | https://github.com/dpeerlab/Palantir |
David | Huang et al.64 | https://david.ncifcrf.gov/ |
Seurat | Butler et al.163 | Version 4.1.1, https://satijalab.org/seurat/ |
Scanpy | Wolf et al.159 | Version 1.8.1 https://scanpy.readthedocs.io/en/stable/ |
Spectronaut | Biognosys | Spectronaut 14 |