Appendix 1—key resources table.
| Reagent type (species) or resource | Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| Biological sample (Homo sapiens) | Neonatal hippocampal tissue (4 days, male) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Homo sapiens) | Adult hippocampal tissue (31 years of age, male) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Homo sapiens) | Adult hippocampal tissue (32 years of age, male) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Homo sapiens) | Stroke hippocampal tissue (48 years of age, male) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Homo sapiens) | Aged hippocampal tissue (50 years of age, male) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Homo sapiens) | Aged hippocampal tissue (56 years of age, male) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Homo sapiens) | Aged hippocampal tissue (60 years of age, male) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Homo sapiens) | Aged hippocampal tissue (64 years of age, female) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Homo sapiens) | Aged hippocampal tissue (64 years of age, male) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Homo sapiens) | Aged hippocampal tissue (68 years of age, male) | ZHONG-ZHI-YI-GU Research Institute | Freshly isolated from donors' brain PMI 3–5 hr | |
| Biological sample (Macaca sapiens) | Cynomolgus monkey hippocampal tissues (3 months, male) | Kunming University of Science and Technology (KUST) |
Freshly isolated from monkey’s brain | |
| Chemical compound, drug | Hibernate A | Gibco | Cat# A1247501 | |
| Chemical compound, drug | B27 | Thermo | Cat# 17504044; CAS: 145567-32-4 |
|
| Chemical compound, drug | GlutaMAX | Invitrogen | Cat# 35050-061 | |
| Chemical compound, drug | Tris-HCl | Beyotime | Cat# ST768; CAS: 92451-00-8 | |
| Chemical compound, drug | NaCl | Aladdin | Cat# C111533; CAS: 14762-51-7 |
|
| Chemical compound, drug | MgCl2 | Aladdin | Cat#M113692; CAS: 7786-30-3 | |
| Chemical compound, drug | 0.1% Nonidet P40 | Sigma-Aldrich | Cat# 74385 | |
| Chemical compound, drug | 30 µm MACS SmartStrainer | Miltenyi Biotec | Cat# 130-098-458 | |
| Chemical compound, drug | PBS | Solarbio | Cat# P1010 | |
| Chemical compound, drug | BSA | BOSTER | Cat# AR0189 | |
| Chemical compound, drug | RNase inhibitor | Sigma-Aldrich | Cat# 3335399001 | |
| Chemical compound, drug | Myelin Removal Beads II slurry | Miltenyi Biotec | Cat# 130-096-733 | |
| Chemical compound, drug | PFA | Sigma | Cat# 158127; CAS: 30525-89-4 |
|
| Chemical compound, drug | Triton X-100 | BioFroxx | Cat# 1139ML100 | |
| Chemical compound, drug | DAPI staining | Sigma | Cat# 32670-5mg-F | 1:1000 |
| Commercial assay or kit | TUNEL-based method | BOSTER | Cat# MK1012 | |
| Commercial assay or kit | VECTOR TrueView autofluorescence quenching kit | Vectorlabs | Cat# SP-8500-15 | |
| Antibody | Anti-Nestin (rabbit monoclonal) | Millipore | Cat# MAB5326; RRID: AB_2251134 | 1:800 |
| Antibody | Anti-ki67 (mouse monoclonal) | R&D Systems | Cat# AF7649; RRID: AB_2687500 |
1:500 |
| Antibody | Anti-CHI3L1 (rabbit monoclonal) | Proteintech | Cat# 12036-1-AP; RRID: AB_2877819 | 1:500 |
| Antibody | Anti-Vimentin (rabbit monoclonal) | Abcam | Cat# ab137321; RRID: AB_2921312 | 1:800 |
| Antibody | Anti-Vimentin (mouse monoclonal) | Thermo Fisher Scientific | Cat# 14-9897-37; RRID: AB_2865507 | 1:500 |
| Antibody | Anti-HOPX (rabbit monoclonal) | Sigma | Cat# HPA030180; RRID: AB_10603770 | 1:1000 |
| Antibody | Anti-PSA-NCAM (mouse monoclonal) | Millipore | Cat# MAB5324; RRID: AB_95211 | 1:500 |
| Antibody | Anti-SST (mouse monoclonal) | Santa Cruz Biotechnology | Cat# sc-55565; RRID: AB_831726 | 1:500 |
| Antibody | Alexa Fluor 488 AffiniPure donkey anti-rabbit (secondary antibody) | Jackson Immunoresearch | Cat# 712-545-150; RRID: AB_2340683 | 1:500 |
| Antibody | Alexa Fluor 647 AffiniPure donkey anti-rabbit (secondary antibody) | Jackson Immunoresearch | Cat# 715-605-150; RRID: AB_2340862 | 1:500 |
| Antibody | Alexa Fluor 555 donkey anti-rabbit (secondary antibody) | Thermo Fisher | Cat# A-31572; RRID: AB_162543 | 1:500 |
| Software, algorithm | Seurat package (4.0.3) | Hao et al., 2022 | https://satijalab.org/seurat/ | |
| Software, algorithm | Complexheatmap v2.8.0 R package | Gu, 2022 | https://github.com/jokergoo/ComplexHeatmap | |
| Software, algorithm | Monocle 2R package (v2.20.0) | Trapnell et al., 2014 | https://cole-trapnell-lab.github.io/monocle-release/ | |
| Software, algorithm | clusterProfiler package | Yu et al., 2012 | https://github.com/JPingAMMS/clusterProfiler | |
| Software, algorithm | Single-cell hierarchical Poisson factorization (scHPF) | Levitin et al., 2019 | https://github.com/simslab/scHPF |