REAGENT or RESOURCE | SOURCE | IDENTIFIER |
---|---|---|
Antibodies | ||
Rabbit monoclonal anti-Ki67 | Abcam | Cat# ab16667; RRID: AB_302459 |
Mouse monoclonal anti-Ascl1 (Clone 24B72D11.1) | kindly gifted by F. Guillemot (Francis Crick Institute, UK). Urbán et al.47 | N/A |
Mouse monoclonal anti-p53 | Cell Signaling | Cat# 2524; RRID_331743 |
Rabbit polyclonal anti-GFAP | Agilent | Cat# Z0344; RRID: AB_10013382 |
Mouse monoclonal anti-Sox2 | Abcam | Cat# ab79351;RRID: AB_10710406 |
Mouse monoclonal anti-Nestin | Santa Cruz | Cat# sc-33677; RRID: AB_627995 |
Monoclonal anti-mCD24 PE (Clone M1/69) | BD Pharmingen | Cat# 12-0242-82; RRID: AB_465602 |
Monoclonal anti-mCD133 Biotin (Clone 13A4) | eBioscience | Cat# 13-1331-82; RRID: AB_466591 |
PE-Cy7 conjugated streptavidin | eBioscience | Cat# 25-4317-82; RRID: AB_10116480 |
Rabbit polyclonal anti-RFP | Antibodies Online | Cat# ABIN129578 RRID: AB_10781500 |
Monoclonal anti-mCD24 eFluor (Clone M1/69) | eBioscience | Cat# 48-0242-82; RRID: AB_1311169 |
Monoclonal anti-PPAR alpha | Arigo Biolaboratories | Cat# ARG55240; N/A |
Bacterial and Virus Strains | ||
Ad-CMV-iCre | Vector Biolabs | Cat# 1045 |
Ad-CMV-Null | Vector Biolabs | Cat# 1300 |
Chemicals, Peptides, and Recombinant Proteins | ||
EGF-complexed to Alexa Fluor™ 647 | ThermoFisher | Cat# E35351 |
Tamoxifen | Sigma | Cat# T5648 |
EdU (5-ethynyl-2′-deoxyuridine) | Santa Cruz | Cat# sc-284628 |
Fish oil | Sigma | Cat# F8020 |
PPARa agonist WY-14643 | Sigma | Cat# C7081 |
Etomoxir | Sigma | Cat# E1905 |
Palmitic acid | Sigma | Cat# P5585 |
BSA Conjugated Docosahexaenoic Acid (DHA, 22:6n-3) | Cloud-Clone Corp | Cat# CPO122Ge11 |
BSA-conjugated Eicosapentaenoic Acid (EPA, 20:5n-3) | Cloud-Clone Corp | Cat# CPO632Ge11 |
Critical Commercial Assays | ||
Zombie Green™ Fixable Viability Kit | BioLegend | Cat# 423111 |
Click-iT™ EdU Alexa Fluor™ 647 Imaging kit | Life Technologies | Cat# C10340 |
Click-iT™ EdU Alexa Fluor™ 647 Flow Cytometry assay | Life Technologies | Cat# C10419 |
Fatty Acid Oxidation Assay kit | Abcam | Cat# ab217602 |
Extracellular Oxygen Consumption Assay kit | Abcam | Cat# ab197243 |
iScript gDNA clear cDNA synthesis kit | Bio-rad | Cat# 1725034 |
Deposited Data | ||
RNA-seq data | This paper | GEO: GSE165801 |
CUT&RUN data | This paper | GEO: GSE165802 |
Codega et al RNA-seq dataset | Codega et al.9 | GEO: GSE54653 |
Llorens-Bobadilla et al RNA-seq dataset | Llorens-Bobadilla et al.10 | GEO: GSE67833 |
Mizrak et al RNA-seq dataset | Mizrak et al.11 | GEO: GSE109447 |
Experimental Models: Cell Lines | ||
Mouse: Primary mouse NPCs isolated at P9–P12 | This paper | N/A |
Mouse: Primary mouse brain microvascular endothelial cells | Cell Biologics | Cat# C57-6023 |
Experimental Models: Organisms/Strains | ||
Mouse: FVB/N-Tg(GFAPGFP)14Mes/J | The Jackson Laboratory | Cat# Jax003257; RRID: IMSR_JAX:003257 |
Mouse: B6.Cg-Gt(ROSA)26Sortm14(CAG-tdTomato)Hze/J | The Jackson Laboratory | Cat# 007914 RRID: IMSR_JAX:007914 |
Mouse: p53LoxP/LoxP | Marino et al.48 | N/A |
Mouse: GLAST::CreERT | Mori et al.49 | N/A |
Mouse: C57Bl/6J | Charles River | RRID: IMSR_JAX:000664 |
Oligonucleotides | ||
See Table S2 for primer sequences | N/A | |
Software and Algorithms | ||
Fiji ImageJ | Schindelin et al.50 | https://imagej.net/Fiji |
FlowJo version 10.6.2 | Becton, Dickinson and Company | https://www.flowjo.com/ |
TopHat v.2.0.11 | Kim et al.51 | https://ccb.jhu.edu/software/tophat/index.shtml |
DESeq2 Bioconductor package | Love et al.52 | http://bioconductor.org/packages/release/bioc/html/DESeq2.html |
HTSeq v.0.6.1 | Anders et al.53 | http://htseq.readthedocs.io/en/release_0.9.1/overview.html |
Trimmomatic v.036 | Bolger et al.54 | http://www.usadellab.org/cms/index.php?page=trimmomatic |
Bowtie2 v2.3.4.3 | Langmead and Salzberg55 | http://bowtie-bio.sourceforge.net/bowtie2/index.shtml |
Chippeakanno R package v3.20.1 | Zhu et al.56 | https://www.bioconductor.org/packages/release/bioc/html/ChIPpeakAnno.html |
VLAD | Richardson and Bult57 | http://proto.informatics.jax.org/prototypes/vlad/ |
MACS2 v2.1.1 | Zhang et al.58 | https://hbctraining.github.io/Intro-to-ChIPseq/lessons/05_peak_calling_macs.html |
g:Profiler package | Raudvere et al.59 | https://biit.cs.ut.ee/gprofiler/gost |