REAGENT or RESOURCE	SOURCE	IDENTIFIER
Biological Samples
Resected cortical brain tissue	Mancuso et al., 2019	N/A
Chemicals, Peptides, and Recombinant Proteins
D-(+)-Sucrose, ultrapure DNase RNase free	VWR	0335; CAS 57-50-1
Calcium chloride	Sigma-Aldrich	449709; CAS 10043-52-4
Magnesium acetate tetrahydrate	Sigma-Aldrich	M5661; CAS 16674-78-5
Tris (1 M), pH 8.0, RNase-free	Invitrogen	AM9855G
Ethylenediaminetetraacetic acid disodium salt solution	Sigma-Aldrich	E7889; CAS 139-33-3
IGEPAL CA-630	Sigma-Aldrich	I8896; CAS 9002-93-1
Phenylmethylsulfonylfluoride	Thermo Fisher Scientific	#36978; CAS 329-98-6
2-Mercaptoethanol (50 mM)	Thermo Fisher Scientific	31350010; CAS 60-24-2
UltraPure DNase/RNase-Free Distilled Water	Invitrogen	10977035
OptiPrep	Stemcell	#07820
Potassium chloride	Sigma-Aldrich	P4504; CAS 7447-40-7
Magnesium chloride	Sigma-Aldrich	M8266; CAS 7786-30-3
PBS - Phosphate-Buffered Saline (10X) pH 7.4, RNase-free	Invitrogen	AM9624
Bovine serum albumin (BSA)	VWR	0332; CAS 9048-46-8
RNasin Plus RNase Inhibitor	Promega	N2615
Critical Commercial Assays
Chromium Single Cell 3′ Library & Gel, Bead Kit v2, 16 rxns	10x Genomics	120237
Deposited Data
Raw count data and fastq files	This paper	GSE153807
Raw count data and fastq files	Mancuso et al., 2019	GSE137444
Software and Algorithms
Cellranger v2.1.1	10x Genomics	https://support.10xgenomics.com/single-cell-gene-expression/software/overview/welcome
R v3.6.3	https://cran.r-project.org/	https://cran.r-project.org/
Seurat v3.0.2	Butler et al., 2018; Stuart et al., 2019	https://satijalab.org/seurat/install.html
EWCE package	Skene and Grant, 2016	https://github.com/NathanSkene/EWCE
MicroglialDepletion package	This paper	https://github.com/NathanSkene/MicroglialDepletion
Other
Plain Plunger Head For PTFE Tissue Grinder	Fisherbrand	10709382
Glass Vessel for PTFE Tissue Grinder	Fisherbrand	10075911
EASYstrainer 70 μM, for 50 ML tubes, for tubes 227XXX/210XXX, blue, sterile, single packed	Greiner Bio-one	542070
OPTIMA XPN – 90	Beckman Coulter	A94468
SW 41 Ti Swinging-Bucket Rotor	Beckman Coulter	331362
13.2 mL, Open-Top Thinwall Ultra-Clear Tube, 14 × 89mm - 50Pk	Beckman Coulter	344059
Pasteur pipette	VWR	612-1681
Falcon 5 mL Round Bottom Polystyrene Test Tube, with Cell Strainer Snap Cap, 25/Pack, 500/Case	Corning	352235
LUNA Cell Counting Slides	Westburg	LB L12001
LUNA-FL Automated Fluorescence Cell Counter	Westburg	LB L20001