REAGENT or RESOURCE	SOURCE	IDENTIFIER
Bacterial and virus strains
Endura electrocompetent cells	Lucigen	cat#60242-1
Chemicals, peptides, and recombinant proteins
Beta-Mercaptoethanol	Sigma-Aldrich	cat#60-24-2
Poly-L-Ornithine	Sigma-Aldrich	cat#P3655-100MG
Fibronectin	Sigma-Aldrich	cat#F1141-5MG
Primocin	Invitrogen	cat#ant-pm-2
BIT 9500	STEMCELL	cat#09500
glutamax	Fisher Scientific	cat#5112367
Heparin	Sigma-Aldrich	cat#H3393-100KU
Epidermal growth factor (EGF)	PeproTech	cat#AF-100-15
Fibroblast growth factors (FGF)	PeproTech	cat#AF-100-15
Platelet-derived growth factor (PDGF)	PeproTech	cat#100-00AB
Leukemia inhibitory factor (LIF)	PeproTech	cat# 300-05
DMEM	Gibco	cat#11995-065
Fetal bovine serum	corning	cat#76418-024
antibiotic-antimycotic	gibco	cat#15240062
NEBNext 2X Q5 Hifi HS Mastermix	NEB	cat#M0453S
SpeI-HF	NEB	cat#R3133S
MluI-HF	NEB	cat#R3198S
rSAP	NEB	cat#M0371S
EcoR1-HF	NEB	cat#R3101S
T7 DNA ligase	NEB	cat#M0318S
Dynabeads MyOne Streptavidin C1 beads	Thermo Fisher	cat#65601
KpnI-HF	NEB	cat#R3142S
XbaI	NEB	cat#R0145S
AMPure XP Beads	Beckman Coulter	cat#A63881
Critical commercial assays
Qiagen Mini prep kit	Qiagen	cat#27106
Qiagen Maxi prep kit	Qiagen	cat#12163
Zymo DNA clean and concentrator-5	Zymo	cat# D4014
Zymo Gel DNA Recovery kit	Zymo	cat#D4007
Zymo DNA clean and concentrator kit −25	Zymo	cat#D4033
Qiagen RNeasy kit	Qiagen	cat#74004
SuperScript IV Reverse Transcriptase	Invitrogen	cat#18090050
NucleoSpin virus kit	Macherey-Nagel	cat#740983.50
Deposited data
Raw data	This paper	GEO: GSE211045
Code for analysis	This paper	https://doi.org/10.5281/zenodo.8221493
Experimental models: Cell lines
Human Neural Progenitor	Dr. Jason Stein’s lab, UNC-CH	Donor #54
HEK293	Dr. Jason Stein’s, UNC-CH	N/A
Recombinant DNA
pAAV-MPRA-MluI-SpeI-EcoRI	This paper	Addgene, cat#190196
pLS-minP:Plasmid	Dr. Nadav Ahituv’s group	Addgene, cat#81225
Software and algorithms
mpra	Myint et al.28	https://bioconductor.org/packages/release/bioc/html/mpra.html
GARFIELD	Iotchkova et al.52	https://www.bioconductor.org/packages/release/bioc/html/garfield.html
Annotatr	Bioconductor package	https://github.com/rcavalcante/annotatr
liftOver	Navarro et al.53	http://genome.ucsc.edu/cgi-bin/hgLiftOver
motifbreakR	Bioconductor package	https://github.com/Simon-Coetzee/motifBreakR
SURF	Dong et al.28	https://github.com/Boyle-Lab/RegulomeDB-TURF
DeepSEA	Zhou et al.29	http://deepsea.princeton.edu/job/analysis/create/
Sei	Chen et al.30	https://github.com/FunctionLab/sei-framework
coloc	Giambartolomei et al.54	https://github.com/chr1swallace/coloc
bedtools	Quinlan et al.55	https://bedtools.readthedocs.io/en/latest/
gprofiler2	Kolberg et al.56	https://biit.cs.ut.ee/gprofiler/gost