REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
Mouse Monoclonal anti-Calbindin D-28K	Swant	300
Mouse Monocloanl anti-NeuN	EMD Millipore	MAB377
Mouse Monoclonal anti-p27	Thermo Fisher Scientific	610241
Purified Mouse anti-Ki-67	BD Pharmingen	556003
Mouse Monoclonal anti-NeurodD1	Abcam	ab60704
Rabbit Polyclonal anti-PH3	EMD Millipore	06–570
Donkey anti-Mouse 488 IgG, Alexa Fluor	Invitrogen	A-21202
Donkey anti-Mouse 647 IgG, Alexa Fluor	Invitrogen	A-31571
Donkey Anti-Rabbit IgG, Alexa Fluor 555	Invitrogen	A-31572
Chicken Polyclonal anti-GFP	Aves Lab	GFP-1010
Goat Anti-Chicken 647 IgG, Alexa Fluor	Invitrogen	A-21449
Yoyo1 Iodide (491/509)	Thermo Fisher Scientific	Y3601
Streptavidin Alexa Fluor 647 Conjugate	Invitrogen	S-32357
Click-iT™ EdU Cell Proliferation Kit for Imaging, Alexa Fluor™ 647 dye	Invitrogen	C10340
Click-it EdU assay with Sulfo-Cyanine5 azide	Lumiprobe Corporation	A3330
Rabbit Monoclonal Histone H3 (D1H2)	Cell Signaling Technology	4499
Rabbit Monoclonal H3K4me1 (D1A9)	Cell Signaling Technology	5326p
Rabbit Monoclonal H3K4me3 (C42D8)	Cell Signaling Technology	9751s
Goat Anti-Rabbit Cross-Adsorbed Secondary Antibody, HRP	Thermo Fisher Scientific	G-21234
Thermo Scientific Richard-Allan, Eosin-Y Stain	Thermo Fisher Scientific	22-050-110
Thermo Scientific Richard-Allan, Hematoxylin 2	Thermo Fisher Scientific	22-050-201
Hoechst 33258 (bis-Benzimide)	Thermo Fisher Scientific	H3569
Chemicals, peptides, and recombinant proteins
Tagment DNA Enzyme 1 (TDE1)	Illumina	15027865
Tagment DNA Buffer	Illumina	15027866
Qiagen MinElute Reaction Cleanup Kit	Qiagen	28204
NEBNext High-Fidelity 2X PCR Master Mix	NEB	M0541S
SYBR Green I	Thermo Fisher Scientific	S7563
Agencourt AMPure XP magnetic beads	Beckman Coulter	A63880
Agilent High Sensitivity DNA Bioanalysis Kit	Agilent Technologies	5067–4626
Qubit dsDNA HS Assay Kit	Thermo Fisher Scientific	Q32851
Tamoxifen	Sigma Aldrich	T5648-1G
BSA	Sigma Aldrich	A2153-100G
EGTA	Sigma Aldrich	E0396
Sodium Dodecyl Sulfate	Thermo Fisher Scientific	BP166-100
Triton X-100	Thermo Fisher Scientific	BP151-100
NP-40 10%	Sigma/Roche	11332473001
Tween-20	Sigma/Roche	11332465001
Digitonin	Promega	G9441
Biotin-16-dUTP	Sigma Aldrich	11093070910
Terminal Transferase	Roche	3333574001
EdU	Invitrogen	E10187
Mounting, Cryo-OCT	VWR	25608-930
10% SDS	Thermo Fisher Scientific	NP0002
20% Glycerol	Sigma Aldrich	G1724
Protease/phosphatase inhibitor	Thermo Fisher Scientific	78440
4X Loading Buffer	Thermo Fisher Scientific	LDS0007
SeeBlue Plus2 Pre-stained Protein Standard	Invitrogen	LC5925
MES SDS running buffer	Thermo Fisher Scientific	NP0002
NUPAGE 20X Transfer Buffer	Thermo Fisher Scientific	NP0006-1
NUPAGE Antioxidant	Thermo Fisher Scientific	NP0005
NuPAGE™ 12%, Bis-Tris, 1.0 mm, Mini Protein Gels	Thermo Fisher Scientific	NP0341PK2
Thermo Scientific Pierce ECL Western Blotting Substrate	Thermo Fisher Scientific	32106
Dichloromethane	Sigma Aldrich	270997-100ML
Dibenzyl ether (98%)	Sigma Aldrich	108014-1KG
Critical commercial assays
Rneasy Plus Mini Kit	Qiagen	74134
iScript cDNA Synthesis Kit	Bio-Rad	170-8891
Papain Dissociation System	Worthington Biochemical Corporation	LK003150
Deposited data
Raw and analyzed data	This paper	GEO: GSE211030
Experimental models: Organisms/strains
Nestin-Cre	The Jackson Laboratory Tronche et al.,91 Giusti et al.92	Strain #003771
Atoh1-Cre	Matei et al.66	Strain #011104
hGFAP-Cre	Zhuo et al.68	Strain #004600
Ptf1aCre	Kawaguchi et al.67	MGI:2387804
Kmt2dCf/Cf or Kmt2d(Exon50-51)flox/flox	Jang et al.64
Kmt2dNf/Nf or Kmt2d(Exon16-19)flox/flox	Lee et al.63	Strain #032152
Atoh1-FlpoER/+	Wojcinski et al.,93	Available through the Joyner Lab
R26LSL-eGFP-Cre	Lao et al.69	Strain 019013
R26LSL-SmoM2-Yfp	The Jackson Laboratory Mao et al.94	Strain #005130
Ptch1fl/fl	The Jackson Laboratory Ellis et al.95	Strain #030494
Oligonucleotides
Kcnc3 Forward: ACCCAACTACTGCAAGCCTGAC Kcnc3 Reverse: CACTTGTCCTTTCTGTCTGCTG	Allen Brain atlas	In situ hybridization
Myc Forward: GTCCGAGTGCATTGACCC Myc Reverse: TACAGTCCCAAAGCCCCA	Allen Brain atlas	In situ hybridization
Gapdh Forward: AGGTCGGTGTGAACGGATTTG Gapdh Reverse: TGTAGACCATGTAGTTGAGGTCA	IDT DNA	qPCR
Atoh1 Forward: GGTCTGTGGTGATCGTTGTTA Atoh1 Reverse: TACAGAGGAAGGAGAAGGTAGG	IDT DNA	qPCR
Sox2 Forward: CAGGAGTTGTCAAGGCAGAG Sox2 Reverse: GCTCCAAACTTCTCTCCTTTCT	IDT DNA	qPCR
Myc Forward: CGCCTACATCCTGTCCATTC Myc Reverse: AAGCTGTTCGAGTTTGTGTTTC	IDT DNA	qPCR
NeuroD1 Forward: AGGCACGTCAGTTTCACTATTC NeuroD1 Reverse: GCACTTTGCAGCAATCTTAGC	IDT DNA	qPCR
Jag1 Forward: ATGGGTCAGAACTGTGACATAAA Jag1 Reverse: GGTGGACAGATACAGCGATAAC	IDT DNA	qPCR
Hes1 Forward: CCAGCCAGTGTCAACACGA Hes1 Reverse: AATGCCGGGAGCTATCTTTCT	IDT DNA	qPCR
Klf9 Forward: TAGGTTAGGCTGCCCATTTC Klf9 Reverse: CCCAAACTCCTCACTCACTAAA	IDT DNA	qPCR
Tgfbr2 Forward: GTTCGTGAGCATGGAGAGATAG Tgfbr2 Reverse: CAGGGCTGAGATGATAAGAGTG	IDT DNA	qPCR
Smad3 Forward: CACGCAGAACGTGAACACC Smad3 Reverse: GGCAGTAGATAACGTGAGGGA	IDT DNA	qPCR
Smad7 Forward: GCCCTCCCTGGATATCTTCTAT Smad7 Reverse: GATCTTGCTCCGCACTTTCT	IDT DNA	qPCR
Software and algorithms
ImageJ	Schneider et al.96	https://ImageJ.nih.gov/ij/
DESeq2	Love et al.97	https://bioconductor.org/packages/release/bioc/html/DESeq2.html
MACS2	Zhang et al.98	https://github.com/macs3-project/MACS
BEDTools	Quinlan et al.99	http://bedtools.readthedocs.io
Homer	Heinz et al.100	http://homer.ucsd.edu/
deepTools	Ramírez et al.101	https://deeptools.readthedocs.io/en/develop/
Graphpad Prism	GraphPad	www.graphpad.com