REAGENT or RESOURCE	SOURCE	IDENTIFIER
Bacterial and virus strains
Stable3	Thermo Fisher Scientific	Cat# C737303
DH5alpha	Thermo Fisher Scientific	Cat# 18265017
Chemicals, peptides, and recombinant proteins
Matrigel	Corning	Cat# 356231
Advanced DMEM/F-12	Thermo Fisher Scientific	Cat# 12634-028
GlutaMAX	Thermo Fisher Scientific	Cat# 35050-061
HEPES	Sigma-Aldrich	Cat# H3537
Penicillin/Streptomycin	Thermo Fisher Scientific	Cat# 15140-122
Primocin	InvivoGen	Cat# ant-pm-2
B27 Supplement	Thermo Fisher Scientific	Cat# A1895601
N-Acetyl-L-cysteine	Sigma-Aldrich	Cat# A9165
Gastrin	Sigma-Aldrich	Cat# G9145
Recombinant Mouse EGF	Thermo Fisher Scientific	Cat# PMG8043
Recombinant Mouse R-Spondin1	R&D systems	Cat# 3474-RS
Noggin CM	In house production	N/A
TrypLE Express Enzyme	Thermo Fisher Scientific	Cat# 12604-013
Y-27632	Sigma-Aldrich	Cat# Y0503
Opti-MEM	Thermo Fisher Scientific	Cat# 31985-062
Puromycin	Sigma-Aldrich	Cat# P9620
Neomycin (G418)	Sigma-Aldrich	Cat# N1876
Cell Recovery solution	Corning	Cat# 354243
Recovery Cell Culture Freezing Medium	Thermo Fisher Scientific	Cat# 12648010
PBS	Thermo Fisher Scientific	Cat# 14190-144
AP20187	Clontech	Cat# 635058
Lipofectamine 2000	Thermo Fisher Scientific	Cat #11668027
Critical commercial assays
QIAamp DNA Mini Kit	QIAGEN	Cat# 51304
PCR DIG Probe Synthesis Kit	Roche	Cat# 11636090910
DIG Luminescent Detection Kit	Roche	Cat# 11363514910
Dual-Luciferase Reporter Assay System	Promega	Cat# E1980
DNA Ligation Kit Ver.1	Takara	Cat# 6021
Experimental models: cell lines
Noggin1-expressing L1 cells	(Sakahara et al., 2019)	N/A
Experimental models: organisms/strains
Patient-derived organoids	(Okamoto et al., 2021)	N/A
Oligonucleotides
Southern blot probe: hOLFM4-F6:CATGGTG GTGTGGTGAACATCAGC	This paper	N/A
Southern blot probe: hOLFM4-R7:GCCCTCT TTCCCTGTGTTTGTGTC	This paper	N/A
Southern blot probe: RFP-F1:CTCCGTGAA CGGCCACGAGTTCGAG	This paper	N/A
Southern blot probe: RFP-R1:GGTGGTCTTG ACCTCGGCGTCGTAG	This paper	N/A
Southern blot probe: EGFP-F1:GGCGATGC CACCTACGGCAAGCTG	This paper	N/A
Southern blot probe: EGFP-R1:CTGCTGGT AGTGGTCGGCGAGCTG	This paper	N/A
OLFM4-Donor-Top oligo: hOLFM4-DONOR11-5S CCGG CCTGCAGATATCTAAGTAAGTGG	This paper	N/A
OLFM4-Donor-Bottom oligo: hOLFM4-DONOR11-5AS GGCC CCACTTACTTAGATATCTGCAGG	This paper	N/A
OLFM4-Donor-Top oligo: hOLFM4-DONOR11-3S CCTGCAGATATCTAAGTAAGTGG	This paper	N/A
OLFM4-Donor- Bottom oligo: hOLFM4-DONOR11-3AS CTAG CCACTTACTTAGATATCTGCAGG AT	This paper	N/A
Recombinant DNA
pRL-tk	Promega	Cat# E2241
pGL3-BRE	Addgene	Cat# 45126
pCMMP-MCS-IRES-eGFP	Addgene	Cat# #36953
pCMMP-MCS-IRES-mRFP	Addgene	Cat# #36972
pCMMP-MCS-IRES-eGFP-P2A-iCas9	This paper	N/A
pCMMP-MCS-IRES-eGFP-P2A-iCas9-OLFM4	This paper	N/A
pX330	Addgene	Cat# 42230
pX330-hOLFM4	This paper	N/A
pCR-hOLFM4	This paper	N/A
PB-CMV-MCS-EF1a-Puro	SBI	Cat# PB510B-1
PB-EF1a-MCS-IRES-Neo	SBI	Cat# PB533A-2
Super piggyBac transposase expression vector	SBI	Cat# PB210PA-1
Other
Super electroporator NEPA21 type II	Nepa Gene	http://www.nepagene.jp/products_nepagene_0001.htmL
ChemiDoc XRS+	Bio-Rad	Cat# 1708265J1PC
CellVoyager CV1000	Yokogawa	https://www.innervision.co.jp/041products/2010/p1001_14etc.htmL
40 μm cell strainer	Falcon	Cat# 352340
15 mL Centrifuge tube	IWAKI	Cat# 2425-015
50 mL Centrifuge tube	IWAKI	Cat# 2445-050
48-Well plate	IWAKI	Cat# 3830-048
100 mm Dish	IWAKI	Cat# 3020-100