REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
ATP4B Polyclonal Antibody, Alexa Fluor 555 Conjugated	Bioss	Cat# bs-2433R-A555; RRID: AB_2909527
mouse anti-H,K-ATPase α subunit	MBL	Cat# D031-3; RRID: AB_590576
rabbit anti-Ki67	A. Menarini	Cat# MP-325-CRM1
rabbit anti-Ki67	Abcam	Cat# ab16667; RRID: AB_302459
rabbit anti-Gif	Sigma-Aldrich	Cat# HPA040774; RRID: AB_10795626
rabbit anti-p57	Abcam	Cat# ab75974; RRID: AB_1310535
Rabbit anti-mouse link	Abcam	Cat# ab133469; RRID: AB_2910607
rat anti-Ki67 (SolA15), eBioscience™	Invitrogen	Cat# 14-5698-82; RRID: AB_10854564
rat anti-Ki67	Biolegend	Cat# 652402; RRID: AB_11204254
goat anti-GFP	Novus	Cat# NB100-1770ss; RRID: AB_10128178
rabbit anti-Mist1/bHLHa15	Cell Signaling	Cat# 14896S; RRID: AB_2798639
mouse anti-p120 catenin	BD Biosciences	Cat# 610133; RRID: AB_397536
rat anti-CD44v9	Cosmo Bio	Cat# CAC-LKG-M002; RRID: AB_2910608
rabbit anti-pS6 240/244	Cell Signaling	Cat# 5364; RRID: AB_10694233
rat anti-Lamp1	DSHB	Cat# 1D4B; RRID: AB_2134500
FITC-conjugated-UEAI-Lectin	Sigma	Cat# L9006
Alexa 647-conjugated GS-II Lectin	Invitrogen	Cat# L32451
Alexa 488-conjugated GS-II Lectin	Invitrogen	Cat# L21415
donkey anti-rat IgG (H+L) Cross-adsorbed DyLight 650	Invitrogen	Cat# SA5-10029; RRID: AB_2556609
donkey anti-rabbit IgG H&L, Alexa Fluor 488	Abcam	Cat# ab150073; RRID: AB_2636877
donkey anti-goat IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 488	ThermoFisher	Cat# A11055; RRID: AB_2534102
donkey anti-rabbit IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 546	ThermoFisher	Cat# A10040; RRID: AB_2534016
donkey anti-mouse IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 790	ThermoFisher	Cat# A11371; RRID: AB_2534144
Alexa Fluor 647 anti-mouse/human CD324 (E-Cadherin) Antibody	Biolegend	Cat# 147308; RRID: AB_2563955
Chemicals, peptides, and recombinant proteins
DMP-777	Matrix Scientific	Cat# 96053
DMP-777	MedChemExpress	Cat# HY-75957
L-635	Vanderbilt ChemicalSynthesis Core	N/A
Doxycycline Hyclate	Sigma-Aldrich	Cat# D9891
tamoxifen	Sigma-Aldrich	Cat# T5648
Advanced DMEM/F-12	Thermofisher Scientific	Cat# 12634028
GlutaMAX™ Supplement	Gibco	Cat# 35050061
HEPES (1M)	Gibco	Cat# 15630056
penicillin/ streptomycin	Thermo Fisher Scientific	Cat# 15140122
Wnt3A conditioned medium	N/A	N/A
recombinant Wnt-surrogate	U-protein express	Cat# N001
Rspo1 conditioned medium	N/A	N/A
B27 supplement	Gibco	Cat# 17504044
N-acetyl-N.-cysteine	Sigma-Aldrich	Cat# A9165
mouse EGF	Gibco	Cat# PMG8043
mouse Noggin	Peprotech	Cat# 250-38
recombinant hNoggin	Interpark	N/A
hFgf10	Peprotech	Cat# AF-100-26
Gastrin	Sigma-Aldrich	Cat# G9145
Y-27632 (ROCK-inhibitor)	Adooq Bioscience	Cat# A11001-50
Matrigel, BasementMembrane Matrix, Growth Factor Reduced (GFR), Phenol Red-free	Corning	Cat# BDL356231
Hygromycin B Gold	InvivoGen	Cat# ant-hg-1
Selumetinib	Med Chem Express	Cat# HY-50706
Trametinib	Med Chem Express	Cat# HY-10999
paraformaldehyde	Sigma-Aldrich	Cat# P6148
10% neutral bufferedformalin	Sigma-Aldrich	Cat# ht501128
Dispase II	Thermo Fisher Scientific	Cat# 17105041
pancreatin	Sigma	Cat# P3292
FBS	Sigma-Aldrich	Cat# F7524
DNAse I (lipophilized)	Roche	Cat# 4536282001
Gentle Cell Dissociation Reagent	Stemcell Technologies	Cat# 7174
DMEM high glucose, HEPES, no phenol red	Thermofisher Scientific	Cat# 21063029
SuperVision 2 HRP Single Species: 2-step polymer system, peroxidase conjugated, rabbit	DCS	Cat# PD000P OL-K
mounting solution	Vectashiled	Cat# VECH-1900-10
Deposited data
bulk RNA-seq data from the Troy-eGFP KI model	EMBL-EBI	ArrayExpress: E-MTAB-10373
single-cell RNA-seq data from Pgc-DsRed KI model	EMBL-EBI	ArrayExpress: E-MTAB-10371
single-cell RNA-seq data of Gif lineage tracing model	EMBL-EBI	ArrayExpress: E-MTAB-11587
Experimental models: Organisms/strains
C57BL/6J	Jackson Laboratory	Cat# 000664; RRID:IMSR_JAX:000664
Troy-eGFP-IRES-CreERT2	Stange et al., 2013	MGI ID:5613002
Pgc-IRES-DTR-T2A-dsRed	Han et al., 2019	MGI ID:6456666
Anxa10-CreERT2	Seidlitz et al., 2019	N/A
R26loxpTA-p57	Jackson Laboratory	Cat# 022516; RRID:IMSR_JAX:022516
TetO-Cre	Jackson Laboratory	Cat# 006224; RRID:IMSR_JAX:006224
Gt(ROSA)26Sortm1(CAG-tdTomato∗,-EGFP∗)Ees/J	Jackson Laboratory	Cat# 023537; RRID:IMSR_JAX:023537
Gif-rtTA	Caldwell et al., 2021	N/A
p57loxP/loxP	This paper	N/A
Oligonucleotides
Primers for qRT-PCR, see Table S3	This paper	N/A
Recombinant DNA
pPiggyBac transposase	Laboratory of Prof. G. Jang	N/A
pPB-CAG-rtTA-IRES-Hygro (CMV-rtTA-HygR)	Addgene	Cat# 102423; RRID:Addgene_102423
pPB-CMVmin-TRE-p57-IRES-mCherry	This paper	N/A
pPB-CMVmin-TRE-p21-IRES-mCherry	This paper	N/A
pPB-CMVmin-TRE-p27-IRES-mCherry	This paper	N/A
pPB-CMVmin-TRE-p16-IRES-mCherry	This paper	N/A
pPB-CMVmin-TRE-p19ARF-IRES-mCherry	This paper	N/A
Software and algorithms
Image J	Schneider et al., 2012	http://imagej.nih.gov/ij
GraphPad Prism 8	Graphpad software	https://www.graphpad.com/scientific-software/prism/
CaseViewer (v2.4.0)	3DHISTECH Ltd.	https://www.3dhistech.com/research/software/software-downloads/
FastQC	Andrews, 2010	https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
STAR (v2.5.2b)	Dobin et al., 2013	https://github.com/alexdobin/STAR
SAMtools (v1.4)	Li et al., 2009	http://www.htslib.org/
HTseq (v0.7.2)	Anders et al., 2015	https://htseq.readthedocs.io/en/master/
TCseq (v1.10.0)	Wu and Gu, 2020	https://www.bioconductor.org/packages/release/bioc/html/TCseq.html
fpc (v.2.2-8)	Hennig, 2020	https://cran.r-project.org/web/packages/fpc/index.html
topGO (v2.36.0)	Alexa and Rahnenfuhrer, 2019	https://www.bioconductor.org/packages/release/bioc/html/topGO.html
GSEA (v4.1.0)	Mootha et al., 2003; Subramanian et al., 2005	https://www.gsea-msigdb.org/gsea/index.jsp
DEseq2 (v1.26.0)	Love et al., 2014	https://www.bioconductor.org/packages/release/bioc/html/DESeq2.html
biomaRt (v2.46.0)	Durinck et al., 2005	https://www.bioconductor.org/packages/release/bioc/html/biomaRt.html
oligo (v1.54.1)	Carvalho and Irizarry, 2010	https://www.bioconductor.org/packages/release/bioc/html/oligo.html
limma (v3.46.0)	Ritchie et al., 2015	https://www.bioconductor.org/packages/release/bioc/html/limma.html
scater (v1.14.0)	McCarthy et al., 2017	https://www.bioconductor.org/packages/release/bioc/html/scater.html
scran (v1.14.6)	Lun et al., 2016	https://www.bioconductor.org/packages/release/bioc/html/scran.html
Seurat (v3.1.4)	Butler et al., 2018; Stuart et al., 2019	https://github.com/satijalab/seurat
scVelo (v0.2.1)	Bergen et al., 2020	https://github.com/theislab/scvelo
velocyto (v0.17.17)	La Manno et al., 2018	https://github.com/velocyto-team/velocyto.R
Palantir (v0.2.6)	Setty et al., 2019	https://github.com/dpeerlab/Palantir
PAGA	Wolf et al., 2019	https://github.com/theislab/paga
scanpy (v1.5.1)	Wolf et al., 2018	https://github.com/theislab/scanpy
KernelKnn (v1.1.2)	Mouselimis, 2021	https://github.com/mlampros/KernelKnn
slingshot (v1.4.0)	Street et al., 2018	https://github.com/kstreet13/slingshot
Datasets/codes for single-cell RNA-seq analysis	This paper	https://github.com/scg-dgist/gastric-chief-cell
Other
μ-Slide 8 Well	ibidi	Cat# 80826
48 well plate	Corning	Cat# CLS3548
Cell culture plate 96 well	Eppendorf	Cat# 30730119
SuperScript III reverse transcriptase	Invitrogen	Cat# 18080044
GoTaq qPCR master mix	Promega	Cat# A6001
KAPA HiFi HotStart ReadyMix	Roche	Cat# 7958927001
Nextera XT DNA sample preparation kit	Illumina	Cat# FC-131-1096
Arcturus Pico Pure RNA Isolation Kit	Applied Biosystems	Cat# KIT0204