Category	Tissue (origin)	Plant Materials	Accession Number	Reference
Wound-induced tissue repair	Hypocotyl	Col-0 (Arabidopsis thaliana)	GSE101422	Ikeuchi et al., 2017
Wound-induced tissue repair	Leaf	Col-0, coi1-2, sdg8-2 (Arabidopsis thaliana)	GSE120418	Zhang et al., 2019
Wound-induced tissue repair	Leaf	Col-0, pSPL10:rSPL10-GR (Arabidopsis thaliana)	PRJCA001184	Ye et al., 2020
Wound-induced tissue repair	Leaf	Col-0 (Arabidopsis thaliana)	GSE108253	Pan et al., 2019
Wound-induced tissue repair	Root	Col-0 (Arabidopsis thaliana)	GSE168385	Hernandez-Coronado et al., 2022
Wound-induced tissue repair	Root	Col-0 (Arabidopsis thaliana)	GSE145488	Matosevich et al., 2020
Wound-induced tissue repair	Root	Col-0 (Arabidopsis thaliana)	E-MTAB-7609	Rymen et al., 2019
Hormone-induced plant regeneration	Hypocotyl	Col-0, siz1-2 (Arabidopsis thaliana)	GSE141188	Coleman et al., 2020
Hormone-induced plant regeneration	Hypocotyl	Col-0, plt1plt2 (Arabidopsis thaliana)	GSE178354	Zhai and Xu, 2021
Hormone-induced plant regeneration	Hypocotyl	Col-0, wox5-1wox7-1 (Arabidopsis thaliana)	GSE156990	Zhai and Xu, 2021
Hormone-induced plant regeneration	Hypocotyl	Col-0 (Arabidopsis thaliana)	GSE176161	Lambolez et al., 2022
Hormone-induced plant regeneration	Root	Col-0, ldl3-1 (Arabidopsis thaliana)	DRP004816	Ishihara et al., 2019
Hormone-induced plant regeneration	Root	Col-0, hag1-6 (Arabidopsis thaliana)	GSE100966	Kim et al., 2018
Hormone-induced plant regeneration	Root	Col-0, atprmt5 (Arabidopsis thaliana)	E-MTAB-5044	Liu et al., 2016
Hormone-induced plant regeneration	Root	Col-0, arr1-4, 35Spro:ARR1 (Arabidopsis thaliana)	GSE146690	Liu et al., 2020
Protoplast regeneration	Mesophyll cells	Col-0 (Arabidopsis thaliana)	PRJNA739879	Sakamoto et al., 2021
Protoplast regeneration	Mesophyll cells	Col-0 (Arabidopsis thaliana)	PRJNA648028	Xu et al., 2021
Somatic embryogenesis	Immature embryo and seedling	Col-0, p35S::LEC2-GR (Arabidopsis thaliana)	PRJCA002620	Wang et al., 2020
Somatic embryogenesis	Immature embryo	Col-0 (Arabidopsis thaliana)	E-MTAB-2403	Wickramasuriya et al., 2015
Root tip cell types and developmental zones	Root tip	Col-0 (Arabidopsis thaliana)	PRJNA323955	Li et al., 2016
Wound-induced tissue repair	Hypocotyl	Solanum lycopersicum Micro-Tom	PRJNA731333	Larriba et al., 2021
Somatic embryogenesis	Seed	Oryza sativa TNG67, IR64	GSE82138	Hsu et al., 2018
Somatic embryogenesis	Seed	Oryza sativa ssp. japonica	PMC7719183	Shim et al., 2020
Wound-induced tissue repair	Thallus	Tak-1 (Marchantia polymorpha)	PRJDB12610	Ishida et al., 2022
Wound-induced tissue repair	Thallus	Tak-1, Mperf15ko (Marchantia polymorpha)	GSE196912	Unpublished
Single-cell RNA-sequencing	Hypocotyl explant	Col-0 (Arabidopsis thaliana)	GSE156991	Zhai and Xu, 2021
Single-cell RNA-sequencing	Leaf explant	Col-0 (Arabidopsis thaliana)	GSE147289	Liu et al., 2022
Single-cell RNA-sequencing	Shoot-borne roots	Solanum lycopersicum cv M82	GSE159055	Omary et al., 2022
Single-cell RNA-sequencing	Root tip	Col-0 (Arabidopsis thaliana)	GSE141730	Wendrich et al., 2020
Single-cell RNA-sequencing	Shoot apex and leaf	Col-0 (Arabidopsis thaliana)	PRJCA003094	Zhang et al., 2021
Single-cell RNA-sequencing	Protoplasts	Col-0 (Arabidopsis thaliana)	PRJNA648028	Xu et al., 2021
Single-cell RNA-sequencing	Lateral root primordium	Col-0 (Arabidopsis thaliana)	GSE161970	Serrano-Ron et al., 2021