Source Name	Characteristics[sample_name]	Characteristics[organism]	Characteristics[taxonomy_id]	Characteristics[isolate]	Characteristics[biomaterial_provider]	Characteristics[age]	Characteristics[cell_type]	Characteristics[sex]	Characteristics[tissue]	Comment[BioSample]	Comment[sample_title]	Comment[description]	Protocol REF	Protocol REF	Protocol REF	Extract Name	Material Type	Comment[LIBRARY_LAYOUT]	Comment[LIBRARY_SELECTION]	Comment[LIBRARY_SOURCE]	Comment[LIBRARY_STRATEGY]	Comment[INSTRUMENT_MODEL]	Protocol REF	Assay Name	Comment[SRA_EXPERIMENT]	Comment[SRA_RUN]	Technology Type	Array Data File	Protocol REF	Derived Array Data File	Factor Value[cell_type]
PPS0216	PPS0216	Homo sapiens	9606	not applicable	Kenji Osafune	not applicable	hiPS cell derived PPS	not applicable	not applicable	SAMD00449558	PPS, 2D, 17K6 iPSC derived	FOXD1 reporter iPSCs (17K6) were generated by gene targeting of iPSCs (201B7) and used in this study. hiPSCs were first treated using an enzymatic method with a 1:1 mixture of TrypLE Select Enzyme and 0.5 mM EDTA/PBS for 5 min and washed with PBS(-). The cells were then detached using a cell scraper, dissociated into single cells by gentle pipetting and seeded onto 24-well plates (CORNING) at a density of 1.3*10^4 cells/cm^2 with 0.5 mL of Stem Fit AK02N supplemented with 10 uM Y-27632 (day -1) and 2.4 uL/mL iMatrix-511 (Nippi). After 24 h (day 0), the cells were cultured with serum-free differentiation medium consisting of DMEM/F12 Glutamax medium (Thermo Fisher Scientific), B27 supplement minus vitamin A (Thermo Fisher Scientific), and 0.5X Penicillin/streptomycin (hereafter called basal medium) supplemented with 5 uM CHIR99021 (Wako), 10 nM RA (SIGMA), 1 ng/mL BMP4 (Peprotech), and 100 ng/mL bFGF (Wako). After another 24 h (day 1), the cells were cultured with 5 uM CHIR99021, 100 ng/mL bFGF, and 1 ng/mL BMP7 (R&D Systems). After a third 24 h (day 2), the medium was switched to basal medium containing 5 uM CHIR99021, 1 ng/mL BMP7, and 10 uM A83-01 (Wako). After a fourth 24 h (day 3), the medium was changed to basal medium containing 5 uM CHIR99021, 30 ng/mL bFGF, 10 ng/mL activin A (R&D Systems), and 30 yM Y-27632 (Wako). After a fifth 24 h (day 4), the cells were washed with PBS (-), treated with Accumax (Innovative Cell Technologies, Inc.), dissociated into single cells by gentle pipetting. On day 4 of PPS induction, the cells were seeded on 24-well plates (Corning) at a density of 2.0*10^5 cells/well with basal medium containing 5 uM CHIR99021, 30 ng/mL bFGF, 10 ng/mL activin A, 30 uM Y-27632 and iMatrix, and the cells were cultured for 48 h.	P-GEAD-1168	P-GEAD-1169	P-GEAD-1170	PPS0216	polyA RNA	PAIRED	cDNA_randomPriming	TRANSCRIPTOMIC	RNA_SEQ	NextSeq 500	P-GEAD-1171	PPS0216	DRX342256	DRR356345	sequencing assay	DRR356345	P-GEAD-1172	PPS0216_quant.sf	PPS_cell
IP0208	IP0208	Homo sapiens	9606	not applicable	Kenji Osafune	not applicable	hiPS cell derived IPCs, 2D	not applicable	not applicable	SAMD00449557	IPC, 2D, no SAG, 17K6 iPSC derived	FOXD1 reporter iPSCs (17K6) were generated by gene targeting of iPSCs (201B7) and used in this study. hiPSCs were first treated using an enzymatic method with a 1:1 mixture of TrypLE Select Enzyme and 0.5 mM EDTA/PBS for 5 min and washed with PBS(-). The cells were then detached using a cell scraper, dissociated into single cells by gentle pipetting and seeded onto 24-well plates (CORNING) at a density of 1.3*10^4 cells/cm^2 with 0.5 mL of Stem Fit AK02N supplemented with 10 uM Y-27632 (day -1) and 2.4 uL/mL iMatrix-511 (Nippi). After 24 h (day 0), the cells were cultured with serum-free differentiation medium consisting of DMEM/F12 Glutamax medium (Thermo Fisher Scientific), B27 supplement minus vitamin A (Thermo Fisher Scientific), and 0.5X Penicillin/streptomycin (hereafter called basal medium) supplemented with 5 uM CHIR99021 (Wako), 10 nM RA (SIGMA), 1 ng/mL BMP4 (Peprotech), and 100 ng/mL bFGF (Wako). After another 24 h (day 1), the cells were cultured with 5 uM CHIR99021, 100 ng/mL bFGF, and 1 ng/mL BMP7 (R&D Systems). After a third 24 h (day 2), the medium was switched to basal medium containing 5 uM CHIR99021, 1 ng/mL BMP7, and 10 uM A83-01 (Wako). After a fourth 24 h (day 3), the medium was changed to basal medium containing 5 uM CHIR99021, 30 ng/mL bFGF, 10 ng/mL activin A (R&D Systems), and 30 yM Y-27632 (Wako). After a fifth 24 h (day 4), the cells were washed with PBS (-), treated with Accumax (Innovative Cell Technologies, Inc.), dissociated into single cells by gentle pipetting. On day 4 of PPS induction, the cells were seeded on 24-well plates (Corning) at a density of 2.0*10^5 cells/well with basal medium containing 5 uM CHIR99021, 30 ng/mL bFGF, 10 ng/mL activin A, 30 uM Y-27632 and iMatrix, and the cells were cultured for 48 h. On day 6, the cells were incubated with AK02N minus bFGF medium (Ajinomoto) containing 1 uM CHIR99021, 0.1 uM RA and 10 uM SB431542 (Nakalai tesque) for 120 h.	P-GEAD-1168	P-GEAD-1169	P-GEAD-1170	IP0208	polyA RNA	PAIRED	cDNA_randomPriming	TRANSCRIPTOMIC	RNA_SEQ	NextSeq 500	P-GEAD-1171	IP0208	DRX342257	DRR356346	sequencing assay	DRR356346	P-GEAD-1172	IP0208_quant.sf	IP_cell