Reagents and tools table

Reagent/resourceReference or sourceIdentifier or catalog number
Experimental models
 BTAG (BLIMP1-tdTomato and TFAP2C-eGFP knockin reporters in the 585B1 hiPSCs)Sasaki et al (2015).N/A
 BTAG; SOX17 OE#1This studyN/A
 BTAG; SOX17 OE#2This studyN/A
 BTAG; TFAP2C OE#1This studyN/A
 BTAG; TFAP2C OE#3This studyN/A
 BTAG; SOX17+BLIMP1 OE#9This studyN/A
 BTAG; SOX17+BLIMP1 OE#15This studyN/A
 BTAG; TFAP2C+BLIMP1 OE#2This studyN/A
 BTAG; TFAP2C+BLIMP1 OE#15This studyN/A
 BTAG; SOX17+TFAP2C OE#2This studyN/A
 BTAG; SOX17+TFAP2C OE#11This studyN/A
 BTAG; SOX17+TFAP2C OE#28This studyN/A
 BTAG; SOX17+TFAP2C+BLIMP1 OE#4This studyN/A
 BTAG; SOX17+TFAP2C+BLIMP1 OE#9This studyN/A
 BTAG; SOX17+TFAP2C+BLIMP1 OE#22This studyN/A
 BTAG; SOX17+TFAP2C+BLIMP1 OE#28This studyN/A
 BTAG; SOX17+TFAP2C+BLIMP1 OE#31This studyN/A
 BTAG; SOX17+TFAP2C+MSX2 OE#7This studyN/A
 BTAG; SOX17+TFAP2C+MSX2 OE#9This studyN/A
 BTAG; GATA3+SOX17+TFAP2C OE#1This studyN/A
 BTAG; GATA3+SOX17+TFAP2C OE#5This studyN/A
 BTAG; GATA2+SOX17+TFAP2C OE#29This studyN/A
 BTAG; GATA2/ #1This studyN/A
 BTAG; GATA2/ #6This studyN/A
 BTAG; GATA2/ #12This studyN/A
 BTAG; GATA3/ #17This studyN/A
 BTAG; GATA3/ #18This studyN/A
 BTAG; GATA3/ #30This studyN/A
 BTAG; GATA3/ #40This studyN/A
 BTAG; HAND1/ #6This studyN/A
 BTAG; GATA3/; GATA2+/ #5-1This studyN/A
 BTAG; GATA3/; GATA2/ #5-10This studyN/A
 BTAG; GATA3/; GATA2/; GATA3 OE #19This studyN/A
Recombinant DNA
 pX335-U6-Chimeric BB-CBh-hSpCas9n (D10A)AddgeneCat. no. 42335
Antibodies
 Goat anti-SOX17R&D SystemsAF1924; RRID: AB_355060
 Mouse anti-TFAP2CSanta Cruzsc-12762; RRID: AB_667770
 Mouse anti-BLIMP1R&D SystemsMAB36081; RRID: AB_10718104
 Mouse anti-GATA3BIOCAREACR405A; RRID: AB_10895444
 Rabbit anti-GATA3Cell SignalingCST5852S; RRID:AB_10835690
 Rabbit anti-GATA2NovusNBP82581; RRID:AB_11026191
 Rabbit anti-GATA2Santa Cruzsc9008; RRID:AB_2294456
 Mouse anti-human mitochondriaMerck MilliporeMAB1273; RRID:AB_94052
 Goat anti-DDX4R&D SystemsAF2030; RRID:AB_2277369
 Mouse IgG – HRP conjugatedSigma-AldrichA5906; RRID: AB_258264
 Mouse anti-α TubulinSigma-AldrichT9026; RRID: AB_477593
 Mouse IgG – HRP conjugatedSigma-AldrichA5906; RRID: AB_258264
 Rabbit IgG – HRP conjugatedSigma-AldrichA6154; RRID: AB_258284
 Goat IgG – HRP conjugatedSigma-AldrichA5420; RRID: AB_258242
 SSEA1 (CD15) microbeads for human and mouseMiltenyi Biotec130-094+530
 CD31 microbeads for mouseMiltenyi Biotec130-097-418
Oligonucleotides and sequence-based reagents
 qRT-PCR primersThis studyTable S3
Chemicals, enzymes and other reagents
 StemFit AK03NAjinomotoN/A
 iMatrix-511Nippi
 PuromycinThermo Fisher ScientificA1113803
 G418, GeneticinThermo Fisher Scientific#10131035
 Hygromycin BThermo Fisher Scientific#10131035
 DoxycyclineTakara-ClontechZ1311N
 FibronectinMilliporeFC010
 GMEMThermo Fisher Scientific#11710035
 Knockout serum replacementThermo Fisher ScientificA3181502
 Activin APeprotech120-14E
 CHIR99021TOCRIS#4423
 Y27632FujiFilm030-24021
 BMP4R&D Systems314-BP
 SCFR&D Systems255-SC
 EGFR&D Systems236-EG
 LIFMilliporeLIF1010
 LDN193189StemGent04-0074
 GlutamaxThermo Fisher Scientific35050-061
 HEPESThermo Fisher Scientific15630-106
 α-Minimum Essential MediumThermo Fisher Scientific32571-036
 L-ascorbic acidSigma-AldrichA4403
Software
 FACSDiva SoftwareBD BiosciencesN/A
 DAVID (v6.8; GO analysis)https://david.ncifcrf.gov/N/A
 FV10-ASWOlympusN/A
 R (v3.6.0; PCA, DEG, and graphs)https://www.R-project.orgN/A
 Bowtie2 v2.2.7http://bowtie-bio.sourceforge.net/bowtie2/index.shtmlN/A
 TopHat v2.1.0https://ccb.jhu.edu/software/tophat/index.shtmlN/A
 HTSeq v0.9.1https://htseq.readthedocs.io/en/master/overview.htmlN/A
 ImageJ/FijiFiji.scN/A
 Trim_galore v0.6.3https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/N/A
 cutadapt v118http://cutadapt.readthedocs.io/en/stable/guide.htmlN/A
 Bismark v0.22.1https://www.bioinformatics.babraham.ac.uk/projects/bismark/N/A
 SAMtools v1.9http://samtools.source-forge.netN/A
Other
 pGEM-T Easy KitPromegaA3600
 Gateway LR Clonase Enzyme MixThermo Fisher Scientific#11791043
 v-bottom 96-well plateGreiner#651970
 RNeasy Micro KitQIAGEN#74004
 NucleoSpin RNA XSMacherey-Nagel#740902
 Qubit RNA HS assay kitThermo Fisher ScientificQ32855
 PowerSYBR Green PCR Master MixThermo Fisher Scientific#4367659
 Qubit dsDNA HS assay kitThermo Fisher ScientificQ32851
 Protein Quantification AssayMacherey-Nagel#740967
 ECL Western Blotting Detection ReagentGE Healthcare Life SciencesRPN2106
 EZ DNA Methylation-Gold KitZymogenD5005
 DP72OlympusN/A
 FV1000-IX81 confocal microscope systemOlympusN/A
 CFX384 Touch Real-Time PCR detection systemBio-Rad LaboratoriesN/A
 NextSeq500/550IlluminaN/A
 Hiseq2500IlluminaN/A