KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Mouse monoclonal anti-Gata4 (clone G-4) | Santa Cruz Biotechnology | Cat # sc-25310; RRID: AB_627667 |
| Chicken polyclonal anti-GFP | Aves labs | Cat # GFP-1020; RRID: AB_2307313 |
| Goat polyclonal anti-Brachyury (C-19) | Santa Cruz Biotechnology | Cat # sc-17745; RRID:AB_2200243 |
| Rabbit monoclonal anti-Brachyury (clone EPR18113) | Abcam | Cat # ab209665; RRID: AB_2750925 |
| Rat monoclonal anti-CD31 (clone MEC 13.3) | BD | Cat # 553370; RRID:AB_394816 |
| Mouse monoclonal anti-cardiac troponin (clone 13–11) | ThermoFisher | Cat # MA5–12960; RRID:AB_11000742 |
| Rabbit monoclonal anti-E-Cadherin (24E10) | Cell Signaling Technology | Cat # 3195; RRID:AB_2291471 |
| PE rat monoclonal anti-CD31 (clone MEC 13.3) | BD | Cat # 561073; RRID:AB_10563931 |
| APC rat monoclonal anti-VEGFR2/Flk1 (clone Avas12) | Biolegend | Cat # 136405; RRID:AB_2044066 |
| APC rat monoclonal anti-CXCR4 (clone 2B11) | BD | Cat # 558644; RRID:AB_1645219 |
| RNAscope Probe-Mm-Tbx1 | ACD bio | Cat #481911 |
| RNAscope Probe-Mm-Isl1-C3 | ACD bio | Cat # 451931-C3 |
| RNAscope Probe-Mm-Tbx5-C2 | ACD bio | Cat # 519581-C2 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| CHIR99021 | Merck/Millipore | Cat # 361559; CAS: 252917-06-9 |
| PD0325901 | Selleck Chemicals | Cat # S1036; CAS: 391210-10-9 |
| Recombinant human VEGF | GIBCO | Cat # PHC9394 |
| Recombinant mouse FGFb | GIBCO | Cat # PMG0035 |
| L-ascorbic acid phosphate | Wako | Cat #013–12061; CAS: 1713265-25-8 |
| Cal-520 | AAT Bioquest | Cat# 21130 |
| Nifidepine | Sigma Aldrich | Cat # N7634; CAS: 21829-25-4 |
| DL-Isoproterenol hydrochloride | Sigma Aldrich | Cat # I5627; CAS: 51-30-9 |
| Deposited Data | ||
| Single cell RNA-seq data | This paper | GEO: GSE158999 |
| Experimental Models: Cell Lines | ||
| Gata6-H2BVenus (ColA1TetO-Gata4-mCherry/+; R26M2rtTA/+;Gata6H2B-Venus/+) | Laboratory of Alfonso Martinez Arias | KH2 (C57BL6 × 129Sv) |
| Flk1-GFP | Laboratory of Alexander Medvinsky | E14Tg2a |
| Mesp1-GFP | Laboratory of Cédric Blanpain | N/A |
| Hcn4-GFP::Tbx1Cre-RFP | Laboratory of Chulan Kwon | N/A |
| Sox1-GFP::Brachyury-mCherry | Laboratory of David Suter | CGR8, strain 129 |
| TCF/LEF-mCherry | Laboratory of Alfonso Martinez Arias | E14Tg2A |
| Oligonucleotides | ||
| Primers, see STAR Methods | This Paper | N/A |
| Software and Algorithms | ||
| Fiji/ImageJ | Schindelin et al., 2012 | https://imagej.net/Fiji |
| GraphPad Prism | GraphPad | https://www.graphpad.com/scientific-software/prism/ |
| Arivis Vision4D | Arivis | https://imaging.arivis.com/imaging-science/arivis-vision4d |
| Imaris | Oxford Instruments | https://imaris.oxinst.com |
| FlowJo | BD | https://www.flowjo.com |
| MATLAB | MathWorks | https://ch.mathworks.com/products/matlab.html |
| Seurat v3.1 | Stuart et al., 2019 | https://satijalab.org/seurat/ |
| Velocyto v0.17 | La Manno et al., 2018 | http://velocyto.org |
| scVelo v0.2.1 | Bergen et al., 2020 | https://pypi.org/project/scvelo/ |
| Scanpy v1.5.1 | Wolf et al., 2018 | https://scanpy.readthedocs.io/en/stable/ |
| Harmony v1 | Korsunsky et al., 2019 | https://github.com/immunogenomics/harmony |
| DoubletFinder 2.0.3 | McGinnis et al., 2019 | https://github.com/chris-mcginnis-ucsf/DoubletFinder |
| Cellranger v3.1 | 10x Genomics I nc | https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest |
| Other | ||
| Scripts and settings used for crescent analysis | This paper | https://go.epfl.ch/Crescent_Analysis |
| scRNA-seq analysis scripts | This paper | https://github.com/nbroguiere/Cardiac_Gastruloids |