KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Rabbit monoclonal anti-NANOG | Cell Signaling Technology | Cat# 8822; RRID:AB_11217637 |
| Goat polyclonal anti-GATA6 | R&D Systems | Cat# AF1700; RRID:AB_2108901 |
| Mouse monoclonal anti-CDX2 | BioGenex | Cat# MU392; RRID:AB_2335627 |
| Donkey anti-rabbit IgG (Alexa Fluor 405) | Abcam | Cat# ab175649; RRID:AB_2715515 |
| Donkey anti-mouse IgG (Alexa Fluor 488) | Molecular Probes | Cat# A21202; RRID:AB_141607 |
| Donkey anti-Goat IgG (Alexa Fluor 647) | Molecular Probes | Cat# A21447; RRID:AB_141844 |
| Chemicals/Peptides/Recombinant Proteins | ||
| CHIR99021 | Sigma-Aldrich | Cat# SML1046 |
| PD0325901 | Selleckchem | Cat# S1036 |
| Ulixertinib | Selleckchem | Cat# S7854 |
| AZD4547 | Selleckchem | Cat# S2801 |
| proTAME | R&D Systems | Cat# I-440–01M |
| Y-27632 | Selleckchem | Cat# S1048 |
| LDN-193189 | Selleckchem | Cat# S2618 |
| Retinoic Acid | Sigma-Aldrich | Cat# R2625 |
| MG132 | Selleckchem | Cat# S2619 |
| Cycloheximide | Sigma-Aldrich | Cat# C4859 |
| Mitomycin C | Sigma-Aldrich | Cat# M4287 |
| ESGRO | Milipore Sigma | Cat# ESG1106 |
| rhFGF4 | Thermo Fisher Scientific | Cat# PHG0154 |
| EGF | PeproTech | Cat# AF-100–15 |
| FGFb | Sigma-Aldrich | Cat# GF003 |
| Activin A | R&D Systems | Cat# 338-AC-010 |
| Heparin | Sigma-Aldrich | Cat# H3149 |
| N-acetyl-L-cysteine | Sigma-Aldrich | Cat# A7250 |
| Mouse R-Spondin-1 | Thermo Fisher Scientific | Cat# 3474RS050 |
| Matrigel Matrix Growth Factor Reduced | Corning | Cat# 354230 |
| 5 ethynyl 2 deoxyuridine (EdU) | Thermo Fisher Scientific | Cat# A10044 |
| Human Plasma Fibronectin | Milipore Sigma | Cat# FC010 |
| EmbryoMax Gelatin | Milipore Sigma | Cat# ES-006-B |
| 2-Mercaptoethanol | Thermo Fisher Scientific | Cat# 21985023 |
| Dithiothreitol | Thermo Fisher Scientific | Cat# R0861 |
| GlutaMAX | Thermo Fisher Scientific | Cat# 35050061 |
| Critical Commercial Assay | ||
| Nanobind Tissue Big DNA Kit | Circulomics | Cat# NB-900-701-01 |
| Short Read Eliminator | Circulomics | Cat# SS-100-101-01 |
| Oxford Nanopore Sequencing 1D | Nanoporetech | Cat# SQK-LSK109 |
| Experimental Models: organisms/strains | ||
| Mouse: ERK-KTR-LSL | This Paper | JAX#035566 |
| Mouse: ERK-KTR-LoxP | This Paper | N/A |
| Oligonucleotides | ||
| R Chkactin: 5’-GGGGGAGATGGGGAGAGTGAAGCAGAA-3’ | This paper | N/A |
| F CMV: 5’-GGGTGGAGTATTTACGGTAAACTGCCC-3’ | This paper | N/A |
| oMP106 5’-CTCCAGCATGACTAGAGTCAGGCTCTGG-3’ | This paper | N/A |
| oMP109 5’-CATTAATGGTTTCAGGTGGATGTCTCCTCCC-3’ | This paper | N/A |
| oMP115 5’-GGGTAGATGAGGGATTAGTTGAAATTCACTCATGAGG-3’ | This paper | N/A |
| Recombinant DNA | ||
| pSpCas9(NANOG)-2A-GFP | This Paper | N/A |
| pSpCas9(BB)-2A-GFP | Ran et al. Nat Prot. 2013 | Addgene Repository #48138 |
| Nanog-2a-mCherry | Faddah et al. Cell Stem Cell 2013 | Addgene Repository #59995 |
| pMP108 Nanog-Venus-2a-mCherry | This Paper | N/A |
| pOO16 Step2 Rosa26 Vector ERK | This Paper | N/A |
| Software and Algorithms | ||
| MATLAB | mathworks | www.mathworks.com |
| Samtools | Li et al. Bioinformatics 2009 | www.htslib.org/download |
| Deposited Data | ||
| Integrated time-lapse and end-point datasets of ERK KTR Embryos | This Paper | https://idr.openmicroscopy.org/ |