KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
|
| ||
| Goat polyclonal anti-GFP | Abcam | Cat# 6673; RRID: AB_305643 |
| Mouse monoclonal anti-GFP | Clontech | Cat# JL-8; RRID: AB_10013427 |
| Rabbit monoclonal anti-Ki67 | Cell signaling | Cat# 12202; RRID: AB_2620142 |
| Goat polyclonal anti-Klf4 | R&D | Cat# AF3158; RRID: AB_2130245 |
| Rat monoclonal anti-Sox9 | Abcam | Cat# 185230; RRID: AB_2715497 |
| Rat monoclonal anti-BrdU | Abcam | Cat# 6326; RRID: AB_305426 |
| Rabbit monoclonal anti-Top2a | Abcam | Cat# 52934; RRID: AB_883143 |
| Rabbit monoclonal anti-Top2b | Abcam | Cat# 220385; RRID: N/A (No longer available) |
| Mouse monoclonal anti-β-actin | Santa Cruz | Cat# 47778; RRID: AB_2714189 |
| Mouse monoclonal anti-Afp | Santa Cruz | Cat# sc-8399; RRID: AB_626665 |
| Rabbit monoclonal anti-GS | Abcam | Cat# 49873; RRID: AB_880241 |
| Mouse monoclonal anti-E-cadherin | MBL | Cat# NCH-38; RRID: AB_10982676 |
|
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| Chemicals, peptides, and recombinant proteins | ||
|
| ||
| Doxycycline | Sigma-Aldrich | Cat# D9891 |
| DAPI Fluoromount-G | SouthernBiotech | Cat# 100–20 |
| OCT compound | Fisher HealthCare | Cat# 4585 |
| TRIzol | Invitrogen | Cat# 15596026 |
| RNeasy Mini kit | QIAGEN | Cat# 74134 |
| RNase-Free DNase Set | QIAGEN | Cat# 79254 |
| Maxima H Minus Mastermix | Thermo Scientific | Cat# M1662 |
| Platinum SYBR Green quantitative PCR supermix | Bio Rad | Cat# 1725274 |
| Carbon tetrachloride | Sigma-Aldrich | Cat# 289116 |
| Zymo EZ DNA Methylation-Gold kit | Zymo Research | Cat# D5005 |
| Epi-Taq | TaKaRa | Cat# R110A |
| ICRF-193 | Enzo Life Sciences | Cat# BML-GR332 |
| Dexrazoxane hydrochloride | MedChemExpress | Cat# HY-76201 |
| 4-Acetamidophenol, 98% | Thermo Scientific | Cat# 102332500 |
| NE-PER™ Nuclear and Cytoplasmic Extraction Reagents | Thermo Fisher Scientific | Cat# 78833 |
| NuPAGE™ 4 to 12%, Bis-Tris, 1.0 mm, Mini Protein Gel, 10-well | Thermo Fisher Scientific | Cat# NP0321BOX |
| Immobilon-P Membrane, PVDF | Millipore | Cat# IPVH00010 |
| SuperSignal™ West Femto Maximum Sensitivity Substrate | Thermo Fisher Scientific | Cat# 34094 |
| DMEM | Thermo Fisher Scientific | Cat# 11995 |
| Penicillin-Streptomycin | Thermo Fisher Scientific | Cat# 15140122 |
| FBS | Gemini Bio-products | Cat# 25300054 |
| Trypsin-EDTA (0.05%) | ThermoFisher Scientific | Cat# 15140122 |
| Lipofectamine3000 | Invitrogen | Cat# L3000015 |
| Hygromycin B | Invitrogen | Cat# 10687010 |
| Polybrene | Sigma | Cat# H9268 |
|
| ||
| Critical commercial assays | ||
|
| ||
| Human Topoisomerase II Assay Kit | TopoGEN | Cat# TG1001-2 |
| Infinity™ ALT (GPT) Liquid Stable Reagent | ThermoFisher | Cat# TR71121 |
|
| ||
| Deposited data | ||
|
| ||
| RNA-Seq, ATAC-Seq, sc-RNA-Seq | This paper | GSE144600 |
|
| ||
| Experimental models: Cell lines | ||
|
| ||
| Reprogrammable MEFs | This paper | N/A |
| 293FT cells | Salk Stem cell core | N/A |
| LIF-expressing 293A cells | This paper | N/A |
|
| ||
| Experimental models: Organisms/strains | ||
|
| ||
| Mouse: B6N.Cg-Speer6-ps1Tg(Alb-cre)21Mgn/J | The Jackson Laboratory | RRID: IMSR_JAX:018961 |
| Mouse: Gt(ROSA)26Sortm1(rtTA*M2)Jae Col1a1tm3(tetO-Pou5f1, −Sox2, −Klf4, −Myc)Jae/J | The Jackson Laboratory | RRID: IMSR_JAX:011004 |
| Mouse: FVB/N-Tg(tetO-MYC)36aBop/J | The Jackson Laboratory | RRID: IMSR_JAX:019376 |
| Mouse: B6.Cg-Gt(ROSA)26Sortm1(rtTA, EGFP)Nagy/J | The Jackson Laboratory | RRID: IMSR_JAX:005,670 |
| Mouse: Gt(ROSA)26Sortm1(rtTA*M2)Jae Col1a1tm4(tetO-Pou5f1,-Sox2,-Klf4,-Myc)Jae/J |
The Jackson Laboratory | RRID: IMSR_JAX:011,011 |
|
| ||
| Oligonucleotides | ||
|
| ||
| See Table S1 for qPCR primers | N/A | N/A |
| See Table S2 for bisulfite primers | N/A | N/A |
| See Table S3 for Top2a target | N/A | N/A |
|
| ||
| Recombinant DNA | ||
|
| ||
| pCAG-LIF-Ires-Puro | This paper | N/A |
| pCS-tetO-shTop2a-EThygro | This paper | N/A |
| pCS-tetO-shLuc-EThygro | This paper | N/A |
| pCAG-HIVgp | Miyoshi. H et al., 1998 | Cat# RDB04394 |
| pCMV-VSVG-RSV-Rev | Miyoshi. H et al., 1998 | Cat# RDB04393 |
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| ||
| Software and algorithms | ||
|
| ||
| Prism 8.0 | GraphPad Software | http://www.graphpad.com |
| ImageJ | Software | https://imagej.nih.gov/ij/ |
| Excel | Microsoft | N/A |