Key resources table.
| Reagent type (species) or resource | Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| Strain, strain background (Mus musculus, male) | B6(C)-Gt(ROSA) 26Sorem1.1(CAG-cas9*,-EGFP)Rsky/J |
Jackson Laboratory | Stock No: 028555RRID:IMSR_JAX:028555 | |
| Cell line (Mus musculus) | Cas9-expressing ER-HoxB8 cells |
This paper | Gifted from Dr David Sykes | |
| Cell line (human) | Lenti-X 293T cells | Clontech | Cat#: 632180RRID:CVCL_4401 | |
| Transfected construct (retrovirus) | Murine stem cell virus-based vector for ER-HoxB8 |
Massachusetts General Hospital, Boston, MA | Gifted from Dr David Sykes | |
| Transfected construct (retrovirus) | lentiGuide-puro | Addgene | Cat#: 52963 | |
| Transfected construct (retrovirus) | psPAX2 | Addgene | Cat#: 12260 | |
| Transfected construct (retrovirus) | pVSVG | Addgene | Cat#: 138479 | |
| Antibody | PU.1/Spi1 (rabbit polyclonal) | Santa Cruz | Cat#: sc-352XRRID:AB_632289 | (1 µL) |
| Antibody | C/EBPβ (rabbit polyclonal) | Santa Cruz | Cat#: sc-150RRID:AB_2260363 | (10 µL) |
| Antibody | H3K27ac (rabbit polyclonal) | Active Motif | Cat#: 39135RRID:AB_2614979 | (2 µL) |
| Recombinant DNA reagent | NEBNext 2× High Fidelity PCR Master Mix | NEB | Cat#: M0541 | |
| Sequence-based reagent | Locus-specific Nextera hybrid primer |
This paper | PCR primers | Sequences included in Supplementary file 1 |
| Sequence-based reagent | Nextera index primer |
This paper | PCR primers | Sequences included in Supplementary file 1 |
| Peptide, recombinant protein | Recombinant Mouse IL-3 | Peprotech | Cat#: 213–13 | |
| Peptide, recombinant protein | Recombinant Mouse IL-6 | Peprotech | Cat#: 216–16 | |
| Peptide, recombinant protein | Recombinant Mouse SCF |
Peprotech | Cat#: 250–03 | |
| Peptide, recombinant protein | Recombinant Mouse GM-CSF |
Peprotech | Cat#: 315–03 | |
| Peptide, recombinant protein | Mouse M-CSF | Shenandoah Biotech | Cat#: 200–08 | |
| Commercial assay or kit | Direct-zol RNA MicroPrep kit |
Zymo Research | Cat#: R2062 | |
| Commercial assay or kit | Qubit dsDNA HS Assay Kit | Thermo Fisher Scientific | Cat#: Q32851 | |
| Commercial assay or kit | Nextera DNA Library Preparation Kit | Illumina | Cat#: 15028212 | |
| Commercial assay or kit | ChIP DNA Clean & Concentrator | Zymo Research | Cat#: D5205 | |
| Commercial assay or kit | NEBNext Ultra II Library Preparation Kit | NEB | Cat#: E7645L | |
| Chemical compound, drug | LentiBlast Transduction Reagent | OZ Biosciences | Cat#: LB00500 | |
| Chemical compound, drug | Ficoll-Paque-Plus | Sigma-Aldrich | Cat#: GE17-1440-02 | |
| Chemical compound, drug | RPMI-1640 | Corning | Cat#: 10–014-CV | |
| Chemical compound, drug | DMEM high glucose | Corning | Cat#: 10–013-CV | |
| Chemical compound, drug | FBS | Omega Biosciences | Cat#: FB-12 | |
| Chemical compound, drug | 100× Penicillin/ Streptomycin + L-glutamine |
Gibco | Cat#: 10378–016 | |
| Chemical compound, drug | β-Estradiol | Sigma-Aldrich | Cat#: E2758 | |
| Chemical compound, drug | G418 | Thermo Fisher | Cat#: 10131035 | |
| Chemical compound, drug | Polybrene | Sigma-Aldrich | Cat#: H9268 | |
| Chemical compound, drug | Fibronectin | Sigma-Aldrich | Cat#: F0895 | |
| Chemical compound, drug | Poly-D-lysin | Sigma-Aldrich | Cat#: DLW354210 | |
| Chemical compound, drug | X-tremeGENE HP DNA Transfection Reagent | Sigma-Aldrich | Cat#: 6366546001 | |
| Chemical compound, drug | Formaldehyde | Thermo Fisher Scientific | Cat#: BP531-500 | |
| Chemical compound, drug | Dynabeads Protein A | Invitrogen | Cat#: 10002D | |
| Chemical compound, drug | SpeedBeads magnetic carboxylate modified particles |
Sigma-Aldrich | Cat#: GE65152 105050250 |
|
| Chemical compound, drug | Dynabeads MyOne Streptavidin T1 | Invitrogen | Cat#: 65602 | |
| Software, algorithm | CHOPCHOP | CHOPCHOP (https://chopchop.cbu.uib.no/) |
RRID:SCR_015723 | |
| Software, algorithm | Bowtie2 | Bowtie2 (http://bowtie-bio.sourceforge.net/bowtie2/index.shtml) |
RRID:SCR_016368 | Version 2.3.5.1 |
| Software, algorithm | STAR | STAR (https://github.com/alexdobin/STAR) |
RRID:SCR_004463 | Version 2.5.3 |
| Software, algorithm | HOMER | HOMER (https://homer.ucsd.edu/homer/) |
RRID:SCR_010881 | Version 4.9.1 |
| Software, algorithm | MAGGIE | MAGGIE (https://github.com/zeyang-shen/maggie) |
RRID:SCR_021903 | Version 1.1 |
| Software, algorithm | IDR | IDR (https://www.encodeproject.org/software/idr/) |
RRID:SCR_017237 | Version 2.0.3 |
| Software, algorithm | MMARGE | MMARGE (https://github.com/vlink/marge) |
RRID:SCR_021902 | Version 1.0 |