KEY RESOURCES TABLE.
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Mouse monoclonal anti-MSL1 (C-9) | SCBT | Cat#sc-514649 |
| Mouse monoclonal anti-TBP | Proteintech | Cat#66166–1-Ig; RRID:AB_2881562 |
| Mouse monoclonal anti-beta actin | Proteintech | Cat#66009–1-Ig; RRID:AB_2687938 |
| Mouse monoclonal anti-alpha tubulin | Millipore | Cat#CP06; RRID:AB_2617116 |
| Rabbit monoclonal anti-PUMA | Cell Signaling Technology | Cat#12450; RRID:AB_2797920 |
| Rabbit monoclonal anti-NOXA | Cell Signaling Technology | Cat#14766; RRID:AB_2798602 |
| Rabbit monoclonal anti-p21 | Cell Signaling Technology | Cat#2947; RRID:AB_823586 |
| Rabbit polyclonal anti-MSL2 | Sigma | Cat#HPA003413; RRID:AB_1848659 |
| Rabbit polyclonal anti-KAT8 | Bethyl Laboratories | Cat#A300–992A; RRID:AB_805802 |
| Mouse polyclonal anti-MSL3 | US Biological | Cat#129933 |
| Rabbit polyclonal anti-PCF11 | Bethyl Laboratories | Cat#A303–706A; RRID:AB_11204946 |
| Mouse monoclonal anti-HA | BioLegend | Cat#901501; RRID:AB_2565006 |
| Mouse monoclonal anti-P53 | SCBT | Cat#sc-126; RRID:AB_628082 |
| Rabbit polyclonal anti-Phospho-P53 (Ser15) | Cell Signaling Technology | Cat#9284; RRID:AB_331464 |
| Rabbit polyclonal anti-DNA-PK | Cell Signaling Technology | Cat#4602; RRID:AB_10692482 |
| Rabbit monoclonal anti-Phospho-DNA-PK (Ser2056) | Cell Signaling Technology | Cat#68716 |
| Mouse monoclonal anti-CHK1 | Cell Signaling Technology | Cat#2360; RRID:AB_2080320 |
| Rabbit monoclonal anti-Phospho-CHK1 (Ser345) | Cell Signaling Technology | Cat#2348; RRID:AB_331212 |
|
Bacterial and virus strains | ||
| NEB Stable | New England Biolabs | Cat#C3040 |
|
Chemicals, peptides, and recombinant proteins | ||
| DharmaFECT1 | Horizon Discovery | Cat#T-2001–02 |
| DharmaFECT4 | Horizon Discovery | Cat#T-2004–02 |
| Lipofectamine 2000 | ThermoFisher | Cat#11668019 |
| Doxorubicin | Sigma | Cat#D1515 |
| camptothecin | Sigma | Cat#C9911 |
| Taxol | Sigma | Cat#T7402 |
| Cisplatin | Sigma | Cat#P4394 |
| KU-55933 | Sigma | Cat#SML1109 |
| VE-821 | Sigma | Cat#SML1415 |
| DRB | Sigma | Cat#D1916 |
| Flavopiridol | Sigma | Cat#F3055 |
| Doxycycline | Sigma | Cat#D9891 |
| NU-7441 | Selleckchem | Cat#S2638 |
| KU60019 | Selleckchem | Cat#S1570 |
| AZD7648 | Selleckchem | Cat#S8843 |
| Actinomycin D | Cayman Chemical | Cat#11421 |
| Thymidine | Cayman Chemical | Cat#20519 |
| Nocodazole | Cayman Chemical | Cat#13857 |
| Temozolomide | Cayman Chemical | Cat#14163 |
| 10% Bis-Tris NuPAGE gels | Invitrogen | Cat#NP0301BOX |
| 12% Bis-Tris NuPAGE gels | Invitrogen | Cat#NP0341BOX |
| 3~8% Tris-Acetate NuPAGE gels | Invitrogen | Cat#EA0375BOX |
| ProtoScript II First Strand cDNA Synthesis Kit | New England Biolabs | Cat#E6560L |
| DNase I | Invitrogen | Cat#18068015 |
| Trizol reagent | Invitrogen | Cat#15596018 |
| PerfeCTa SYBR Green SuperMix | QuantaBio | Cat#95054–500 |
|
Critical commercial assays | ||
| TetraZ Cell Counting Kit | Biolegend | Cat#424501 |
| Annexin V Apoptosis Detection Kit I | BD | Cat#556547 |
| NE-PER Nuclear and Cytoplasmic Extraction Reagents | ThermoFisher | Cat#78833 |
|
Deposited data | ||
| PAPERCLIP | This Paper | GEO: GSE144054 |
|
Experimental models: cell lines | ||
| Human: HeLa | ATCC | Cat#CRM-CCL-2, RRID:CVCL_0030 |
| Human: LN229 | ATCC | Cat#CRL-2611, RRID:CVCL_0393 |
| Human: U2OS | ATCC | Cat#HTB-96, RRID:CVCL_0042 |
| Human: HCT116 | ATCC | Cat#CCL-247, RRID:CVCL_0291 |
| Human: A2780cis | Sigma | Cat#93112517; RRID:CVCL_1942 |
| Human: DR-U2OS | Dr. Kara Bernstein | N/A |
| Human: p53-null HCT116 | Dr. Joshua Mendell | N/A |
| Human: LN229-GFP | This paper | N/A |
| Human: LN229-Cherry | This paper | N/A |
| Human: EJ5-GFP-U2OS | This paper | N/A |
| Human: Tet-On-PCF11 LN229 | This paper | N/A |
|
Oligonucleotides | ||
| See Table S2 for the list of primers. | N/A | |
| See Table S3 for the list of siRNAs. | N/A | |
|
Recombinant DNA | ||
| pCBASceI | Addgene | #26477 |
| pimEJ5GFP | Addgene | #44026 |
| pLV-EF1a-IRES-Puro | Addgene | #85132 |
| TetO-FUW-pgk-puro | Addgene | #85747 |
|
Software and algorithms | ||
| The CIMS package (currently: The CLIP tool kit (CTK)) | Dr. Chaolin Zhang | https://github.com/chaolinzhanglab/ctk |
| Kallisto | Bray et al., 2016 | https://github.com/pachterlab/kallisto |