KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| BRD2 | Bethyl | Cat#A302-583A; RRID:AB_2034829 |
| BRD3 | Bethyl | Cat#A302-368A; RRID:AB_1907251 |
| BRD4 | Bethyl | Cat#A301-985A100; Lot#4; RRID:AB_2620184 |
| CDK9 | Thermo Fisher | Cat#703404: RRID:AB_2784585 |
| H4 | Abcam | Cat#ab10158; RRID:AB_296888 |
| H4-acetyl | Millipore | Cat#06-866; Lot#2491213; RRID:AB_310270 |
| H4K16ac | Active Motif | Cat#39167; RRID:AB_2636968 |
| H3 | Epicypher | Cat#13-0001 |
| H3K14ac | Millipore | Cat#07-353, Lot#2387522; RRID:AB_310545 |
| H3K4me3 | Epicypher | Cat#13-004 |
| MYC | Abcam | Cat#ab32072; RRID:AB_731658 |
| Beta-Tubulin | Millipore | Cat#05-661; RRID:AB_309885 |
| Rabbit IgG | Santa Cruz | Cat#sc-2027, Lot#D1415; RRID:AB_737197 |
| GST | Sigma | Cat#G7781; RRID:AB_259965 |
| Bacterial and Virus Strains | ||
| BL21 E. coli | ThermoFisher | Cat# EC0114 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| SAHA | Sigma | Cat# SML0061 |
| JQ1 | Sigma | Cat# SML1524 |
| DMSO | Sigma | Cat# D2438 |
| Sodium Butyrate | Sigma | Cat# 303410 |
| RPMI-1640 | GIBCO | Cat# 11875101 |
| DMEM | GIBCO | Cat# 11995040 |
| FBS | Sigma | Cat# F4135 |
| Schneider’s Media | GIBCO | Cat# 21720024 |
| Peptides | This study | N/A |
| High Capacity Streptavidin Agarose Resin | Thermo Scientific | Cat# 20357 |
| SilverQuest Staining Kit | Invitrogen | Cat# LC6070 |
| TRIzol reagent | Invitrogen | Cat# 5596026 |
| Universal Nuclease | Thermo Scientific | Cat# 88700 |
| Protease Inhibitor Cocktail | Roche | Cat# 11836170001 |
| Superscript III | Thermo Fisher | Cat# 18080044 |
| SYBR Green Master Mix | BioRad | Cat# 1725270 |
| Protein A Dynabeads | Thermo Fisher | Cat#10001D |
| RNase A | Roche | Cat# 10109142001 |
| DNase | Thermo Fisher | Cat# AM2222 |
| Poly-AN Streptavidin Coated Slides | Grainger | Cat# 439003-25 |
| Critical Commercial Assays | ||
| RiboZero Gold Prep Kit | Illumina | Cat# MRZG12324 |
| RNeasy Mini Kit | QIAGEN | Cat# 74106 |
| TruSeq Stranded Total RNA Library Prep Kit Gold | Illumina | Cat# 20020599 |
| MinElute DNA purification columns | QIAGEN | Cat# 28204 |
| TruSeq ChIP Library Prep Kit | QIAGEN | Cat# IP-202-1012 |
| Deposited Data | ||
| RNA-seq Data and ChIP-seq Data | This study | GEO: GSE159620 |
| Raw data for western blots and spotting assays | This study | Mendeley: https://doi.org/10.17632/6bhbxbcyd3.1 |
| Experimental Models: Cell Lines | ||
| HeLa | ATCC | Cat# CCL-2 |
| Drosophila S2 cell line | ATCC | Cat# CRL-1963 |
| HL60 | ATCC | Cat# CCL-240 |
| Oligonucleotides | ||
| 5′-CCTGGTGCTCCATGAGGAGAC-3′ | IDT | MYC Forward |
| 5′-CAGACTCTGACCTTTTGCCAGG-3′ | IDT | MYC Reverse |
| 5′-AGGTGGACCTGGAGACTCTCAG-3′ | IDT | CDKN1A Forward |
| 5′-TCCTCTTGGAGAAGATCAGCCG-3′ | IDT | CDKN1A Reverse |
| 5′-GTCTCCTCTGACTTCAACAGCG-3′ | IDT | GAPDH Forward |
| 5′-ACCACCCTGTTGCTGTAGCCAA-3′ | IDT | GAPDH Reverse |
| Recombinant DNA | ||
| pGEX-6P1 | Cytiva | Cat# 28954648 |
| pGEX-6P1-BRD2-BD1 | This study | N/A |
| pGEX-6P1-BRD2-BD2 | This study | N/A |
| pGEX-6P1-BRD3-BD1 | This study | N/A |
| pGEX-6P1-BRD4-BD1 | This study | N/A |
| pGEX-6P1-BRD4-BD2 | This study | N/A |
| pGEX-6P1-BRDT-BD1 | This study | N/A |
| pGEX-6P1-BRDT-BD2 | This study | N/A |
| pGEX-6P1-BRD9 | This study | N/A |
| pGEX-6P1-BPTF | This study | N/A |
| pGEX-6P1-BRPF3 | This study | N/A |
| pGEX-6P1-CECR2 | This study | N/A |
| pGEX-6P1-Bdf1-BD1-2 | This study | N/A |
| pGEX-6P1-Nrc1-BD1-2 | This study | N/A |
| pGEX-6P1-p300 | This study | N/A |
| pGEX-6P1-BRPF1 | This study | N/A |
| pGEX-6P1-TAF1-BD1 | This study | N/A |
| pGEX-6P1-TAF1-BD2 | This study | N/A |
| pGEX-6P1-PHIP-BD2 | This study | N/A |
| Software and Algorithms | ||
| TagDust v1.12 | Lassmann et al., 2009 | http://tagdust.sourceforge.net/ |
| Bowtie v1.1.0 | Langmead et al., 2009 | https://sourceforge.net/projects/bowtie-bio/files/bowtie/1.1.0/ |
| DESEQ2 v1.63 | Love et al., 2014 | https://bioconductor.org/packages/release/bioc/html/DESeq2.html |
| CEAS v0.9.9.7 | Shin et al., 2009 | https://liulab-dfci.github.io/software/ |
| MACS2 v2.1.2 | Zhang et al., 2008 | https://github.com/macs3-project/MACS |
| GREAT v3.0.0 | McLean et al., 2010 | http://great.stanford.edu/great/public-3.0.0/html/ |
| STAR v2.5.2b | Dobin et al., 2013 | https://github.com/alexdobin/STAR |