. 2017 Feb; 168(4):629-643.
doi: 10.1016/j.cell.2016.12.013.

Transcriptional Addiction in Cancer

James E Bradner 1 Denes Hnisz 2 Richard A Young 3 
  • PMID: 28187285
  •     139 References
  •     242 citations


Cancer arises from genetic alterations that invariably lead to dysregulated transcriptional programs. These dysregulated programs can cause cancer cells to become highly dependent on certain regulators of gene expression. Here, we discuss how transcriptional control is disrupted by genetic alterations in cancer cells, why transcriptional dependencies can develop as a consequence of dysregulated programs, and how these dependencies provide opportunities for novel therapeutic interventions in cancer.

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A mathematical theory of the transcription repression (TR) therapy of cancer - whether and how it may work.
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Trends Cancer, 2017 Jul 19; 3(4). PMID: 28718439    Free PMC article.
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Metabolism and Transcription in Cancer: Merging Two Classic Tales.
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Oncogene, 2018 Jan 26; 37(15). PMID: 29367763    Free PMC article.
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RaMP: A Comprehensive Relational Database of Metabolomics Pathways for Pathway Enrichment Analysis of Genes and Metabolites.
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A switch in transcription and cell fate governs the onset of an epigenetically-deregulated tumor in Drosophila.
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Elife, 2018 Mar 22; 7. PMID: 29560857    Free PMC article.
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Bioinformatics, 2018 Apr 03; 34(16). PMID: 29608647    Free PMC article.
Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation.
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Transcriptional Dysregulation of MYC Reveals Common Enhancer-Docking Mechanism.
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Cell Rep, 2018 Apr 12; 23(2). PMID: 29641996    Free PMC article.
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A Caenorhabditis elegans protein with a PRDM9-like SET domain localizes to chromatin-associated foci and promotes spermatocyte gene expression, sperm production and fertility.
Christoph G Engert, Rita Droste, Alexander van Oudenaarden, H Robert Horvitz.
PLoS Genet, 2018 Apr 28; 14(4). PMID: 29702639    Free PMC article.
Targeting General Transcriptional Machinery as a Therapeutic Strategy for Adult T-Cell Leukemia.
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Molecules, 2018 May 05; 23(5). PMID: 29724031    Free PMC article.
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Transcriptional regulation of metabolism in disease: From transcription factors to epigenetics.
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Oncogene, 2018 Jul 12; 37(47). PMID: 29995873
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Nat Cell Biol, 2018 Jul 28; 20(8). PMID: 30050119    Free PMC article.
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Next-Generation Drugs and Probes for Chromatin Biology: From Targeted Protein Degradation to Phase Separation.
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HTLV-1-Mediated Epigenetic Pathway to Adult T-Cell Leukemia-Lymphoma.
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Sci Rep, 2018 Aug 15; 8(1). PMID: 30104738    Free PMC article.
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An Introduction to the Mathematical Modeling in the Study of Cancer Systems Biology.
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Cancer Inform, 2018 Sep 19; 17. PMID: 30224860    Free PMC article.
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Mol Oncol, 2018 Oct 14; 12(12). PMID: 30315623    Free PMC article.
Chromatin run-on and sequencing maps the transcriptional regulatory landscape of glioblastoma multiforme.
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Nat Genet, 2018 Oct 24; 50(11). PMID: 30349114    Free PMC article.
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Int J Mol Sci, 2018 Nov 15; 19(11). PMID: 30424016    Free PMC article.
TBX2 is a neuroblastoma core regulatory circuitry component enhancing MYCN/FOXM1 reactivation of DREAM targets.
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A combination strategy targeting enhancer plasticity exerts synergistic lethality against BETi-resistant leukemia cells.
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The RUNX1-ETO target gene RASSF2 suppresses t(8;21) AML development and regulates Rac GTPase signaling.
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A KLF6-driven transcriptional network links lipid homeostasis and tumour growth in renal carcinoma.
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Targeting Oncogenic Super Enhancers in MYC-Dependent AML Using a Small Molecule Activator of NR4A Nuclear Receptors.
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The LL-100 panel: 100 cell lines for blood cancer studies.
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Targeting Processive Transcription Elongation via SEC Disruption for MYC-Induced Cancer Therapy.
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Cell Rep, 2019 Mar 14; 26(11). PMID: 30865895    Free PMC article.
DNA Replication Vulnerabilities Render Ovarian Cancer Cells Sensitive to Poly(ADP-Ribose) Glycohydrolase Inhibitors.
Nisha Pillay, Anthony Tighe, +14 authors, Stephen S Taylor.
Cancer Cell, 2019 Mar 20; 35(3). PMID: 30889383    Free PMC article.
The anti-cancer drugs curaxins target spatial genome organization.
Omar L Kantidze, Artem V Luzhin, +9 authors, Sergey V Razin.
Nat Commun, 2019 Mar 31; 10(1). PMID: 30926878    Free PMC article.
RUNX1-targeted therapy for AML expressing somatic or germline mutation in RUNX1.
Christopher P Mill, Warren Fiskus, +17 authors, Kapil N Bhalla.
Blood, 2019 Apr 27; 134(1). PMID: 31023702    Free PMC article.
Context-Dependent Impact of RAS Oncogene Expression on Cellular Reprogramming to Pluripotency.
Alba Ferreirós, Pablo Pedrosa, +10 authors, Manuel Collado.
Stem Cell Reports, 2019 May 06; 12(5). PMID: 31056476    Free PMC article.
Integrated high-throughput analysis identifies super enhancers associated with chemoresistance in SCLC.
Jiarong Bao, Man Li, +6 authors, Linlang Guo.
BMC Med Genomics, 2019 May 24; 12(1). PMID: 31118037    Free PMC article.
PTEN modulates gene transcription by redistributing genome-wide RNA polymerase II occupancy.
Ata Abbas, Roshan Padmanabhan, Todd Romigh, Charis Eng.
Hum Mol Genet, 2019 May 28; 28(17). PMID: 31127935    Free PMC article.
Molecular dissection of the oncogenic role of ETS1 in the mesenchymal subtypes of head and neck squamous cell carcinoma.
Christian Gluck, Alexandra Glathar, +4 authors, Satrajit Sinha.
PLoS Genet, 2019 Jul 16; 15(7). PMID: 31306413    Free PMC article.
The Eleanor ncRNAs activate the topological domain of the ESR1 locus to balance against apoptosis.
Mohamed Osama Ali Abdalla, Tatsuro Yamamoto, +8 authors, Noriko Saitoh.
Nat Commun, 2019 Aug 24; 10(1). PMID: 31439835    Free PMC article.
Transcriptional inhibition by CDK7/9 inhibitor SNS-032 abrogates oncogene addiction and reduces liver metastasis in uveal melanoma.
Jing Zhang, Shenglan Liu, Qianyun Ye, Jingxuan Pan.
Mol Cancer, 2019 Sep 19; 18(1). PMID: 31526394    Free PMC article.
Mediator Condensates Localize Signaling Factors to Key Cell Identity Genes.
Alicia V Zamudio, Alessandra Dall'Agnese, +18 authors, Richard A Young.
Mol Cell, 2019 Sep 30; 76(5). PMID: 31563432    Free PMC article.
A Potential Role of RUNX2- RUNT Domain in Modulating the Expression of Genes Involved in Bone Metastases: An In Vitro Study with Melanoma Cells.
Michela Deiana, Luca Dalle Carbonare, +12 authors, Maria Teresa Valenti.
Cells, 2020 Mar 25; 9(3). PMID: 32204402    Free PMC article.
Transcription Factors in Cancer: When Alternative Splicing Determines Opposite Cell Fates.
Silvia Belluti, Giovanna Rigillo, Carol Imbriano.
Cells, 2020 Apr 05; 9(3). PMID: 32244895    Free PMC article.
Mechanistic basis and efficacy of targeting the β-catenin-TCF7L2-JMJD6-c-Myc axis to overcome resistance to BET inhibitors.
Dyana T Saenz, Warren Fiskus, +20 authors, Kapil N Bhalla.
Blood, 2020 Feb 19; 135(15). PMID: 32068780    Free PMC article.
Sequential analysis of transcript expression patterns improves survival prediction in multiple cancers.
Jordan Mandel, Raghunandan Avula, Edward V Prochownik.
BMC Cancer, 2020 Apr 09; 20(1). PMID: 32264880    Free PMC article.
The proneural gene ASCL1 governs the transcriptional subgroup affiliation in glioblastoma stem cells by directly repressing the mesenchymal gene NDRG1.
Ashwin Narayanan, Filippo Gagliardi, +22 authors, Rossella Galli.
Cell Death Differ, 2018 Dec 13; 26(9). PMID: 30538287    Free PMC article.
Pharmacological Modulation of Transcriptional Coregulators in Cancer.
Timothy R Bishop, Yuxiang Zhang, Michael A Erb.
Trends Pharmacol Sci, 2019 May 13; 40(6). PMID: 31078321    Free PMC article.
Epstein-Barr virus-positive gastric cancer involves enhancer activation through activating transcription factor 3.
Yuta Asakawa, Atsushi Okabe, +9 authors, Atsushi Kaneda.
Cancer Sci, 2020 Mar 03; 111(5). PMID: 32119176    Free PMC article.
Role of BET Inhibitors in Triple Negative Breast Cancers.
Durga Khandekar, Venkataswarup Tiriveedhi.
Cancers (Basel), 2020 Mar 29; 12(4). PMID: 32218352    Free PMC article.
Proteolysis-targeting chimera (PROTAC) for targeted protein degradation and cancer therapy.
Xin Li, Yongcheng Song.
J Hematol Oncol, 2020 May 15; 13(1). PMID: 32404196    Free PMC article.
Global transcriptional activity dynamics reveal functional enhancer RNAs.
Yoon Jung Kim, Peng Xie, +2 authors, Tae Hoon Kim.
Genome Res, 2018 Oct 26; 28(12). PMID: 30352805    Free PMC article.
Therapeutic Targeting of the General RNA Polymerase II Transcription Machinery.
Ryan D Martin, Terence E Hébert, Jason C Tanny.
Int J Mol Sci, 2020 May 14; 21(9). PMID: 32397434    Free PMC article.
A High-Throughput Screen for Transcription Activation Domains Reveals Their Sequence Features and Permits Prediction by Deep Learning.
Ariel Erijman, Lukasz Kozlowski, +6 authors, Steven Hahn.
Mol Cell, 2020 May 18; 78(5). PMID: 32416068    Free PMC article.
A Bayesian data fusion based approach for learning genome-wide transcriptional regulatory networks.
Elisabetta Sauta, Andrea Demartini, +2 authors, Riccardo Bellazzi.
BMC Bioinformatics, 2020 May 31; 21(1). PMID: 32471360    Free PMC article.
The Sophisticated Transcriptional Response Governed by Transposable Elements in Human Health and Disease.
Federica Marasca, Erica Gasparotto, +3 authors, Beatrice Bodega.
Int J Mol Sci, 2020 May 06; 21(9). PMID: 32366056    Free PMC article.
KLF7 promotes pancreatic cancer growth and metastasis by up-regulating ISG expression and maintaining Golgi complex integrity.
Romi Gupta, Parmanand Malvi, +6 authors, Narendra Wajapeyee.
Proc Natl Acad Sci U S A, 2020 May 21; 117(22). PMID: 32430335    Free PMC article.
Oncogenic super-enhancer formation in tumorigenesis and its molecular mechanisms.
Qunying Jia, Shuhua Chen, +2 authors, Faqing Tang.
Exp Mol Med, 2020 May 10; 52(5). PMID: 32382065    Free PMC article.
Gene expression regulation by CDK12: a versatile kinase in cancer with functions beyond CTD phosphorylation.
Seung Hyuk Choi, Seongjae Kim, Katherine A Jones.
Exp Mol Med, 2020 May 27; 52(5). PMID: 32451425    Free PMC article.
HuR/ELAVL1 drives malignant peripheral nerve sheath tumor growth and metastasis.
Marta Palomo-Irigoyen, Encarni Pérez-Andrés, +43 authors, Ashwin Woodhoo.
J Clin Invest, 2020 Apr 22; 130(7). PMID: 32315290    Free PMC article.
Disruption of TFIIH activities generates a stress gene expression response and reveals possible new targets against cancer.
Maritere Uriostegui-Arcos, Rodrigo Aguayo-Ortiz, +4 authors, Mario Zurita.
Open Biol, 2020 Jun 17; 10(6). PMID: 32543350    Free PMC article.
Thyroid Hormone Receptor β Suppression of RUNX2 Is Mediated by Brahma-Related Gene 1-Dependent Chromatin Remodeling.
Noelle E Gillis, Thomas H Taber, +8 authors, Frances E Carr.
Endocrinology, 2018 May 12; 159(6). PMID: 29750276    Free PMC article.
3D genome organization contributes to genome instability at fragile sites.
Dan Sarni, Takayo Sasaki, +6 authors, Batsheva Kerem.
Nat Commun, 2020 Jul 19; 11(1). PMID: 32680994    Free PMC article.
CDK7 inhibitor THZ1 enhances antiPD-1 therapy efficacy via the p38α/MYC/PD-L1 signaling in non-small cell lung cancer.
Jian Wang, Ruiguang Zhang, +14 authors, Gang Wu.
J Hematol Oncol, 2020 Jul 22; 13(1). PMID: 32690037    Free PMC article.
Cell-Based Ligand Discovery for the ENL YEATS Domain.
Joshua N Asiaban, Natalia Milosevich, +9 authors, Michael A Erb.
ACS Chem Biol, 2020 Mar 17; 15(4). PMID: 32176478    Free PMC article.
LIN28B regulates transcription and potentiates MYCN-induced neuroblastoma through binding to ZNF143 at target gene promotors.
Ting Tao, Hui Shi, +11 authors, A Thomas Look.
Proc Natl Acad Sci U S A, 2020 Jul 01; 117(28). PMID: 32601179    Free PMC article.
Systematic Characterization of Recurrent Genomic Alterations in Cyclin-Dependent Kinases Reveals Potential Therapeutic Strategies for Cancer Treatment.
Weiwei Shan, Jiao Yuan, +16 authors, Lin Zhang.
Cell Rep, 2020 Jul 16; 32(2). PMID: 32668240    Free PMC article.
Genetic landscape of external auditory canal squamous cell carcinoma.
Kuniaki Sato, Noritaka Komune, +11 authors, Takashi Nakagawa.
Cancer Sci, 2020 Jun 06; 111(8). PMID: 32500594    Free PMC article.
Biophysical properties of AKAP95 protein condensates regulate splicing and tumorigenesis.
Wei Li, Jing Hu, +4 authors, Hao Jiang.
Nat Cell Biol, 2020 Jul 29; 22(8). PMID: 32719551    Free PMC article.
ONECUT2 Accelerates Tumor Proliferation Through Activating ROCK1 Expression in Gastric Cancer.
Jie Chen, Jinggui Chen, +2 authors, Chunyan Du.
Cancer Manag Res, 2020 Aug 18; 12. PMID: 32801861    Free PMC article.
Gene Co-expression Is Distance-Dependent in Breast Cancer.
Diana García-Cortés, Guillermo de Anda-Jáuregui, +2 authors, Jesús Espinal-Enríquez.
Front Oncol, 2020 Aug 28; 10. PMID: 32850369    Free PMC article.
Pathogenic impact of transcript isoform switching in 1,209 cancer samples covering 27 cancer types using an isoform-specific interaction network.
Abdullah Kahraman, Tülay Karakulak, Damian Szklarczyk, Christian von Mering.
Sci Rep, 2020 Sep 04; 10(1). PMID: 32879328    Free PMC article.
Expression patterns of small numbers of transcripts from functionally-related pathways predict survival in multiple cancers.
Jordan Mandel, Huabo Wang, +5 authors, Edward V Prochownik.
BMC Cancer, 2019 Jul 14; 19(1). PMID: 31299925    Free PMC article.
Identification of a Small-Molecule Inhibitor That Disrupts the SIX1/EYA2 Complex, EMT, and Metastasis.
Hengbo Zhou, Melanie A Blevins, +22 authors, Heide L Ford.
Cancer Res, 2020 Apr 29; 80(12). PMID: 32341035    Free PMC article.
Oncogenic Hijacking of the PIN1 Signaling Network.
Alessandro Zannini, Alessandra Rustighi, Elena Campaner, Giannino Del Sal.
Front Oncol, 2019 Mar 16; 9. PMID: 30873382    Free PMC article.
Bromodomain and extra-terminal motif inhibitors: a review of preclinical and clinical advances in cancer therapy.
Ali Alqahtani, Khalil Choucair, +5 authors, John Nemunaitis.
Future Sci OA, 2019 Mar 25; 5(3). PMID: 30906568    Free PMC article.
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Perturbing Enhancer Activity in Cancer Therapy.
Feda H Hamdan, Steven A Johnsen.
Cancers (Basel), 2019 May 10; 11(5). PMID: 31067678    Free PMC article.
Targeting Super-Enhancers as a Therapeutic Strategy for Cancer Treatment.
Yi He, Wenyong Long, Qing Liu.
Front Pharmacol, 2019 May 21; 10. PMID: 31105558    Free PMC article.
Targeted Therapy of Uveal Melanoma: Recent Failures and New Perspectives.
Michela Croce, Silvano Ferrini, Ulrich Pfeffer, Rosaria Gangemi.
Cancers (Basel), 2019 Jun 21; 11(6). PMID: 31216772    Free PMC article.
HMGA1 Modulates Gene Transcription Sustaining a Tumor Signalling Pathway Acting on the Epigenetic Status of Triple-Negative Breast Cancer Cells.
Carlotta Penzo, Laura Arnoldo, +6 authors, Riccardo Sgarra.
Cancers (Basel), 2019 Aug 07; 11(8). PMID: 31382504    Free PMC article.
CDK7 inhibitors as anticancer drugs.
Georgina P Sava, Hailing Fan, +2 authors, Simak Ali.
Cancer Metastasis Rev, 2020 May 10; 39(3). PMID: 32385714    Free PMC article.
CDK13 cooperates with CDK12 to control global RNA polymerase II processivity.
Zheng Fan, Jennifer R Devlin, +18 authors, Ricky W Johnstone.
Sci Adv, 2020 Sep 13; 6(18). PMID: 32917631    Free PMC article.
Analysis of single-cell transcriptomes links enrichment of olfactory receptors with cancer cell differentiation status and prognosis.
Siddhant Kalra, Aayushi Mittal, +6 authors, Gaurav Ahuja.
Commun Biol, 2020 Sep 13; 3(1). PMID: 32917933    Free PMC article.
Transcriptomics predicts compound synergy in drug and natural product treated glioblastoma cells.
Lavinia-Lorena Pruteanu, Liliya Kopanitsa, +5 authors, David Stanley Bailey.
PLoS One, 2020 Sep 19; 15(9). PMID: 32946518    Free PMC article.
Core transcriptional regulatory circuitries in cancer.
Ye Chen, Liang Xu, +2 authors, H Phillip Koeffler.
Oncogene, 2020 Sep 19; 39(43). PMID: 32943730    Free PMC article.
Drug Vulnerabilities and Disease Prognosis Linked to the Stem Cell-Like Gene Expression Program Triggered by the RHO GTPase Activator VAV2 in Hyperplastic Keratinocytes and Head and Neck Cancer.
Luis Francisco Lorenzo-Martín, Mauricio Menacho-Márquez, Xosé R Bustelo.
Cancers (Basel), 2020 Sep 10; 12(9). PMID: 32899210    Free PMC article.
Manipulating the Mediator complex to induce naïve pluripotency.
Cian J Lynch, Raquel Bernad, Isabel Calvo, Manuel Serrano.
Exp Cell Res, 2020 Aug 11; 395(2). PMID: 32771524    Free PMC article.
Protein phase separation: A novel therapy for cancer?
Wei Wang, Yingqian Chen, +7 authors, Qiaojun He.
Br J Pharmacol, 2020 Aug 28; 177(22). PMID: 32851637    Free PMC article.
Regulating Methylation at H3K27: A Trick or Treat for Cancer Cell Plasticity.
Provas Das, Joseph H Taube.
Cancers (Basel), 2020 Oct 03; 12(10). PMID: 33003334    Free PMC article.
Endogenous retroviruses drive KRAB zinc-finger protein family expression for tumor suppression.
Jumpei Ito, Izumi Kimura, +7 authors, Kei Sato.
Sci Adv, 2020 Oct 23; 6(43). PMID: 33087347    Free PMC article.
Epigenomic State Transitions Characterize Tumor Progression in Mouse Lung Adenocarcinoma.
Lindsay M LaFave, Vinay K Kartha, +15 authors, Tyler Jacks.
Cancer Cell, 2020 Jul 25; 38(2). PMID: 32707078    Free PMC article.
Epstein-Barr Virus Facilitates Expression of KLF14 by Regulating the Cooperative Binding of the E2F-Rb-HDAC Complex in Latent Infection.
Yonggang Pei, Josiah Hiu-Yuen Wong, +3 authors, Erle S Robertson.
J Virol, 2020 Aug 28; 94(22). PMID: 32847849    Free PMC article.
G9a Promotes Breast Cancer Recurrence through Repression of a Pro-inflammatory Program.
Nathaniel W Mabe, Nina Marie G Garcia, +7 authors, James V Alvarez.
Cell Rep, 2020 Nov 05; 33(5). PMID: 33147463    Free PMC article.
Identification of Prognostic Model and Biomarkers for Cancer Stem Cell Characteristics in Glioblastoma by Network Analysis of Multi-Omics Data and Stemness Indices.
Jianyang Du, Xiuwei Yan, +9 authors, Shaoshan Hu.
Front Cell Dev Biol, 2020 Nov 17; 8. PMID: 33195193    Free PMC article.
Enhancer remodeling promotes tumor-initiating activity in NRF2-activated non-small cell lung cancers.
Keito Okazaki, Hayato Anzawa, +18 authors, Hozumi Motohashi.
Nat Commun, 2020 Nov 22; 11(1). PMID: 33219226    Free PMC article.
Che-1/AATF-induced transcriptionally active chromatin promotes cell proliferation in multiple myeloma.
Tiziana Bruno, Francesca De Nicola, +28 authors, Maurizio Fanciulli.
Blood Adv, 2020 Nov 14; 4(22). PMID: 33186461    Free PMC article.
Ribosome Biogenesis Alterations in Colorectal Cancer.
Sophie Nait Slimane, Virginie Marcel, +5 authors, Hichem C Mertani.
Cells, 2020 Oct 31; 9(11). PMID: 33120992    Free PMC article.
Super-Enhancers Promote Transcriptional Dysregulation in Nasopharyngeal Carcinoma.
Jiang Yuan, Yan-Yi Jiang, +11 authors, H Phillip Koeffler.
Cancer Res, 2017 Sep 28; 77(23). PMID: 28951465    Free PMC article.
Small Molecules Co-targeting CKIα and the Transcriptional Kinases CDK7/9 Control AML in Preclinical Models.
Waleed Minzel, Avanthika Venkatachalam, +22 authors, Yinon Ben-Neriah.
Cell, 2018 Aug 28; 175(1). PMID: 30146162    Free PMC article.
Therapeutic targeting of transcriptional cyclin-dependent kinases.
Matthew D Galbraith, Heather Bender, Joaquín M Espinosa.
Transcription, 2018 Nov 10; 10(2). PMID: 30409083    Free PMC article.
Small-molecule targeting of brachyury transcription factor addiction in chordoma.
Tanaz Sharifnia, Mathias J Wawer, +27 authors, Stuart L Schreiber.
Nat Med, 2019 Jan 22; 25(2). PMID: 30664779    Free PMC article.
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Heart failure drug proscillaridin A targets MYC overexpressing leukemia through global loss of lysine acetylation.
Elodie M Da Costa, Gregory Armaos, +20 authors, Noël J-M Raynal.
J Exp Clin Cancer Res, 2019 Jun 15; 38(1). PMID: 31196146    Free PMC article.
Dysregulated Transcriptional Control in Prostate Cancer.
Simon J Baumgart, Ekaterina Nevedomskaya, Bernard Haendler.
Int J Mol Sci, 2019 Jun 16; 20(12). PMID: 31200487    Free PMC article.
Stress-triggered YAP1/SOX2 activation transcriptionally reprograms head and neck squamous cell carcinoma for the acquisition of stemness.
Hirofumi Omori, Kuniaki Sato, +5 authors, Muneyuki Masuda.
J Cancer Res Clin Oncol, 2019 Sep 06; 145(10). PMID: 31485767
Prognostic and diagnostic role of PSA immunohistochemistry: A tissue microarray study on 21,000 normal and cancerous tissues.
Sarah Bonk, Martina Kluth, +20 authors, Ronald Simon.
Oncotarget, 2019 Sep 20; 10(52). PMID: 31534629    Free PMC article.
Post-translational modification of SOX family proteins: Key biochemical targets in cancer?
Charles A C Williams, Abdenour Soufi, Steven M Pollard.
Semin Cancer Biol, 2019 Sep 21; 67(Pt 1). PMID: 31539559    Free PMC article.
The great escape: tumour cell plasticity in resistance to targeted therapy.
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Nat Rev Drug Discov, 2019 Oct 12; 19(1). PMID: 31601994
Determinants of enhancer and promoter activities of regulatory elements.
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Nat Rev Genet, 2019 Oct 13; 21(2). PMID: 31605096
Highly Cited. Review.
BRD4 modulates vulnerability of triple-negative breast cancer to targeting of integrin-dependent signaling pathways.
Yang Zhang, Bingwei Xu, +22 authors, Xiuwei H Yang.
Cell Oncol (Dordr), 2020 Oct 03; 43(6). PMID: 33006750    Free PMC article.
Chemical and molecular bases of dome formation in human colorectal cancer cells mediated by sulphur compounds from Cucumis melo var. conomon.
Miyu Kamimura, Azusa Sasaki, +11 authors, Shigehisa Okamoto.
FEBS Open Bio, 2020 Oct 14; 10(12). PMID: 33048473    Free PMC article.
The PAX-FOXO1s trigger fast trans-differentiation of chick embryonic neural cells into alveolar rhabdomyosarcoma with tissue invasive properties limited by S phase entry inhibition.
Gloria Gonzalez Curto, Audrey Der Vartanian, +15 authors, Vanessa Ribes.
PLoS Genet, 2020 Nov 12; 16(11). PMID: 33175861    Free PMC article.
Predicting Preference of Transcription Factors for Methylated DNA Using Sequence Information.
Meng-Lu Liu, Wei Su, +3 authors, Hao Lin.
Mol Ther Nucleic Acids, 2020 Dec 10; 22. PMID: 33294291    Free PMC article.
Partitioning of cancer therapeutics in nuclear condensates.
Isaac A Klein, Ann Boija, +29 authors, Richard A Young.
Science, 2020 Jun 20; 368(6497). PMID: 32554597    Free PMC article.
Oncology and Pharmacogenomics Insights in Polycystic Ovary Syndrome: An Integrative Analysis.
Verónica Yumiceba, Andrés López-Cortés, +8 authors, César Paz-Y-Miño.
Front Endocrinol (Lausanne), 2020 Dec 18; 11. PMID: 33329391    Free PMC article.
BRD2 regulation of sigma-2 receptor upon cholesterol deprivation.
Hongtao Shen, Jing Li, +6 authors, Lian-Wang Guo.
Life Sci Alliance, 2020 Nov 26; 4(1). PMID: 33234676    Free PMC article.
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Gregory J Goodall, Vihandha O Wickramasinghe.
Nat Rev Cancer, 2020 Oct 22; 21(1). PMID: 33082563
Efficient weighted univariate clustering maps outstanding dysregulated genomic zones in human cancers.
Mingzhou Song, Hua Zhong.
Bioinformatics, 2020 Jul 04; 36(20). PMID: 32619008    Free PMC article.
New Horizons: Emerging Therapies and Targets in Thyroid Cancer.
Matthew D Ringel.
J Clin Endocrinol Metab, 2020 Sep 26; 106(1). PMID: 32977343    Free PMC article.
BTF3 confers oncogenic activity in prostate cancer through transcriptional upregulation of Replication Factor C.
Yuan Zhang, Xiang Gao, +10 authors, Pixu Liu.
Cell Death Dis, 2021 Jan 09; 12(1). PMID: 33414468    Free PMC article.
G-quadruplex-R-loop interactions and the mechanism of anticancer G-quadruplex binders.
Giulia Miglietta, Marco Russo, Giovanni Capranico.
Nucleic Acids Res, 2020 Nov 03; 48(21). PMID: 33137181    Free PMC article.
Regulation of hepatocyte cell cycle re-entry by RNA polymerase II-associated Gdown1.
Miki Jishage, Robert G Roeder.
Cell Cycle, 2020 Nov 27; 19(23). PMID: 33238793    Free PMC article.
Global Genome Demethylation Causes Transcription-Associated DNA Double Strand Breaks in HPV-Associated Head and Neck Cancer Cells.
Michael Hajek, Asel Biktasova, +5 authors, Natalia Issaeva.
Cancers (Basel), 2020 Dec 31; 13(1). PMID: 33374558    Free PMC article.
Transcriptomic Changes of Murine Visceral Fat Exposed to Intermittent Hypoxia at Single Cell Resolution.
Abdelnaby Khalyfa, Wesley Warren, +5 authors, David Gozal.
Int J Mol Sci, 2021 Jan 02; 22(1). PMID: 33383883    Free PMC article.
BCL6 confers KRAS-mutant non-small-cell lung cancer resistance to BET inhibitors.
Jiawei Guo, Yanan Liu, +8 authors, Xiufeng Pang.
J Clin Invest, 2021 Jan 05; 131(1). PMID: 33393503    Free PMC article.
Genomic retargeting of p53 and CTCF is associated with transcriptional changes during oncogenic HRas-induced transformation.
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Commun Biol, 2020 Nov 27; 3(1). PMID: 33239721    Free PMC article.
Circular RNAs in body fluids as cancer biomarkers: the new frontier of liquid biopsies.
Sumeng Wang, Ke Zhang, +9 authors, Mulong Du.
Mol Cancer, 2021 Jan 13; 20(1). PMID: 33430880    Free PMC article.
ChIP-seq of plasma cell-free nucleosomes identifies gene expression programs of the cells of origin.
Ronen Sadeh, Israa Sharkia, +28 authors, Nir Friedman.
Nat Biotechnol, 2021 Jan 13; 39(5). PMID: 33432199    Free PMC article.
PAX3-FOXO1 Establishes Myogenic Super Enhancers and Confers BET Bromodomain Vulnerability.
Berkley E Gryder, Marielle E Yohe, +23 authors, Javed Khan.
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Intratumoural immune heterogeneity as a hallmark of tumour evolution and progression in hepatocellular carcinoma.
Phuong H D Nguyen, Siming Ma, +27 authors, Valerie Chew.
Nat Commun, 2021 Jan 13; 12(1). PMID: 33431814    Free PMC article.
Therapeutic applications of CRISPR/Cas9 in breast cancer and delivery potential of gold nanomaterials.
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Nanobiomedicine (Rij), 2021 Jan 26; 7. PMID: 33488814    Free PMC article.
H3K27me3-rich genomic regions can function as silencers to repress gene expression via chromatin interactions.
Yichao Cai, Ying Zhang, +10 authors, Melissa Jane Fullwood.
Nat Commun, 2021 Jan 31; 12(1). PMID: 33514712    Free PMC article.
Transcriptionally active enhancers in human cancer cells.
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Mol Syst Biol, 2021 Jan 28; 17(1). PMID: 33502116    Free PMC article.
Targeted brachyury degradation disrupts a highly specific autoregulatory program controlling chordoma cell identity.
Hadley E Sheppard, Alessandra Dall'Agnese, +16 authors, Charles Y Lin.
Cell Rep Med, 2021 Feb 02; 2(1). PMID: 33521702    Free PMC article.
Super enhancers-Functional cores under the 3D genome.
Juqing Zhang, Wei Yue, +3 authors, Jinlian Hua.
Cell Prolif, 2020 Dec 19; 54(2). PMID: 33336467    Free PMC article.
Targeting nuclear β-catenin as therapy for post-myeloproliferative neoplasm secondary AML.
Dyana T Saenz, Warren Fiskus, +21 authors, Kapil N Bhalla.
Leukemia, 2018 Dec 24; 33(6). PMID: 30575820

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Global hyperactivation of enhancers stabilizes human and mouse naive pluripotency through inhibition of CDK8/19 Mediator kinases.
Cian J Lynch, Raquel Bernad, +28 authors, Manuel Serrano.
Nat Cell Biol, 2020 Sep 30; 22(10). PMID: 32989249
A 4-gene signature predicts prognosis of uterine serous carcinoma.
Hui Chen, Lingjun Li, +4 authors, Qingping Jiang.
BMC Cancer, 2021 Feb 14; 21(1). PMID: 33579221    Free PMC article.
Dissecting the Pol II transcription cycle and derailing cancer with CDK inhibitors.
Pabitra K Parua, Robert P Fisher.
Nat Chem Biol, 2020 Jun 24; 16(7). PMID: 32572259    Free PMC article.
Convergent organization of aberrant MYB complex controls oncogenic gene expression in acute myeloid leukemia.
Sumiko Takao, Lauren Forbes, +11 authors, Alex Kentsis.
Elife, 2021 Feb 03; 10. PMID: 33527899    Free PMC article.
Modulating HSF1 levels impacts expression of the estrogen receptor α and antiestrogen response.
Maruhen Ad Silveira, Christophe Tav, +6 authors, Steve Bilodeau.
Life Sci Alliance, 2021 Feb 18; 4(5). PMID: 33593922    Free PMC article.
Targeting MYCN in Pediatric and Adult Cancers.
Zhihui Liu, Samuel S Chen, +2 authors, Carol J Thiele.
Front Oncol, 2021 Feb 26; 10. PMID: 33628735    Free PMC article.
Integrative pan cancer analysis reveals epigenomic variation in cancer type and cell specific chromatin domains.
Lijin K Gopi, Benjamin L Kidder.
Nat Commun, 2021 Mar 05; 12(1). PMID: 33658503    Free PMC article.
2.5 Å-resolution structure of human CDK-activating kinase bound to the clinical inhibitor ICEC0942.
Basil J Greber, Jonathan Remis, Simak Ali, Eva Nogales.
Biophys J, 2021 Jan 22; 120(4). PMID: 33476598    Free PMC article.
FOXQ1 is Differentially Expressed Across Breast Cancer Subtypes with Low Expression Associated with Poor Overall Survival.
Fahed A Elian, Ubah Are, +5 authors, Michael A Walter.
Breast Cancer (Dove Med Press), 2021 Mar 11; 13. PMID: 33688250    Free PMC article.
Dysbiosis of Oral Microbiota During Oral Squamous Cell Carcinoma Development.
Purandar Sarkar, Samaresh Malik, +5 authors, Abhik Saha.
Front Oncol, 2021 Mar 13; 11. PMID: 33708627    Free PMC article.
EphA2 super-enhancer promotes tumor progression by recruiting FOSL2 and TCF7L2 to activate the target gene EphA2.
Shuang Cui, Qiong Wu, +5 authors, Hongjuan He.
Cell Death Dis, 2021 Mar 14; 12(3). PMID: 33712565    Free PMC article.
EVI1 dysregulation: impact on biology and therapy of myeloid malignancies.
Christine Birdwell, Warren Fiskus, +3 authors, Kapil N Bhalla.
Blood Cancer J, 2021 Mar 24; 11(3). PMID: 33753715    Free PMC article.
Selective Mediator dependence of cell-type-specifying transcription.
Martin G Jaeger, Björn Schwalb, +16 authors, Georg E Winter.
Nat Genet, 2020 Jun 03; 52(7). PMID: 32483291    Free PMC article.
A hierarchical and collaborative BRD4/CEBPD partnership governs vascular smooth muscle cell inflammation.
Qingwei Wang, Hatice Gulcin Ozer, +5 authors, Lian-Wang Guo.
Mol Ther Methods Clin Dev, 2021 Mar 27; 21. PMID: 33768129    Free PMC article.
E2F1-mediated repression of WNT5A expression promotes brain metastasis dependent on the ERK1/2 pathway in EGFR-mutant non-small cell lung cancer.
Huanhuan Li, Fan Tong, +4 authors, Xiaorong Dong.
Cell Mol Life Sci, 2020 Oct 21; 78(6). PMID: 33078208
A Role for Polo-Like Kinase 4 in Vascular Fibroblast Cell-Type Transition.
Jing Li, Go Urabe, +6 authors, Lian-Wang Guo.
JACC Basic Transl Sci, 2021 Mar 30; 6(3). PMID: 33778212    Free PMC article.
BART Cancer: a web resource for transcriptional regulators in cancer genomes.
Zachary V Thomas, Zhenjia Wang, Chongzhi Zang.
NAR Cancer, 2021 Mar 30; 3(1). PMID: 33778495    Free PMC article.
A cohesin cancer mutation reveals a role for the hinge domain in genome organization and gene expression.
Zachary M Carico, Holden C Stefan, +2 authors, Jill M Dowen.
PLoS Genet, 2021 Mar 25; 17(3). PMID: 33760811    Free PMC article.
Approaches to Identify and Characterise the Post-Transcriptional Roles of lncRNAs in Cancer.
Jean-Michel Carter, Daniel Aron Ang, +2 authors, Yinghui Li.
Noncoding RNA, 2021 Apr 04; 7(1). PMID: 33803328    Free PMC article.
Cyclin-Dependent Kinases (CDK) and Their Role in Diseases Development-Review.
Paweł Łukasik, Michał Załuski, Izabela Gutowska.
Int J Mol Sci, 2021 Apr 04; 22(6). PMID: 33805800    Free PMC article.
A Transcriptional Regulatory Loop of Master Regulator Transcription Factors, PPARG, and Fatty Acid Synthesis Promotes Esophageal Adenocarcinoma.
Sai Ma, Bo Zhou, +10 authors, De-Chen Lin.
Cancer Res, 2021 Jan 07; 81(5). PMID: 33402390    Free PMC article.
Using Chemical Epigenetics to Target Cancer.
Virangika K Wimalasena, Tingjian Wang, +2 authors, Jun Qi.
Mol Cell, 2020 May 15; 78(6). PMID: 32407673    Free PMC article.
The Significance of Targeting Poly (ADP-Ribose) Polymerase-1 in Pancreatic Cancer for Providing a New Therapeutic Paradigm.
Keun-Yeong Jeong, Min Hee Park.
Int J Mol Sci, 2021 Apr 04; 22(7). PMID: 33805293    Free PMC article.
Transcriptional programming drives Ibrutinib-resistance evolution in mantle cell lymphoma.
Xiaohong Zhao, Michelle Y Wang, +20 authors, Jianguo Tao.
Cell Rep, 2021 Mar 18; 34(11). PMID: 33730585    Free PMC article.
Epigenomic landscape of human colorectal cancer unveils an aberrant core of pan-cancer enhancers orchestrated by YAP/TAZ.
Giulia Della Chiara, Federica Gervasoni, +36 authors, Massimiliano Pagani.
Nat Commun, 2021 Apr 22; 12(1). PMID: 33879786    Free PMC article.
DysRegSig: an R package for identifying gene dysregulations and building mechanistic signatures in cancer.
Quanxue Li, Wentao Dai, +3 authors, Yuan-Yuan Li.
Bioinformatics, 2020 Jul 28; 37(3). PMID: 32717036    Free PMC article.
Enhancer rewiring in tumors: an opportunity for therapeutic intervention.
Laia Richart, François-Clément Bidard, Raphaël Margueron.
Oncogene, 2021 May 03; 40(20). PMID: 33934105
BET Epigenetic Reader Proteins in Cardiovascular Transcriptional Programs.
Patricia Cristine Borck, Lian-Wang Guo, Jorge Plutzky.
Circ Res, 2020 Apr 24; 126(9). PMID: 32324495    Free PMC article.
FOXA1 and adaptive response determinants to HER2 targeted therapy in TBCRC 036.
Steven P Angus, Timothy J Stuhlmiller, +27 authors, Gary L Johnson.
NPJ Breast Cancer, 2021 May 14; 7(1). PMID: 33980863    Free PMC article.
C646 inhibits G2/M cell cycle-related proteins and potentiates anti-tumor effects in pancreatic cancer.
Hiroaki Ono, Tomotaka Kato, +12 authors, Minoru Tanabe.
Sci Rep, 2021 May 14; 11(1). PMID: 33980911    Free PMC article.
Protein phosphatases in the RNAPII transcription cycle: erasers, sculptors, gatekeepers, and potential drug targets.
Giacomo Cossa, Pabitra K Parua, Martin Eilers, Robert P Fisher.
Genes Dev, 2021 Apr 24; 35(9-10). PMID: 33888562    Free PMC article.
Advances in targeting 'undruggable' transcription factors with small molecules.
Matthew J Henley, Angela N Koehler.
Nat Rev Drug Discov, 2021 May 20;. PMID: 34006959
Superior efficacy of co-targeting GFI1/KDM1A and BRD4 against AML and post-MPN secondary AML cells.
Warren Fiskus, Christopher P Mill, +24 authors, Kapil N Bhalla.
Blood Cancer J, 2021 May 22; 11(5). PMID: 34016956    Free PMC article.
Simple biochemical features underlie transcriptional activation domain diversity and dynamic, fuzzy binding to Mediator.
Adrian L Sanborn, Benjamin T Yeh, +5 authors, Roger D Kornberg.
Elife, 2021 Apr 28; 10. PMID: 33904398    Free PMC article.
Employing core regulatory circuits to define cell identity.
Nathalia Almeida, Matthew W H Chung, +6 authors, Francesca M Spagnoli.
EMBO J, 2021 May 03; 40(10). PMID: 33934382    Free PMC article.
Model guided trait-specific co-expression network estimation as a new perspective for identifying molecular interactions and pathways.
Juho A J Kontio, Tanja Pyhäjärvi, Mikko J Sillanpää.
PLoS Comput Biol, 2021 May 04; 17(5). PMID: 33939702    Free PMC article.
Evolution of core archetypal phenotypes in progressive high grade serous ovarian cancer.
Aritro Nath, Patrick A Cosgrove, +17 authors, Andrea H Bild.
Nat Commun, 2021 May 26; 12(1). PMID: 34031395    Free PMC article.
Discovery and resistance mechanism of a selective CDK12 degrader.
Baishan Jiang, Yang Gao, +14 authors, Nathanael S Gray.
Nat Chem Biol, 2021 Mar 24; 17(6). PMID: 33753926
Live cell dynamics of the NF-Y transcription factor.
David G Priest, Andrea Bernardini, +2 authors, Elizabeth Hinde.
Sci Rep, 2021 May 28; 11(1). PMID: 34040015    Free PMC article.
Glucocorticoid receptor wields chromatin interactions to tune transcription for cytoskeleton stabilization in podocytes.
Hong Wang, Aiping Duan, +5 authors, Jingping Yang.
Commun Biol, 2021 Jun 05; 4(1). PMID: 34083716    Free PMC article.
The Role of AP-1 Transcription Factors in Plasma Cell Biology and Multiple Myeloma Pathophysiology.
Fengjuan Fan, Klaus Podar.
Cancers (Basel), 2021 Jun 03; 13(10). PMID: 34066181    Free PMC article.
Immunotherapy for Chordoma and Chondrosarcoma: Current Evidence.
Jeffrey I Traylor, Mark N Pernik, +2 authors, Tomas Garzon-Muvdi.
Cancers (Basel), 2021 Jun 03; 13(10). PMID: 34067530    Free PMC article.
Targeting histone acetylation dynamics and oncogenic transcription by catalytic P300/CBP inhibition.
Simon J Hogg, Olga Motorna, +39 authors, Ricky W Johnstone.
Mol Cell, 2021 May 22; 81(10). PMID: 34019788    Free PMC article.
Super-enhancer-mediated core regulatory circuitry in human cancer.
Yuan Jiang, Yan-Yi Jiang, De-Chen Lin.
Comput Struct Biotechnol J, 2021 Jun 08; 19. PMID: 34093993    Free PMC article.
Functional in vivo characterization of sox10 enhancers in neural crest and melanoma development.
Rebecca L Cunningham, Eva T Kramer, +5 authors, Charles K Kaufman.
Commun Biol, 2021 Jun 09; 4(1). PMID: 34099848    Free PMC article.