Akhtar-Zaidi B, Cowper-Sal-lari R, Corradin O, Saiakhova A, Bartels CF, Balasubramanian D, Myeroff L, Lutterbaugh J, Jarrar A, Kalady MF et al (2012) Epigenomic enhancer profiling defines a signature of colon cancer. Science 336:736–739
Article CAS PubMed PubMed Central Google Scholar
Bacabac M, Xu W (2023) Oncogenic super-enhancers in cancer: mechanisms and therapeutic targets. Cancer Metastasis Rev 42:471–480
Article CAS PubMed PubMed Central Google Scholar
Bahia RK, Lopez C, Nardocci G, Davie JR (2025) Differential H3K4me3 domains in normal and colorectal cancer cells reveal novel epigenetic targets. Int J Mol Sci 26(6):2546
Article CAS PubMed PubMed Central Google Scholar
Bannister AJ, Kouzarides T (2011) Regulation of chromatin by histone modifications. Cell Res 21:381–395
Article CAS PubMed PubMed Central Google Scholar
Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, Wang Z, Wei G, Chepelev I, Zhao K (2007) High-resolution profiling of histone methylations in the human genome. Cell 129:823–837
Article CAS PubMed Google Scholar
Barsoum M, Stenzel AT, Bochynska A, Kuo CC, Tsompanidis A, Sayadi-Boroujeni R, Bussmann P, Luscher-Firzlaff J, Costa IG, Luscher B (2022) Loss of the Ash2l subunit of histone H3K4 methyltransferase complexes reduces chromatin accessibility at promoters. Sci Rep 12:21506
Article CAS PubMed PubMed Central Google Scholar
Bates SE (2020) Epigenetic therapies for cancer. N Engl J Med 383:650–663
Article CAS PubMed Google Scholar
Baudre L, Jouault G, Prompsy P, Saichi M, Gastineau S, Huret C, Sourd L, Dahmani A, Montaudon E, Dingli F et al (2025) Characterization of drug-tolerant persister cells in triple-negative breast cancer identifies a shared persistence program across treatments and patients. Cancer Res 86(3):1–16
Belhocine M, Simonin M, Abad Flores JD, Cieslak A, Manosalva I, Pradel L, Smith C, Mathieu EL, Charbonnier G, Martens JHA et al (2022) Dynamics of broad H3K4me3 domains uncover an epigenetic switch between cell identity and cancer-related genes. Genome Res 32:1328–1342
Article CAS PubMed Google Scholar
Bentsen M, Goymann P, Schultheis H, Klee K, Petrova A, Wiegandt R, Fust A, Preussner J, Kuenne C, Braun T et al (2020) ATAC-seq footprinting unravels kinetics of transcription factor binding during zygotic genome activation. Nat Commun 11:4267
Article CAS PubMed PubMed Central Google Scholar
Beyes S, Bediaga NG, Zippo A (2021) An epigenetic perspective on intra-tumour heterogeneity: novel insights and new challenges from multiple fields. Cancers (Basel) 13(19):4969
Article CAS PubMed PubMed Central Google Scholar
Boyson SP, Gao C, Quinn K, Boyd J, Paculova H, Frietze S, Glass KC (2021) Functional roles of bromodomain proteins in cancer. Cancers (Basel) 13(14):3606
Article CAS PubMed PubMed Central Google Scholar
Bradner JE, Hnisz D, Young RA (2017) Transcriptional Addiction in Cancer. Cell 168:629–643
Article CAS PubMed PubMed Central Google Scholar
Buenrostro JD, Wu B, Litzenburger UM, Ruff D, Gonzales ML, Snyder MP, Chang HY, Greenleaf WJ (2015) Single-cell chromatin accessibility reveals principles of regulatory variation. Nature 523:486–490
Article CAS PubMed PubMed Central Google Scholar
Castillo-Rodriguez RA, Trejo-Solis C, Cabrera-Cano A, Gomez-Manzo S, Davila-Borja VM (2022) Hypoxia as a modulator of inflammation and immune response in cancer. Cancers (Basel) 14(9):2291
Article CAS PubMed PubMed Central Google Scholar
Chandra T, Kirschner K, Thuret JY, Pope BD, Ryba T, Newman S, Ahmed K, Samarajiwa SA, Salama R, Carroll T et al (2012) Independence of repressive histone marks and chromatin compaction during senescent heterochromatic layer formation. Mol Cell 47:203–214
Article CAS PubMed PubMed Central Google Scholar
Chen K, Chen Z, Wu D, Zhang L, Lin X, Su J, Rodriguez B, Xi Y, Xia Z, Chen X et al (2015) Broad H3K4me3 is associated with increased transcription elongation and enhancer activity at tumor-suppressor genes. Nat Genet 47:1149–1157
Article CAS PubMed PubMed Central Google Scholar
Chen X, Ma Q, Shang Z, Niu Y (2020) Super-enhancer in prostate cancer: transcriptional disorders and therapeutic targets. NPJ Precis Oncol 4:31
Article PubMed PubMed Central Google Scholar
Chen PB, Fiaux PC, Zhang K, Li B, Kubo N, Jiang S, Hu R, Rooholfada E, Wu S, Wang M et al (2022) Systematic discovery and functional dissection of enhancers needed for cancer cell fitness and proliferation. Cell Rep 41:111630
Article CAS PubMed PubMed Central Google Scholar
Chen Y, Liang R, Li Y, Jiang L, Ma D, Luo Q, Song G (2024) Chromatin accessibility: biological functions, molecular mechanisms and therapeutic application. Signal Transduct Target Ther 9:340
Article PubMed PubMed Central Google Scholar
Cheng Y, Pei G, Zhang H, Hou Y, Sun L, Xu H, Lv Y, Wu X (2025) Super enhancers as key drivers of gene regulatory networks in normal and malignant hematopoiesis. Front Cell Dev Biol 13:1674470
Article PubMed PubMed Central Google Scholar
Chipumuro E, Marco E, Christensen CL, Kwiatkowski N, Zhang T, Hatheway CM, Abraham BJ, Sharma B, Yeung C, Altabef A et al (2014) CDK7 inhibition suppresses super-enhancer-linked oncogenic transcription in MYCN-driven cancer. Cell 159:1126–1139
Article CAS PubMed PubMed Central Google Scholar
Choi H, Pavelka N (2011) When one and one gives more than two: challenges and opportunities of integrative omics. Front Genet 2:105
Chung C, Sweha SR, Pratt D, Tamrazi B, Panwalkar P, Banda A, Bayliss J, Hawes D, Yang F, Lee HJ et al (2020) Integrated metabolic and epigenomic reprograming by H3K27M mutations in diffuse intrinsic pontine gliomas. Cancer Cell 38:334–349 e339
Article CAS PubMed PubMed Central Google Scholar
Davies A, Zoubeidi A, Beltran H, Selth LA (2023) The transcriptional and epigenetic landscape of cancer cell lineage plasticity. Cancer Discov 13:1771–1788
Article CAS PubMed PubMed Central Google Scholar
Dhar SS, Brown C, Rizvi A, Reed L, Kotla S, Zod C, Abraham J, Abe JI, Rajaram V, Chen K et al (2025) Heterozygous Kmt2d loss diminishes enhancers to render medulloblastoma cells vulnerable to combinatory inhibition of LSD1 and OXPHOS. Cell Rep 44:115619
Article CAS PubMed PubMed Central Google Scholar
Emran AA, Marzese DM, Menon DR, Stark MS, Torrano J, Hammerlindl H, Zhang G, Brafford P, Salomon MP, Nelson N et al (2018) Distinct histone modifications denote early stress-induced drug tolerance in cancer. Oncotarget 9:8206–8222
Esteller M, Dawson MA, Kadoch C, Rassool FV, Jones PA, Baylin SB (2024) The epigenetic hallmarks of cancer. Cancer Discov 14:1783–1809
Article CAS PubMed Google Scholar
Ezponda T, Licht JD (2014) Molecular pathways: deregulation of histone h3 lysine 27 methylation in cancer-different paths, same destination. Clin Cancer Res 20:5001–5008
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