Gilbert, W. V. & Nachtergaele, S. mRNA regulation by RNA modifications. Annu. Rev. Biochem. 92, 175–198 (2023).
Google Scholar
Delaunay, S., Helm, M. & Frye, M. RNA modifications in physiology and disease: towards clinical applications. Nat. Rev. Genet. 25, 104–122 (2024).
Google Scholar
Passmore, L. A. & Coller, J. Roles of mRNA poly(A) tails in regulation of eukaryotic gene expression. Nat. Rev. Mol. Cell Biol. 23, 93–106 (2022).
Google Scholar
Keene, J. D. RNA regulons: coordination of post-transcriptional events. Nat. Rev. Genet. 8, 533–543 (2007).
Google Scholar
Goodall, G. J. & Wickramasinghe, V. O. RNA in cancer. Nat. Rev. Cancer 21, 22–36 (2021).
Google Scholar
Barbieri, I. & Kouzarides, T. Role of RNA modifications in cancer. Nat. Rev. Cancer 20, 303–322 (2020).
Google Scholar
Lin, S. & Kuang, M. RNA modification-mediated mRNA translation regulation in liver cancer: mechanisms and clinical perspectives. Nat. Rev. Gastroenterol. Hepatol. 21, 267–281 (2024).
Google Scholar
Bradley, R. K. & Anczukow, O. RNA splicing dysregulation and the hallmarks of cancer. Nat. Rev. Cancer 23, 135–155 (2023).
Google Scholar
Tao, L. et al. Epigenetic regulation in cancer therapy: from mechanisms to clinical advances. MedComm Oncol. 3, e59 (2024).
Google Scholar
Davis, A. G. et al. Alternative polyadenylation dysregulation contributes to the differentiation block of acute myeloid leukemia. Blood 139, 424–438 (2022).
Google Scholar
Qing, Y., Su, R. & Chen, J. RNA modifications in hematopoietic malignancies: a new research frontier. Blood 138, 637–648 (2021).
Google Scholar
Chen, S., Benbarche, S. & Abdel-Wahab, O. Splicing factor mutations in hematologic malignancies. Blood 138, 599–612 (2021).
Google Scholar
Short, N. J., Rytting, M. E. & Cortes, J. E. Acute myeloid leukaemia. Lancet 392, 593–606 (2018).
Google Scholar
Wachter, F. & Pikman, Y. Pathophysiology of acute myeloid leukemia. Acta Haematol. 147, 229–246 (2024).
Google Scholar
Thomas, D. & Majeti, R. Biology and relevance of human acute myeloid leukemia stem cells. Blood 129, 1577–1585 (2017).
Google Scholar
Huang, H., Weng, H. & Chen, J. m6A modification in coding and non-coding RNAs: roles and therapeutic implications in cancer. Cancer Cell 37, 270–288 (2020).
Google Scholar
Choi, H. S., Kim, B. S., Yoon, S., Oh, S. O. & Lee, D. Leukemic stem cells and hematological malignancies. Int. J. Mol. Sci. 25, 6639 (2024).
Google Scholar
Stelmach, P. & Trumpp, A. Leukemic stem cells and therapy resistance in acute myeloid leukemia. Haematologica 108, 353–366 (2023).
Google Scholar
Shi, Y. et al. Molecular architecture of the human pre-mRNA 3’ processing complex. Mol. Cell 33, 365–376 (2009).
Google Scholar
Xiang, Y. et al. Comprehensive characterization of alternative polyadenylation in human cancer. J. Natl Cancer Inst. 110, 379–389 (2018).
Google Scholar
Ye, C., Zhou, Q., Hong, Y. & Li, Q. Q. Role of alternative polyadenylation dynamics in acute myeloid leukaemia at single-cell resolution. RNA Biol. 16, 785–797 (2019).
Google Scholar
Lee, S. H. et al. Widespread intronic polyadenylation inactivates tumour suppressor genes in leukaemia. Nature 561, 127–131 (2018).
Google Scholar
Mitschka, S. & Mayr, C. Context-specific regulation and function of mRNA alternative polyadenylation. Nat. Rev. Mol. Cell Biol. 23, 779–796 (2022).
Google Scholar
Viegas, I. J. et al. N(6)-methyladenosine in poly(A) tails stabilize VSG transcripts. Nature 604, 362–370 (2022).
Google Scholar
Subtelny, A. O., Eichhorn, S. W., Chen, G. R., Sive, H. & Bartel, D. P. Poly(A)-tail profiling reveals an embryonic switch in translational control. Nature 508, 66–71 (2014).
Google Scholar
Slobodin, B. et al. Transcription dynamics regulate poly(A) tails and expression of the RNA degradation machinery to balance mRNA levels. Mol. Cell 78, 434–444 (2020).
Google Scholar
Legnini, I., Alles, J., Karaiskos, N., Ayoub, S. & Rajewsky, N. FLAM-seq: full-length mRNA sequencing reveals principles of poly(A) tail length control. Nat. Methods 16, 879–886 (2019).
Google Scholar
Somervaille, T. C. & Cleary, M. L. Identification and characterization of leukemia stem cells in murine MLL–AF9 acute myeloid leukemia. Cancer Cell 10, 257–268 (2006).
Google Scholar
Hayes, J. D., Flanagan, J. U. & Jowsey, I. R. Glutathione transferases. Annu. Rev. Pharmacol. Toxicol. 45, 51–88 (2005).
Google Scholar
Castro, J. P., Jung, T., Grune, T. & Siems, W. 4-Hydroxynonenal (HNE) modified proteins in metabolic diseases. Free Radic. Biol. Med. 111, 309–315 (2017).
Google Scholar
Zhao, Y. et al. Redox proteomic identification of HNE-bound mitochondrial proteins in cardiac tissues reveals a systemic effect on energy metabolism after doxorubicin treatment. Free Radic. Biol. Med. 72, 55–65 (2014).
Google Scholar
Ambrus, A. & Adam-Vizi, V. Human dihydrolipoamide dehydrogenase (E3) deficiency: novel insights into the structural basis and molecular pathomechanism. Neurochem. Int. 117, 5–14 (2018).
Google Scholar
MacDonald, M. J., Smith, A. D. 3rd, Hasan, N. M., Sabat, G. & Fahien, L. A. Feasibility of pathways for transfer of acyl groups from mitochondria to the cytosol to form short chain acyl-CoAs in the pancreatic beta cell. J. Biol. Chem. 282, 30596–30606 (2007).
Google Scholar
Rose, K. M., Bell, L. E. & Jacob, S. T. Specific inhibition of chromatin-associated poly(A) synthesis in vitro by cordycepin 5’-triphosphate. Nature 267, 178–180 (1977).
Google Scholar
Wong, Y. Y. et al. Cordycepin inhibits protein synthesis and cell adhesion through effects on signal transduction. J. Biol. Chem. 285, 2610–2621 (2010).
Google Scholar
Nicholson, A. L. & Pasquinelli, A. E. Tales of detailed poly(A) tails. Trends Cell Biol. 29, 191–200 (2019).
Google Scholar
Chang, H., Lim, J., Ha, M. & Kim, V. N. TAIL-seq: genome-wide determination of poly(A) tail length and 3’ end modifications. Mol. Cell 53, 1044–1052 (2014).
Google Scholar
Morgan, M. et al. mRNA 3’ uridylation and poly(A) tail length sculpt the mammalian maternal transcriptome. Nature 548, 347–351 (2017).
Google Scholar
Woo, Y. M. et al. TED-seq identifies the dynamics of poly(A) length during ER stress. Cell Rep. 24, 3630–3641 (2018).
Google Scholar
Weill, L., Belloc, E., Bava, F. A. & Méndez, R. Translational control by changes in poly(A) tail length: recycling mRNAs. Nat. Struct. Mol. Biol. 19, 577–585 (2012).
Google Scholar
Chandrasekaran, V. et al. Mechanism of ribosome stalling during translation of a poly(A) tail. Nat. Struct. Mol. Biol. 26, 1132–1140 (2019).
Google Scholar
Torabi, S. F. et al. RNA stabilization by a poly(A) tail 3′-end binding pocket and other modes of poly(A)-RNA interaction. Science 371, eabe6523 (2021).
Google Scholar
Park, J. E., Yi, H., Kim, Y., Chang, H. & Kim, V. N. Regulation of poly(A) tail and translation during the somatic cell cycle. Mol. Cell 62, 462–471 (2016).
Google Scholar
Mishra, S. K., Millman, S. E. & Zhang, L. Metabolism in acute myeloid leukemia: mechanistic insights and therapeutic targets. Blood 141, 1119–1135 (2023).
Google Scholar
Zhao, Z. et al. QKI shuttles internal m7G-modified transcripts into stress granules and modulates mRNA metabolism. Cell 186, 3208–3226 (2023).
Google Scholar
Tcheng, M. et al. Very long chain fatty acid metabolism is required in acute myeloid leukemia. Blood 137, 3518–3532 (2021).
Google Scholar
Amaya, M. L. et al. The STAT3–MYC axis promotes survival of leukemia stem cells by regulating SLC1A5 and oxidative phosphorylation. Blood 139, 584–596 (2022).
Google Scholar
Liu, Y., Zhang, Y., Wang, J. & Lu, F. Transcriptome-wide measurement of poly(A) tail length and composition at subnanogram total RNA sensitivity by PAIso-seq. Nat. Protoc. 17, 1980–2007 (2022).
Google Scholar
Jones, C. L., Inguva, A. & Jordan, C. T. Targeting energy metabolism in cancer stem cells: progress and challenges in leukemia and solid tumors. Cell stem cell 28, 378–393 (2021).
Google Scholar
Lin, S. et al. Mettl1/Wdr4-mediated m7G tRNA methylome is required for normal mRNA translation and embryonic stem cell self-renewal and differentiation. Mol. Cell 71, 244–255 (2018).
Google Scholar
Dai, Z. et al. N(7)-Methylguanosine tRNA modification enhances oncogenic mRNA translation and promotes intrahepatic cholangiocarcinoma progression. Mol. Cell 81, 3339–3355 (2021).
Google Scholar
Hu, Y. & Smyth, G. K. ELDA: extreme limiting dilution analysis for comparing depleted and enriched populations in stem cell and other assays. J. Immunol. Methods 347, 70–78 (2009).
Google Scholar
Rinn, J. L. et al. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 129, 1311–1323 (2007).
Google Scholar
Shen, C. et al. RNA demethylase ALKBH5 selectively promotes tumorigenesis and cancer stem cell self-renewal in acute myeloid leukemia. Cell Stem Cell 27, 64–80 (2020).
Google Scholar
Sandén, C. et al. Aberrant expression of SLAMF6 constitutes a targetable immune escape mechanism in acute myeloid leukemia. Nat. Cancer 6, 1821–1838 (2025).
Google Scholar

