Eiring AM, Khorashad JS, Morley K, Deininger MW. Advances in the treatment of chronic myeloid leukemia. BMC Med. 2011;9:6.
Article
Google Scholar
Iqbal N, Iqbal N. Imatinib: a breakthrough of targeted therapy in Cancer. Chemother Res Pract. 2014;2014:1–9.
Article
Google Scholar
Perrotti D, Jamieson C, Goldman J, Skorski T. Chronic myeloid leukemia: mechanisms of blastic transformation. J Clin Invest. 2010;120:2254–64.
Article
CAS
PubMed
PubMed Central
Google Scholar
Soverini S, Mancini M, Bavaro L, Cavo M, Martinelli G. Chronic myeloid leukemia: the paradigm of targeting oncogenic tyrosine kinase signaling and counteracting resistance for successful cancer therapy. Mol Cancer. 2018;17:49.
Article
PubMed
PubMed Central
Google Scholar
Braun TP, Eide CA, Druker BJ. Response and resistance to BCR-ABL1-targeted therapies. Cancer Cell. 2020;37:530–42.
Article
CAS
PubMed
PubMed Central
Google Scholar
Soverini S, De Benedittis C, Papayannidis C, Paolini S, Venturi C, Iacobucci I, et al. Drug resistance and BCR-ABL kinase domain mutations in Philadelphia chromosome-positive acute lymphoblastic leukemia from the imatinib to the second-generation tyrosine kinase inhibitor era: the main changes are in the type of mutations, but not in the fr: BCR-ABL KD mutations in Ph+ ALL. Cancer. 2014;120:1002–9.
Article
CAS
PubMed
Google Scholar
Chien S, Liu H, Chen P, Ko P, Lin J, Chen Y, et al. The landscape of BCR-ABL mutations in patients with Philadelphia chromosome-positive leukaemias in the era of second-generation tyrosine kinase inhibitors. Hematol Oncol. 2020;38:390–8.
Article
CAS
PubMed
Google Scholar
Steelman LS, Pohnert SC, Shelton JG, Franklin RA, Bertrand FE, McCubrey JA. JAK/STAT, Raf/MEK/ERK, PI3K/Akt and BCR-ABL in cell cycle progression and leukemogenesis. Leukemia. 2004;18:189–218.
Article
CAS
PubMed
Google Scholar
Warsch W, Grundschober E, Sexl V. Adding a new facet to STAT5 in CML: multitasking for leukemic cells. Cell Cycle. 2013;12:1813–4.
Article
CAS
PubMed
PubMed Central
Google Scholar
Swoboda DM, Ali NA, Chan O, Padron E, Kuykendall AT, Song J, et al. PTPN11 mutations are associated with poor outcomes across myeloid malignancies. Leukemia. 2021;35:286–8.
Article
CAS
PubMed
Google Scholar
Hantschel O. Targeting BCR-ABL and JAK2 in Ph+ ALL. Blood. 2015;125:1362–3.
Article
CAS
PubMed
Google Scholar
Bertacchini J, Heidari N, Mediani L, Capitani S, Shahjahani M, Ahmadzadeh A, et al. Targeting PI3K/AKT/mTOR network for treatment of leukemia. Cell Mol Life Sci. 2015;72:2337–47.
Article
CAS
PubMed
Google Scholar
Lernoux M, Schnekenburger M, Losson H, Vermeulen K, Hahn H, Gérard D, et al. Novel HDAC inhibitor MAKV-8 and imatinib synergistically kill chronic myeloid leukemia cells via inhibition of BCR-ABL/MYC-signaling: effect on imatinib resistance and stem cells. Clin Epigenetics. 2020;12:69.
Article
CAS
PubMed
PubMed Central
Google Scholar
Kusio-Kobialka M, Podszywalow-Bartnicka P, Peidis P, Glodkowska-Mrowka E, Wolanin K, Leszak G, et al. The PERK-eIF2α phosphorylation arm is a pro-survival pathway of BCR-ABL signaling and confers resistance to imatinib treatment in chronic myeloid leukemia cells. Cell Cycle. 2012;11:4069–78.
Article
CAS
PubMed
PubMed Central
Google Scholar
Salminen A, Kaarniranta K, Kauppinen A. Integrated stress response stimulates FGF21 expression: systemic enhancer of longevity. Cell Signal. 2017;40:10–21.
Article
CAS
PubMed
Google Scholar
Nguyen HG, Conn CS, Kye Y, Xue L, Forester CM, Cowan JE, et al. Development of a stress response therapy targeting aggressive prostate cancer. Sci Transl Med. 2018;10:eaar2036.
Article
PubMed
PubMed Central
Google Scholar
Wang C, Tan Z, Niu B, Tsang KY, Tai A, Chan WCW, et al. Inhibiting the integrated stress response pathway prevents aberrant chondrocyte differentiation thereby alleviating chondrodysplasia. eLife. 2018;7:e37673.
Article
PubMed
PubMed Central
Google Scholar
van Galen P, Mbong N, Kreso A, Schoof EM, Wagenblast E, Ng SWK, et al. Integrated stress response activity Marks stem cells in Normal hematopoiesis and leukemia. Cell Rep. 2018;25:1109–1117.e5.
Article
PubMed
Google Scholar
Ron D, Walter P. Signal integration in the endoplasmic reticulum unfolded protein response. Nat Rev Mol Cell Biol. 2007;8:519–29.
Article
CAS
PubMed
Google Scholar
Jewer M, Lee L, Leibovitch M, Zhang G, Liu J, Findlay SD, et al. Translational control of breast cancer plasticity. Nat Commun. 2020;11:2498.
Article
CAS
PubMed
PubMed Central
Google Scholar
Schardt JA, Weber D, Eyholzer M, Mueller BU, Pabst T. Activation of the unfolded protein response is associated with favorable prognosis in acute myeloid leukemia. Clin Cancer Res. 2009;15:3834–41.
Article
CAS
PubMed
Google Scholar
Kharabi Masouleh B, Geng H, Hurtz C, Chan LN, Logan AC, Chang MS, et al. Mechanistic rationale for targeting the unfolded protein response in pre-B acute lymphoblastic leukemia. Proc Natl Acad Sci. 2014;111:E2219–28.
Article
PubMed
PubMed Central
Google Scholar
Zhou C, Martinez E, Di Marcantonio D, Solanki-Patel N, Aghayev T, Peri S, et al. JUN is a key transcriptional regulator of the unfolded protein response in acute myeloid leukemia. Leukemia. 2017;31:1196–205.
Article
CAS
PubMed
Google Scholar
Atkins C, Liu Q, Minthorn E, Zhang S-Y, Figueroa DJ, Moss K, et al. Characterization of a novel PERK kinase inhibitor with antitumor and Antiangiogenic activity. Cancer Res. 2013;73:1993–2002.
Article
CAS
PubMed
Google Scholar
Sidrauski C, McGeachy AM, Ingolia NT, Walter P. The small molecule ISRIB reverses the effects of eIF2α phosphorylation on translation and stress granule assembly. eLife. 2015;4:e05033.
Article
PubMed
PubMed Central
Google Scholar
Darini C, Ghaddar N, Chabot C, Assaker G, Sabri S, Wang S, et al. An integrated stress response via PKR suppresses HER2+ cancers and improves trastuzumab therapy. Nat Commun. 2019;10:2139.
Article
PubMed
PubMed Central
Google Scholar
Babraham Bioinformatics. Babraham Bioinformatics - FastQC a quality control tool for high throughput sequence data. 2022. https://www.bioinformatics.babraham.ac.uk/projects/fastqc/. Accessed 7 May 2022.
Google Scholar
Yang WR, Ardeljan D, Pacyna CN, Payer LM, Burns KH. SQuIRE reveals locus-specific regulation of interspersed repeat expression. Nucleic Acids Res. 2019;47:e27.
Article
CAS
PubMed
PubMed Central
Google Scholar
Haeussler M, Zweig AS, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, et al. The UCSC genome browser database: 2019 update. Nucleic Acids Res. 2019;47:D853–8.
Article
CAS
PubMed
Google Scholar
Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C, Jha S, et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2013;29:15–21.
Article
CAS
PubMed
Google Scholar
Pertea M, Pertea GM, Antonescu CM, Chang T-C, Mendell JT, Salzberg SL. StringTie enables improved reconstruction of a transcriptome from RNA-seq reads. Nat Biotechnol. 2015;33:290–5.
Article
CAS
PubMed
PubMed Central
Google Scholar
Love MI, Huber W, Anders S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014;15:550.
Article
PubMed
PubMed Central
Google Scholar
Pedregosa F, Varoquaux G, Gramfort A, Michel V, Thirion B, Grisel O, et al. Scikit-learn: Machine Learning in Python. Mach Learn PYTHON. 2011;12:6.
Google Scholar
Abu-Jamous B, Kelly S. Clust: automatic extraction of optimal co-expressed gene clusters from gene expression data. Genome Biol. 2018;19:172.
Article
PubMed
PubMed Central
Google Scholar
Reimand J, Arak T, Adler P, Kolberg L, Reisberg S, Peterson H, et al. G:profiler—a web server for functional interpretation of gene lists (2016 update). Nucleic Acids Res. 2016;44:W83–9.
Article
CAS
PubMed
PubMed Central
Google Scholar
Axten JM, Romeril SP, Shu A, Ralph J, Medina JR, Feng Y, et al. Discovery of GSK2656157: an optimized PERK inhibitor selected for preclinical development. ACS Med Chem Lett. 2013;4:964–8.
Article
CAS
PubMed
PubMed Central
Google Scholar
Sidrauski C, Acosta-Alvear D, Khoutorsky A, Vedantham P, Hearn BR, Li H, et al. Pharmacological brake-release of mRNA translation enhances cognitive memory. eLife. 2013;2:e00498.
Article
PubMed
PubMed Central
Google Scholar
Halliday M, Radford H, Sekine Y, Moreno J, Verity N, le Quesne J, et al. Partial restoration of protein synthesis rates by the small molecule ISRIB prevents neurodegeneration without pancreatic toxicity. Cell Death Dis. 2015;6:e1672.
Article
CAS
PubMed
PubMed Central
Google Scholar
Wong YL, LeBon L, Edalji R, Lim HB, Sun C, Sidrauski C. The small molecule ISRIB rescues the stability and activity of vanishing white matter disease eIF2B mutant complexes. eLife. 2018;7:e32733.
Article
PubMed
PubMed Central
Google Scholar
Wong YL, LeBon L, Basso AM, Kohlhaas KL, Nikkel AL, Robb HM, et al. eIF2B activator prevents neurological defects caused by a chronic integrated stress response. eLife. 2019;8:e42940.
Article
PubMed
PubMed Central
Google Scholar
Tsai JC, Miller-Vedam LE, Anand AA, Jaishankar P, Nguyen HC, Renslo AR, et al. Structure of the nucleotide exchange factor eIF2B reveals mechanism of memory-enhancing molecule. Science. 2018;359:eaaq0939.
Article
PubMed
PubMed Central
Google Scholar
Zyryanova AF, Weis F, Faille A, Alard AA, Crespillo-Casado A, Sekine Y, et al. Binding of ISRIB reveals a regulatory site in the nucleotide exchange factor eIF2B. Science. 2018;359:1533–6.
Article
CAS
PubMed
PubMed Central
Google Scholar
Mahameed M, Boukeileh S, Obiedat A, Darawshi O, Dipta P, Rimon A, et al. Pharmacological induction of selective endoplasmic reticulum retention as a strategy for cancer therapy. Nat Commun. 2020;11:1304.
Article
CAS
PubMed
PubMed Central
Google Scholar
Zyryanova AF, Kashiwagi K, Rato C, Harding HP, Crespillo-Casado A, Perera LA, et al. ISRIB blunts the integrated stress response by Allosterically Antagonising the inhibitory effect of phosphorylated eIF2 on eIF2B. Mol Cell. 2021;81:88–103.e6.
Article
CAS
PubMed
PubMed Central
Google Scholar
Schoof M, Boone M, Wang L, Lawrence R, Frost A, Walter P. eIF2B conformation and assembly state regulate the integrated stress response. eLife. 2021;10:e65703.
Article
CAS
PubMed
PubMed Central
Google Scholar
Tartaglia M, Niemeyer CM, Fragale A, Song X, Buechner J, Jung A, et al. Somatic mutations in PTPN11 in juvenile myelomonocytic leukemia, myelodysplastic syndromes and acute myeloid leukemia. Nat Genet. 2003;34:148–50.
Article
CAS
PubMed
Google Scholar
Xu R, Yu Y, Zheng S, Zhao X, Dong Q, He Z, et al. Overexpression of Shp2 tyrosine phosphatase is implicated in leukemogenesis in adult human leukemia. Blood. 2005;106:3142–9.
Article
CAS
PubMed
PubMed Central
Google Scholar
Jassal B, Matthews L, Viteri G, Gong C, Lorente P, Fabregat A, et al. The reactome pathway knowledgebase. Nucleic Acids Res. 2019;48:gkz1031.
Article
Google Scholar
Merchant AA, Matsui W. Targeting hedgehog — a Cancer stem cell pathway. Clin Cancer Res. 2010;16:3130–40.
Article
CAS
PubMed
PubMed Central
Google Scholar
Agarwal P, Zhang B, Ho Y, Cook A, Li L, Mikhail FM, et al. Enhanced targeting of CML stem and progenitor cells by inhibition of porcupine acyltransferase in combination with TKI. Blood. 2017;129:1008–20.
Article
CAS
PubMed
PubMed Central
Google Scholar
Tusa I, Cheloni G, Poteti M, Gozzini A, DeSouza NH, Shan Y, et al. Targeting the extracellular signal-regulated kinase 5 pathway to suppress human chronic myeloid leukemia stem cells. Stem Cell Rep. 2018;11:929–43.
Article
CAS
Google Scholar
Mazurkiewicz M, Hillert E-K, Wang X, Pellegrini P, Olofsson MH, Selvaraju K, et al. Acute lymphoblastic leukemia cells are sensitive to disturbances in protein homeostasis induced by proteasome deubiquitinase inhibition. Oncotarget. 2017;8:21115–27.
Article
PubMed
PubMed Central
Google Scholar
Williams MS, Amaral FMR, Simeoni F, Somervaille TCP. A stress-responsive enhancer induces dynamic drug resistance in acute myeloid leukemia. J Clin Invest. 2020;130:1217–32.
Article
CAS
PubMed
PubMed Central
Google Scholar
Bugallo R, Marlin E, Baltanás A, Toledo E, Ferrero R, Vinueza-Gavilanes R, et al. Fine tuning of the unfolded protein response by ISRIB improves neuronal survival in a model of amyotrophic lateral sclerosis. Cell Death Dis. 2020;11:397.
Article
CAS
PubMed
PubMed Central
Google Scholar
Krishnamoorthy J, Rajesh K, Mirzajani F, Kesoglidou P, Papadakis A, Koromilas AE. Evidence for eIF2α phosphorylation-independent effects of GSK2656157, a novel catalytic inhibitor of PERK with clinical implications. Cell Cycle. 2014;13:801–6.
Article
CAS
PubMed
PubMed Central
Google Scholar
Rojas-Rivera D, Delvaeye T, Roelandt R, Nerinckx W, Augustyns K, Vandenabeele P, et al. When PERK inhibitors turn out to be new potent RIPK1 inhibitors: critical issues on the specificity and use of GSK2606414 and GSK2656157. Cell Death Differ. 2017;24:1100–10.
Article
CAS
PubMed
PubMed Central
Google Scholar
Hughes DT, Halliday M, Smith HL, Verity NC, Molloy C, Radford H, et al. Targeting the kinase insert loop of PERK selectively modulates PERK signaling without systemic toxicity in mice. Sci Signal. 2020;13:eabb4749.
Article
CAS
PubMed
Google Scholar
Costa-Mattioli M, Walter P. The integrated stress response: from mechanism to disease. Science. 2020;368:eaat5314.
Article
CAS
PubMed
PubMed Central
Google Scholar
Krukowski K, Nolan A, Frias ES, Boone M, Ureta G, Grue K, et al. Small molecule cognitive enhancer reverses age-related memory decline in mice. eLife. 2020;9:e62048.
Article
CAS
PubMed
PubMed Central
Google Scholar
Palam LR, Gore J, Craven KE, Wilson JL, Korc M. Integrated stress response is critical for gemcitabine resistance in pancreatic ductal adenocarcinoma. Cell Death Dis. 2015;6:e1913.
Article
CAS
PubMed
PubMed Central
Google Scholar
Markouli M, Strepkos D, Papavassiliou AG, Piperi C. Targeting of endoplasmic reticulum (ER) stress in gliomas. Pharmacol Res. 2020;157:104823.
Article
CAS
PubMed
Google Scholar
Kurata M, Yamazaki Y, Kanno Y, Ishibashi S, Takahara T, Kitagawa M, et al. Anti-apoptotic function of Xbp1 as an IL-3 signaling molecule in hematopoietic cells. Cell Death Dis. 2011;2:e118.
Article
CAS
PubMed
PubMed Central
Google Scholar
Tsuru A, Imai Y, Saito M, Kohno K. Novel mechanism of enhancing IRE1α-XBP1 signalling via the PERK-ATF4 pathway. Sci Rep. 2016;6:24217.
Article
CAS
PubMed
PubMed Central
Google Scholar
Stasik S, Eckardt J-N, Kramer M, Röllig C, Krämer A, Scholl S, et al. Impact of PTPN11 mutations on clinical outcome analyzed in 1529 patients with acute myeloid leukemia. Blood Adv. 2021;5:3279–89.
Article
CAS
PubMed
PubMed Central
Google Scholar
Nelson EA, Walker SR, Weisberg E, Bar-Natan M, Barrett R, Gashin LB, et al. The STAT5 inhibitor pimozide decreases survival of chronic myelogenous leukemia cells resistant to kinase inhibitors. Blood. 2011;117:3421–9.
Article
CAS
PubMed
PubMed Central
Google Scholar
Hamilton A, Helgason GV, Schemionek M, Zhang B, Myssina S, Allan EK, et al. Chronic myeloid leukemia stem cells are not dependent on Bcr-Abl kinase activity for their survival. Blood. 2012;119:1501–10.
Article
CAS
PubMed
PubMed Central
Google Scholar
Martín-Rodríguez P, Guerra B, Hueso-Falcón I, Aranda-Tavío H, Díaz-Chico J, Quintana J, et al. A novel Naphthoquinone-Coumarin hybrid that inhibits BCR-ABL1-STAT5 oncogenic pathway and reduces survival in Imatinib-resistant chronic Myelogenous leukemia cells. Front Pharmacol. 2019;9:1546.
Article
PubMed
PubMed Central
Google Scholar
Toda J, Ichii M, Oritani K, Shibayama H, Tanimura A, Saito H, et al. Signal-transducing adapter protein-1 is required for maintenance of leukemic stem cells in CML. Oncogene. 2020;39:5601–15.
Article
CAS
PubMed
PubMed Central
Google Scholar
Kesarwani M, Kincaid Z, Gomaa A, Huber E, Rohrabaugh S, Siddiqui Z, et al. Targeting c-FOS and DUSP1 abrogates intrinsic resistance to tyrosine-kinase inhibitor therapy in BCR-ABL-induced leukemia. Nat Med. 2017;23:472–82.
Article
CAS
PubMed
PubMed Central
Google Scholar
Aboudola S, Murugesan G, Szpurka H, Ramsingh G, Zhao X, Prescott N, et al. Bone marrow Phospho-STAT5 expression in non-CML chronic Myeloproliferative disorders correlates with JAK2 V617F mutation and provides evidence of in vivo JAK2 activation. Am J Surg Pathol. 2007;31:233–9.
Article
PubMed
Google Scholar
Wingelhofer B, Maurer B, Heyes EC, Cumaraswamy AA, Berger-Becvar A, de Araujo ED, et al. Pharmacologic inhibition of STAT5 in acute myeloid leukemia. Leukemia. 2018;32:1135–46.
Article
CAS
PubMed
PubMed Central
Google Scholar
Curran E, Corrales L, Kline J. Targeting the innate immune system as immunotherapy for acute myeloid leukemia. Front Oncol. 2015;5:83.
Article
PubMed
PubMed Central
Google Scholar
Minchenko DO, Riabovol OO, Tsymbal DO, Ratushna OO, Minchenko OH. Inhibition of IRE1 signaling affects the expression of genes encoded glucocorticoid receptor and some related factors and their hypoxic regulation in U87 glioma cells. Endocr Regul. 2016;50:127–36.
Article
CAS
PubMed
Google Scholar
Chao MP, Takimoto CH, Feng DD, McKenna K, Gip P, Liu J, et al. Therapeutic targeting of the macrophage immune checkpoint CD47 in myeloid malignancies. Front Oncol. 2020;9:1380.
Article
PubMed
PubMed Central
Google Scholar
Arruga F, Gyau BB, Iannello A, Vitale N, Vaisitti T, Deaglio S. Immune response dysfunction in chronic lymphocytic leukemia: dissecting molecular mechanisms and microenvironmental conditions. Int J Mol Sci. 2020;21:1825.
Article
CAS
PubMed
PubMed Central
Google Scholar