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Cancer

  • Identification of single-cell blasts in pediatric acute myeloid leukemia using an autoencoder
    Open Access
    Identification of single-cell blasts in pediatric acute myeloid leukemia using an autoencoder

    Alice Driessen, Susanne Unger, An-phi Nguyen, Rhonda E Ries, Soheil Meshinchi, Stefanie Kreutmair, Chiara Alberti, Pavel Sumazin, Richard Aplenc, Michele S Redell, Burkhard Becher, María Rodríguez Martínez

    Alice Driessen ... María Rodríguez Martínez

    Published 27 August 2024

    The authors present a novel automated approach for the identification of blasts and their developmental stage in a longitudinal pediatric acute myeloid leukemia (AML) cohort. KMT2A-rearranged AMLs show unstable immunophenotype, with most patients presenting a more differentiated phenotype at relapse.

  • <em>Helicobacter pylori</em> induces the expression of Lgr5 and stem cell properties in gastric target cells
    Open Access
    Helicobacter pylori induces the expression of Lgr5 and stem cell properties in gastric target cells

    Zuzana Nascakova, Jiazhuo He, Giovanni Papa, Biel Francas, Flora Azizi, Anne Müller

    Zuzana Nascakova ... Anne Müller

    Published 27 August 2024

    Helicobacter pylori infection induces Lgr5 expression and stem cell properties in its target cells in a type IV secretion system/NF-kB-dependent manner. This effect on stemness is exacerbated by constitutive Wnt pathway activation and persists after antibiotic eradication.

  • Reprogramming of breast tumor–associated macrophages with modulation of arginine metabolism
    Open Access
    Reprogramming of breast tumor–associated macrophages with modulation of arginine metabolism

    Veani Fernando, Xunzhen Zheng, Vandana Sharma, Osama Sweef, Eun-Seok Choi, Saori Furuta

    Veani Fernando ... Saori Furuta

    Published 27 August 2024

    A shift of arginine metabolism from polyamine synthesis to nitric oxide synthesis induces reprogramming of macrophages from pro-tumor M2 to anti-tumor M1 types.

  • PPM1G dephosphorylates eIF4E in control of mRNA translation and cell proliferation
    Open Access
    PPM1G dephosphorylates eIF4E in control of mRNA translation and cell proliferation

    Peng Wang, Zixian Li, Sung-Hoon Kim, Haijin Xu, Hao Huang, Chutong Yang, Abby Snape, Jung-Hyun Choi, Sara Bermudez, Marie-Noelle Boivin, Nicolas Ferry, Jason Karamchandani, Bhushan Nagar, Nahum Sonenberg

    Peng Wang ... Nahum Sonenberg

    Published 7 August 2024

    PPM1G inhibits cell proliferation by targeting phospho-eIF4E–dependent mRNA translation.

  • A large-scale cancer-specific protein–DNA interaction network
    Open Access
    A large-scale cancer-specific protein–DNA interaction network

    Yunwei Lu, Anna Berenson, Ryan Lane, Isabelle Guelin, Zhaorong Li, Yilin Chen, Sakshi Shah, Meimei Yin, Luis Fernando Soto-Ugaldi, Ana Fiszbein, Juan Ignacio Fuxman Bass

    Yunwei Lu ... Juan Ignacio Fuxman Bass

    Published 16 July 2024

    This study delineates a large-scale cancer gene TF-DNA interaction network, highlighting potential oncogene-targeted therapeutics and complex TF roles in gene regulation. This study also offers a valuable resource for future research in cancer gene regulation and for therapeutic development.

  • E3 ligases RNF43 and ZNRF3 display differential specificity for endocytosis of Frizzled receptors
    Open Access
    E3 ligases RNF43 and ZNRF3 display differential specificity for endocytosis of Frizzled receptors

    Jeroen M Bugter, Peter van Kerkhof, Ingrid Jordens, Eline Janssen, Thi Tran Ngoc Minh, Daniel Iglesias van Montfort, Cara Jamieson, Madelon M Maurice

    Jeroen M Bugter ... Madelon M Maurice

    Published 5 July 2024

    Transmembrane E3 ligases RNF43 and ZNRF3 selectively target specific Frizzled receptors to suppress WNT signalling, offering an explanation for the cancer tissue-specific distribution of RNF43 and ZNRF3 mutations.

  • Open Access
    Correction: A consensus molecular subtypes classification strategy for clinical colorectal cancer tissues

    Tim R de Back, Tan Wu, Pascale JM Schafrat, Sanne ten Hoorn, Miaomiao Tan, Lingli He, Sander R van Hooff, Jan Koster, Lisanne E Nijman, Geraldine R Vink, Inès J Beumer, Clara C Elbers, Kristiaan J Lenos, Dirkje W Sommeijer, Xin Wang, Louis Vermeulen

    Tim R de Back ... Louis Vermeulen

    Published 27 June 2024

    This work presents a novel consensus molecular subtype (CMS) classifier for colorectal cancer (CRC), optimized for RNA-sequencing data stemming from degraded RNA of clinical formalin-fixed paraffin-embedded (FFPE) tissue samples (the CMSFFPE classifier).

  • The type of DNA damage response after decitabine treatment depends on the level of DNMT activity
    Open Access
    The type of DNA damage response after decitabine treatment depends on the level of DNMT activity

    Tina Aumer, Maike Däther, Linda Bergmayr, Stephanie Kartika, Theodor Zeng, Qingyi Ge, Grazia Giorgio, Alexander J Hess, Stylianos Michalakis, Franziska R Traube

    Tina Aumer ... Franziska R Traube

    Published 21 June 2024

    Chromatin-centred proteomics study in stem cells with different DNMT expression levels and activities reveals that decitabine invokes different DNA damage responses depending on the amount of the induced DNA-DNMT crosslinks.

  • Nono induces Gadd45b to mediate DNA repair
    Open Access
    Nono induces Gadd45b to mediate DNA repair

    Victoria Mamontova, Barbara Trifault, Kaspar Burger

    Victoria Mamontova ... Kaspar Burger

    Published 6 June 2024

    RNA-binding proteins are often deregulated in tumours, and this study reveals that the multifunctional splicing factor Nono promotes the induction of the DNA repair factor Gadd45b to prevent genome instability in murine non–small-cell lung cancer cells.

  • A consensus molecular subtypes classification strategy for clinical colorectal cancer tissues
    Open Access
    A consensus molecular subtypes classification strategy for clinical colorectal cancer tissues

    Tim R de Back, Tan Wu, Pascale JM Schafrat, Sanne ten Hoorn, Miaomiao Tan, Lingli He, Sander R van Hooff, Jan Koster, Lisanne E Nijman, Geraldine R Vink, Inès J Beumer, Clara C Elbers, Kristiaan J Lenos, Dirkje W Sommeijer, Xin Wang, Louis Vermeulen

    Tim R de Back ... Louis Vermeulen

    Published 23 May 2024

    This work presents a novel Consensus Molecular Subtypes (CMS) classifier for colorectal cancer (CRC), optimized for RNA-sequencing data stemming from degraded RNA of clinical formalin-fixed paraffin-embedded (FFPE) tissue samples (the CMSFFPE classifier).

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