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  1. Article ; Online: Early-Onset Colorectal Cancer Somatic Gene Mutations by Population Subgroups.

    Shen, Xinyi / DeWan, Andrew T / Johnson, Caroline H

    Cancer discovery

    2023  Volume 13, Issue 3, Page(s) 530–531

    Abstract: Summary: In this issue of Cancer Discovery, Holowatyj and colleagues uncover racial/ethnic and sex heterogeneity in somatic mutations among patients with early-onset colorectal cancer. The findings shed light on a deeper understanding of complex ... ...

    Abstract Summary: In this issue of Cancer Discovery, Holowatyj and colleagues uncover racial/ethnic and sex heterogeneity in somatic mutations among patients with early-onset colorectal cancer. The findings shed light on a deeper understanding of complex biological and genetic mechanisms for colorectal cancer in diverse populations. See related article by Holowatyj et al., p. 570 (6).
    MeSH term(s) Female ; Male ; Humans ; Sex Characteristics ; Colorectal Neoplasms/genetics ; Genes, Neoplasm ; Mutation
    Language English
    Publishing date 2023-02-28
    Publishing country United States
    Document type Editorial ; Research Support, Non-U.S. Gov't ; Comment
    ZDB-ID 2625242-9
    ISSN 2159-8290 ; 2159-8274
    ISSN (online) 2159-8290
    ISSN 2159-8274
    DOI 10.1158/2159-8290.CD-22-1464
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  2. Article ; Online: Targeting ferroptosis to treat colorectal cancer.

    Yan, Hong / Talty, Ronan / Johnson, Caroline H

    Trends in cell biology

    2022  Volume 33, Issue 3, Page(s) 185–188

    Abstract: Ferroptosis has emerged as a promising target for colorectal cancer (CRC) treatment. Although disrupting glutathione metabolism is the primary strategy for ferroptosis induction, additional key pathways link ferroptosis to CRC pathogenesis. Here, we ... ...

    Abstract Ferroptosis has emerged as a promising target for colorectal cancer (CRC) treatment. Although disrupting glutathione metabolism is the primary strategy for ferroptosis induction, additional key pathways link ferroptosis to CRC pathogenesis. Here, we discuss arachidonic acid (AA), energy metabolism, AMP-activated protein kinase (AMPK), phosphatidylinositol-3-kinase (PI3K)-protein kinase B (Akt)-mammalian target of rapamycin (mTOR), and Hippo signaling, summarize key findings, and propose new conceptual avenues for CRC treatment.
    MeSH term(s) Humans ; Signal Transduction ; Ferroptosis ; Colorectal Neoplasms/drug therapy ; Colorectal Neoplasms/metabolism ; Colorectal Neoplasms/pathology
    Language English
    Publishing date 2022-12-03
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
    ZDB-ID 30122-x
    ISSN 1879-3088 ; 0962-8924
    ISSN (online) 1879-3088
    ISSN 0962-8924
    DOI 10.1016/j.tcb.2022.11.003
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  3. Article ; Online: Ferroptosis in colorectal cancer: a future target?

    Yan, Hong / Talty, Ronan / Aladelokun, Oladimeji / Bosenberg, Marcus / Johnson, Caroline H

    British journal of cancer

    2023  Volume 128, Issue 8, Page(s) 1439–1451

    Abstract: Colorectal cancer (CRC) is the third leading cause of cancer deaths worldwide and is characterised by frequently mutated genes, such as APC, TP53, KRAS and BRAF. The current treatment options of chemotherapy, radiation therapy and surgery are met with ... ...

    Abstract Colorectal cancer (CRC) is the third leading cause of cancer deaths worldwide and is characterised by frequently mutated genes, such as APC, TP53, KRAS and BRAF. The current treatment options of chemotherapy, radiation therapy and surgery are met with challenges such as cancer recurrence, drug resistance, and overt toxicity. CRC therapies exert their efficacy against cancer cells by activating biological pathways that contribute to various forms of regulated cell death (RCD). In 2012, ferroptosis was discovered as an iron-dependent and lipid peroxide-driven form of RCD. Recent studies suggest that therapies which target ferroptosis are promising treatment strategies for CRC. However, a greater understanding of the mechanisms of ferroptosis initiation, propagation, and resistance in CRC is needed. This review provides an overview of recent research in ferroptosis and its potential role as a therapeutic target in CRC. We also propose future research directions that could help to enhance our understanding of ferroptosis in CRC.
    MeSH term(s) Humans ; Ferroptosis ; Iron ; Lipid Peroxides ; Colorectal Neoplasms/genetics ; Colorectal Neoplasms/therapy
    Chemical Substances Iron (E1UOL152H7) ; Lipid Peroxides
    Language English
    Publishing date 2023-01-26
    Publishing country England
    Document type Journal Article ; Review ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 80075-2
    ISSN 1532-1827 ; 0007-0920
    ISSN (online) 1532-1827
    ISSN 0007-0920
    DOI 10.1038/s41416-023-02149-6
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  4. Article ; Online: Sp2 regulates late neurogenic but not early expansive divisions of neural stem cells underlying population growth in the mouse cortex.

    Johnson, Caroline A / Ghashghaei, H Troy

    Development (Cambridge, England)

    2020  Volume 147, Issue 4

    Abstract: Cellular and molecular mechanisms underlying the switch from self-amplification of cortical stem cells to neuronal and glial generation are incompletely understood, despite their importance for neural development. Here, we have investigated the role of ... ...

    Abstract Cellular and molecular mechanisms underlying the switch from self-amplification of cortical stem cells to neuronal and glial generation are incompletely understood, despite their importance for neural development. Here, we have investigated the role of the transcription factor specificity protein 2 (Sp2) in expansive and neurogenic divisions of the developing cerebral cortex by combining conditional genetic deletion with the mosaic analysis with double markers (MADM) system in mice. We find that loss of Sp2 in progenitors undergoing neurogenic divisions results in prolonged mitosis due to extension of early mitotic stages. This disruption is correlated with depletion of the populations of upper layer neurons in the cortex. In contrast, early cortical neural stem cells proliferate and expand normally in the absence of Sp2. These results indicate a stage-specific requirement for Sp2 in neural stem and progenitor cells, and reveal mechanistic differences between the early expansive and later neurogenic periods of cortical development.This article has an associated 'The people behind the papers' interview.
    MeSH term(s) Alleles ; Animals ; Cell Differentiation ; Cell Division ; Cell Lineage ; Cell Proliferation ; Cerebral Cortex/embryology ; Female ; Gene Deletion ; Genetic Markers ; Male ; Mice ; Mice, Transgenic ; Mitosis ; Mutation ; Neural Stem Cells/cytology ; Phenotype ; Sp2 Transcription Factor/genetics ; Sp2 Transcription Factor/physiology
    Chemical Substances Genetic Markers ; Sp2 Transcription Factor (148710-93-4)
    Language English
    Publishing date 2020-02-21
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 90607-4
    ISSN 1477-9129 ; 0950-1991
    ISSN (online) 1477-9129
    ISSN 0950-1991
    DOI 10.1242/dev.186056
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  5. Article ; Online: In silico designed mRNA vaccines targeting CA-125 neoantigen in breast and ovarian cancer.

    Lu, Lingeng / Ma, Wenxue / Johnson, Caroline H / Khan, Sajid A / Irwin, Melinda L / Pusztai, Lajos

    Vaccine

    2023  Volume 41, Issue 12, Page(s) 2073–2083

    Abstract: Somatic mutation-derived neoantigens are associated with patient survival in breast and ovarian cancer. These neoantigens are targets for cancer, as shown by the implementation of neoepitope peptides as cancer vaccines. The success of cost-effective ... ...

    Abstract Somatic mutation-derived neoantigens are associated with patient survival in breast and ovarian cancer. These neoantigens are targets for cancer, as shown by the implementation of neoepitope peptides as cancer vaccines. The success of cost-effective multi-epitope mRNA vaccines against SARS-Cov-2 in the pandemic established a model for reverse vaccinology. In this study, we aimed to develop an in silico pipeline designing an mRNA vaccine of the CA-125 neoantigen against breast and ovarian cancer, respectively. Using immuno-bioinformatics tools, we predicted cytotoxic CD8
    MeSH term(s) Female ; Humans ; Antigens, Neoplasm/genetics ; Cancer Vaccines ; Epitopes, T-Lymphocyte/genetics ; Ovarian Neoplasms/therapy ; mRNA Vaccines ; CA-125 Antigen
    Chemical Substances Antigens, Neoplasm ; Cancer Vaccines ; Epitopes, T-Lymphocyte ; mRNA Vaccines ; CA-125 Antigen
    Language English
    Publishing date 2023-02-20
    Publishing country Netherlands
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 605674-x
    ISSN 1873-2518 ; 0264-410X
    ISSN (online) 1873-2518
    ISSN 0264-410X
    DOI 10.1016/j.vaccine.2023.02.048
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  6. Article: Corrigendum: Case report: A patient with Delayed Sleep-Wake Phase Disorder and Optic Nerve Hypoplasia treated with tasimelteon: a case study.

    Smieszek, Sandra P / Kaden, Alyssa R / Johnson, Caroline E / Brzezynski, Jennifer L / Xiao, Changfu / Polymeropoulos, Christos M / Birznieks, Gunther / Emsellem, Helene A / Polymeropoulos, Mihael H

    Frontiers in neuroscience

    2024  Volume 17, Page(s) 1344915

    Abstract: This corrects the article DOI: 10.3389/fnins.2023.1287514.]. ...

    Abstract [This corrects the article DOI: 10.3389/fnins.2023.1287514.].
    Language English
    Publishing date 2024-01-08
    Publishing country Switzerland
    Document type Published Erratum
    ZDB-ID 2411902-7
    ISSN 1662-453X ; 1662-4548
    ISSN (online) 1662-453X
    ISSN 1662-4548
    DOI 10.3389/fnins.2023.1344915
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  7. Article ; Online: A century of the Warburg effect.

    Thompson, Craig B / Vousden, Karen H / Johnson, Randall S / Koppenol, Willem H / Sies, Helmut / Lu, Zhimin / Finley, Lydia W S / Frezza, Christian / Kim, Jiyeon / Hu, Zeping / Bartman, Caroline R

    Nature metabolism

    2023  Volume 5, Issue 11, Page(s) 1840–1843

    Language English
    Publishing date 2023-11-21
    Publishing country Germany
    Document type Journal Article
    ISSN 2522-5812
    ISSN (online) 2522-5812
    DOI 10.1038/s42255-023-00927-3
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  8. Article: Asparagine synthetase and G-protein coupled estrogen receptor are critical responders to nutrient supply in

    Lu, Lingeng / Zhang, Qian / Shen, Xinyi / Zhen, Pinyi / Marin, Audrey / Garcia-Milian, Rolando / Roper, Jatin / Khan, Sajid A / Johnson, Caroline H

    bioRxiv : the preprint server for biology

    2023  

    Abstract: The nutrient status of the tumor microenvironment has major impacts on cell growth. Under nutrient depletion, asparagine synthetase (ASNS)-mediated asparagine production increases to sustain cell survival. G protein-coupled estrogen receptor-1 (GPER1) ... ...

    Abstract The nutrient status of the tumor microenvironment has major impacts on cell growth. Under nutrient depletion, asparagine synthetase (ASNS)-mediated asparagine production increases to sustain cell survival. G protein-coupled estrogen receptor-1 (GPER1) signaling converges via cAMP/PI3K/AKT with KRAS signaling to regulate
    Language English
    Publishing date 2023-05-05
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.05.05.539577
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  9. Article ; Online: TidyMass an object-oriented reproducible analysis framework for LC-MS data.

    Shen, Xiaotao / Yan, Hong / Wang, Chuchu / Gao, Peng / Johnson, Caroline H / Snyder, Michael P

    Nature communications

    2022  Volume 13, Issue 1, Page(s) 4365

    Abstract: Reproducibility, traceability, and transparency have been long-standing issues for metabolomics data analysis. Multiple tools have been developed, but limitations still exist. Here, we present the tidyMass project ( https://www.tidymass.org/ ), a ... ...

    Abstract Reproducibility, traceability, and transparency have been long-standing issues for metabolomics data analysis. Multiple tools have been developed, but limitations still exist. Here, we present the tidyMass project ( https://www.tidymass.org/ ), a comprehensive R-based computational framework that can achieve the traceable, shareable, and reproducible workflow needs of data processing and analysis for LC-MS-based untargeted metabolomics. TidyMass is an ecosystem of R packages that share an underlying design philosophy, grammar, and data structure, which provides a comprehensive, reproducible, and object-oriented computational framework. The modular architecture makes tidyMass a highly flexible and extensible tool, which other users can improve and integrate with other tools to customize their own pipeline.
    MeSH term(s) Chromatography, Liquid ; Ecosystem ; Metabolomics ; Reproducibility of Results ; Software ; Tandem Mass Spectrometry ; Workflow
    Language English
    Publishing date 2022-07-28
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2553671-0
    ISSN 2041-1723 ; 2041-1723
    ISSN (online) 2041-1723
    ISSN 2041-1723
    DOI 10.1038/s41467-022-32155-w
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  10. Article ; Online: TidyMass an object-oriented reproducible analysis framework for LC–MS data

    Xiaotao Shen / Hong Yan / Chuchu Wang / Peng Gao / Caroline H. Johnson / Michael P. Snyder

    Nature Communications, Vol 13, Iss 1, Pp 1-

    2022  Volume 12

    Abstract: Reproducibility, traceability, and transparency have been long-standing issues in metabolomics data analysis. Here, the authors present tidyMass, an R-based computational framework that allows designing traceable, shareable, and reproducible data ... ...

    Abstract Reproducibility, traceability, and transparency have been long-standing issues in metabolomics data analysis. Here, the authors present tidyMass, an R-based computational framework that allows designing traceable, shareable, and reproducible data processing and analysis workflows for untargeted metabolomics.
    Keywords Science ; Q
    Language English
    Publishing date 2022-07-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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