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  1. Article ; Conference proceedings: A Mavs-induced type I IFN pathway contributes to non-viral liver injury upon hepatic autophagy impairment

    Schneider, Farina / Lüdde, Tom / Pasparakis, Manolis / Kondylis, Evangelos

    Zeitschrift für Gastroenterologie

    2024  Volume 62, Issue 01

    Event/congress 40. Jahrestagung der Deutschen Arbeitsgemeinschaft zum Studium der Leber, Haus der Technik e.V., Essen, 2024-01-26
    Language German
    Publishing date 2024-01-01
    Publisher Georg Thieme Verlag
    Publishing place Stuttgart ; New York
    Document type Article ; Conference proceedings
    ZDB-ID 201387-3
    ISSN 1439-7803 ; 0044-2771 ; 0172-8504
    ISSN (online) 1439-7803
    ISSN 0044-2771 ; 0172-8504
    DOI 10.1055/s-0043-1777503
    Database Thieme publisher's database

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 111: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)
    Zs.A 111/X: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)

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  2. Article ; Online: RNA-sequencing of single cholangiocyte-derived organoids reveals high organoid-to organoid variability.

    Gehling, Kristin / Parekh, Swati / Schneider, Farina / Kirchner, Marcel / Kondylis, Vangelis / Nikopoulou, Chrysa / Tessarz, Peter

    Life science alliance

    2022  Volume 5, Issue 12

    Abstract: Over the last decades, organoids have been established from most of the tissue-resident stem and iPS cells. They hold great promise for our understanding of mammalian organ development, but also for the study of disease or even personalised medicine. In ... ...

    Abstract Over the last decades, organoids have been established from most of the tissue-resident stem and iPS cells. They hold great promise for our understanding of mammalian organ development, but also for the study of disease or even personalised medicine. In recent years, several reports hinted at intraculture organoid variability, but a systematic analysis of such heterogeneity has not been performed before. Here, we used RNA-seq of individual intrahepatic cholangiocyte organoids to address this question. We find that batch-to-batch variation is very low, whereas passage number has a profound impact on gene expression profiles. On the other hand, there is organoid-to-organoid variability within a culture. Using differential gene expression, we did not identify specific pathways that drive this variability, pointing towards possible effects of the microenvironment within the culture condition. Taken together, our study provides a framework for organoid researchers to properly consider experimental design.
    MeSH term(s) Animals ; Epithelial Cells ; Induced Pluripotent Stem Cells ; Mammals ; Organoids/metabolism ; RNA/metabolism ; Sequence Analysis, RNA
    Chemical Substances RNA (63231-63-0)
    Language English
    Publishing date 2022-08-01
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 2575-1077
    ISSN (online) 2575-1077
    DOI 10.26508/lsa.202101340
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: p62 Promotes Survival and Hepatocarcinogenesis in Mice with Liver-Specific NEMO Ablation.

    Kondylis, Vangelis / Schneider, Farina / Schorn, Fabian / Oikonomou, Nikos / Straub, Beate Katharina / Werner, Sabine / Rosenstiel, Philip / Pasparakis, Manolis

    Cancers

    2022  Volume 14, Issue 10

    Abstract: SQSTM1/p62 is a multitasking protein that functions as an autophagy receptor, but also as a signaling hub regulating diverse cellular pathways. p62 accumulation in mice with autophagy-deficient hepatocytes mediates liver damage and hepatocarcinogenesis ... ...

    Abstract SQSTM1/p62 is a multitasking protein that functions as an autophagy receptor, but also as a signaling hub regulating diverse cellular pathways. p62 accumulation in mice with autophagy-deficient hepatocytes mediates liver damage and hepatocarcinogenesis through Nrf2 overactivation, yet the role of the p62-Keap1-Nrf2 axis in cell death and hepatocarcinogenesis in the absence of underlying autophagy defects is less clear. Here, we addressed the role of p62 and Nrf2 activation in a chronic liver disease model, namely mice with liver parenchymal cell-specific knockout of NEMO (NEMO
    Language English
    Publishing date 2022-05-15
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2527080-1
    ISSN 2072-6694
    ISSN 2072-6694
    DOI 10.3390/cancers14102436
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Spatial and single-cell profiling of the metabolome, transcriptome and epigenome of the aging mouse liver.

    Nikopoulou, Chrysa / Kleinenkuhnen, Niklas / Parekh, Swati / Sandoval, Tonantzi / Ziegenhain, Christoph / Schneider, Farina / Giavalisco, Patrick / Donahue, Kat-Folz / Vesting, Anna Juliane / Kirchner, Marcel / Bozukova, Mihaela / Vossen, Christian / Altmüller, Janine / Wunderlich, Thomas / Sandberg, Rickard / Kondylis, Vangelis / Tresch, Achim / Tessarz, Peter

    Nature aging

    2023  Volume 3, Issue 11, Page(s) 1430–1445

    Abstract: Tissues within an organism and even cell types within a tissue can age with different velocities. However, it is unclear whether cells of one type experience different aging trajectories within a tissue depending on their spatial location. Here, we used ... ...

    Abstract Tissues within an organism and even cell types within a tissue can age with different velocities. However, it is unclear whether cells of one type experience different aging trajectories within a tissue depending on their spatial location. Here, we used spatial transcriptomics in combination with single-cell ATAC-seq and RNA-seq, lipidomics and functional assays to address how cells in the male murine liver are affected by age-related changes in the microenvironment. Integration of the datasets revealed zonation-specific and age-related changes in metabolic states, the epigenome and transcriptome. The epigenome changed in a zonation-dependent manner and functionally, periportal hepatocytes were characterized by decreased mitochondrial fitness, whereas pericentral hepatocytes accumulated large lipid droplets. Together, we provide evidence that changing microenvironments within a tissue exert strong influences on their resident cells that can shape epigenetic, metabolic and phenotypic outputs.
    MeSH term(s) Male ; Mice ; Animals ; Transcriptome/genetics ; Epigenome/genetics ; Liver/metabolism ; Hepatocytes/metabolism ; Metabolome
    Language English
    Publishing date 2023-11-09
    Publishing country United States
    Document type Journal Article
    ISSN 2662-8465
    ISSN (online) 2662-8465
    DOI 10.1038/s43587-023-00513-y
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Mitochondrial dysfunction abrogates dietary lipid processing in enterocytes.

    Moschandrea, Chrysanthi / Kondylis, Vangelis / Evangelakos, Ioannis / Herholz, Marija / Schneider, Farina / Schmidt, Christina / Yang, Ming / Ehret, Sandra / Heine, Markus / Jaeckstein, Michelle Y / Szczepanowska, Karolina / Schwarzer, Robin / Baumann, Linda / Bock, Theresa / Nikitopoulou, Efterpi / Brodesser, Susanne / Krüger, Marcus / Frezza, Christian / Heeren, Joerg /
    Trifunovic, Aleksandra / Pasparakis, Manolis

    Nature

    2023  Volume 625, Issue 7994, Page(s) 385–392

    Abstract: Digested dietary fats are taken up by enterocytes where they are assembled into pre-chylomicrons in the endoplasmic reticulum followed by transport to the Golgi for maturation and subsequent secretion to the ... ...

    Abstract Digested dietary fats are taken up by enterocytes where they are assembled into pre-chylomicrons in the endoplasmic reticulum followed by transport to the Golgi for maturation and subsequent secretion to the circulation
    MeSH term(s) Animals ; Mice ; Aspartate-tRNA Ligase/metabolism ; Chylomicrons/metabolism ; Dietary Fats/metabolism ; Electron Transport Complex II/metabolism ; Endoplasmic Reticulum/metabolism ; Enterocytes/metabolism ; Enterocytes/pathology ; Epithelial Cells/metabolism ; Golgi Apparatus/metabolism ; Intestines ; Lipid Droplets/metabolism ; Lipid Metabolism ; Mitochondria/metabolism ; Mitochondria/pathology
    Chemical Substances Aspartate-tRNA Ligase (EC 6.1.1.12) ; Chylomicrons ; COX10 protein, mouse (EC 2.5.1.-) ; Dietary Fats ; Electron Transport Complex II (EC 1.3.5.1)
    Language English
    Publishing date 2023-12-20
    Publishing country England
    Document type Journal Article
    ZDB-ID 120714-3
    ISSN 1476-4687 ; 0028-0836
    ISSN (online) 1476-4687
    ISSN 0028-0836
    DOI 10.1038/s41586-023-06857-0
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 26: Show issues Location:
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    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)
    Zs.MG 9: Show issues
    Zs.MO 244: Show issues

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