Exploration of novel candidate genes involved in epidermal keratinocyte differentiation and skin barrier repair in man

Zhang, Hanqian; Weström, Simone; Kappelin, Per; Virtanen, Marie; Vahlquist, Anders; Törmä, Hans

doi:10.1016/j.diff.2021.04.001

Cited by 5 publications

(3 citation statements)

References 70 publications

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“…7 , Supplementary Table S13 ). TMEM86A is a lysoplasmalogenase that may be important for regulating keratinocyte membrane properties in terminal differentiation cells 128 proposed as a candidate for tumor surface antigen in HER2 ampl BC, which coincides with our results 129 . CAPN9 , the calpains are intracellular cysteine proteases that function in various important cellular processes, including signaling, motility, apoptosis, and cellular survival 130 .…”

Section: Resultssupporting

confidence: 91%

Identification of modules and key genes associated with breast cancer subtypes through network analysis

Mares-Quiñones,

Galán-Vásquez,

Pérez-Rueda

et al. 2024

Sci Rep

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Breast cancer is the most common malignancy in women around the world. Intratumor and intertumoral heterogeneity persist in mammary tumors. Therefore, the identification of biomarkers is essential for the treatment of this malignancy. This study analyzed 28,143 genes expressed in 49 breast cancer cell lines using a Weighted Gene Co-expression Network Analysis to determine specific target proteins for Basal A, Basal B, Luminal A, Luminal B, and HER2 ampl breast cancer subtypes. Sixty-five modules were identified, of which five were characterized as having a high correlation with breast cancer subtypes. Genes overexpressed in the tumor were found to participate in the following mechanisms: regulation of the apoptotic process, transcriptional regulation, angiogenesis, signaling, and cellular survival. In particular, we identified the following genes, considered as hubs: IFIT3, an inhibitor of viral and cellular processes; ETS1, a transcription factor involved in cell death and tumorigenesis; ENSG00000259723 lncRNA, expressed in cancers; AL033519.3, a hypothetical gene; and TMEM86A, important for regulating keratinocyte membrane properties, considered as a key in Basal A, Basal B, Luminal A, Luminal B, and HER2 ampl breast cancer subtypes, respectively. The modules and genes identified in this work can be used to identify possible biomarkers or therapeutic targets in different breast cancer subtypes.

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Section: Resultssupporting

confidence: 91%

Identification of modules and key genes associated with breast cancer subtypes through network analysis

Mares-Quiñones,

Galán-Vásquez,

Pérez-Rueda

et al. 2024

Sci Rep

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“…8, Supplementary Table S13). TMEM86A is a lysoplasmalogenase that may be important for regulating keratinocyte membrane properties in terminal differentiation cells 134 proposed it as a candidate for tumor surface antigen in HER2 ampl BC, which coincides with our results 99 . CAPN9, the calpains are intracellular cysteine proteases that function in various important cellular processes, including signaling, motility, apoptosis, and cellular survival 39 .…”

Section: Correlation Network and Identi Cation Of Hub Genessupporting

confidence: 90%

Identification of modules and key genes associated with Breast Cancer subtypes through network analysis

Mares-Quiñones

Galán-Vásquez

Pérez‐Rueda

et al. 2023

Preprint

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Breast cancer is the most common malignancy in women around the world. Intratumor and intertumoral heterogeneity persist in mammary tumors. Therefore, the identification of biomarkers is essential for the treatment of this malignancy. This study analyzed 28,143 genes expressed in 49 breast cancer cell lines using a Weighted Gene Co-expression network analysis to determine specific target proteins for Basal A, Basal B, Luminal A, Luminal B and HER2 ampl breast cancer subtypes. Sixty-five modules were identified, of which five were characterized as having a high correlation with breast cancer subtypes. Genes overexpressed in the tumor were found to participate in the following mechanisms: regulation of the apoptotic process, transcriptional regulation, angiogenesis, signaling, and cellular survival. In particular, we identified the following genes, considered as hubs: IFIT3, an inhibitor of viral and cellular processes; ETS1, a transcription factor involved in cell death and tumorigenesis; ENSG00000259723 lncRNA, expressed in cancers; AL033519.3 a hypothetical gene; and TMEM86A, important for regulating keratinocyte membrane properties, considered as a key in Basal A, Basal B, Luminal A, Luminal B and HER2 ampl breast cancer subtypes, respectively. The modules and genes identified in this work can be used to identify possible biomarkers or therapeutic targets in different breast cancer subtypes.

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“…However, just during the production of the present review, a notable study was published demonstrating lysoplasmalogenase activity of TMEM86A in adipocytes and linking it to the development of obesity ( Cho et al, 2022 ). Interestingly, the TMEM86A gene was also named in a recent study as a potential regulator of human epidermal keratinocyte differentiation ( Zhang et al, 2021 ). Yet, the molecular mechanism underlying this finding remains unclear.…”

Section: Regulation Of Plasmalogens On the Cellular Levelmentioning

confidence: 99%

Regulation of plasmalogen metabolism and traffic in mammals: The fog begins to lift

Dorninger

Werner

Berger

et al. 2022

Front. Cell Dev. Biol.

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Due to their unique chemical structure, plasmalogens do not only exhibit distinct biophysical and biochemical features, but require specialized pathways of biosynthesis and metabolization. Recently, major advances have been made in our understanding of these processes, for example by the attribution of the gene encoding the enzyme, which catalyzes the final desaturation step in plasmalogen biosynthesis, or by the identification of cytochrome C as plasmalogenase, which allows for the degradation of plasmalogens. Also, models have been presented that plausibly explain the maintenance of adequate cellular levels of plasmalogens. However, despite the progress, many aspects around the questions of how plasmalogen metabolism is regulated and how plasmalogens are distributed among organs and tissues in more complex organisms like mammals, remain unresolved. Here, we summarize and interpret current evidence on the regulation of the enzymes involved in plasmalogen biosynthesis and degradation as well as the turnover of plasmalogens. Finally, we focus on plasmalogen traffic across the mammalian body – a topic of major importance, when considering plasmalogen replacement therapies in human disorders, where deficiencies in these lipids have been reported. These involve not only inborn errors in plasmalogen metabolism, but also more common diseases including Alzheimer’s disease and neurodevelopmental disorders.

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Exploration of novel candidate genes involved in epidermal keratinocyte differentiation and skin barrier repair in man

Cited by 5 publications

References 70 publications

Identification of modules and key genes associated with breast cancer subtypes through network analysis

Identification of modules and key genes associated with breast cancer subtypes through network analysis

Identification of modules and key genes associated with Breast Cancer subtypes through network analysis

Regulation of plasmalogen metabolism and traffic in mammals: The fog begins to lift

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