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Chromosome 1p status in neuroblastoma correlates with higher expression levels of miRNAs targeting neuronal differentiation pathway

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Abstract

Neuroblastoma (NB) is characterized by acquired segmental and numerical chromosome aberrations. Although deletions of distal 1p and 11q are frequent alterations, no candidate tumor suppressor gene residing in these chromosomal sites could be identified so far. In the present study, we detected the genomic imbalances of six neuroblastoma cell lines using the multiplex ligation-dependent probe amplification (MLPA) technique and the microRNA (miRNA) expression profiles of the cell lines by a microarray study. According to MLPA results, we aimed to assess the miRNA expression profiles of the cell lines harboring 11q and 1p deletions. The cell lines with 1p deletions revealed statistically significant higher levels of expression for 29 miRNAs in contrast to the cell lines without 1p deletion in microarray study. We also performed GO enrichment analysis for predicted targets of the differentially expressed miRNAs. According to GO enrichment analysis, miRNAs that showed the high change in expression was associated with neuronal differentiation. We showed that hsa-miR-494, hsa-miR-495, and hsa-miR-543 target most of mRNAs in neuronal differentiation pathway. Although limited to the cell lines, our results highly suggest that NBs with different segmental chromosome abnormalities may have different dysregulated miRNA expression signatures that target the genes involved in neuronal differentiation.

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Data Availability

The all datasets supporting the findings of this study are available within the article and its supplementary information files.

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Funding

This study was sponsored by the Dokuz Eylül University Research Fund, Project 2009.KB.SAG. 021 (to Oguz Altungoz).

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  1. Department of Medical Biology and Genetics, School of Medicine, Dokuz Eylul University, 35340, Balcova, Izmir, Turkey

    Ozkan Bagci, Sait Tumer & Oguz Altungoz

  2. Department of Medical Genetics, School of Medicine, Selcuk University, Konya, Turkey

    Ozkan Bagci

  3. Acibadem Genetic Diagnosis Center, Istanbul, Turkey

    Sait Tumer

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  1. Ozkan Bagci
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Bagci, O., Tumer, S. & Altungoz, O. Chromosome 1p status in neuroblastoma correlates with higher expression levels of miRNAs targeting neuronal differentiation pathway. In Vitro Cell.Dev.Biol.-Animal 59, 100–108 (2023). https://doi.org/10.1007/s11626-023-00750-w

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