Abstract
Long non-coding RNAs are known to play multiple roles in the complex machinery of the cell. However, their recent addition to genomic research has increased the complexity of gene expression analyses. In this work, we perform a computational study that aims to contribute to the current understanding of the mechanisms that underlie the experimentally suggested interaction between the lncRNA Fendrr and FoxF1 lung cancer tumor suppressor in carcinogenesis. Results suggest that there exists indeed a multi-level interaction between Fendrr and FoxF1 promoter region, both direct via RNA-DNA:DNA triplex domain formation or mediated by proteins that interact simultaneously with the promoter region of FoxF1 and Fendrr transcripts. Moreover, the applied computational methodology can serve as a pipeline to process any candidate lncRNA-gene pair of interest and obtain putative sources of lncRNA-gene interaction.
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Acknowledgements
This work has been funded as part of projects PI-0710-2013 of J. A., Sevilla and TIN2013-41990-R of DGICT, Madrid and from FEDER. C. Navarro’s work is funded as part of a FPU grant by the Spanish Ministry of Education, Culture and Sports.
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Navarro, C., Cano, C., Cuadros, M., Herrera-Merchan, A., Molina, M., Blanco, A. (2016). A Mechanistic Study of lncRNA Fendrr Regulation of FoxF1 Lung Cancer Tumor Supressor. In: Ortuño, F., Rojas, I. (eds) Bioinformatics and Biomedical Engineering. IWBBIO 2016. Lecture Notes in Computer Science(), vol 9656. Springer, Cham. https://doi.org/10.1007/978-3-319-31744-1_67
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DOI: https://doi.org/10.1007/978-3-319-31744-1_67
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