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The Many Faces of Gene Regulation in Cancer: A Computational Oncogenomics Outlook

1
Computational Genomics Division, National Institute of Genomic Medicine, Mexico City 14610, Mexico
2
Centro de Ciencias de la Complejidad, Universidad Nacional Autónoma de México, Mexico City 04510, Mexico
*
Author to whom correspondence should be addressed.
Genes 2019, 10(11), 865; https://doi.org/10.3390/genes10110865
Received: 31 July 2019 / Revised: 16 October 2019 / Accepted: 24 October 2019 / Published: 30 October 2019
(This article belongs to the Special Issue Computational Oncogenomics)
Cancer is a complex disease at many different levels. The molecular phenomenology of cancer is also quite rich. The mutational and genomic origins of cancer and their downstream effects on processes such as the reprogramming of the gene regulatory control and the molecular pathways depending on such control have been recognized as central to the characterization of the disease. More important though is the understanding of their causes, prognosis, and therapeutics. There is a multitude of factors associated with anomalous control of gene expression in cancer. Many of these factors are now amenable to be studied comprehensively by means of experiments based on diverse omic technologies. However, characterizing each dimension of the phenomenon individually has proven to fall short in presenting a clear picture of expression regulation as a whole. In this review article, we discuss some of the more relevant factors affecting gene expression control both, under normal conditions and in tumor settings. We describe the different omic approaches that we can use as well as the computational genomic analysis needed to track down these factors. Then we present theoretical and computational frameworks developed to integrate the amount of diverse information provided by such single-omic analyses. We contextualize this within a systems biology-based multi-omic regulation setting, aimed at better understanding the complex interplay of gene expression deregulation in cancer. View Full-Text
Keywords: computational oncogenomics; gene expression regulation; multi-omics; integrative biology computational oncogenomics; gene expression regulation; multi-omics; integrative biology
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Hernández-Lemus, E.; Reyes-Gopar, H.; Espinal-Enríquez, J.; Ochoa, S. The Many Faces of Gene Regulation in Cancer: A Computational Oncogenomics Outlook. Genes 2019, 10, 865.

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