Nonredundant, Highly Connected MicroRNAs Control Functionality in Breast Cancer Networks

International Journal of Genomics
Guillermo de Anda-JáureguiEnrique Hernández-Lemus

Abstract

Alterations to transcriptional regulation are an important factor in breast cancer. Noncoding RNA, such as microRNA (miR), have very influential roles in the transcriptional regulation of genes. Transcriptional regulation can be successfully modeled and analyzed using complex network theory. Particularly, interactions between two distinct classes of biological elements, such as miR and genes, can be approached through the bipartite network formalism. Based on bipartite network properties, it is possible to identify highly influential miRs in the network, such as those that have a large number of connections indicating regulation of a large set of genes. Some miRs in a network are nonredundant, which indicates that they are solely responsible of the regulation of a particular set of genes, which in turn may be associated to a particular biological process. We hypothesize that highly influential, nonredundant miRs, which we call Commodore miRs (Cdre-miRs), have an important role on the control of biological functions through transcriptional networks. In this work, we analyze the regulation of gene expression by miRs in healthy and cancerous breast tissue using bipartite miR-gene networks inferred from the Cancer Genome Atlas (TCG...Continue Reading

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Citations

Nov 2, 2019·Genes·Enrique Hernández-LemusSoledad Ochoa
Oct 9, 2019·International Journal of Molecular Sciences·Hui-Yi LohMohd Azuraidi Osman
Apr 23, 2020·Frontiers in Oncology·Guillermo de Anda-Jáuregui, Enrique Hernández-Lemus
Jun 13, 2020·Frontiers in Oncology·Soledad OchoaEnrique Hernández-Lemus
Feb 12, 2021·Communications Biology·Chao WangKerstin Lindblad-Toh
Mar 1, 2020·Molecular Diagnosis & Therapy·Marc HirschfeldThalia Erbes
Mar 5, 2021·Frontiers in Genetics·Irving Uriarte-NavarreteGuillermo de Anda-Jáuregui
May 8, 2021·Frontiers in Genetics·Diana García-CortésJesús Espinal-Enríquez
Jun 15, 2021·Interface Focus·Guillermo de Anda-JáureguiEnrique Hernández-Lemus
Dec 7, 2021·Frontiers in Oncology·Alfredo González-EspinozaJesús Espinal-Enríquez

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Software Mentioned

WebGestalt
Cytoscape
ARACNE
NetworkX Python
DESeq2
igraph R

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