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Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics

Gene regulation may be studied from an information-theoretic perspective. Gene regulatory programs are representations of the complete regulatory phenomenon associated to each biological state. In diseases such as cancer, these programs exhibit major alterations, which have been associated with the...

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Autores principales: de Anda-Jáuregui, Guillermo, Espinal-Enriquez, Jesús, Hernández-Lemus, Enrique
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7514677/
https://www.ncbi.nlm.nih.gov/pubmed/33266910
http://dx.doi.org/10.3390/e21020195
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author de Anda-Jáuregui, Guillermo
Espinal-Enriquez, Jesús
Hernández-Lemus, Enrique
author_facet de Anda-Jáuregui, Guillermo
Espinal-Enriquez, Jesús
Hernández-Lemus, Enrique
author_sort de Anda-Jáuregui, Guillermo
collection PubMed
description Gene regulation may be studied from an information-theoretic perspective. Gene regulatory programs are representations of the complete regulatory phenomenon associated to each biological state. In diseases such as cancer, these programs exhibit major alterations, which have been associated with the spatial organization of the genome into chromosomes. In this work, we analyze intrachromosomal, or cis-, and interchromosomal, or trans-gene regulatory programs in order to assess the differences that arise in the context of breast cancer. We find that using information theoretic approaches, it is possible to differentiate cis-and trans-regulatory programs in terms of the changes that they exhibit in the breast cancer context, indicating that in breast cancer there is a loss of trans-regulation. Finally, we use these programs to reconstruct a possible spatial relationship between chromosomes.
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spelling pubmed-75146772020-11-09 Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics de Anda-Jáuregui, Guillermo Espinal-Enriquez, Jesús Hernández-Lemus, Enrique Entropy (Basel) Article Gene regulation may be studied from an information-theoretic perspective. Gene regulatory programs are representations of the complete regulatory phenomenon associated to each biological state. In diseases such as cancer, these programs exhibit major alterations, which have been associated with the spatial organization of the genome into chromosomes. In this work, we analyze intrachromosomal, or cis-, and interchromosomal, or trans-gene regulatory programs in order to assess the differences that arise in the context of breast cancer. We find that using information theoretic approaches, it is possible to differentiate cis-and trans-regulatory programs in terms of the changes that they exhibit in the breast cancer context, indicating that in breast cancer there is a loss of trans-regulation. Finally, we use these programs to reconstruct a possible spatial relationship between chromosomes. MDPI 2019-02-19 /pmc/articles/PMC7514677/ /pubmed/33266910 http://dx.doi.org/10.3390/e21020195 Text en © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
de Anda-Jáuregui, Guillermo
Espinal-Enriquez, Jesús
Hernández-Lemus, Enrique
Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics
title Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics
title_full Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics
title_fullStr Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics
title_full_unstemmed Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics
title_short Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics
title_sort spatial organization of the gene regulatory program: an information theoretical approach to breast cancer transcriptomics
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7514677/
https://www.ncbi.nlm.nih.gov/pubmed/33266910
http://dx.doi.org/10.3390/e21020195
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