Gene expression rearrangements denoting changes in the biological state

Abstract In many situations, the gene expression signature is a unique marker of the biological state. We study the modification of the gene expression distribution function when the biological state of a system experiences a change. This change may be the result of a selective pressure, as in the L...

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Autores principales:	Augusto Gonzalez, Joan Nieves, Dario A. Leon, Maria Luisa Bringas Vega, Pedro Valdes Sosa
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/8b598fb7fa364d73b8ae93d78f7ed131
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spelling	oai:doaj.org-article:8b598fb7fa364d73b8ae93d78f7ed1312021-12-02T18:27:48ZGene expression rearrangements denoting changes in the biological state10.1038/s41598-021-87764-02045-2322https://doaj.org/article/8b598fb7fa364d73b8ae93d78f7ed1312021-04-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-87764-0https://doaj.org/toc/2045-2322Abstract In many situations, the gene expression signature is a unique marker of the biological state. We study the modification of the gene expression distribution function when the biological state of a system experiences a change. This change may be the result of a selective pressure, as in the Long Term Evolution Experiment with E. Coli populations, or the progression to Alzheimer disease in aged brains, or the progression from a normal tissue to the cancer state. The first two cases seem to belong to a class of transitions, where the initial and final states are relatively close to each other, and the distribution function for the differential expressions is short ranged, with a tail of only a few dozens of strongly varying genes. In the latter case, cancer, the initial and final states are far apart and separated by a low-fitness barrier. The distribution function shows a very heavy tail, with thousands of silenced and over-expressed genes. We characterize the biological states by means of their principal component representations, and the expression distribution functions by their maximal and minimal differential expression values and the exponents of the Pareto laws describing the tails.Augusto GonzalezJoan NievesDario A. LeonMaria Luisa Bringas VegaPedro Valdes SosaNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-10 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Augusto Gonzalez Joan Nieves Dario A. Leon Maria Luisa Bringas Vega Pedro Valdes Sosa Gene expression rearrangements denoting changes in the biological state
description	Abstract In many situations, the gene expression signature is a unique marker of the biological state. We study the modification of the gene expression distribution function when the biological state of a system experiences a change. This change may be the result of a selective pressure, as in the Long Term Evolution Experiment with E. Coli populations, or the progression to Alzheimer disease in aged brains, or the progression from a normal tissue to the cancer state. The first two cases seem to belong to a class of transitions, where the initial and final states are relatively close to each other, and the distribution function for the differential expressions is short ranged, with a tail of only a few dozens of strongly varying genes. In the latter case, cancer, the initial and final states are far apart and separated by a low-fitness barrier. The distribution function shows a very heavy tail, with thousands of silenced and over-expressed genes. We characterize the biological states by means of their principal component representations, and the expression distribution functions by their maximal and minimal differential expression values and the exponents of the Pareto laws describing the tails.
format	article
author	Augusto Gonzalez Joan Nieves Dario A. Leon Maria Luisa Bringas Vega Pedro Valdes Sosa
author_facet	Augusto Gonzalez Joan Nieves Dario A. Leon Maria Luisa Bringas Vega Pedro Valdes Sosa
author_sort	Augusto Gonzalez
title	Gene expression rearrangements denoting changes in the biological state
title_short	Gene expression rearrangements denoting changes in the biological state
title_full	Gene expression rearrangements denoting changes in the biological state
title_fullStr	Gene expression rearrangements denoting changes in the biological state
title_full_unstemmed	Gene expression rearrangements denoting changes in the biological state
title_sort	gene expression rearrangements denoting changes in the biological state
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/8b598fb7fa364d73b8ae93d78f7ed131
work_keys_str_mv	AT augustogonzalez geneexpressionrearrangementsdenotingchangesinthebiologicalstate AT joannieves geneexpressionrearrangementsdenotingchangesinthebiologicalstate AT darioaleon geneexpressionrearrangementsdenotingchangesinthebiologicalstate AT marialuisabringasvega geneexpressionrearrangementsdenotingchangesinthebiologicalstate AT pedrovaldessosa geneexpressionrearrangementsdenotingchangesinthebiologicalstate
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Gene expression rearrangements denoting changes in the biological state

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