Systematic analysis of gene expression patterns associated with postmortem interval in human tissues

Abstract Postmortem mRNA degradation is considered to be the major concern in gene expression research utilizing human postmortem tissues. A key factor in this process is the postmortem interval (PMI), which is defined as the interval between death and sample collection. However, global patterns of...

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Autores principales:	Yizhang Zhu, Likun Wang, Yuxin Yin, Ence Yang
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/e97dccfdf85145328f89729cd8d46a8c
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spelling	oai:doaj.org-article:e97dccfdf85145328f89729cd8d46a8c2021-12-02T11:51:02ZSystematic analysis of gene expression patterns associated with postmortem interval in human tissues10.1038/s41598-017-05882-02045-2322https://doaj.org/article/e97dccfdf85145328f89729cd8d46a8c2017-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-05882-0https://doaj.org/toc/2045-2322Abstract Postmortem mRNA degradation is considered to be the major concern in gene expression research utilizing human postmortem tissues. A key factor in this process is the postmortem interval (PMI), which is defined as the interval between death and sample collection. However, global patterns of postmortem mRNA degradation at individual gene levels across diverse human tissues remain largely unknown. In this study, we performed a systematic analysis of alteration of gene expression associated with PMI in human tissues. From the Genotype-Tissue Expression (GTEx) database, we evaluated gene expression levels of 2,016 high-quality postmortem samples from 316 donors of European descent, with PMI ranging from 1 to 27 hours. We found that PMI-related mRNA degradation is tissue-specific, gene-specific, and even genotype-dependent, thus drawing a more comprehensive picture of PMI-associated gene expression across diverse human tissues. Additionally, we also identified 266 differentially variable (DV) genes, such as DEFB4B and IFNG, whose expression is significantly dispersed between short PMI (S-PMI) and long PMI (L-PMI) groups. In summary, our analyses provide a comprehensive profile of PMI-associated gene expression, which will help interpret gene expression patterns in the evaluation of postmortem tissues.Yizhang ZhuLikun WangYuxin YinEnce YangNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-12 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Yizhang Zhu Likun Wang Yuxin Yin Ence Yang Systematic analysis of gene expression patterns associated with postmortem interval in human tissues
description	Abstract Postmortem mRNA degradation is considered to be the major concern in gene expression research utilizing human postmortem tissues. A key factor in this process is the postmortem interval (PMI), which is defined as the interval between death and sample collection. However, global patterns of postmortem mRNA degradation at individual gene levels across diverse human tissues remain largely unknown. In this study, we performed a systematic analysis of alteration of gene expression associated with PMI in human tissues. From the Genotype-Tissue Expression (GTEx) database, we evaluated gene expression levels of 2,016 high-quality postmortem samples from 316 donors of European descent, with PMI ranging from 1 to 27 hours. We found that PMI-related mRNA degradation is tissue-specific, gene-specific, and even genotype-dependent, thus drawing a more comprehensive picture of PMI-associated gene expression across diverse human tissues. Additionally, we also identified 266 differentially variable (DV) genes, such as DEFB4B and IFNG, whose expression is significantly dispersed between short PMI (S-PMI) and long PMI (L-PMI) groups. In summary, our analyses provide a comprehensive profile of PMI-associated gene expression, which will help interpret gene expression patterns in the evaluation of postmortem tissues.
format	article
author	Yizhang Zhu Likun Wang Yuxin Yin Ence Yang
author_facet	Yizhang Zhu Likun Wang Yuxin Yin Ence Yang
author_sort	Yizhang Zhu
title	Systematic analysis of gene expression patterns associated with postmortem interval in human tissues
title_short	Systematic analysis of gene expression patterns associated with postmortem interval in human tissues
title_full	Systematic analysis of gene expression patterns associated with postmortem interval in human tissues
title_fullStr	Systematic analysis of gene expression patterns associated with postmortem interval in human tissues
title_full_unstemmed	Systematic analysis of gene expression patterns associated with postmortem interval in human tissues
title_sort	systematic analysis of gene expression patterns associated with postmortem interval in human tissues
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/e97dccfdf85145328f89729cd8d46a8c
work_keys_str_mv	AT yizhangzhu systematicanalysisofgeneexpressionpatternsassociatedwithpostmortemintervalinhumantissues AT likunwang systematicanalysisofgeneexpressionpatternsassociatedwithpostmortemintervalinhumantissues AT yuxinyin systematicanalysisofgeneexpressionpatternsassociatedwithpostmortemintervalinhumantissues AT enceyang systematicanalysisofgeneexpressionpatternsassociatedwithpostmortemintervalinhumantissues
_version_	1718395198402199552

Systematic analysis of gene expression patterns associated with postmortem interval in human tissues

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