The effects of death and post-mortem cold ischemia on human tissue transcriptomes

Detalhes bibliográficos
Autor(a) principal: Ferreira, PG
Data de Publicação: 2018
Outros Autores: Muñoz-Aguirre, M, Reverter, F, Sá Godinho, C, Sousa, A, Amadoz, A, Sodaei, R, Hidalgo, M, Pervouchine, D, Carbonell-Caballero, J, Nurtdinov, R, Breschi, A, Amador, R, Oliveira, P, Çubuk, C, Curado, J, Aguet, F, Oliveira, C, Dopazo, J, Sammeth, M, Ardlie, K, Guigó, R
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: https://hdl.handle.net/10216/127071
Resumo: Post-mortem tissues samples are a key resource for investigating patterns of gene expression. However, the processes triggered by death and the post-mortem interval (PMI) can significantly alter physiologically normal RNA levels. We investigate the impact of PMI on gene expression using data from multiple tissues of post-mortem donors obtained from the GTEx project. We find that many genes change expression over relatively short PMIs in a tissue-specific manner, but this potentially confounding effect in a biological analysis can be minimized by taking into account appropriate covariates. By comparing ante- and post-mortem blood samples, we identify the cascade of transcriptional events triggered by death of the organism. These events do not appear to simply reflect stochastic variation resulting from mRNA degradation, but active and ongoing regulation of transcription. Finally, we develop a model to predict the time since death from the analysis of the transcriptome of a few readily accessible tissues.
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spelling The effects of death and post-mortem cold ischemia on human tissue transcriptomesPost-mortem tissues samples are a key resource for investigating patterns of gene expression. However, the processes triggered by death and the post-mortem interval (PMI) can significantly alter physiologically normal RNA levels. We investigate the impact of PMI on gene expression using data from multiple tissues of post-mortem donors obtained from the GTEx project. We find that many genes change expression over relatively short PMIs in a tissue-specific manner, but this potentially confounding effect in a biological analysis can be minimized by taking into account appropriate covariates. By comparing ante- and post-mortem blood samples, we identify the cascade of transcriptional events triggered by death of the organism. These events do not appear to simply reflect stochastic variation resulting from mRNA degradation, but active and ongoing regulation of transcription. Finally, we develop a model to predict the time since death from the analysis of the transcriptome of a few readily accessible tissues.Nature20182018-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttps://hdl.handle.net/10216/127071eng2041-172310.1038/s41467-017-02772-xFerreira, PGMuñoz-Aguirre, MReverter, FSá Godinho, CSousa, AAmadoz, ASodaei, RHidalgo, MPervouchine, DCarbonell-Caballero, JNurtdinov, RBreschi, AAmador, ROliveira, PÇubuk, CCurado, JAguet, FOliveira, CDopazo, JSammeth, MArdlie, KGuigó, Rinfo:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2023-11-29T13:42:26Zoai:repositorio-aberto.up.pt:10216/127071Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T23:46:12.466147Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv The effects of death and post-mortem cold ischemia on human tissue transcriptomes
title The effects of death and post-mortem cold ischemia on human tissue transcriptomes
spellingShingle The effects of death and post-mortem cold ischemia on human tissue transcriptomes
Ferreira, PG
title_short The effects of death and post-mortem cold ischemia on human tissue transcriptomes
title_full The effects of death and post-mortem cold ischemia on human tissue transcriptomes
title_fullStr The effects of death and post-mortem cold ischemia on human tissue transcriptomes
title_full_unstemmed The effects of death and post-mortem cold ischemia on human tissue transcriptomes
title_sort The effects of death and post-mortem cold ischemia on human tissue transcriptomes
author Ferreira, PG
author_facet Ferreira, PG
Muñoz-Aguirre, M
Reverter, F
Sá Godinho, C
Sousa, A
Amadoz, A
Sodaei, R
Hidalgo, M
Pervouchine, D
Carbonell-Caballero, J
Nurtdinov, R
Breschi, A
Amador, R
Oliveira, P
Çubuk, C
Curado, J
Aguet, F
Oliveira, C
Dopazo, J
Sammeth, M
Ardlie, K
Guigó, R
author_role author
author2 Muñoz-Aguirre, M
Reverter, F
Sá Godinho, C
Sousa, A
Amadoz, A
Sodaei, R
Hidalgo, M
Pervouchine, D
Carbonell-Caballero, J
Nurtdinov, R
Breschi, A
Amador, R
Oliveira, P
Çubuk, C
Curado, J
Aguet, F
Oliveira, C
Dopazo, J
Sammeth, M
Ardlie, K
Guigó, R
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Ferreira, PG
Muñoz-Aguirre, M
Reverter, F
Sá Godinho, C
Sousa, A
Amadoz, A
Sodaei, R
Hidalgo, M
Pervouchine, D
Carbonell-Caballero, J
Nurtdinov, R
Breschi, A
Amador, R
Oliveira, P
Çubuk, C
Curado, J
Aguet, F
Oliveira, C
Dopazo, J
Sammeth, M
Ardlie, K
Guigó, R
description Post-mortem tissues samples are a key resource for investigating patterns of gene expression. However, the processes triggered by death and the post-mortem interval (PMI) can significantly alter physiologically normal RNA levels. We investigate the impact of PMI on gene expression using data from multiple tissues of post-mortem donors obtained from the GTEx project. We find that many genes change expression over relatively short PMIs in a tissue-specific manner, but this potentially confounding effect in a biological analysis can be minimized by taking into account appropriate covariates. By comparing ante- and post-mortem blood samples, we identify the cascade of transcriptional events triggered by death of the organism. These events do not appear to simply reflect stochastic variation resulting from mRNA degradation, but active and ongoing regulation of transcription. Finally, we develop a model to predict the time since death from the analysis of the transcriptome of a few readily accessible tissues.
publishDate 2018
dc.date.none.fl_str_mv 2018
2018-01-01T00:00:00Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv https://hdl.handle.net/10216/127071
url https://hdl.handle.net/10216/127071
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 2041-1723
10.1038/s41467-017-02772-x
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Nature
publisher.none.fl_str_mv Nature
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
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repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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