A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genes

Detalhes bibliográficos
Autor(a) principal: Yalçin, Müge
Data de Publicação: 2021
Outros Autores: Malhan, Deeksha, Basti, Alireza, Peralta, Ana, Ferreira, Joaquim J, Relógio, Angela
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10451/50411
Resumo: © 2021 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 (https://creativecommons.org/licenses/by/4.0/).
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spelling A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genesParkinson’s diseaseBioinformaticsCircadian rhythmsColorectal cancerCore-clock knockoutsGene expressionHigh-throughput dataSurvival analysis© 2021 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 (https://creativecommons.org/licenses/by/4.0/).Increasing evidence suggests a role for circadian dysregulation in prompting disease-related phenotypes in mammals. Cancer and neurodegenerative disorders are two aging related diseases reported to be associated with circadian disruption. In this study, we investigated a possible effect of circadian disruption in Parkinson's disease (PD) and colorectal cancer (CRC). We used high-throughput data sets retrieved from whole blood of idiopathic PD (IPD) patients and time course data sets derived from an in vitro model of CRC including the wildtype and three core-clock knockout (KO) cell lines. Several gene expression alterations in IPD patients resembled the expression profiles in the core-clock KO cells. These include expression changes in DBP, GBA, TEF, SNCA, SERPINA1 and TGFB1. Notably, our results pointed to alterations in the core-clock network in IPD patients when compared to healthy controls and revealed variations in the expression profile of PD-associated genes (e.g., HRAS and GBA) upon disruption of the core-clock genes. Our study characterizes changes at the transcriptomic level following circadian clock disruption on common cellular pathways associated with cancer and neurodegeneration (e.g., immune system, energy metabolism and RNA processing), and it points to a significant influence on the overall survival of colon cancer patients for several genes resulting from our analysis (e.g., TUBB6, PAK6, SLC11A1).MDPIRepositório da Universidade de LisboaYalçin, MügeMalhan, DeekshaBasti, AlirezaPeralta, AnaFerreira, Joaquim JRelógio, Angela2021-12-14T15:21:14Z20212021-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10451/50411engCancers (Basel). 2021 Nov 28;13(23):597810.3390/cancers132359782072-6694info: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:RCAAP2023-11-08T16:54:34Zoai:repositorio.ul.pt:10451/50411Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T22:01:52.569689Repositório 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 A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genes
title A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genes
spellingShingle A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genes
Yalçin, Müge
Parkinson’s disease
Bioinformatics
Circadian rhythms
Colorectal cancer
Core-clock knockouts
Gene expression
High-throughput data
Survival analysis
title_short A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genes
title_full A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genes
title_fullStr A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genes
title_full_unstemmed A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genes
title_sort A computational analysis in a cohort of Parkinson’s disease patients and clock-modified colorectal cancer cells reveals common expression alterations in clock-regulated genes
author Yalçin, Müge
author_facet Yalçin, Müge
Malhan, Deeksha
Basti, Alireza
Peralta, Ana
Ferreira, Joaquim J
Relógio, Angela
author_role author
author2 Malhan, Deeksha
Basti, Alireza
Peralta, Ana
Ferreira, Joaquim J
Relógio, Angela
author2_role author
author
author
author
author
dc.contributor.none.fl_str_mv Repositório da Universidade de Lisboa
dc.contributor.author.fl_str_mv Yalçin, Müge
Malhan, Deeksha
Basti, Alireza
Peralta, Ana
Ferreira, Joaquim J
Relógio, Angela
dc.subject.por.fl_str_mv Parkinson’s disease
Bioinformatics
Circadian rhythms
Colorectal cancer
Core-clock knockouts
Gene expression
High-throughput data
Survival analysis
topic Parkinson’s disease
Bioinformatics
Circadian rhythms
Colorectal cancer
Core-clock knockouts
Gene expression
High-throughput data
Survival analysis
description © 2021 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 (https://creativecommons.org/licenses/by/4.0/).
publishDate 2021
dc.date.none.fl_str_mv 2021-12-14T15:21:14Z
2021
2021-01-01T00:00:00Z
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 http://hdl.handle.net/10451/50411
url http://hdl.handle.net/10451/50411
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Cancers (Basel). 2021 Nov 28;13(23):5978
10.3390/cancers13235978
2072-6694
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
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dc.publisher.none.fl_str_mv MDPI
publisher.none.fl_str_mv MDPI
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
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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