Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data

Detalhes bibliográficos
Autor(a) principal: Prudêncio, Pedro
Data de Publicação: 2020
Outros Autores: Rebelo, Kenny, Grosso, Ana Rita, Goncalo Martinho, Rui, Carmo-Fonseca, Maria
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10451/50918
Resumo: © 2019 The Authors. Published by Elsevier Inc. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/BY-NC-ND/4.0/)
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spelling Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput dataCo-transcriptional splicingNascent RNARNA polymerase IImNET-seq© 2019 The Authors. Published by Elsevier Inc. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/BY-NC-ND/4.0/)Mammalian Native Elongating Transcript sequencing (mNET-seq) is a recently developed technique that generates genome-wide profiles of nascent transcripts associated with RNA polymerase II (Pol II) elongation complexes. The ternary transcription complexes formed by Pol II, DNA template and nascent RNA are first isolated, without crosslinking, by immunoprecipitation with antibodies that specifically recognize the different phosphorylation states of the polymerase large subunit C-terminal domain (CTD). The coordinate of the 3' end of the RNA in the complexes is then identified by high-throughput sequencing. The main advantage of mNET-seq is that it provides global, bidirectional maps of Pol II CTD phosphorylation-specific nascent transcripts and coupled RNA processing at single nucleotide resolution. Here we describe the general pipeline to prepare and analyse high-throughput data from mNET-seq experiments.M.C.-F. acknowledges funding from Fundação para a Ciência e Tecnologia (FCT)/ Ministério da Ciência, Tecnologia e Ensino Superior (MCTES) through Fundos do Orçamento de Estado (UID/BIM/50005/2019), and FCT/FEDER/POR Lisboa 2020, Programa Operacional Regional de Lisboa, PORTUGAL 2020 (LISBOA-01-0145-FEDER-016394).. R.G.M. is supported by FCT grants PTDC/BEX-BID/0395/2014, PTDC/BIA-BID/28441/2017, and UID/BIM/04773/2013 CBMR 1334.ElsevierRepositório da Universidade de LisboaPrudêncio, PedroRebelo, KennyGrosso, Ana RitaGoncalo Martinho, RuiCarmo-Fonseca, Maria2022-01-21T16:31:32Z20202020-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10451/50918engMethods 178 (2020) 89–951046-202310.1016/j.ymeth.2019.09.0031095-9130info: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:RCAAP2023-11-08T16:55:18Zoai:repositorio.ul.pt:10451/50918Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T22:02:16.012728Repositório 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 Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data
title Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data
spellingShingle Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data
Prudêncio, Pedro
Co-transcriptional splicing
Nascent RNA
RNA polymerase II
mNET-seq
title_short Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data
title_full Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data
title_fullStr Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data
title_full_unstemmed Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data
title_sort Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data
author Prudêncio, Pedro
author_facet Prudêncio, Pedro
Rebelo, Kenny
Grosso, Ana Rita
Goncalo Martinho, Rui
Carmo-Fonseca, Maria
author_role author
author2 Rebelo, Kenny
Grosso, Ana Rita
Goncalo Martinho, Rui
Carmo-Fonseca, Maria
author2_role author
author
author
author
dc.contributor.none.fl_str_mv Repositório da Universidade de Lisboa
dc.contributor.author.fl_str_mv Prudêncio, Pedro
Rebelo, Kenny
Grosso, Ana Rita
Goncalo Martinho, Rui
Carmo-Fonseca, Maria
dc.subject.por.fl_str_mv Co-transcriptional splicing
Nascent RNA
RNA polymerase II
mNET-seq
topic Co-transcriptional splicing
Nascent RNA
RNA polymerase II
mNET-seq
description © 2019 The Authors. Published by Elsevier Inc. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/BY-NC-ND/4.0/)
publishDate 2020
dc.date.none.fl_str_mv 2020
2020-01-01T00:00:00Z
2022-01-21T16:31:32Z
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/10451/50918
url http://hdl.handle.net/10451/50918
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Methods 178 (2020) 89–95
1046-2023
10.1016/j.ymeth.2019.09.003
1095-9130
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 Elsevier
publisher.none.fl_str_mv Elsevier
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
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
institution RCAAP
reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
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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