Analysis of mammalian native elongating transcript sequencing (mNET-seq) high-throughput data
Autor(a) principal: | |
---|---|
Data de Publicação: | 2020 |
Outros Autores: | , , , |
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/) |
id |
RCAP_bd02c4cd2a5c31c10907cca3231c63c4 |
---|---|
oai_identifier_str |
oai:repositorio.ul.pt:10451/50918 |
network_acronym_str |
RCAP |
network_name_str |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
repository_id_str |
7160 |
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 |
repository.mail.fl_str_mv |
|
_version_ |
1799134572484493312 |