Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis

Colomé, Núria; Abián, Joaquín; Aloria, Kerman; Arizmendi, Jesús M.; Barceló Batllori, Sílvia; Braga Lagache, Sophie; Burlet Schiltz, Odile; Carrascal, Montse; Casal, J. Ignacio; Chicano Gálvez, Eduard; Chiva, Cristina; Clemente, Luis Felipe; Elortza, Felix; Estanyol i Ullate, Josep Maria; Fernandez Irigoyen, Joaquín; Fernández Puente, Patricia; Fidalgo, María José; Froment, Carine; Fuentes, Manuel; Fuentes Almagro, Carlos; Gay, Marina; Hainard, Alexandre; Heller, Manfred; Hernández, María Luisa; Ibarrola, Nieves; Iloro, Ibon; Kieselbach, Thomas; Lario, Antonio; Locard Paulet, Marie; Marina Ramírez, Anabel; Martín, Luna; Morato López, Esperanza; Muñoz, Javier; Navajas, Rosana; Odena, M. Antonia; Odriozola, Leticia; Oliveira, Eliandre; Paradela, Alberto; Pasquarello Mosimann, Carla; Rios, Vivian de los; Ruiz Romero, Cristina; Sabidó Aguadé, Eduard; Sánchez del Pino, Manuel; Sancho, Jaime; Santamaría, Enrique; Schaeffer Reiss, Christine; Schneider, Justine; Torre, Carolina de la; Valero, M. Luz; Vilaseca, Marta; Wu, Shuai; Wu, Linfeng; Ximénez Embún, Pilar; Canals, Francesc; Corrales, Fernando

Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis

Global analysis of protein phosphorylation by mass spectrometry proteomic techniques has emerged in the last decades as a powerful tool in biological and biomedical research. However, there are several factors that make the global study of the phosphoproteome more challenging than measuring non-modi...

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Autores:	Colomé, Núria, Abián, Joaquín, Aloria, Kerman, Arizmendi, Jesús M., Barceló Batllori, Sílvia, Braga Lagache, Sophie, Burlet Schiltz, Odile, Carrascal, Montse, Casal, J. Ignacio, Chicano Gálvez, Eduard, Chiva, Cristina, Clemente, Luis Felipe, Elortza, Felix, Estanyol i Ullate, Josep Maria, Fernandez Irigoyen, Joaquín, Fernández Puente, Patricia, Fidalgo, María José, Froment, Carine, Fuentes, Manuel, Fuentes Almagro, Carlos, Gay, Marina, Hainard, Alexandre, Heller, Manfred, Hernández, María Luisa, Ibarrola, Nieves, Iloro, Ibon, Kieselbach, Thomas, Lario, Antonio, Locard Paulet, Marie, Marina Ramírez, Anabel, Martín, Luna, Morato López, Esperanza, Muñoz, Javier, Navajas, Rosana, Odena, M. Antonia, Odriozola, Leticia, Oliveira, Eliandre, Paradela, Alberto, Pasquarello Mosimann, Carla, Rios, Vivian de los, Ruiz Romero, Cristina, Sabidó Aguadé, Eduard, Sánchez del Pino, Manuel, Sancho, Jaime, Santamaría, Enrique, Schaeffer Reiss, Christine, Schneider, Justine, Torre, Carolina de la, Valero, M. Luz, Vilaseca, Marta, Wu, Shuai, Wu, Linfeng, Ximénez Embún, Pilar, Canals, Francesc, Corrales, Fernando
Tipo de recurso:	artículo
Estado:	Versión publicada
Fecha de publicación:	2021
País:	España
Institución:	Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositorio:	Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:	oai:recercat.cat:2445/181798
Acceso en línea:	https://hdl.handle.net/2445/181798
Access Level:	acceso abierto
Palabra clave:	Proteòmica Normalització Proteomics Standardization

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spelling	Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysisColomé, NúriaAbián, JoaquínAloria, KermanArizmendi, Jesús M.Barceló Batllori, SílviaBraga Lagache, SophieBurlet Schiltz, OdileCarrascal, MontseCasal, J. IgnacioChicano Gálvez, EduardChiva, CristinaClemente, Luis FelipeElortza, FelixEstanyol i Ullate, Josep MariaFernandez Irigoyen, JoaquínFernández Puente, PatriciaFidalgo, María JoséFroment, CarineFuentes, ManuelFuentes Almagro, CarlosGay, MarinaHainard, AlexandreHeller, ManfredHernández, María LuisaIbarrola, NievesIloro, IbonKieselbach, ThomasLario, AntonioLocard Paulet, MarieMarina Ramírez, AnabelMartín, LunaMorato López, EsperanzaMuñoz, JavierNavajas, RosanaOdena, M. AntoniaOdriozola, LeticiaOliveira, EliandreParadela, AlbertoPasquarello Mosimann, CarlaRios, Vivian de losRuiz Romero, CristinaSabidó Aguadé, EduardSánchez del Pino, ManuelSancho, JaimeSantamaría, EnriqueSchaeffer Reiss, ChristineSchneider, JustineTorre, Carolina de laValero, M. LuzVilaseca, MartaWu, ShuaiWu, LinfengXiménez Embún, PilarCanals, FrancescCorrales, FernandoProteòmicaNormalitzacióProteomicsStandardizationGlobal analysis of protein phosphorylation by mass spectrometry proteomic techniques has emerged in the last decades as a powerful tool in biological and biomedical research. However, there are several factors that make the global study of the phosphoproteome more challenging than measuring non-modified proteins. The low stoichiometry of the phosphorylated species and the need to retrieve residue specific information require particular attention on sample preparation, data acquisition and processing to ensure reproducibility, qualitative and quantitative robustness and ample phosphoproteome coverage in phosphoproteomic workflows. Aiming to investigate the effect of different variables in the performance of proteome wide phosphoprotein analysis protocols, ProteoRed-ISCIII and EuPA launched the Proteomics Multicentric Experiment 11 (PME11). A reference sample consisting of a yeast protein extract spiked in with different amounts of a phosphomix standard (Sigma/Merck) was distributed to 31 laboratories around the globe. Thirty-six datasets from 23 laboratories were analyzed. Our results indicate the suitability of the PME11 reference sample to benchmark and optimize phosphoproteomics strategies, weighing the influence of different factors, as well as to rank intra and inter laboratory performance.Elsevier BV2021202120212021info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersion6 p.application/pdfhttps://hdl.handle.net/2445/181798Articles publicats en revistes (Institut d'lnvestigació Biomèdica de Bellvitge (IDIBELL))reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésReproducció del document publicat a: https://doi.org/10.1016/j.jprot.2021.104409Journal of Proteomics, 2021, vol. 251https://doi.org/10.1016/j.jprot.2021.104409cc by (c) Colomé, Núria et al, 2021http://creativecommons.org/licenses/by/3.0/es/info:eu-repo/semantics/openAccessoai:recercat.cat:2445/1817982026-05-29T05:05:01Z
dc.title.none.fl_str_mv	Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis
title	Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis
spellingShingle	Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis Colomé, Núria Proteòmica Normalització Proteomics Standardization
title_short	Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis
title_full	Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis
title_fullStr	Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis
title_full_unstemmed	Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis
title_sort	Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis
dc.creator.none.fl_str_mv	Colomé, Núria Abián, Joaquín Aloria, Kerman Arizmendi, Jesús M. Barceló Batllori, Sílvia Braga Lagache, Sophie Burlet Schiltz, Odile Carrascal, Montse Casal, J. Ignacio Chicano Gálvez, Eduard Chiva, Cristina Clemente, Luis Felipe Elortza, Felix Estanyol i Ullate, Josep Maria Fernandez Irigoyen, Joaquín Fernández Puente, Patricia Fidalgo, María José Froment, Carine Fuentes, Manuel Fuentes Almagro, Carlos Gay, Marina Hainard, Alexandre Heller, Manfred Hernández, María Luisa Ibarrola, Nieves Iloro, Ibon Kieselbach, Thomas Lario, Antonio Locard Paulet, Marie Marina Ramírez, Anabel Martín, Luna Morato López, Esperanza Muñoz, Javier Navajas, Rosana Odena, M. Antonia Odriozola, Leticia Oliveira, Eliandre Paradela, Alberto Pasquarello Mosimann, Carla Rios, Vivian de los Ruiz Romero, Cristina Sabidó Aguadé, Eduard Sánchez del Pino, Manuel Sancho, Jaime Santamaría, Enrique Schaeffer Reiss, Christine Schneider, Justine Torre, Carolina de la Valero, M. Luz Vilaseca, Marta Wu, Shuai Wu, Linfeng Ximénez Embún, Pilar Canals, Francesc Corrales, Fernando
author	Colomé, Núria
author_facet	Colomé, Núria Abián, Joaquín Aloria, Kerman Arizmendi, Jesús M. Barceló Batllori, Sílvia Braga Lagache, Sophie Burlet Schiltz, Odile Carrascal, Montse Casal, J. Ignacio Chicano Gálvez, Eduard Chiva, Cristina Clemente, Luis Felipe Elortza, Felix Estanyol i Ullate, Josep Maria Fernandez Irigoyen, Joaquín Fernández Puente, Patricia Fidalgo, María José Froment, Carine Fuentes, Manuel Fuentes Almagro, Carlos Gay, Marina Hainard, Alexandre Heller, Manfred Hernández, María Luisa Ibarrola, Nieves Iloro, Ibon Kieselbach, Thomas Lario, Antonio Locard Paulet, Marie Marina Ramírez, Anabel Martín, Luna Morato López, Esperanza Muñoz, Javier Navajas, Rosana Odena, M. Antonia Odriozola, Leticia Oliveira, Eliandre Paradela, Alberto Pasquarello Mosimann, Carla Rios, Vivian de los Ruiz Romero, Cristina Sabidó Aguadé, Eduard Sánchez del Pino, Manuel Sancho, Jaime Santamaría, Enrique Schaeffer Reiss, Christine Schneider, Justine Torre, Carolina de la Valero, M. Luz Vilaseca, Marta Wu, Shuai Wu, Linfeng Ximénez Embún, Pilar Canals, Francesc Corrales, Fernando
author_role	author
author2	Abián, Joaquín Aloria, Kerman Arizmendi, Jesús M. Barceló Batllori, Sílvia Braga Lagache, Sophie Burlet Schiltz, Odile Carrascal, Montse Casal, J. Ignacio Chicano Gálvez, Eduard Chiva, Cristina Clemente, Luis Felipe Elortza, Felix Estanyol i Ullate, Josep Maria Fernandez Irigoyen, Joaquín Fernández Puente, Patricia Fidalgo, María José Froment, Carine Fuentes, Manuel Fuentes Almagro, Carlos Gay, Marina Hainard, Alexandre Heller, Manfred Hernández, María Luisa Ibarrola, Nieves Iloro, Ibon Kieselbach, Thomas Lario, Antonio Locard Paulet, Marie Marina Ramírez, Anabel Martín, Luna Morato López, Esperanza Muñoz, Javier Navajas, Rosana Odena, M. Antonia Odriozola, Leticia Oliveira, Eliandre Paradela, Alberto Pasquarello Mosimann, Carla Rios, Vivian de los Ruiz Romero, Cristina Sabidó Aguadé, Eduard Sánchez del Pino, Manuel Sancho, Jaime Santamaría, Enrique Schaeffer Reiss, Christine Schneider, Justine Torre, Carolina de la Valero, M. Luz Vilaseca, Marta Wu, Shuai Wu, Linfeng Ximénez Embún, Pilar Canals, Francesc Corrales, Fernando
author2_role	author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author
dc.subject.none.fl_str_mv	Proteòmica Normalització Proteomics Standardization
topic	Proteòmica Normalització Proteomics Standardization
description	Global analysis of protein phosphorylation by mass spectrometry proteomic techniques has emerged in the last decades as a powerful tool in biological and biomedical research. However, there are several factors that make the global study of the phosphoproteome more challenging than measuring non-modified proteins. The low stoichiometry of the phosphorylated species and the need to retrieve residue specific information require particular attention on sample preparation, data acquisition and processing to ensure reproducibility, qualitative and quantitative robustness and ample phosphoproteome coverage in phosphoproteomic workflows. Aiming to investigate the effect of different variables in the performance of proteome wide phosphoprotein analysis protocols, ProteoRed-ISCIII and EuPA launched the Proteomics Multicentric Experiment 11 (PME11). A reference sample consisting of a yeast protein extract spiked in with different amounts of a phosphomix standard (Sigma/Merck) was distributed to 31 laboratories around the globe. Thirty-six datasets from 23 laboratories were analyzed. Our results indicate the suitability of the PME11 reference sample to benchmark and optimize phosphoproteomics strategies, weighing the influence of different factors, as well as to rank intra and inter laboratory performance.
publishDate	2021
dc.date.none.fl_str_mv	2021 2021 2021 2021
dc.type.none.fl_str_mv	info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion
format	article
status_str	publishedVersion
dc.identifier.none.fl_str_mv	https://hdl.handle.net/2445/181798
url	https://hdl.handle.net/2445/181798
dc.language.none.fl_str_mv	Inglés
language_invalid_str_mv	Inglés
dc.relation.none.fl_str_mv	Reproducció del document publicat a: https://doi.org/10.1016/j.jprot.2021.104409 Journal of Proteomics, 2021, vol. 251 https://doi.org/10.1016/j.jprot.2021.104409
dc.rights.none.fl_str_mv	cc by (c) Colomé, Núria et al, 2021 http://creativecommons.org/licenses/by/3.0/es/ info:eu-repo/semantics/openAccess
rights_invalid_str_mv	cc by (c) Colomé, Núria et al, 2021 http://creativecommons.org/licenses/by/3.0/es/
eu_rights_str_mv	openAccess
dc.format.none.fl_str_mv	6 p. application/pdf
dc.publisher.none.fl_str_mv	Elsevier BV
publisher.none.fl_str_mv	Elsevier BV
dc.source.none.fl_str_mv	Articles publicats en revistes (Institut d'lnvestigació Biomèdica de Bellvitge (IDIBELL)) reponame:Recercat. Dipósit de la Recerca de Catalunya instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str	Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str	Recercat. Dipósit de la Recerca de Catalunya
collection	Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score	15.812429

Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis

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