Juan Antonio Vizcaíno

According to our database, Juan Antonio Vizcaíno authored at least 29 papers between 2007 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2024

Integrated meta-analysis of colorectal cancer public proteomic datasets for biomarker discovery and validation.

Javier Robles, Ananth Prakash, Juan Antonio Vizcaíno, J. Ignacio Casal

PLoS Comput. Biol., January, 2024

2023

EMBL's European Bioinformatics Institute (EMBL-EBI) in 2022.

Matthew Thakur, Alex Bateman, Cath Brooksbank, Mallory Ann Freeberg, Melissa Harrison, Matthew Hartley, Thomas M. Keane, Gerard J. Kleywegt, Andrew Leach, Maria Levchenko, Sarah L. Morgan, Ellen M. McDonagh, Sandra E. Orchard, Irene Papatheodorou, Sameer Velankar, Juan Antonio Vizcaíno, Rick Witham, Barbara Zdrazil, Johanna R. McEntyre

Nucleic Acids Res., January, 2023

The ProteomeXchange consortium at 10 years: 2023 update.

Eric W. Deutsch, Nuno Bandeira, Yasset Pérez-Riverol, Vagisha Sharma, Jeremy Carver, Luis Mendoza, Deepti Jaiswal Kundu, Shengbo Wang, Chakradhar Bandla, Selvakumar Kamatchinathan, Suresh Hewapathirana, Benjamin S. Pullman, Julie Wertz, Zhi Sun, Shin Kawano, Shujiro Okuda, Yu Watanabe, Brendan MacLean, Michael J. MacCoss, Yunping Zhu, Yasushi Ishihama, Juan Antonio Vizcaíno

Nucleic Acids Res., January, 2023

2022

Integrated view and comparative analysis of baseline protein expression in mouse and rat tissues.

Shengbo Wang, David García-Seisdedos, Ananth Prakash, Deepti Jaiswal Kundu, Andrew Collins, Nancy George, Silvie Fexova, Pablo A. Moreno, Irene Papatheodorou, Andrew R. Jones, Juan Antonio Vizcaíno

PLoS Comput. Biol., 2022

The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences.

Yasset Pérez-Riverol, Jingwen Bai, Chakradhar Bandla, David García-Seisdedos, Suresh Hewapathirana, Selvakumar Kamatchinathan, Deepti Jaiswal Kundu, Ananth Prakash, Anika Frericks-Zipper, Martin Eisenacher, Mathias Walzer, Shengbo Wang, Alvis Brazma, Juan Antonio Vizcaíno

Nucleic Acids Res., 2022

Expression Atlas update: gene and protein expression in multiple species.

Pablo A. Moreno, Silvie Fexova, Nancy George, Jonathan R. Manning, Zhichao Miao, Suhaib Mohammed, Alfonso Muñoz-Pomer Fuentes, Anja Füllgrabe, Yalan Bi, Natassja Bush, Haider Iqbal, Upendra Kumbham, Andrey Solovyev, Lingyun Zhao, Ananth Prakash, David García-Seisdedos, Deepti Jaiswal Kundu, Shengbo Wang, Mathias Walzer, Laura Clarke, David Osumi-Sutherland, Marcela Karey Tello-Ruiz, Sunita Kumari, Doreen Ware, Jana Eliasova, Mark J. Arends, Martijn C. Nawijn, Kerstin B. Meyer, Tony Burdett, John C. Marioni, Sarah A. Teichmann, Juan Antonio Vizcaíno, Alvis Brazma, Irene Papatheodorou

Nucleic Acids Res., 2022

2020

Expression Atlas update: from tissues to single cells.

Irene Papatheodorou, Pablo A. Moreno, Jonathan R. Manning, Alfonso Muñoz-Pomer Fuentes, Nancy George, Silvie Fexova, Nuno A. Fonseca, Anja Füllgrabe, Matthew Green, Ni Huang, Laura Huerta, Haider Iqbal, Monica Jianu, Suhaib Mohammed, Lingyun Zhao, Andrew F. Jarnuczak, Simon Jupp, John C. Marioni, Kerstin B. Meyer, Robert Petryszak, Cesar Augusto Prada Medina, Carlos Talavera-López, Sarah A. Teichmann, Juan Antonio Vizcaíno, Alvis Brazma

Nucleic Acids Res., 2020

The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics.

Eric W. Deutsch, Nuno Bandeira, Vagisha Sharma, Yasset Pérez-Riverol, Jeremy Carver, Deepti Jaiswal Kundu, David García-Seisdedos, Andrew F. Jarnuczak, Suresh Hewapathirana, Benjamin S. Pullman, Julie Wertz, Zhi Sun, Shin Kawano, Shujiro Okuda, Yu Watanabe, Henning Hermjakob, Brendan MacLean, Michael J. MacCoss, Yunping Zhu, Yasushi Ishihama, Juan Antonio Vizcaíno

Nucleic Acids Res., 2020

The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences.

Rachel Drysdale, Charles E. Cook, Robert Petryszak, Vivienne Baillie Gerritsen, Mary Barlow, Elisabeth Gasteiger, Franziska Gruhl, Jürgen Haas, Jerry Lanfear, Rodrigo Lopez, Nicole Redaschi, Heinz Stockinger, Daniel Teixeira, Aravind Venkatesan, Alex Bateman, Alan J. Bridge, Guy Cochrane, Robert D. Finn, Frank Oliver Glöckner, Marc Hanauer, Thomas M. Keane, Andrew Leach, Luana Licata, Per Oksvold, Sandra E. Orchard, Christine A. Orengo, Helen E. Parkinson, Bengt Persson, Pablo Porras, Jordi Rambla, Ana Rath, Charlotte Rodwell, Ugis Sarkans, Dietmar Schomburg, Ian Sillitoe, J. Dylan Spalding, Mathias Uhlén, Sameer Velankar, Juan Antonio Vizcaíno, Kalle von Feilitzen, Christian von Mering, Andrew D. Yates, Niklas Blomberg, Christine Durinx, Johanna R. McEntyre

Bioinform., 2020

2019

The PRIDE database and related tools and resources in 2019: improving support for quantification data.

Yasset Pérez-Riverol, Attila Csordas, Jingwen Bai, Manuel Bernal Llinares, Suresh Hewapathirana, Deepti Jaiswal Kundu, Avinash Inuganti, Johannes Griss, Gerhard Mayer, Martin Eisenacher, Enrique Pérez, Julian Uszkoreit, Julianus Pfeuffer, Timo Sachsenberg, Sule Yilmaz, Shivani Tiwary, Jürgen Cox, Enrique Audain, Mathias Walzer, Andrew F. Jarnuczak, Tobias Ternent, Alvis Brazma, Juan Antonio Vizcaíno

Nucleic Acids Res., 2019

2018

The SysteMHC Atlas project.

Wenguang Shao, Patrick G. A. Pedrioli, Witold Wolski, Christian Scurtescu, Emanuel Schmid, Juan Antonio Vizcaíno, Mathieu Courcelles, Heiko Schuster, Daniel Kowalewski, Fabio Marino, Cecilia S. Lindestam Arlehamn, Kerrie Vaughan, Bjoern Peters, Alessandro Sette, Tom H. M. Ottenhoff, Krista E. Meijgaarden, Natalie Nieuwenhuizen, Stefan H. E. Kaufmann, Ralph Schlapbach, John C. Castle, Alexey I. Nesvizhskii, Morten Nielsen, Eric W. Deutsch, David S. Campbell, Robert L. Moritz, Roman A. Zubarev, Anders Jimmy Ytterberg, Anthony W. Purcell, Miguel Marcilla, Alberto Paradela, Qi Wang, Catherine E. Costello, Nicola Ternette, Peter A. van Veelen, Cécile A. C. M. van Els, Albert J. R. Heck, Gustavo A. de Souza, Ludvig Magne Sollid, Arie Admon, Stefan Stevanovic, Hans-Georg Rammensee, Pierre Thibault, Claude Perreault, Michal Bassani-Sternberg, Ruedi Aebersold, Etienne Caron

Nucleic Acids Res., 2018

Expression Atlas: gene and protein expression across multiple studies and organisms.

Irene Papatheodorou, Nuno A. Fonseca, Maria Keays, Y. Amy Tang, Elisabet Barrera, Wojciech Bazant, Melissa L. Burke, Anja Füllgrabe, Alfonso Muñoz-Pomer Fuentes, Nancy George, Laura Huerta, Satu Koskinen, Suhaib Mohammed, Matthew J. Geniza, Justin Preece, Pankaj Jaiswal, Andrew F. Jarnuczak, Wolfgang Huber, Oliver Stegle, Juan Antonio Vizcaíno, Alvis Brazma, Robert Petryszak

Nucleic Acids Res., 2018

2017

The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition.

Eric W. Deutsch, Attila Csordas, Zhi Sun, Andrew F. Jarnuczak, Yasset Pérez-Riverol, Tobias Ternent, David S. Campbell, Manuel Bernal Llinares, Shujiro Okuda, Shin Kawano, Robert L. Moritz, Jeremy Carver, Mingxun Wang, Yasushi Ishihama, Nuno Bandeira, Henning Hermjakob, Juan Antonio Vizcaíno

Nucleic Acids Res., 2017

2016

Ten Simple Rules for Taking Advantage of Git and GitHub.

Yasset Pérez-Riverol, Laurent Gatto, Rui Wang, Timo Sachsenberg, Julian Uszkoreit, Felipe da Veiga Leprevost, Christian Fufezan, Tobias Ternent, Stephen J. Eglen, Daniel S. Katz, Tom J. Pollard, Alexander Konovalov, Robert M. Flight, Kai Blin, Juan Antonio Vizcaíno

PLoS Comput. Biol., 2016

2016 update of the PRIDE database and its related tools.

Juan Antonio Vizcaíno, Attila Csordas, Noemi del-Toro, José A. Dianes, Johannes Griss, Ilias Lavidas, Gerhard Mayer, Yasset Pérez-Riverol, Florian Reisinger, Tobias Ternent, Qing-Wei Xu, Rui Wang, Henning Hermjakob

Nucleic Acids Res., 2016

Chapter 11. Data Formats of the Proteomics Standards Initiative.

Juan Antonio Vizcaíno, Simon Perkins, Andrew R. Jones, Eric W. Deutsch

Proceedings of the Proteome Informatics, 2016

2015

Introducing the PRIDE Archive RESTful web services.

Florian Reisinger, Noemi del-Toro, Tobias Ternent, Henning Hermjakob, Juan Antonio Vizcaíno

Nucleic Acids Res., 2015

Development of data representation standards by the human proteome organization proteomics standards initiative.

Eric W. Deutsch, Juan P. Albar, Pierre-Alain Binz, Martin Eisenacher, Andrew R. Jones, Gerhard Mayer, Gilbert S. Omenn, Sandra E. Orchard, Juan Antonio Vizcaíno, Henning Hermjakob

J. Am. Medical Informatics Assoc., 2015

ms-data-core-api: an open-source, metadata-oriented library for computational proteomics.

Yasset Pérez-Riverol, Julian Uszkoreit, Aniel Sánchez, Tobias Ternent, Noemi del-Toro, Henning Hermjakob, Juan Antonio Vizcaíno, Rui Wang

Bioinform., 2015

2014

Analysis of the Protein Domain and Domain Architecture Content in Fungi and Its Application in the Search of New Antifungal Targets.

Alejandro Barrera, Ana Alastruey-Izquierdo, María J. Martín, Isabel Cuesta, Juan Antonio Vizcaíno

PLoS Comput. Biol., 2014

2013

The Proteomics Identifications (PRIDE) database and associated tools: status in 2013.

Juan Antonio Vizcaíno, Richard G. Côté, Attila Csordas, José A. Dianes, Antonio Fabregat, Joseph M. Foster, Johannes Griss, Emanuele Alpi, Melih Birim, Javier Contell, Gavin O'Kelly, Andreas Schoenegger, David Ovelleiro, Yasset Pérez-Riverol, Florian Reisinger, Daniel Rios, Rui Wang, Henning Hermjakob

Nucleic Acids Res., 2013

The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary.

Gerhard Mayer, Luisa Montecchi-Palazzi, David Ovelleiro, Andrew R. Jones, Pierre-Alain Binz, Eric W. Deutsch, Matthew Chambers, Marius Kallhardt, Fredrik Levander, James Shofstahl, Sandra E. Orchard, Juan Antonio Vizcaíno, Henning Hermjakob, Christian Stephan, Helmut E. Meyer, Martin Eisenacher

Database J. Biol. Databases Curation, 2013

2012

Improvements in the protein identifier cross-reference service.

Samuel P. Wein, Richard G. Côté, Marine Dumousseau, Florian Reisinger, Henning Hermjakob, Juan Antonio Vizcaíno

Nucleic Acids Res., 2012

PRIDE: Quality control in a proteomics data repository.

Attila Csordas, David Ovelleiro, Rui Wang, Joseph M. Foster, Daniel Rios, Juan Antonio Vizcaíno, Henning Hermjakob

Database J. Biol. Databases Curation, 2012

2011

Critical amino acid residues in proteins: a BioMart integration of Reactome protein annotations with PRIDE mass spectrometry data and COSMIC somatic mutations.

Nelson Ndegwa, Richard G. Côté, David Ovelleiro, Peter D'Eustachio, Henning Hermjakob, Juan Antonio Vizcaíno, David Croft

Database J. Biol. Databases Curation, 2011

2010

The Proteomics Identifications database: 2010 update.

Juan Antonio Vizcaíno, Richard G. Côté, Florian Reisinger, Harald Barsnes, Joseph M. Foster, Jonathan Rameseder, Henning Hermjakob, Lennart Martens

Nucleic Acids Res., 2010

The Ontology Lookup Service: bigger and better.

Richard G. Côté, Florian Reisinger, Lennart Martens, Harald Barsnes, Juan Antonio Vizcaíno, Henning Hermjakob

Nucleic Acids Res., 2010

2007

Analysing latent topics in large-scale proteomics.

Sebastian Klie, Alexander Hinneburg, Lennart Martens, Juan Antonio Vizcaíno, Richard G. Côté, Philip Jones, Rolf Apweiler, Henning Hermjakob

Proceedings of the LWA 2007: Lernen - Wissen, 2007

An Application of Latent Topic Document Analysis to Large-Scale Proteomics Databases.

Sebastian Klie, Lennart Martens, Juan Antonio Vizcaíno, Richard G. Côté, Philip Jones, Rolf Apweiler, Alexander Hinneburg, Henning Hermjakob

Proceedings of the German Conference on Bioinformatics, 2007