Blar i Department of Biomedicine på forfatter "Perez-Riverol, Yasset"

Viser treff 1-4 av 4

    • BioContainers: An open-source and community-driven framework for software standardization 

      Leprevost, Felipe da Veiga; Grüning, Björn A.; Alves Aflitos, Saulo; Röst, Hannes L.; Uszkoreit, Julian; Barsnes, Harald; Vaudel, Marc; Moreno, Pablo; Gatto, Laurent; Weber, Jonas; Bai, Mingze; Jimenez, Rafael C.; Sachsenberg, Timo; Pfeuffer, Julianus; Vera Alvarez, Roberto; Griss, Johannes; Nesvizhskii, Alexey I.; Perez-Riverol, Yasset (Peer reviewed; Journal article, 2017-03-30)
      Motivation BioContainers (biocontainers.pro) is an open-source and community-driven framework which provides platform independent executable environments for bioinformatics software. BioContainers allows labs of all sizes ...

    • The mzIdentML data standard version 1.2, supporting advances in proteome informatics 

      Vizcaíno, Juan Antonio; Mayer, Gerhard; Perkins, Simon; Barsnes, Harald; Vaudel, Marc; Perez-Riverol, Yasset; Ternent, Tobias; Uszkoreit, Julian; Eisenacher, Martin; Fischer, Lutz; Rappsilber, Juri; Netza, Eugen; Walzer, Mathias; Kohlbacher, Oliver; Leitner, Alexander; Chalkley, Robert J.; Ghali, Fawaz; Martínez-Bartolomé, Salvador; Deutsch, Eric W.; Jones, Andrew R. (Peer reviewed; Journal article, 2017-07-01)
      The first stable version of the Proteomics Standards Initiative mzIdentML open data standard (version 1.1) was published in 2012—capturing the outputs of peptide and protein identification software. In the intervening ...

    • OLS Client and OLS Dialog: Open source tools to annotate public omics datasets 

      Perez-Riverol, Yasset; Ternent, Tobias; Koch, Maximilian; Barsnes, Harald; Vrousgou, Olga; Jupp, Simon; Vizcaíno, Juan Antonio (Peer reviewed; Journal article, 2017)
      The availability of user‐friendly software to annotate biological datasets and experimental details is becoming essential in data management practices, both in local storage systems and in public databases. The Ontology ...

    • Proteomics Standards Initiative Extended FASTA Format 

      Binz, Pierre-Alain; Shofstahl, Jim; Vizcaino, Juan Antonio; Barsnes, Harald; Chalkley, Robert J.; Menschaert, Gerben; Alpi, Emanuele; Clauser, Karl; Eng, Jimmy K.; Lane, Lydie; Seymour, Sean L.; Hernández Sánchez, Luis Francisco; Mayer, Gerhard; Eisenacher, Martin; Perez-Riverol, Yasset; Kapp, Eugene A.; Mendoza, Luis; Baker, Peter R.; Collins, Andrew; Van Den Bossche, Tim; Deutsch, Eric W. (Peer reviewed; Journal article, 2019)
      Mass-spectrometry-based proteomics enables the high-throughput identification and quantification of proteins, including sequence variants and post-translational modifications (PTMs) in biological samples. However, most ...