2016 update of the PRIDE database and its related tools

2016 update of the PRIDE database and its related tools

2016 | Juan Antonio Vizcaíno, Attila Csordas, Noemi del-Toro, José A. Dianes, Johannes Griss, Ilias Lavidas, Gerhard Mayer, Yasset Perez-Riverol, Florian Reisinger, Tobias Ternent, Qing-Wei Xu, Rui Wang and Henning Hermjakob
The PRIDE database is a leading repository for mass spectrometry-based proteomics data. Since 2014, the PRIDE Archive has replaced the original PRIDE database, offering a new system with improved storage, submission, and web interface. The PRIDE Archive supports widely used PSI data formats (mzML and mzIdentML) and adheres to ProteomeXchange Consortium guidelines. It has seen a significant increase in data submissions, with around 150 datasets submitted monthly. The database now contains over 690 million spectra, 298 million peptide identifications, and 66 million protein identifications. The PRIDE Archive also includes tools like PRIDE Inspector, PRIDE Converter 2, and the ProteomeXchange submission tool. Additionally, new resources such as PRIDE Cluster and PRIDE Proteomes provide quality-filtered and complementary views of the data. The PRIDE Archive supports various data types, including peptide and protein identifications, mass spectra, gel images, and metadata. It allows data access through a web interface, REST web services, and file repositories. The PRIDE Archive also facilitates data reuse through reanalysis and integration with other databases. The database continues to evolve, with plans to support mzTab as a submission format and enhance quality control efforts. The PRIDE team is committed to improving data accessibility, usability, and integration with other proteomics resources.The PRIDE database is a leading repository for mass spectrometry-based proteomics data. Since 2014, the PRIDE Archive has replaced the original PRIDE database, offering a new system with improved storage, submission, and web interface. The PRIDE Archive supports widely used PSI data formats (mzML and mzIdentML) and adheres to ProteomeXchange Consortium guidelines. It has seen a significant increase in data submissions, with around 150 datasets submitted monthly. The database now contains over 690 million spectra, 298 million peptide identifications, and 66 million protein identifications. The PRIDE Archive also includes tools like PRIDE Inspector, PRIDE Converter 2, and the ProteomeXchange submission tool. Additionally, new resources such as PRIDE Cluster and PRIDE Proteomes provide quality-filtered and complementary views of the data. The PRIDE Archive supports various data types, including peptide and protein identifications, mass spectra, gel images, and metadata. It allows data access through a web interface, REST web services, and file repositories. The PRIDE Archive also facilitates data reuse through reanalysis and integration with other databases. The database continues to evolve, with plans to support mzTab as a submission format and enhance quality control efforts. The PRIDE team is committed to improving data accessibility, usability, and integration with other proteomics resources.
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