The PRoteomics IDEntification (PRIDE) Converter 2 Framework: An Improved Suite of Tools to Facilitate Data Submission to the PRIDE Database and the ProteomeXchange Consortium

PRIDE Inspector: a tool to visualize and validate MS proteomics data

(2012) Rui Wang et al.   NATURE BIOTECHNOLOGY

jmzIdentML API: A Java interface to the mzIdentML standard for peptide and protein identification data

(2012) Florian Reisinger et al.   PROTEOMICS

jmzReader: A Java parser library to process and visualize multiple text and XML-based mass spectrometry data formats

(2012) Johannes Griss et al.   PROTEOMICS

PRIDE: Quality control in a proteomics data repository

(2012) A. Csordas et al.   Database-The Journal of Biological Databases and Curation

thermo-msf-parser: An Open Source Java Library to Parse and Visualize Thermo Proteome DiscoverermsfFiles

(2011) Niklaas Colaert et al.   JOURNAL OF PROTEOME RESEARCH

OLS Dialog: An open-source front end to the Ontology Lookup Service

(2010) Harald Barsnes et al.   BMC BIOINFORMATICS

The Ontology Lookup Service: bigger and better

(2010) R. Cote et al.   NUCLEIC ACIDS RESEARCH

jmzML, an open-source Java API for mzML, the PSI standard for MS data

(2010) Richard G. Côté et al.   PROTEOMICS

XTandem Parser: An open-source library to parse and analyse X!Tandem MS/MS search results

(2010) Thilo Muth et al.   PROTEOMICS

The Proteios Software Environment: An Extensible Multiuser Platform for Management and Analysis of Proteomics Data

(2009) Jari Häkkinen et al.   JOURNAL OF PROTEOME RESEARCH

Credit where credit is overdue

(2009)   NATURE BIOTECHNOLOGY

PRIDE Converter: making proteomics data-sharing easy

(2009) Harald Barsnes et al.   NATURE BIOTECHNOLOGY

The Proteomics Identifications database: 2010 update

(2009) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

The PSI semantic validator: A framework to check MIAPE compliance of proteomics data

(2009) Luisa Montecchi-Palazzi et al.   PROTEOMICS

A guide to the Proteomics Identifications Database proteomics data repository

(2009) Juan Antonio Vizcaíno et al.   PROTEOMICS

PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows

(2008) Eric W Deutsch et al.   EMBO REPORTS

The PSI-MOD community standard for representation of protein modification data

(2008) Luisa Montecchi-Palazzi et al.   NATURE BIOTECHNOLOGY