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Nucleic Acids Res. 2014 Jul;42(Web Server issue):W100-6. doi: 10.1093/nar/gku478. Epub 2014 May 26.

PIQMIe: a web server for semi-quantitative proteomics data management and analysis.

Author information

1
Department of Genetics, Cancer Genomics Netherlands, Erasmus Medical Center, PO Box 2040, 3000 CA Rotterdam, The Netherlands.
2
Department of Genetics, Cancer Genomics Netherlands, Erasmus Medical Center, PO Box 2040, 3000 CA Rotterdam, The Netherlands Department of Radiation Oncology, Erasmus Medical Center, PO Box 2040, 3000 CA Rotterdam, The Netherlands.

Abstract

We present the Proteomics Identifications and Quantitations Data Management and Integration Service or PIQMIe that aids in reliable and scalable data management, analysis and visualization of semi-quantitative mass spectrometry based proteomics experiments. PIQMIe readily integrates peptide and (non-redundant) protein identifications and quantitations from multiple experiments with additional biological information on the protein entries, and makes the linked data available in the form of a light-weight relational database, which enables dedicated data analyses (e.g. in R) and user-driven queries. Using the web interface, users are presented with a concise summary of their proteomics experiments in numerical and graphical forms, as well as with a searchable protein grid and interactive visualization tools to aid in the rapid assessment of the experiments and in the identification of proteins of interest. The web server not only provides data access through a web interface but also supports programmatic access through RESTful web service. The web server is available at http://piqmie.semiqprot-emc.cloudlet.sara.nl or http://www.bioinformatics.nl/piqmie. This website is free and open to all users and there is no login requirement.

PMID:
24861615
PMCID:
PMC4086067
DOI:
10.1093/nar/gku478
[Indexed for MEDLINE]
Free PMC Article

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