Journal Article

CPFP: a central proteomics facilities pipeline

David C. Trudgian, Benjamin Thomas, Simon J. McGowan, Benedikt M. Kessler, Mogjiborahman Salek and Oreste Acuto

in Bioinformatics

Volume 26, issue 8, pages 1131-1132
Published in print April 2010 | ISSN: 1367-4803
Published online February 2010 | e-ISSN: 1460-2059 | DOI:
CPFP: a central proteomics facilities pipeline

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Summary: The central proteomics facilities pipeline (CPFP) provides identification, validation, and quantitation of peptides and proteins from LC-MS/MS datasets through an easy to use web interface. It is the first analysis pipeline targeted specifically at the needs of proteomics core facilities, reducing the data analysis load on staff, and allowing facility clients to easily access and work with their data. Identification of peptides is performed using multiple search engines, their output combined and validated using state-of-the-art techniques for improved results. Cluster execution of jobs allows analysis capacity to be increased easily as demand grows.

Availability: Released under the Common Development and Distribution License at Demonstration available at


Journal Article.  1218 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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