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Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam Principles).

ABSTRACT: Policies supporting the rapid and open sharing of proteomic data are being implemented by the leading journals in the field. The proteomics community is taking steps to ensure that data are made publicly accessible and are of high quality, a challenging task that requires the development and deployment of methods for measuring and documenting data quality metrics. On September 18, 2010, the U.S. National Cancer Institute (NCI) convened the "International Workshop on Proteomic Data Quality Metrics" in Sydney, Australia, to identify and address issues facing the development and use of such methods for open access proteomics data. The stakeholders at the workshop enumerated the key principles underlying a framework for data quality assessment in mass spectrometry data that will meet the needs of the research community, journals, funding agencies, and data repositories. Attendees discussed and agreed up on two primary needs for the wide use of quality metrics: (1) an evolving list of comprehensive quality metrics and (2) standards accompanied by software analytics. Attendees stressed the importance of increased education and training programs to promote reliable protocols in proteomics. This workshop report explores the historic precedents, key discussions, and necessary next steps to enhance the quality of open access data. By agreement, this article is published simultaneously in the Journal of Proteome Research, Molecular and Cellular Proteomics, Proteomics, and Proteomics Clinical Applications as a public service to the research community. The peer review process was a coordinated effort conducted by a panel of referees selected by the journals.

SUBMITTER: Kinsinger CR

PROVIDER: S-EPMC3272102 | biostudies-literature | 2012 Feb

REPOSITORIES: biostudies-literature

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Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam Principles).

Kinsinger Christopher R CR Apffel James J Baker Mark M Bian Xiaopeng X Borchers Christoph H CH Bradshaw Ralph R Brusniak Mi-Youn MY Chan Daniel W DW Deutsch Eric W EW Domon Bruno B Gorman Jeff J Grimm Rudolf R Hancock William W Hermjakob Henning H Horn David D Hunter Christie C Kolar Patrik P Kraus Hans-Joachim HJ Langen Hanno H Linding Rune R Moritz Robert L RL Omenn Gilbert S GS Orlando Ron R Pandey Akhilesh A Ping Peipei P Rahbar Amir A Rivers Robert R Seymour Sean L SL Simpson Richard J RJ Slotta Douglas D Smith Richard D RD Stein Stephen E SE Tabb David L DL Tagle Danilo D Yates John R JR Rodriguez Henry H

Journal of proteome research 20111208 2

Policies supporting the rapid and open sharing of proteomic data are being implemented by the leading journals in the field. The proteomics community is taking steps to ensure that data are made publicly accessible and are of high quality, a challenging task that requires the development and deployment of methods for measuring and documenting data quality metrics. On September 18, 2010, the U.S. National Cancer Institute (NCI) convened the "International Workshop on Proteomic Data Quality Metric ...[more]

PMID: 22053864

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Dataset Information

Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam Principles).

Publications

Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam Principles).

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