title: 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.
authors: Office of Cancer Clinical Proteomics Research, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892, United States. kinsingc@mail.nih.gov
authors: Christopher R
authors: CR
authors: Kinsinger
authors: James
authors: J
authors: Apffel
authors: Mark
authors: M
authors: Baker
authors: Xiaopeng
authors: X
authors: Bian
authors: Christoph H
authors: CH
authors: Borchers
authors: Ralph
authors: R
authors: Bradshaw
authors: Mi-Youn
authors: MY
authors: Brusniak
authors: Daniel W
authors: DW
authors: Chan
authors: Eric W
authors: EW
authors: Deutsch
authors: Bruno
authors: B
authors: Domon
authors: Jeff
authors: J
authors: Gorman
authors: Rudolf
authors: R
authors: Grimm
authors: William
authors: W
authors: Hancock
authors: Henning
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authors: Hermjakob
authors: David
authors: D
authors: Horn
authors: Christie
authors: C
authors: Hunter
authors: Patrik
authors: P
authors: Kolar
authors: Hans-Joachim
authors: HJ
authors: Kraus
authors: Hanno
authors: H
authors: Langen
authors: Rune
authors: R
authors: Linding
authors: Robert L
authors: RL
authors: Moritz
authors: Gilbert S
authors: GS
authors: Omenn
authors: Ron
authors: R
authors: Orlando
authors: Akhilesh
authors: A
authors: Pandey
authors: Peipei
authors: P
authors: Ping
authors: Amir
authors: A
authors: Rahbar
authors: Robert
authors: R
authors: Rivers
authors: Sean L
authors: SL
authors: Seymour
authors: Richard J
authors: RJ
authors: Simpson
authors: Douglas
authors: D
authors: Slotta
authors: Richard D
authors: RD
authors: Smith
authors: Stephen E
authors: SE
authors: Stein
authors: David L
authors: DL
authors: Tabb
authors: Danilo
authors: D
authors: Tagle
authors: John R
authors: JR
authors: Yates
authors: Henry
authors: H
authors: Rodriguez
mesh_terms: D022126:Access to Information; D019985:Benchmarking / Q000379:methods / Q000592:standards; D017408:Guidelines as Topic; D013058:Mass Spectrometry / Q000379:methods / Q000592:standards; D040901:Proteomics / Q000193:education / Q000379:methods / Q000592:standards; D012107:Research Design