This section highlights the papers which have been published around issues raised by the Fixing Proteomics Campaign. If you know of any other papers which support the messages of the Fixing Proteomics Campaign, and would like them to be added to this list, please contact us.
Assessing the use of thermal treatment to preserve the intact proteomes of post-mortem heart and brain tissue. Proteomics, Jan 8 2009, (2):974-981
A CPTAC inter-laboratory study characterizing a yeast performance standard for benchmarking LC-MS Platform performance. Mol Cell Proteomics Epub ahead of print, Oct 2009
Comparative analysis to guide quality improvements in proteomics. Nature Methods 6 (Oct 2009), pages 717 - 719
Multi-site assessment of the precision and reproducibility of multiple reaction monitoring–based measurements of proteins in plasma. Nature Biotechnology 27 (28 June 2009), pages 633 - 641
A HUPO test sample study reveals common problems in mass spectrometry–based proteomics. Nature Methods 6 (2009), pages 423 - 430
Recommendations from the 2008 International Summit on Proteomics Data Release and Sharing Policy: The Amsterdam Principles. J. Proteome Res. April 2009, 8 (7), pages 3689–3692
Considerations for powering a clinical proteomics study: Normal variability in the human plasma proteome. Proteomics - Clinical Applications, Feb 2009, 3, issue 3, pages 394 - 407
Heat Stabilization of the Tissue Proteome: A New Technology for Improved Proteomics. J. Proteome Res., Jan 8 2009, (2):974-981
Technical strategies to reduce the amount of “false significant” results in quantitative proteomics. Proteomics, 2008, 8, Issue 9, Pages 1780 – 1784.
Treatment of missing values for multivariate statistical analysis of gel-based proteomics data. Proteomics, 2008, 8, Issue 7, Pages 1371 – 1383.
Information quality in proteomics. Briefings in Bioinformatics Feb 2008 9,No. 2 pages 174-188.
Mass spectrometry is only one piece of the puzzle in clinical proteomics. Briefings in Functional Genomics and Proteomics. Feb 2008 7 (1), pages 74-83
Analyzing Large-Scale Proteomics Projects with Latent Semantic Indexing. J Proteome Res. 2007 Nov 30; [Epub ahead of print]
Assessing Bias in Experiment Design for Large Scale Mass Spectrometry-based Quantitative Proteomics. Mol. Cell. Proteomics. Oct 2007; 6: 1741 — 1748
Design and analysis issues in quantitative proteomics studies. Proteomics. 2007 Sep; 7 Suppl 1:42-50
How shall we use the proteomics toolbox for biomarker discovery? J Proteome Res. 2007 Sep; 6(9):3371-6
The implications of proteolytic background for shotgun proteomics. Mol Cell Proteomics. 2007 Sep; 6(9):1589-98
The minimum information about a proteomics experiment (MIAPE). Nat Biotechnol. 2007 Aug; 25(8):887-93
Proteomics data validation: why all must provide data. Mol Biosyst. 2007 Aug; 3(8):518-22
Experimental and statistical considerations to avoid false conclusions in proteomics studies using differential in-gel electrophoresis. Mol Cell Proteomics. 2007 Aug; 6(8):1354-64
Sample size and replication in 2D gel electrophoresis studies. J Proteome Res. 2007 Jul; 6(7):2884-7.
Clinical proteomics: A need to define the field and to begin to set adequate standards. Proteomics - Clinical Applications. 2007 Jan; 1(2):148-156
Guidelines for the next 10 years of proteomics. Proteomics. 2006 Jan; 6(1):4-8
Rules of evidence for cancer molecular-marker discovery and validation. Nature Reviews Cancer 4, April 2004, 309-314
Reproducible research: a bioinformatics case study. Stat. Appl. Genet. Mol. Biol., 2004, 4
Overcoming technical variation and biological variation in quantitative proteomics. Proteomics, 2003, 3, 1912-1919