原创力文档addressing the challenge of defining valid proteomic biomarkers and classifiers解决定义有效的蛋白质组生物标记和分类器的挑战.pdfVIP
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addressing the challenge of defining valid proteomic biomarkers and classifiers解决定义有效的蛋白质组生物标记和分类器的挑战
Dakna et al. BMC Bioinformatics 2010, 11:594
/1471-2105/11/594
RESEARCH ARTICLE Open Access
Addressing the Challenge of Defining Valid
Proteomic Biomarkers and Classifiers
1 2 3 4 5,6 7,8
Mohammed Dakna , Keith Harris , Alexandros Kalousis , Sebastien Carpentier , Walter Kolch , Joost P Schanstra ,
9 11 1,10* 12
Marion Haubitz , Antonia Vlahou , Harald Mischak , Mark Girolami
Abstract
Background: The purpose of this manuscript is to provide, based on an extensive analysis of a proteomic data set,
suggestions for proper statistical analysis for the discovery of sets of clinically relevant biomarkers. As tractable
example we define the measurable proteomic differences between apparently healthy adult males and females.
We choose urine as body-fluid of interest and CE-MS, a thoroughly validated platform technology, allowing for
routine analysis of a large number of samples. The second urine of the morning was collected from apparently
healthy male and female volunteers (aged 21-40) in the course of the routine medical check-up before recruitment
at the Hannover Medical School.
Results: We found that the Wilcoxon-test is best suited for the definition of potential biomarkers. Adjustment for
multiple testing is necessary. Sample size estimation can be performed based on a small number of observations
via resampling from pilot data. Machine learning algorithms appear ideally suited to generate classifiers.
Assessment of any results in an independent test-set is essential.
Conclusions: Valid proteomic biomarkers for diagnosis and prognosis only can be defined by applying
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