Zacharias, Helena U. and Rehberg, Thorsten and Mehrl, Sebastian and Richtmann, Daniel and Wettig, Tilo and Oefner, Peter J. and Spang, Rainer and Gronwald, Wolfram and Altenbuchinger, Michael (2017) Scale-Invariant Biomarker Discovery in Urine and Plasma Metabolite Fingerprints. JOURNAL OF PROTEOME RESEARCH, 16 (10). pp. 3596-3605. ISSN 1535-3893, 1535-3907
Full text not available from this repository. (Request a copy)Abstract
Metabolomics data is typically scaled to a common reference like a constant volume of body fluid, a constant creatinine level, or a constant area under the spectrum. Such scaling of the data, however, may affect the selection of biomarkers and the biological interpretation of results in unforeseen ways. Here, we studied how both the outcome of hypothesis tests for differential metabolite concentration and the screening for multivariate metabolite signatures are affected by the choice of scale. To overcome this problem for metabolite signatures and to establish a scale-invariant biomarker discovery algorithm, we extended linear zero-sum regression to the logistic regression framework and showed in two applications to H-1 NMR-based metabolomics data how this approach overcomes the scaling problem. Logistic zero-sum regression is available as an R package as well as a high-performance computing implementation that can be downloaded at https://github.com/rehbergT/zeroSum.
| Item Type: | Article |
|---|---|
| Uncontrolled Keywords: | ACUTE KIDNEY INJURY; DATA NORMALIZATION; CARDIAC-SURGERY; DATA SETS; NMR; METABOLOMICS; REGRESSION; SELECTION; DISEASE; MODEL; metabolomics; NMR; LASSO; zero-sum; normalization; scaling |
| Subjects: | 600 Technology > 610 Medical sciences Medicine |
| Divisions: | Medicine > Institut für Funktionelle Genomik > Lehrstuhl für Funktionelle Genomik (Prof. Oefner) |
| Depositing User: | Dr. Gernot Deinzer |
| Date Deposited: | 14 Dec 2018 13:19 |
| Last Modified: | 20 Feb 2019 11:02 |
| URI: | https://pred.uni-regensburg.de/id/eprint/2097 |
Actions (login required)
 |
View Item |
