Altenbuchinger, M. and Rehberg, T. and Zacharias, H. U. and Staemmler, F. and Dettmer, K. and Weber, D. and Hiergeist, A. and Gessner, A. and Holler, E. and Oefner, P. J. and Spang, R. (2017) Reference point insensitive molecular data analysis. BIOINFORMATICS, 33 (2). pp. 219-226. ISSN 1367-4803, 1460-2059
Full text not available from this repository. (Request a copy)Abstract
Motivation: In biomedicine, every molecular measurement is relative to a reference point, like a fixed aliquot of RNA extracted from a tissue, a defined number of blood cells, or a defined volume of biofluid. Reference points are often chosen for practical reasons. For example, we might want to assess the metabolome of a diseased organ but can only measure metabolites in blood or urine. In this case, the observable data only indirectly reflects the disease state. The statistical implications of these discrepancies in reference points have not yet been discussed. Results: Here, we show that reference point discrepancies compromise the performance of regression models like the LASSO. As an alternative, we suggest zero-sum regression for a reference point insensitive analysis. We show that zero-sum regression is superior to the LASSO in case of a poor choice of reference point both in simulations and in an application that integrates intestinal microbiome analysis with metabolomics. Moreover, we describe a novel coordinate descent based algorithm to fit zero-sum elastic nets.
| Item Type: | Article |
|---|---|
| Uncontrolled Keywords: | VERSUS-HOST-DISEASE; STEM-CELL TRANSPLANTATION; LOGISTIC-REGRESSION; VARIABLE SELECTION; C-MYC; REGULARIZATION; MICROBIOME; LASSO; |
| Subjects: | 600 Technology > 610 Medical sciences Medicine |
| Divisions: | Medicine > Institut für Funktionelle Genomik > Lehrstuhl für Funktionelle Genomik (Prof. Oefner) Medicine > Lehrstuhl für Innere Medizin III (Hämatologie und Internistische Onkologie) Medicine > Lehrstuhl für Medizinische Mikrobiologie und Hygiene |
| Depositing User: | Dr. Gernot Deinzer |
| Date Deposited: | 14 Dec 2018 13:01 |
| Last Modified: | 20 Feb 2019 14:37 |
| URI: | https://pred.uni-regensburg.de/id/eprint/555 |
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