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- Title
In silico prediction of blood cholesterol levels from genotype data.
- Authors
Reggiani, Francesco; Carraro, Marco; Belligoli, Anna; Sanna, Marta; dal Prà, Chiara; Favaretto, Francesca; Ferrari, Carlo; Vettor, Roberto; Tosatto, Silvio C. E.
- Abstract
In this work we present a framework for blood cholesterol levels prediction from genotype data. The predictor is based on an algorithm for cholesterol metabolism simulation available in literature, implemented and optimized by our group in the R language. The main weakness of the former simulation algorithm was the need of experimental data to simulate mutations in genes altering the cholesterol metabolism. This caveat strongly limited the application of the model in the clinical practice. In this work we present how this limitation could be bypassed thanks to an optimization of model parameters based on patient cholesterol levels retrieved from literature. Prediction performance has been assessed taking into consideration several scoring indices currently used for performance evaluation of machine learning methods. Our assessment shows how the optimization phase improved model performance, compared to the original version available in literature.
- Subjects
BLOOD cholesterol; SIMULATION methods &; models; CHOLESTEROL metabolism; GENOTYPES; MACHINE performance
- Publication
PLoS ONE, 2020, Vol 15, Issue 2, p1
- ISSN
1932-6203
- Publication type
Article
- DOI
10.1371/journal.pone.0227191