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bioRxiv · 10.1101/503003

In silico prediction of blood cholesterol levels from genotype data

Reggiani, F.·Carraro, M.·Belligoli, A.·Sanna, M.·dal Pra', C.·Favaretto, F.·Ferrari, C.·Vettor, R.·Tosatto, S. C. E.
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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 R language. 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 patients cholesterol levels retrieved from literature. Prediction performance has been assessed taking in 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.

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Reggiani, F., Carraro, M., Belligoli, A., Sanna, M., dal Pra', C., Favaretto, F., Ferrari, C., Vettor, R., Tosatto, S. C. E.. 2018-12-20. In silico prediction of blood cholesterol levels from genotype data. https://doi.org/10.1101/503003

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