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bioRxiv · 10.1101/773622

DNetPRO: A network approach for low-dimensional signatures from high-throughput data

Curti, N.·Giampieri, E.·Levi, G.·Castellani, G.·Remondini, D.
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Abstract

The objective of many high-throughput \"omics\" studies is to obtain a relatively low-dimensional set of observables - signature - for sample classification purposes (diagnosis, prognosis, stratification). We propose DNetPRO, Discriminant Analysis with Network PROcessing, a supervised signature identification method based on a bottom-up combinatorial approach that exploits the discriminant power of all variable pairs. The algorithm is easily scalable allowing efficient computing even for high number of observables (104 - 105). We show applications on real high-throughput genomic datasets in which our method outperforms existing results, or compares to them but with a smaller number of selected variables. Moreover the linearity of DNetPRO allows a clearer interpretation of the obtained signatures in comparison to non linear classification models

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Curti, N., Giampieri, E., Levi, G., Castellani, G., Remondini, D.. 2019-09-19. DNetPRO: A network approach for low-dimensional signatures from high-throughput data. https://doi.org/10.1101/773622

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