Deep learning in systems medicine. Issue 2 (16th November 2020)

• Record Type: Journal Article
• Authors: Wang, Haiying; Pujos-Guillot, Estelle; Comte, Blandine; de Miranda, Joao Luis; Spiwok, Vojtech; Chorbev, Ivan; Castiglione, Filippo; Tieri, Paolo; Watterson, Steven; McAllister, Roisin; de Melo Malaquias, Tiago; Zanin, Massimiliano; Rai, Taranjit Singh; Zheng, Huiru
• Is Part Of: Briefings in bioinformatics. Volume 22:Issue 2(2021)
• Page Start: 1543
• Page End: 1559
• Publication Date: 2020-11-16
• Subjects: deep learning (DL) -- systems medicine (SM) -- data integration -- biomarker discovery -- disease classification; Genetics -- Data processing -- Periodicals; Molecular biology -- Data processing -- Periodicals; Genomes -- Data processing -- Periodicals; 572.80285
• DOI: 10.1093/bib/bbaa237
• Languages: English
• ISSNs: 1467-5463

Abstract

Abstract: Systems medicine (SM) has emerged as a powerful tool for studying the human body at the systems level with the aim of improving our understanding, prevention and treatment of complex diseases. Being able to automatically extract relevant features needed for a given task from high-dimensional, heterogeneous data, deep learning (DL) holds great promise in this endeavour. This review paper addresses the main developments of DL algorithms and a set of general topics where DL is decisive, namely, within the SM landscape. It discusses how DL can be applied to SM with an emphasis on the applications to predictive, preventive and precision medicine. Several key challenges have been highlighted including delivering clinical impact and improving interpretability. We used some prototypical examples to highlight the relevance and significance of the adoption of DL in SM, one of them is involving the creation of a model for personalized Parkinson's disease. The review offers valuable insights and informs the research in DL and SM.