Machine Learning Approaches for the Prioritization of Genomic Variants Impacting Pre-mRNA Splicing.

Machine Learning Approaches for the Prioritization of Genomic Variants Impacting Pre-mRNA Splicing.

Publication date: Nov 26, 2019

Defects in pre-mRNA splicing are frequently a cause of Mendelian disease. Despite the advent of next-generation sequencing, allowing a deeper insight into a patient’s variant landscape, the ability to characterize variants causing splicing defects has not progressed with the same speed. To address this, recent years have seen a sharp spike in the number of splice prediction tools leveraging machine learning approaches, leaving clinical geneticists with a plethora of choices for in silico analysis. In this review, some basic principles of machine learning are introduced in the context of genomics and splicing analysis. A critical comparative approach is then used to describe seven recent machine learning-based splice prediction tools, revealing highly diverse approaches and common caveats. We find that, although great progress has been made in producing specific and sensitive tools, there is still much scope for personalized approaches to prediction of variant impact on splicing. Such approaches may increase diagnostic yields and underpin improvements to patient care.

Rowlands, C.F., Baralle, D., and Ellingford, J.M. Machine Learning Approaches for the Prioritization of Genomic Variants Impacting Pre-mRNA Splicing. 05864. 2019 Cells (8):12.

Concepts Keywords
Mendelian Disease RNA splicing
MRNA Spliceosome
Sequencing Branches of biology
Splicing Gene expression
Frequently Mendelian disease
Splice tools
SON
Alternative splicing

Semantics

Type Source Name
disease MESH Defects

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