In silico prioritization based on coexpression can aid epileptic encephalopathy gene discovery

KL Oliver; V Lukic; S Freytag; IE Scheffer; SF Berkovic; M Bahlo

Journal article

In silico prioritization based on coexpression can aid epileptic encephalopathy gene discovery

KL Oliver, V Lukic, S Freytag, IE Scheffer, SF Berkovic, M Bahlo

Neurology Genetics | Published : 2016

DOI: 10.1212/NXG.0000000000000051

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Abstract

Objective: To evaluate the performance of an in silico prioritization approach that was applied to 179 epileptic encephalopathy candidate genes in 2013 and to expand the application of this approach to the whole genome based on expression data from the Allen Human Brain Atlas. Methods: PubMed searches determined which of the 179 epileptic encephalopathy candidate genes had been validated. For validated genes, it was noted whether they were 1 of the 19 of 179 candidates prioritized in 2013. The in silico prioritization approach was applied genome-wide; all genes were ranked according to their coexpression strength with a reference set (i.e., 51 established epileptic encephalopathy genes) in b..

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University of Melbourne Researchers

Karen L Oliver Author

Saskia Freytag Author

Ingrid Scheffer Author

Sam Berkovic Author

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Grants

Awarded by Australian Research Council

Funding Acknowledgements

This work was supported by Victorian State Government Operational Infrastructure Support and Australian Government National Health and Medical Research Council (NHMRC) IRIISS funding to the Walter and Eliza Hall Institute of Medical Research (M.B. and V.L.). The NHMRC of Australia provided further support to S.F.B, I.E.S., and M.B. (Program Grant 628952 to S.F.B. and I.E.S.; Australia Fellowship 466671 to S.F.B.; Practitioner Fellowship 1006110 to I.E.S.; Senior Research Fellowship 1002098 and Program Grant 1054618 to M.B.). M.B. was also supported by an Australian Research Council Future Fellowship (FT100100764).