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Please use this identifier to cite or link to this item: http://hdl.handle.net/1942/24238

Title: A random effects model for the identification of differential splicing (REIDS) using exon and HTA arrays
Authors: Van Moerbeke, Marijke
Kasim, Adetayo
Talloen, Willem
Reumers, Joke
Gohlmann, Hinrick W. H.
Shkedy, Ziv
Issue Date: 2017
Citation: BMC BIOINFORMATICS, 18, p. 1-14 (Art N° 273)
Abstract: Background: Alternative gene splicing is a common phenomenon in which a single gene gives rise to multiple transcript isoforms. The process is strictly guided and involves a multitude of proteins and regulatory complexes. Unfortunately, aberrant splicing events do occur which have been linked to genetic disorders, such as several types of cancer and neurodegenerative diseases (Fan et al., Theor Biol Med Model 3: 19, 2006). Therefore, understanding the mechanism of alternative splicing and identifying the difference in splicing events between diseased and healthy tissue is crucial in biomedical research with the potential of applications in personalized medicine as well as in drug development. Results: We propose a linear mixed model, Random Effects for the Identification of Differential Splicing (REIDS), for the identification of alternative splicing events. Based on a set of scores, an exon score and an array score, a decision regarding alternative splicing can be made. The model enables the ability to distinguish a differential expressed gene from a differential spliced exon. The proposed model was applied to three case studies concerning both exon and HTA arrays. Conclusion: The REIDS model provides a work flow for the identification of alternative splicing events relying on the established linear mixed model. The model can be applied to different types of arrays.
Notes: [Van Moerbeke, Marijke; Shkedy, Ziv] Hasselt Univ, Interuniv Inst Biostat & Stat Bioinformat, B-3500 Hasselt, Belgium. [Kasim, Adetayo] Univ Durham, Wolfson Res Inst Hlth & Wellbeing, Durham, England. [Talloen, Willem; Reumers, Joke; Gohlmann, Hinrick W. H.] Janssen Pharmaceut, B-2340 Beerse, Belgium.
URI: http://hdl.handle.net/1942/24238
DOI: 10.1186/s12859-017-1687-8
ISI #: 000402096100003
ISSN: 1471-2105
Category: A1
Type: Journal Contribution
Appears in Collections: Research publications

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