Abstract
Candidate gene identification is typically labour intensive, involving laboratory experiments required to corroborate or disprove any hypothesis for a nominated candidate gene being considered the causative gene. The traditional approach to reduce the number of candidate genes entails fine-mapping studies using markers and pedigrees. Gene prioritization establishes the ranking of candidate genes based on their relevance to the biological process of interest, from which the most promising genes can be selected for further analysis. To date, many computational methods have focused on the prediction of candidate genes by analysis of their inherent sequence characteristics and similarity with respect to known disease genes, as well as their functional annotation. In the last decade, several computational tools for prioritizing candidate genes have been proposed. A large number of them are web-based tools, while others are standalone applications that install and run locally. This review attempts to take a close look at gene prioritization criteria, as well as candidate gene prioritization algorithms, and thus provide a comprehensive synopsis of the subject matter.
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We appreciate Joseph Hannon Bozorgmehr for help with English editing the manuscript.
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Communicated by J. Graw.
An erratum to this article is available at http://dx.doi.org/10.1007/s00438-015-1117-4.
This article has been retracted by the Editor-in-Chief as it contains previously published figures and tables that have been re-produced without permissions from the original authors and publishers. Moreover, the article contains significant portions of other authors' writings on the same topic in other publications, without sufficient attribution to these earlier works being given. The principal author of the paper has acknowledged that contents from various publications and online sources were used in this review without permission and/or proper reference to the original sources.
The authors apologize for their negligence.
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Masoudi-Nejad, A., Meshkin, A., Haji-Eghrari, B. et al. RETRACTED ARTICLE: Candidate gene prioritization. Mol Genet Genomics 287, 679–698 (2012). https://doi.org/10.1007/s00438-012-0710-z
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DOI: https://doi.org/10.1007/s00438-012-0710-z