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Analysis of shared miRNAs of different species using ensemble CCA and genetic distance

Author
Cevik, Nazife
Sakar, C. Okan
Kursun, Olcay
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Abstract
MicroRNA is a type of single stranded RNA molecule and has an important role for gene expression. Although there have been a number of computational methodologies in bioinformatics research for miRNA classification and target prediction tasks, analysis of shared miRNAs among different species has not yet been addressed. In this article, we analyzed miRNAs that have the same name and function but have different sequences and belong to different (but closely related) species which are constructed from the online miRBase database. We used sequence-driven features and performed the standard and the ensemble versions of Canonical Correlation Analysis (CCA). However, due to its sensitivity to noise and outliers, we extended it using an ensemble approach. Using linear combinations of dimer features, the proposed Ensemble CCA (ECCA) method has identified higher test-set-correlations than CCA. Moreover, our analysis reveals that the Redundancy Index of ECCA applied to a pair of species has correlation with their genetic distance. (C) 2015 Elsevier Ltd. All rights reserved.
URI
http://hdl.handle.net/20.500.12627/40384
https://doi.org/10.1016/j.compbiomed.2015.06.023
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Creative Commons Lisansı

İstanbul Üniversitesi Akademik Arşiv Sistemi (ilgili içerikte aksi belirtilmediği sürece) Creative Commons Alıntı-GayriTicari-Türetilemez 4.0 Uluslararası Lisansı ile lisanslanmıştır.

DSpace software copyright © 2002-2016  DuraSpace
Contact Us | Send Feedback
Theme by 
Atmire NV