Derivative scores from site accessibility and ranking of miRNA target predictions

Dayem Ullah, Abu Z. M., Sahoo, Sudhakar, Steinhofel, Kathleen and Albrecht, Andreas A. (2012) Derivative scores from site accessibility and ranking of miRNA target predictions. International Journal of Bioinformatics Research and Applications, 8 (3/4) . pp. 171-191. ISSN 1744-5485 [Article] (doi:10.1504/IJBRA.2012.048966)


In the present study, we define derivative scoring functions from PITA and STarMir predictions. The scoring functions are evaluated for up to five selected miRNAs with a relatively large number of validated targets reported by TarBase and miRecords. The average ranking of validated targets returned by PITA and STarMir is compared to the average ranking produced by the new derivatives scores. We obtain an average improvement of 13.6% (STD∼5.7%) relative to the average ranking of validated targets produced by PITA and STarMir.

Item Type: Article
Keywords (uncontrolled): microRNA; RNA secondary structure; target prediction; multi-objective optimisation; Pareto front; site accessibility; ranking predictions; bioinformatics; binding regions; duplex conformations
Research Areas: A. > School of Science and Technology > Computer Science
Item ID: 12397
Depositing User: Andreas Albrecht
Date Deposited: 11 Nov 2013 05:37
Last Modified: 12 Jun 2019 12:28

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