MatPred: Computational Identification of Mature MicroRNAs within Novel Pre-MicroRNAs

Joint Authors

Wang, Ying
Wang, Lei
Feng, Weixing
Luan, Kuan
Dai, Xuefeng
Xu, Chengzhen
Meng, Xianglian
Zhang, Qiushi
Liang, Hong
Li, Jin

Source

BioMed Research International

Issue

Vol. 2015, Issue 2015 (31 Dec. 2015), pp.1-9, 9 p.

Publisher

Hindawi Publishing Corporation

Publication Date

2015-11-23

Country of Publication

Egypt

No. of Pages

9

Main Subjects

Medicine

Abstract EN

Background.

MicroRNAs (miRNAs) are short noncoding RNAs integral for regulating gene expression at the posttranscriptional level.

However, experimental methods often fall short in finding miRNAs expressed at low levels or in specific tissues.

While several computational methods have been developed for predicting the localization of mature miRNAs within the precursor transcript, the prediction accuracy requires significant improvement.

Methodology/Principal Findings.

Here, we present MatPred, which predicts mature miRNA candidates within novel pre-miRNA transcripts.

In addition to the relative locus of the mature miRNA within the pre-miRNA hairpin loop and minimum free energy, we innovatively integrated features that describe the nucleotide-specific RNA secondary structure characteristics.

In total, 94 features were extracted from the mature miRNA loci and flanking regions.

The model was trained based on a radial basis function kernel/support vector machine (RBF/SVM).

Our method can predict precise locations of mature miRNAs, as affirmed by experimentally verified human pre-miRNAs or pre-miRNAs candidates, thus achieving a significant advantage over existing methods.

Conclusions.

MatPred is a highly effective method for identifying mature miRNAs within novel pre-miRNA transcripts.

Our model significantly outperformed three other widely used existing methods.

Such processing prediction methods may provide important insight into miRNA biogenesis.

American Psychological Association (APA)

Li, Jin& Wang, Ying & Wang, Lei& Feng, Weixing& Luan, Kuan& Dai, Xuefeng…[et al.]. 2015. MatPred: Computational Identification of Mature MicroRNAs within Novel Pre-MicroRNAs. BioMed Research International،Vol. 2015, no. 2015, pp.1-9.
https://search.emarefa.net/detail/BIM-1055896

Modern Language Association (MLA)

Li, Jin…[et al.]. MatPred: Computational Identification of Mature MicroRNAs within Novel Pre-MicroRNAs. BioMed Research International No. 2015 (2015), pp.1-9.
https://search.emarefa.net/detail/BIM-1055896

American Medical Association (AMA)

Li, Jin& Wang, Ying & Wang, Lei& Feng, Weixing& Luan, Kuan& Dai, Xuefeng…[et al.]. MatPred: Computational Identification of Mature MicroRNAs within Novel Pre-MicroRNAs. BioMed Research International. 2015. Vol. 2015, no. 2015, pp.1-9.
https://search.emarefa.net/detail/BIM-1055896

Data Type

Journal Articles

Language

English

Notes

Includes bibliographical references

Record ID

BIM-1055896