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Prediction of LncRNA by Using Muitiple Feature Information Fusion and Feature Selection Technique

  • Jun Meng
  • Dingling Jiang
  • Zheng Chang
  • Yushi Luan
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 10955)

Abstract

Recent genomic studies suggest that long non-coding RNAs (lncRNAs) play an important role in regulation of plant growth. Therefore, it is important to find more plant lncRNAs and predict their functions. This paper presents an improved maximum correlation minimum redundancy method for lncRNAs recognition. Sequence feature, secondary structural feature and functional feature such as pseudo-nucleotides feature which is based on the physical and chemical properties between dimers dinucleotide of related RNA have been extracted. Then, using maximum correlation minimum redundancy method to integrate a variety of feature selection methods such as Pearson correlation coefficient, information gain, relief algorithm and random forest for feature selection. Based on the selected superior feature subset, the classification model is established by SVM. Experimental results on Arabidopsis sequence dataset show that pseudo-nucleotides feature reflects information of different RNA sequences and the classification model constructed according to the proposed method can be more accurate than other methods on identification of plant lncRNAs.

Keywords

Ensemble feature selection Maximum correlation minimum redundancy Pseudo nucleotides features Classification LncRNA 

Notes

Acknowledgement

The current study was supported by the National Natural Science Foundation of China (Nos. 61472061 and 31471880), and the Graduate Educational Reform Fund of Dalian University of Technology (Jg2017015).

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Copyright information

© Springer International Publishing AG, part of Springer Nature 2018

Authors and Affiliations

  • Jun Meng
    • 1
  • Dingling Jiang
    • 1
  • Zheng Chang
    • 1
  • Yushi Luan
    • 2
  1. 1.School of Computer Science and TechnologyDalian University of TechnologyDalianChina
  2. 2.School of Life Science and BiotechnologyDalian University of TechnologyDalianChina

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