NDLI: Identifying multiple stem-loops pre-miRNA using support vector machine

Content Provider	IEEE Xplore Digital Library
Author	Xiaofeng Song Minghao Wang Chen, Y.P. Ping Han
Copyright Year	2011
Description	Author affiliation: Department of Biomedical Engineering, Nanjing University of Aeronautics and Astronautics, Nanjing 210016 China (Xiaofeng Song; Minghao Wang) \|\| Department of Gynecology and Obstetrics, The First Affiliated Hospital with Nanjing Medical, University, Nanjing 210029 China (Ping Han) \|\| Department of Computer Science and Computer Engineering, La Trobe University, Victoria, 3086, Melbourne, Australia (Chen, Y.P.)
Abstract	Those pre-miRNAs with multiple loops are usually excluded in the most existing prediction methods. But as more and more miRNA have been identified, amount of miRNA precursor with multiple loops have been found. Therefore, determining how to effectively predict real pre-miRNA with multiple loops from those large of pseudo pre-miRNAs with multiple loops is an imperative problem. Some features of main branch are extracted to describe pre-miRNA intrinsic features, and SVM classifier is implemented to recognize real pre-miRNA with multiple stem-loops. Training and testing on dataset from miRBase12.0, SVM classifier achieves sensitivity of 75.76% and specificity of 95.16% on human test set, and when being applied to pre-miRNAs of all other species, it correctly identifies 86.71% of them. The proposed method in this work provides a powerful predicting method to recognize the real pre-miRNA with multiple stem-loops.
Starting Page	446
Ending Page	448
File Size	72334
Page Count	3
File Format	PDF
ISBN	9781457716126
e-ISBN	9781457716133
DOI	10.1109/BIBMW.2011.6112412
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2011-11-12
Publisher Place	USA
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Support vector machines Training Sensitivity RNA Feature extraction Bioinformatics Testing
Content Type	Text
Resource Type	Article

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

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