Exploring features and classifiers to classify microRNA expression profiles of human cancer

Kyung Joong Kim, Sung Bae Cho

Research output: Chapter in Book/Report/Conference proceedingConference contribution

7 Citations (Scopus)

Abstract

Recently, some non-coding small RNAs, known as microRNAs (miRNA), have drawn a lot of attention to identify their role in gene regulation and various biological processes. The miRNA profiles are surprisingly informative, reflecting the malignancy state of the tissues. In this paper, we attempt to explore extensive features and classifiers through a comparative study of the most promising feature selection methods and machine learning classifiers. Here we use the expression profile of 217 miRNAs from 186 samples, including multiple human cancers. Pearson's and Spearman's correlation coefficients, Euclidean distance, cosine coefficient, information gain, mutual information and signal to noise ratio have been used for feature selection. Backpropagation neural network, support vector machine, and k-nearest neighbor have been used for classification. Experimental results indicate that k-nearest neighbor with cosine coefficient produces the best result, 95.0% of recognition rate on the test data.

Original languageEnglish
Title of host publicationNeural Information Processing
Subtitle of host publicationModels and Applications - 17th International Conference, ICONIP 2010, Proceedings
Pages234-241
Number of pages8
EditionPART 2
DOIs
Publication statusPublished - 2010 Dec 21
Event17th International Conference on Neural Information Processing, ICONIP 2010 - Sydney, NSW, Australia
Duration: 2010 Nov 222010 Nov 25

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
NumberPART 2
Volume6444 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

Other17th International Conference on Neural Information Processing, ICONIP 2010
CountryAustralia
CitySydney, NSW
Period10/11/2210/11/25

Fingerprint

MicroRNA
Feature extraction
Cancer
Classifiers
Classify
Classifier
Feature Selection
Nearest Neighbor
RNA
Backpropagation
Gene expression
Support vector machines
Learning systems
Signal to noise ratio
Information Gain
Gene Regulation
Back-propagation Neural Network
Coefficient
Tissue
Euclidean Distance

All Science Journal Classification (ASJC) codes

  • Theoretical Computer Science
  • Computer Science(all)

Cite this

Kim, K. J., & Cho, S. B. (2010). Exploring features and classifiers to classify microRNA expression profiles of human cancer. In Neural Information Processing: Models and Applications - 17th International Conference, ICONIP 2010, Proceedings (PART 2 ed., pp. 234-241). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 6444 LNCS, No. PART 2). https://doi.org/10.1007/978-3-642-17534-3_29
Kim, Kyung Joong ; Cho, Sung Bae. / Exploring features and classifiers to classify microRNA expression profiles of human cancer. Neural Information Processing: Models and Applications - 17th International Conference, ICONIP 2010, Proceedings. PART 2. ed. 2010. pp. 234-241 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); PART 2).
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Kim, KJ & Cho, SB 2010, Exploring features and classifiers to classify microRNA expression profiles of human cancer. in Neural Information Processing: Models and Applications - 17th International Conference, ICONIP 2010, Proceedings. PART 2 edn, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), no. PART 2, vol. 6444 LNCS, pp. 234-241, 17th International Conference on Neural Information Processing, ICONIP 2010, Sydney, NSW, Australia, 10/11/22. https://doi.org/10.1007/978-3-642-17534-3_29

Exploring features and classifiers to classify microRNA expression profiles of human cancer. / Kim, Kyung Joong; Cho, Sung Bae.

Neural Information Processing: Models and Applications - 17th International Conference, ICONIP 2010, Proceedings. PART 2. ed. 2010. p. 234-241 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 6444 LNCS, No. PART 2).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

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Kim KJ, Cho SB. Exploring features and classifiers to classify microRNA expression profiles of human cancer. In Neural Information Processing: Models and Applications - 17th International Conference, ICONIP 2010, Proceedings. PART 2 ed. 2010. p. 234-241. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); PART 2). https://doi.org/10.1007/978-3-642-17534-3_29