SysMicrO: A novel systems approach for miRNA target prediction

Hui Liu, Lin Zhang, Qilong Sun, Yidong Chen, Yufei Huang

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

Abstract

MicroRNAs (miRNAs) are single-stranded non-coding RNAs shown to plays important regulatory roles in a wide range of biological processes and diseases. Target prediction is the bottleneck to understand the function of miRNA. Therefore, computational methods have evolved as important tools for genome-wide target screening. Although considerable work in the past few years has produced many target prediction algorithms, it's still hard for biologists to utilize the prediction result to identify miRNA targets. The mainly disadvantage of current target prediction algorithms include: 1 st , most algorithms are solely based on sequence information, 2 nd , accuracy is poor and 3 rd , the prediction results are lacking of biological meaning. A novel systems approach is proposed in this paper that integrates sequence level prediction, gene expression profiling of miRNA transfection as while as knowledge database information, which include signaling pathway and transcription factor regulation information. This systems approach would reduce the false positive rate of target prediction algorithms. More important, the prediction results of this approach will naturally embody gene regulation information, which is convictive guidance for biologist to implement subsequently identification research.

Original languageEnglish (US)
Title of host publicationLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Pages9-16
Number of pages8
Volume6216 LNAI
DOIs
StatePublished - 2010
Event6th International Conference on Intelligent Computing, ICIC 2010 - Changsha, China
Duration: Aug 18 2010Aug 21 2010

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume6216 LNAI
ISSN (Print)03029743
ISSN (Electronic)16113349

Other

Other6th International Conference on Intelligent Computing, ICIC 2010
CountryChina
CityChangsha
Period8/18/108/21/10

Fingerprint

MicroRNA
Target
Prediction
Gene expression
Transcription factors
Gene Regulation
Signaling Pathways
Transcription Factor
Computational methods
Profiling
RNA
False Positive
Computational Methods
Gene Expression
Guidance
Screening
Genome
Genes
Integrate

Keywords

  • GSEA
  • miRNA
  • Signaling Pathway
  • Transcription factor

ASJC Scopus subject areas

  • Computer Science(all)
  • Theoretical Computer Science

Cite this

Liu, H., Zhang, L., Sun, Q., Chen, Y., & Huang, Y. (2010). SysMicrO: A novel systems approach for miRNA target prediction. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (Vol. 6216 LNAI, pp. 9-16). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 6216 LNAI). https://doi.org/10.1007/978-3-642-14932-0_2

SysMicrO : A novel systems approach for miRNA target prediction. / Liu, Hui; Zhang, Lin; Sun, Qilong; Chen, Yidong; Huang, Yufei.

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 6216 LNAI 2010. p. 9-16 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 6216 LNAI).

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

Liu, H, Zhang, L, Sun, Q, Chen, Y & Huang, Y 2010, SysMicrO: A novel systems approach for miRNA target prediction. in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). vol. 6216 LNAI, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 6216 LNAI, pp. 9-16, 6th International Conference on Intelligent Computing, ICIC 2010, Changsha, China, 8/18/10. https://doi.org/10.1007/978-3-642-14932-0_2
Liu H, Zhang L, Sun Q, Chen Y, Huang Y. SysMicrO: A novel systems approach for miRNA target prediction. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 6216 LNAI. 2010. p. 9-16. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). https://doi.org/10.1007/978-3-642-14932-0_2
Liu, Hui ; Zhang, Lin ; Sun, Qilong ; Chen, Yidong ; Huang, Yufei. / SysMicrO : A novel systems approach for miRNA target prediction. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 6216 LNAI 2010. pp. 9-16 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).
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