Computational and experimental identification of tissue-specific MicroRNA targets
Book Chapter ResearchOnline@JCUAbstract
In this chapter we discuss computational methods for the prediction of microRNA (miRNA) targets. More specifically, we consider machine learning-based approaches and explain why these methods have been relatively unsuccessful in reducing the number of false positive predictions. Further we suggest approaches designed to improve their performance by considering tissue-specific target regulation. We argue that the miRNA targetome differs depending on the tissue type and introduce a novel algorithm that predicts miRNA targets specifically for colorectal cancer. We discuss features of miRNAs and target sites that affect target recognition, and how next-generation sequencing data can support the identification of novel miRNAs, differentially expressed miRNAs and their tissue-specific mRNA targets. In addition, we introduce some experimental approaches for the validation of miRNA targets as well as web-based resources sharing predicted and validated miRNA target interactions.
Journal
Methods in Molecular Biology
Publication Name
N/A
Volume
1580
ISBN/ISSN
978-1-4939-6866-4
Edition
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Issue
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Pages Count
20
Location
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Publisher
Humana Press Inc.
Publisher Url
N/A
Publisher Location
New York, NY, USA
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N/A
Url
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Date
N/A
EISSN
N/A
DOI
10.1007/978-1-4939-6866-4_11