Chapter title |
In Silico Identification of Novel Endo-siRNAs.
|
---|---|
Chapter number | 21 |
Book title |
RNA Interference
|
Published in |
Methods in molecular biology, January 2015
|
DOI | 10.1007/978-1-4939-1538-5_21 |
Pubmed ID | |
Book ISBNs |
978-1-4939-1537-8, 978-1-4939-1538-5
|
Authors |
Andrew Schuster, Grant W Hennig, Nicole Ortogero, Dickson Luong, Wei Yan, Grant W. Hennig, Schuster, Andrew, Hennig, Grant W., Ortogero, Nicole, Luong, Dickson, Yan, Wei |
Abstract |
Many classes of small noncoding RNAs (sncRNAs), such as microRNAs (miRNAs) and endogenous small interfering RNAs (endo-siRNAs), have been identified as important regulators of gene expression. Endo-siRNAs represent an integral part of the endogenous RNAi pathway and have been identified in multiple organisms and cell types. Wide adoption of the next-generation deep sequencing (NGS)-based sncRNA profiling has made the identification of novel sncRNA species more accessible. However, it remains a challenge to identify novel endo-siRNAs that are not collected in the current endo-siRNA databases. We have developed an in silico method for identification of novel endo-siRNAs using small RNA NGS data. Here, we describe our protocol in detail. |
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