For profiling microRNA expression, microarrays have been the standard technology. However, the recent introduction of deep sequencing technology, enabling the simultaneous sequencing of up to millions of DNA or RNA molecules, has provided another option for profiling microRNAs. Deep sequencing utilizes massively parallel sequencing, generating millions of small RNA sequence reads from a given sample. Profiling of microRNAs by deep sequencing measures absolute abundance and allows for the discovery of novel microRNAs that have eluded previous cloning and standard sequencing efforts.
There are many web-based tools available for handling microRNA deep sequencing data:
- Creighton CJ, Reid JG, Gunaratne PH. (2009) Expression profiling of microRNAs by deep sequencing. Brief Bioinform 10(5), 490-97. [abstract]