microarray expression profiling

One of the limitations of microarray expression profiling is the requirement of prior sequence information, to be used for probe design.  Until recently, this has been limited mostly to that found in public databases (i.e. miRBase), these data having been gathered mainly through a combination of bioinformatics and extensive cloning experiments.  In contrast, deep sequencing is not dependent on any prior sequence information, instead providing information about all RNA species in the sample and allowing for discovery of novel microRNAs or other types of small RNAs.  Thus providing an excellent tool for those studying species where limited sequence information is currently available.  Additionally, new sequence information provided by deep sequencing can be used to design microarray probe content for future large scale expression studies.

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