Anne-Katrin Emde, Marcel Grunert, David Weese, Knut Reinert and Silke Sperling
(Bioinformatics, accepted for publication)
Deep sequencing has become the method of choice for determining the small RNA content of a cell. Mapping the sequenced reads onto their reference genome serves as the basis for all further analyses, namely for identification and quantification. A look at current literature indicates that common short read mapping tools are suboptimal for the specific requirements of small RNA mapping. A method frequently used is Mega BLAST followed by several filtering steps, even though it is slow and inefficient for this task. MicroRazerS is a tool optimized for mapping short RNAs onto a reference genome. It is an order of magnitude faster than Mega BLAST, more sensitive and easy to handle and adjust. In addition, it is robust in the presence of sequencing errors and SNPs.
You can find our implementation in the download section. Supported platforms are at the moment Linux and Linux 64. Windows and Mac OS X will follow soon.
2009-11-05:
2009-06-13:
For questions, comments, or suggestions feel free to contact Anne-Katrin Emde.
