Bioinformatics Leipzig

DNA bound proteins such as transcription factors and modified histone proteins play an important role in gene regulation. Therefore, their genomic locations are of great interest. Usually, the location is measured using ChIP-seq and analyzed using a peak-caller. Replicated ChIP-seq experiments become more and more available. Sierra Platinum allows to call peaks for several replicates and also provides a variety of quality measures. Together with integrated visualizations, the quality measures support the assessment of the replicates and the resulting peaks. Sierra Platinum outperforms other methods.

http://sierra.sca-ds.de
de.NBI customer satisfaction survey for Sierra Platinum

MITOS implements a pipeline for the automated annotation of Metazoan mitochondrial genomes. The method is based on an automatic consistent re-annotation of protein coding genes and non-coding RNAs using BLASTX and co-variance models.

http://mitos.bioinf.uni-leipzig.de
de.NBI customer satisfaction survey for Mitos

tRNAdb is an updated and completely restructured version of the "Compilation of tRNA sequences and sequences of tRNA genes" (Sprinzl et al. 2005). It contains more than 12.000 tRNA genes and about 600 tRNA sequences of 587 species.

http://trnadb.bioinf.uni-leipzig.de

DARIO is a free web service that allows to study short read data from small RNA-seq experiments. It provides a wide range of analysis features, including quality control, read normalization, ncRNA quantification and prediction of putative ncRNA candidates.

http://dario.bioinf.uni-leipzig.de/