Bioinformatics Leipzig

Webservices:

DARIO
- quality control, read normalization, ncRNA quantification and prediction of putative ncRNA candidates on short read RNA-seq datasets

MITOS
- automated annotation of Metazoan mitochondrial genomes

SpliceMap
- produce overview maps of evolutionary conserved splice sites

snoStrip
- analysis of small nucleolar RNAs (snoRNAs) in fungi genomes Databases

tRNAdb
- Transfer RNA Database contains more than 12.000 tRNA genes and about 600 tRNA sequences of 587 species

 

Tools for download:

Vienna RNA Package
- Folding and comparing RNA secondary structures.

blockbuster
- Detect blocks of overlapping reads using a gaussian-distribution approach

GotohScan
- Gene finding via semi-global alignment

Kinwalker
- An algorithm for prediction of RNA folding trajectories.

motifSearch
- Detection of tertiary motifs in RNA secondary structure and sequence

PLEXY
- Target prediction for Box C/D snoRNAs

RNAstrand
- Predicts reading direction of structured RNAs in multiple sequence alignments.

RNAplex
- RNAplex is a tool especially created to rapidly search for short interactions between two long RNAs.

RNAsnoop
- RNAsnoop is a tool especially designed to search for putative interactions between a H/ACA snoRNA stem and a list of target sequence.

segemehl
- fast short read mapping with indels.

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