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.
Website