Non-coding RNA annotation of the genome of Trichoplax adhaerens (2009)
Hertel, J., Jong, D. De, Marz, M., Rose, D., Tafer, H., Tanzer, A., ...
A detailed annotation of non-protein coding RNAs is typically missing in initial releases of newly sequenced genomes. Here we report on a comprehensive ncRNA annotation of the genome of Trichoplax...
Evidence for human microRNA-offset RNAs in small RNA sequencing data (2009)
Langenberger, D., Bermudez-Santana, C., Hertel, J., Hoffmann, S., Khaitovich, P., Stadler, P.F.
MicroRNA-offset-RNAs (moRNAs) were recently detected as highly abundant class of small RNAs in a basal chordate. Using short read sequencing data, we show here that moRNAs are also produced from...
NcDNAlign: Plausible multiple alignments of non-protein-coding genomic sequences (2008)
Rose, D., Hertel, J., Reiche, K., Stadler, P.F., Hackermüller, J.
Genome-wide multiple sequence alignments (MSAs) are a necessary prerequisite for an increasingly diverse collection of comparative genomic approaches. Here we present a versatile method that...
Vorsitzender des Pr ufungsausschusses (2007)
J Urgen Lind, Saarbr Ucken, J. Hertel, Prof Dr, Prof Dr, W. Wahlster, ...
In dieser Dissertation pr asentieren wir ein pragmatisches Vorgehensmodell f ur die Entwicklung von Multiagentensystemen, das auf einer Kombination von Standardmethoden der Softwaretechnik aufgebaut...
Structured RNAs in the ENCODE selected regions of the human genome (2007)
Washietl, S., Pedersen, J.S., Korbel, J.O., Stocsits, C., Gruber, A.R., Hackermüller, J., ...
Functional RNA structures play an important role both in the context of noncoding RNA transcripts as well as regulatory elements in mRNAs. Here we present a computational study to detect functional...
Computational RNomics of drosophilids (2007)
Rose, D., Hackermüller, J., Washietl, S., Reiche, K., Hertel, J., Findeiß, S., ...
Background: Recent experimental and computational studies have provided overwhelming evidence for a plethora of diverse transcripts that are unrelated to protein-coding genes. One subclass consists...
RNA maps reveal new RNA classes and a possible function for pervasive transcription (2007)
Kapranov, P., Cheng, J., Dike, S., Nix, DA., Duttagupta, R., Willingham, AT., ...