Publications - Published papers

Please find below publications of our group. Currently, we list 408 papers. Some of the publications are in collaboration with the group of Sonja Prohaska and are also listed in the publication list for her individual group. Access to published papers (access) is restricted to our local network and chosen collaborators. If you have problems accessing electronic information, please let us know:

©NOTICE: All papers are copyrighted by the authors; If you would like to use all or a portion of any paper, please contact the author.

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Publications of the bioinformatics group 2015

Prevalent and distinct spliceosomal 3'-end processing mechanisms for fungal telomerase RNA

Qi, X and Rand, D P and Podlevsky, J D and Li, Y and Mosig, A and Stadler, P F and Chen, J J
Nat Commun. 6: 6105
PREPRINT 15-047: [ Abstract ]

The relaxed square property

Hellmuth, Marc and Marc, Tilen and Ostermeier, Lydia and Stadler, Peter F.
Australasian Journal of Combinatorics Vol 62: No. 3 240-770 (2015)
PREPRINT 15-045: [ Abstract ]
[ Publishers's page ]  paperID

The Grid Property and Product-Like Hypergraphs

Ostermeier, Lydia and Stadler, Peter F.
Graphs and Combinatorics 31(3): 757-770 (2015)
PREPRINT 15-044: [ Abstract ]  [ PDF ]
[ Publishers's page ]

Predicting RNA 3D structure using a coarse-grain helix-centered model

Peter Kerpedjiev, Christian Höner zu Siederdissen, Ivo L. Hofacker
RNA 2015. 21: 1110-1121
PREPRINT 15-042: [ Abstract ]
[ Publishers's page ]

Anomalous scaling in an age-dependent branching model

Stephanie Keller-Schmidt, Murat Tuğrul, Víctor M. Eguíluz, Emilio Hernández-García, and Konstantin Klemm
Physical Review E 91.2 (2015): 022803.
PREPRINT 15-041:
[ Publishers's page ]

Design criteria for synthetic riboswitches acting on transcription

Manja Wachsmuth, Gesine Domin, Ronny Lorenz, Robert Serfling, Sven Findeiß, Peter F Stadler & Mario Mörl
RNA Biology 12: 221-231 (2015)
PREPRINT 15-040: [ Abstract ]
[ Publishers's page ]  paperID

Phylogenomics with paralogs

Hellmuth, Marc and Wieseke, Nicolas and Lechner, Marcus and Lenhof, Hans-Peter and Middendorf, Martin and Stadler, Peter F.
Proceedings of the National Academy of Sciences USA
PREPRINT 15-039: [ Abstract ]
[ Publishers's page ]  paperID

The Expansion of Animal MicroRNA Families Revisited

Jana Hertel, Peter F. Stadler
Life (ISSN 2075-1729)
PREPRINT 15-037: [ Abstract ]  [ Supplement ]  [ Software ]
[ Publishers's page ]  paperID

The ancestor of modern Holozoa acquired the CCA-adding enzyme from Alphaproteobacteria by horizontal gene transfer

Heike Betat, Tobias Mede, Sandy Tretbar, Lydia Steiner, Peter F. Stadler, Mario Mörl, and Sonja J. Prohaska
Nucleic Acids Res. 2015 Jun 27. pii: gkv631
PREPRINT 14-017: [ Abstract ]  [ Supplement ]
[ Publishers's page ]

Comparison of splice sites reveals that long non-coding RNAs are evolutionarily well conserved

Anne Nitsche, Dominic Rose, Mario Fasold, Kristin Reiche, and Peter F. Stadler
RNA May 2015 21: 801-812; Published in Advance March 23, 2015
PREPRINT 12-001: [ Abstract ]  [ Supplement ]
[ Publishers's page ]