Peter F. Stadler

Research interests

Publications

• Improved annotation of protein-coding genes boundaries in metazoan mitochondrial genomes

  Nucleic Acids Research · 2019 · 10.1093/nar/gkz833

• Sound–meaning association biases evidenced across thousands of languages

  Proceedings of the National Academy of Sciences · 2016 · 10.1073/pnas.1605782113

• The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons

  Nature Genetics · 2016 · https://doi.org/10.1038/ng.3526

• Dual RNA-seq unveils noncoding RNA functions in host–pathogen interactions

  Nature · 2016 · 10.1038/nature16547

• metilene: fast and sensitive calling of differentially methylated regions from bisulfite sequencing data

  Genome Research · 2015 · 10.1101/gr.196394.115

• The duck genome and transcriptome provide insight into an avian influenza virus reservoir species

  Nature Genetics · 2013 · 10.1038/ng.2657

• The African coelacanth genome provides insights into tetrapod evolution

  Nature · 2013 · https://doi.org/10.1038/nature12027

• The genome of the recently domesticated crop plant sugar beet (Beta vulgaris)

  Nature · 2013 · https://doi.org/10.1038/nature12817

• MITOS: Improved de novo metazoan mitochondrial genome annotation

  Molecular Phylogenetics and Evolution · 2012 · https://doi.org/10.1016/j.ympev.2012.08.023

• Proteinortho: Detection of (Co-)orthologs in large-scale analysis

  BMC Bioinformatics · 2011 · https://doi.org/10.1186/1471-2105-12-124

• ViennaRNA Package 2.0

  Algorithms for Molecular Biology · 2011 · https://doi.org/10.1186/1748-7188-6-26

• The primary transcriptome of the major human pathogen Helicobacter pylori

  Nature · 2010 · 10.1038/nature08756

• Fast Mapping of Short Sequences with Mismatches, Insertions and Deletions Using Index Structures

  PLoS Computational Biology · 2009 · 10.1371/journal.pcbi.1000502

• tRNAdb 2009: compilation of tRNA sequences and tRNA genes

  Nucleic Acids Research · 2008 · 10.1093/nar/gkn772

• RNAalifold: improved consensus structure prediction for RNA alignments

  BMC Bioinformatics · 2008 · 10.1186/1471-2105-9-474

• RNA Maps Reveal New RNA Classes and a Possible Function for Pervasive Transcription

  Science · 2007 · https://doi.org/10.1126/science.1138341

• Interleukin-6–dependent survival of multiple myeloma cells involves the Stat3-mediated induction of microRNA-21 through a highly conserved enhancer

  Blood · 2007 · 10.1182/blood-2007-03-081133

• Inferring Noncoding RNA Families and Classes by Means of Genome-Scale Structure-Based Clustering

  PLoS Computational Biology · 2007 · 10.1371/journal.pcbi.0030065

• Prognostic value of tumor oxygenation in 397 head and neck tumors after primary radiation therapy. An international multi-center study

  Radiotherapy and Oncology · 2005 · 10.1016/j.radonc.2005.06.038

• Fast and reliable prediction of noncoding RNAs

  Proceedings of the National Academy of Sciences · 2005 · 10.1073/pnas.0409169102

• Molecular Evolution of a MicroRNA Cluster

  Journal of Molecular Biology · 2004 · 10.1016/j.jmb.2004.03.065

• Secondary Structure Prediction for Aligned RNA Sequences

  Journal of Molecular Biology · 2002 · 10.1016/s0022-2836(02)00308-x

• Smoothness within ruggedness: the role of neutrality in adaptation.

  Proceedings of the National Academy of Sciences · 1996 · 10.1073/pnas.93.1.397

• From sequences to shapes and back: a case study in RNA secondary structures

  Proceedings of the Royal Society B Biological Sciences · 1994 · 10.1098/rspb.1994.0040

• Fast folding and comparison of RNA secondary structures

  Monatshefte für Chemie - Chemical Monthly · 1994 · https://doi.org/10.1007/bf00818163

Current projects

No projects listed.