User profiles for Peter Stadler
Peter F StadlerProfessor of Bioinformatics, Univ. Leipzig Verified email at bioinf.uni-leipzig.de Cited by 78833 |
MITOS: improved de novo metazoan mitochondrial genome annotation
About 2000 completely sequenced mitochondrial genomes are available from the NCBI
RefSeq data base together with manually curated annotations of their protein-coding genes, …
RefSeq data base together with manually curated annotations of their protein-coding genes, …
[HTML][HTML] RNAalifold: improved consensus structure prediction for RNA alignments
Background The prediction of a consensus structure for a set of related RNAs is an important
first step for subsequent analyses. RNAalifold, which computes the minimum energy …
first step for subsequent analyses. RNAalifold, which computes the minimum energy …
[HTML][HTML] ViennaRNA Package 2.0
…, H Tafer, C Flamm, PF Stadler… - Algorithms for molecular …, 2011 - Springer
Background Secondary structure forms an important intermediate level of description of nucleic
acids that encapsulates the dominating part of the folding energy, is often well conserved …
acids that encapsulates the dominating part of the folding energy, is often well conserved …
[PDF][PDF] Fast folding and comparison of RNA secondary structures
Computer codes for computation and comparison of RNA secondary structures, the Vienna
RNA paCKage, are presented, that are based on dynamic programming algorithms and aim …
RNA paCKage, are presented, that are based on dynamic programming algorithms and aim …
From sequences to shapes and back: a case study in RNA secondary structures
RNA folding is viewed here as a map assigning secondary structures to sequences. At fixed
chain length the number of sequences far exceeds the number of structures. Frequencies of …
chain length the number of sequences far exceeds the number of structures. Frequencies of …
RNA maps reveal new RNA classes and a possible function for pervasive transcription
…, DA Nix, R Duttagupta, AT Willingham, PF Stadler… - Science, 2007 - science.org
Significant fractions of eukaryotic genomes give rise to RNA, much of which is unannotated
and has reduced protein-coding potential. The genomic origins and the associations of …
and has reduced protein-coding potential. The genomic origins and the associations of …
Comparative genomics reveals insights into avian genome evolution and adaptation
Birds are the most species-rich class of tetrapod vertebrates and have wide relevance across
many research fields. We explored bird macroevolution using full genomes from 48 avian …
many research fields. We explored bird macroevolution using full genomes from 48 avian …
[HTML][HTML] Analyses of pig genomes provide insight into porcine demography and evolution
For 10,000 years pigs and humans have shared a close and complex relationship. From
domestication to modern breeding practices, humans have shaped the genomes of domestic …
domestication to modern breeding practices, humans have shaped the genomes of domestic …
The primary transcriptome of the major human pathogen Helicobacter pylori
…, K Reiche, J Hackermüller, R Reinhardt, PF Stadler… - Nature, 2010 - nature.com
Genome sequencing of Helicobacter pylori has revealed the potential proteins and genetic
diversity of this prevalent human pathogen, yet little is known about its transcriptional …
diversity of this prevalent human pathogen, yet little is known about its transcriptional …
[HTML][HTML] Proteinortho: Detection of (Co-)orthologs in large-scale analysis
Background Orthology analysis is an important part of data analysis in many areas of
bioinformatics such as comparative genomics and molecular phylogenetics. The ever-increasing …
bioinformatics such as comparative genomics and molecular phylogenetics. The ever-increasing …