Background: Certain protein families are highly conserved across distantly related organisms and belong to large and functionally diverse superfamilies. The patterns of conservati...
Background: Remote homology detection is a challenging problem in Bioinformatics. Arguably, profile Hidden Markov Models (pHMMs) are one of the most successful approaches in addre...
Background: Molecular database search tools need statistical models to assess the significance for the resulting hits. In the classical approach one asks the question how probable...
Stefan Wolfsheimer, Inke Herms, Sven Rahmann, Alex...
Background: The optimal score for ungapped local alignments of infinitely long random sequences is known to follow a Gumbel extreme value distribution. Less is known about the imp...
Stefan Wolfsheimer, Bernd Burghardt, Alexander K. ...
Background: Covariance models (CMs) are probabilistic models of RNA secondary structure, analogous to profile hidden Markov models of linear sequence. The dynamic programming algo...