The manuscript describing the iterative protein sequence search method HHblits (HMM-HMM-based lightning-fast iterative sequence search) has been accepted by Nature Methods.
HHblits is the fastest and most sensitive all purpose sequence search method available. It will improve many downstream analysis and prediction methods that, so far, have relied on PSI-BLAST for building multiple sequence alignments.
The method was developed at the Munich Gene Centre of Ludwig-Maximilians-University (LMU) in the group of Johannes Söding. They describe their current research topics as follows:
Protein Bioinformatics & Computational Biology Research Group Söding
"Our group works on two complementary topics. First, we develop computational methods for predicting the structure, function, and evolution of proteins. This involves improving sequence search and alignment methods to make use of the vast amount of sequence information that is becoming available at an ever-increasing pace. Second, we want to understand how transcriptional regulation, which represents the most important level of cellular regulation, is encoded in each genes regulatory regions. We develop computational methods to predict transcriptional output, using quantitative modeling and statistical machine learning techniques."
Look at:
http://www.soeding.genzentrum.lmu.de/