Phylogeny meets sequence search. Rainer Spang, Marc Rehmsmeier, and Jens Stoye. Sequence Database Search Using Jumping Alignments. In Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology , pages 367-375, 2000. Marc Rehmsmeier and Martin Vingron.
Phylogenetic information improves homology detection.
Rainer Spang, Marc Rehmsmeier, and Jens Stoye. Non-symmetric Score Matrices and the Detection of Homologous Transmembrane Proteins. In Proceedings of the Ninth International Conference on Intelligent Systems for Molecular Biology , 2001. Other Contributions Marc Rehmsmeier and Robert Giegerich. Classification of RNA sequences via Structure Space Analysis.