A new Method for Unification of Existing Protein Structure- and Sequence-Families. - Jan Freudenberg; Ralf Zimmer; Daniel Hanisch; Thomas Lengauer (German Conference on Bioinformatics, 2001)

Co-clustering of biological networks and gene expression data. - Daniel Hanisch; Alexander Zien; Ralf Zimmer; Thomas Lengauer (ISMB, 2002)

Improving fold recognition of protein threading by experimental distance constraints. - Mario Albrecht; Daniel Hanisch; Ralf Zimmer; Thomas Lengauer (Silico Biol., 2002)

A hypergraph-based method for unification of existing protein structure- and sequence-families. - Jan Freudenberg; Ralf Zimmer; Daniel Hanisch; Thomas Lengauer (Silico Biol., 2002)

ProML - the Protein Markup Language for specification of protein sequences, structures and families. - Daniel Hanisch; Ralf Zimmer; Thomas Lengauer (Silico Biol., 2002)

Playing Biology's Name Game: Identifying Protein Names in Scientific Text. - Daniel Hanisch; Juliane Fluck; Heinz-Theodor Mevissen; Ralf Zimmer (Pacific Symposium on Biocomputing, 2003)

New methods for joint analysis of biological networks and expression data. - Florian Sohler; Daniel Hanisch; Ralf Zimmer (Bioinform., 2004)

ProMiner: rule-based protein and gene entity recognition. - Daniel Hanisch; Katrin Fundel; Heinz-Theodor Mevissen; Ralf Zimmer; Juliane Fluck (BMC Bioinform., 2005)

New analysis methods for gene expression data via construction and incorporation of biological networks. - Daniel Hanisch (2005)