Superposition of Three-dimensional Objects: A Fast and Numerically Stable Algorithm for the Calculation of the Matrix of Optimal Rotation. - Manfred J. Sippl; Hans Stegbuchner (Comput. Chem., 1991)

Boltzmann's principle, knowledge-based mean fields and protein folding. An approach to the computational determination of protein structures. - Manfred J. Sippl (J. Comput. Aided Mol. Des., 1993)

[Invited Lecture] Fold Recognition: Techniques, Applications, and Pitfalls. - Manfred J. Sippl (German Conference on Bioinformatics, 1998)

WILMA - automated annotation of protein sequences. - Andreas Prlic; Francisco S. Domingues; Peter Lackner; Manfred J. Sippl (Bioinform., 2004)

NQ-Flipper: validation and correction of asparagine/glutamine amide rotamers in protein crystal structures. - Christian X. Weichenberger; Manfred J. Sippl (Bioinform., 2006)

QSCOP - SCOP quantified by structural relationships. - Stefan J. Suhrer; Markus Wiederstein; Manfred J. Sippl (Bioinform., 2007)

QSCOP-BLAST - fast retrieval of quantified structural information for protein sequences of unknown structure. - Stefan J. Suhrer; Markus Gruber; Manfred J. Sippl (Nucleic Acids Res., 2007)

NQ-Flipper: recognition and correction of erroneous asparagine and glutamine side-chain rotamers in protein structures. - Christian X. Weichenberger; Manfred J. Sippl (Nucleic Acids Res., 2007)

ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins. - Markus Wiederstein; Manfred J. Sippl (Nucleic Acids Res., 2007)

High-performance signal peptide prediction based on sequence alignment techniques. - Karl Frank; Manfred J. Sippl (Bioinform., 2008)

On distance and similarity in fold space. - Manfred J. Sippl (Bioinform., 2008)

A discrete view on fold space. - Manfred J. Sippl; Stefan J. Suhrer; Markus Gruber; Markus Wiederstein (Bioinform., 2008)

A note on difficult structure alignment problems. - Manfred J. Sippl; Markus Wiederstein (Bioinform., 2008)

Visualization of unfavorable interactions in protein folds. - Christian X. Weichenberger; Piotr Byzia; Manfred J. Sippl (Bioinform., 2008)

COPS - a novel workbench for explorations in fold space. - Stefan J. Suhrer; Markus Wiederstein; Markus Gruber; Manfred J. Sippl (Nucleic Acids Res., 2009)

COPS Benchmark: interactive analysis of database search methods. - Karl Frank; Markus Gruber; Manfred J. Sippl (Bioinform., 2010)

Towards the development of standardized methods for comparison, ranking and evaluation of structure alignments. - Alex W. Slater; Javier I. Castellanos; Manfred J. Sippl; Francisco Melo 001 (Bioinform., 2013)

TopMatch-web: pairwise matching of large assemblies of protein and nucleic acid chains in 3D. - Markus Wiederstein; Manfred J. Sippl (Nucleic Acids Res., 2020)