Markov Additive Chains and Applications to Fragment Statistics for Peptide Mass Fingerprinting. - Hans-Michael Kaltenbach; Sebastian Böcker; Sven Rahmann (Systems Biology and Computational Proteomics, 2006)

SAMPI: Protein Identification with Mass Spectra Alignments. - Hans-Michael Kaltenbach; Andreas Wilke; Sebastian Böcker (BMC Bioinform., 2007)

Mass spectra alignments and their significance. - Sebastian Böcker; Hans-Michael Kaltenbach (J. Discrete Algorithms, 2007)

Statistics and algorithms for peptide mass fingerprinting - Hans-Michael Kaltenbach (2007)

Graph-Based Decomposition of Biochemical Reaction Networks into Monotone Subsystems. - Hans-Michael Kaltenbach; Simona Constantinescu; Justin Feigelman; Jörg Stelling (WABI, 2011)

Probabilistic Arithmetic Automata and Their Applications. - Tobias Marschall; Inke Herms; Hans-Michael Kaltenbach; Sven Rahmann (IEEE ACM Trans. Comput. Biol. Bioinform., 2012)

Deterministic Description of Biochemical Networks. - Jörg Stelling; Hans-Michael Kaltenbach (Encyclopedia of Systems and Control, 2015)

A Unified View on Bipartite Species-reaction Graphs and Their Relation to Interaction Graphs and Qualitative Dynamics of Chemical Reaction Networks. - Hans-Michael Kaltenbach (SASB, 2020)

Population Design for Synthetic Gene Circuits. - Baptiste Turpin; Eline Y. Bijman; Hans-Michael Kaltenbach; Jörg Stelling (CMSB, 2021)

Probabilistic thermodynamic analysis of metabolic networks. - Mattia G. Gollub; Hans-Michael Kaltenbach; Jörg Stelling (Bioinform., 2021)

New model of glucose-insulin regulation characterizes effects of physical activity and facilitates personalized treatment evaluation in children and adults with type 1 diabetes. - Julia Deichmann; Sara Bachmann; Marie-Anne Burckhardt; Marc Pfister; Gabor Szinnai; Hans-Michael Kaltenbach (PLoS Comput. Biol., 2023)

Efficient design of synthetic gene circuits under cell-to-cell variability. - Baptiste Turpin; Eline Y. Bijman; Hans-Michael Kaltenbach; Jörg Stelling (BMC Bioinform., 2023)

Optimal Input Design for Model Selection in Systems with Cell-to-Cell Variability. - Andrea Stallvik; Hans-Michael Kaltenbach; Jörg Stelling (CMSB, 2025)