SIMMUNE, a tool for simulating and analyzing immune system behavior - Martin Meier-Schellersheim; G. Mack (CoRR, 1999)

Understanding information processing in the immune system; computer modeling and simulations. - Martin Meier-Schellersheim (ICASSP, 2002)

Key Role of Local Regulation in Chemosensing Revealed by a New Molecular Interaction-Based Modeling Method. - Martin Meier-Schellersheim; Xuehua Xu; Bastian Robert Angermann; Eric J. Kunkel; Tian Jin; Ronald N. Germain (PLoS Comput. Biol., 2007)

The Simmune Modeler visual interface for creating signaling networks based on bi-molecular interactions. - Fengkai Zhang; Bastian Robert Angermann; Martin Meier-Schellersheim (Bioinform., 2013)

NetworkViewer: visualizing biochemical reaction networks with embedded rendering of molecular interaction rules. - Hsueh-Chien Cheng; Bastian Robert Angermann; Fengkai Zhang; Martin Meier-Schellersheim (BMC Syst. Biol., 2014)

SBML Level 3 package: Multistate, Multicomponent and Multicompartment Species, Version 1, Release 1. - Fengkai Zhang; Martin Meier-Schellersheim (J. Integr. Bioinform., 2018)

Systems biology markup language (SBML) level 3 package: multistate, multicomponent and multicompartment species, version 1, release 2. - Fengkai Zhang; Lucian P. Smith; Michael L. Blinov; James R. Faeder; William S. Hlavacek; José Juan Tapia; Sarah M. Keating; Nicolas Rodriguez 001; Andreas Dräger; Leonard A. Harris; Andrew Finney; Bin Hu 025; et al. (J. Integr. Bioinform., 2020)

An integrated approach to the characterization of immune repertoires using AIMS: An Automated Immune Molecule Separator. - Christopher T. Boughter; Martin Meier-Schellersheim (PLoS Comput. Biol., 2023)