Improving the reuse of computational models through version control. - Dagmar Waltemath; Ron Henkel; Robert Hälke; Martin Scharm; Olaf Wolkenhauer (Bioinform., 2013)

The CombineArchiveWeb Application - A Web-based Tool to Handle Files Associated with Modelling Results. - Martin Scharm; Florian Wendland; Martin Peters; Markus Wolfien; Tom Theile; Dagmar Waltemath (SWAT4LS, 2014)

COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project. - Frank T. Bergmann; Richard R. Adams; Stuart L. Moodie; Jonathan Cooper; Mihai Glont; Martin Golebiewski; Michael Hucka; Camille Laibe; Andrew K. Miller; David P. Nickerson; Brett G. Olivier; Nicolas Rodriguez 001; et al. (BMC Bioinform., 2014)

COMBINE archive: One File To Share Them All. - Frank T. Bergmann; Richard Adams; Stuart L. Moodie; Jonathan Cooper; Mihai Glont; Martin Golebiewski; Michael Hucka; Camille Laibe; Andrew K. Miller; David P. Nickerson; Brett G. Olivier; Nicolas Rodriguez 001; et al. (CoRR, 2014)

Extracting reproducible simulation studies from model repositories using the combinearchive toolkit. - Martin Scharm; Dagmar Waltemath (BTW Workshops, 2015)

An algorithm to detect and communicate the differences in computational models describing biological systems. - Martin Scharm; Olaf Wolkenhauer; Dagmar Waltemath (Bioinform., 2016)

COMODI: an ontology to characterise differences in versions of computational models in biology. - Martin Scharm; Dagmar Waltemath; Pedro Mendes 001; Olaf Wolkenhauer (J. Biomed. Semant., 2016)

A fully featured COMBINE archive of a simulation study on syncytial mitotic cycles in Drosophila embryos. - Martin Scharm; Dagmar Waltemath (F1000Research, 2016)

Toward Community Standards and Software for Whole-Cell Modeling. - Dagmar Waltemath; Jonathan R. Karr; Frank T. Bergmann; Vijayalakshmi Chelliah; Michael Hucka; Marcus Krantz; Wolfram Liebermeister; Pedro Mendes 001; Chris J. Myers; Pinar Pir; Begum Alaybeyoglu; Naveen K. Aranganathan; et al. (IEEE Trans. Biomed. Eng., 2016)

SED-ML web tools: generate, modify and export standard-compliant simulation studies. - Frank T. Bergmann; David P. Nickerson; Dagmar Waltemath; Martin Scharm (Bioinform., 2017)

Evolution of computational models in BioModels Database and the Physiome Model Repository. - Martin Scharm; Tom Gebhardt; Vasundra Touré; Andrea Bagnacani; Ali Salehzadeh-Yazdi; Olaf Wolkenhauer; Dagmar Waltemath (BMC Syst. Biol., 2018)

Improving reproducibility and reuse of modelling results in the life sciences - Martin Scharm (2018)

Harmonizing semantic annotations for computational models in biology. - Maxwell Lewis Neal; Matthias König 003; David P. Nickerson; Goksel Misirli; Reza Kalbasi; Andreas Dräger; Koray Atalag; Vijayalakshmi Chelliah; Michael T. Cooling; Daniel L. Cook; Sharon M. Crook; Miguel de Alba; et al. (Briefings Bioinform., 2019)

GEMtractor: extracting views into genome-scale metabolic models. - Martin Scharm; Olaf Wolkenhauer; Mahdi Jalili; Ali Salehzadeh-Yazdi (Bioinform., 2020)