A fully featured COMBINE archive of a simulation study on syncytial mitotic cycles in Drosophila embryos

od Scharm, Martin, Waltemath, Dagmar
Wydane w F1000Res (2016)

Combining computational models, semantic annotations and simulation experiments in a graph database

od Henkel, Ron, Wolkenhauer, Olaf, Waltemath, Dagmar
Wydane w Database (Oxford) (2015)

An algorithm to detect and communicate the differences in computational models describing biological systems

od Scharm, Martin, Wolkenhauer, Olaf, Waltemath, Dagmar
Wydane w Bioinformatics (2016)

COMODI: an ontology to characterise differences in versions of computational models in biology

od Scharm, Martin, Waltemath, Dagmar, Mendes, Pedro, Wolkenhauer, Olaf
Wydane w J Biomed Semantics (2016)

SED-ML web tools: generate, modify and export standard-compliant simulation studies

od Bergmann, Frank T, Nickerson, David, Waltemath, Dagmar, Scharm, Martin
Wydane w Bioinformatics (2017)

Quick tips for creating effective and impactful biological pathways using the Systems Biology Graphical Notation

od Touré, Vasundra, Le Novère, Nicolas, Waltemath, Dagmar, Wolkenhauer, Olaf
Wydane w PLoS Comput Biol (2018)

Annotation-based feature extraction from sets of SBML models

od Alm, Rebekka, Waltemath, Dagmar, Wolfien, Markus, Wolkenhauer, Olaf, Henkel, Ron
Wydane w J Biomed Semantics (2015)

Initiatives, Concepts, and Implementation Practices of FAIR (Findable, Accessible, Interoperable, and Reusable) Data Principles in Health Data Stewardship Practice: Protocol for a...

od Inau, Esther Thea, Sack, Jean, Waltemath, Dagmar, Zeleke, Atinkut Alamirrew
Wydane w JMIR Res Protoc (2021)

Ranked retrieval of Computational Biology models

od Henkel, Ron, Endler, Lukas, Peters, Andre, Le Novère, Nicolas, Waltemath, Dagmar
Wydane 2010

Notions of similarity for systems biology models

od Henkel, Ron, Hoehndorf, Robert, Kacprowski, Tim, Knüpfer, Christian, Liebermeister, Wolfram, Waltemath, Dagmar
Wydane w Brief Bioinform (2016)

Notions of similarity for systems biology models

od Henkel, Ron, Hoehndorf, Robert, Kacprowski, Tim, Knüpfer, Christian, Liebermeister, Wolfram, Waltemath, Dagmar
Wydane w Brief Bioinform (2017)

Identifying frequent patterns in biochemical reaction networks: a workflow

od Lambusch, Fabienne, Waltemath, Dagmar, Wolkenhauer, Olaf, Sandkuhl, Kurt, Rosenke, Christian, Henkel, Ron
Wydane w Database (Oxford) (2018)

Open modeling and exchange (OMEX) metadata specification version 1.0

od Neal, Maxwell L., Gennari, John H., Waltemath, Dagmar, Nickerson, David P., König, Matthias
Wydane w J Integr Bioinform (2020)

Evolution of computational models in BioModels Database and the Physiome Model Repository

od Scharm, Martin, Gebhardt, Tom, Touré, Vasundra, Bagnacani, Andrea, Salehzadeh-Yazdi, Ali, Wolkenhauer, Olaf, Waltemath, Dagmar
Wydane w BMC Syst Biol (2018)

STON: exploring biological pathways using the SBGN standard and graph databases

od Touré, Vasundra, Mazein, Alexander, Waltemath, Dagmar, Balaur, Irina, Saqi, Mansoor, Henkel, Ron, Pellet, Johann, Auffray, Charles
Wydane w BMC Bioinformatics (2016)

Towards standardization guidelines for in silico approaches in personalized medicine

od Brunak, Søren, Bjerre Collin, Catherine, Eva Ó Cathaoir, Katharina, Golebiewski, Martin, Kirschner, Marc, Kockum, Ingrid, Moser, Heike, Waltemath, Dagmar
Wydane w J Integr Bioinform (2020)

Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 3 (L1V3)

od Bergmann, Frank T., Cooper, Jonathan, König, Matthias, Moraru, Ion, Nickerson, David, Le Novère, Nicolas, Olivier, Brett G., Sahle, Sven, Smith, Lucian, Waltemath, Dagmar
Wydane w J Integr Bioinform (2018)

Specifications of Standards in Systems and Synthetic Biology

od Schreiber, Falk, Bader, Gary D., Golebiewski, Martin, Hucka, Michael, Kormeier, Benjamin, Le Novère, Nicolas, Myers, Chris, Nickerson, David, Sommer, Björn, Waltemath, Dagmar, Weise, Stephan
Wydane w J Integr Bioinform (2015)

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019

od Schreiber, Falk, Sommer, Björn, Bader, Gary D., Gleeson, Padraig, Golebiewski, Martin, Hucka, Michael, Keating, Sarah M., König, Matthias, Myers, Chris, Nickerson, David, Waltemath, Dagmar
Wydane w J Integr Bioinform (2019)

Specifications of standards in systems and synthetic biology: status and developments in 2020

od Schreiber, Falk, Sommer, Björn, Czauderna, Tobias, Golebiewski, Martin, Gorochowski, Thomas E., Hucka, Michael, Keating, Sarah M., König, Matthias, Myers, Chris, Nickerson, David, Waltemath, Dagmar
Wydane w J Integr Bioinform (2020)