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

per Scharm, Martin, Waltemath, Dagmar
Publicat a F1000Res (2016)

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

per Henkel, Ron, Wolkenhauer, Olaf, Waltemath, Dagmar
Publicat a Database (Oxford) (2015)

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

per Scharm, Martin, Wolkenhauer, Olaf, Waltemath, Dagmar
Publicat a Bioinformatics (2016)

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

per Scharm, Martin, Waltemath, Dagmar, Mendes, Pedro, Wolkenhauer, Olaf
Publicat a J Biomed Semantics (2016)

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

per Bergmann, Frank T, Nickerson, David, Waltemath, Dagmar, Scharm, Martin
Publicat a Bioinformatics (2017)

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

per Touré, Vasundra, Le Novère, Nicolas, Waltemath, Dagmar, Wolkenhauer, Olaf
Publicat a PLoS Comput Biol (2018)

Annotation-based feature extraction from sets of SBML models

per Alm, Rebekka, Waltemath, Dagmar, Wolfien, Markus, Wolkenhauer, Olaf, Henkel, Ron
Publicat a 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...

per Inau, Esther Thea, Sack, Jean, Waltemath, Dagmar, Zeleke, Atinkut Alamirrew
Publicat a JMIR Res Protoc (2021)

Ranked retrieval of Computational Biology models

per Henkel, Ron, Endler, Lukas, Peters, Andre, Le Novère, Nicolas, Waltemath, Dagmar
Publicat 2010

Notions of similarity for systems biology models

per Henkel, Ron, Hoehndorf, Robert, Kacprowski, Tim, Knüpfer, Christian, Liebermeister, Wolfram, Waltemath, Dagmar
Publicat a Brief Bioinform (2016)

Notions of similarity for systems biology models

per Henkel, Ron, Hoehndorf, Robert, Kacprowski, Tim, Knüpfer, Christian, Liebermeister, Wolfram, Waltemath, Dagmar
Publicat a Brief Bioinform (2017)

Identifying frequent patterns in biochemical reaction networks: a workflow

per Lambusch, Fabienne, Waltemath, Dagmar, Wolkenhauer, Olaf, Sandkuhl, Kurt, Rosenke, Christian, Henkel, Ron
Publicat a Database (Oxford) (2018)

Open modeling and exchange (OMEX) metadata specification version 1.0

per Neal, Maxwell L., Gennari, John H., Waltemath, Dagmar, Nickerson, David P., König, Matthias
Publicat a J Integr Bioinform (2020)

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

per Scharm, Martin, Gebhardt, Tom, Touré, Vasundra, Bagnacani, Andrea, Salehzadeh-Yazdi, Ali, Wolkenhauer, Olaf, Waltemath, Dagmar
Publicat a BMC Syst Biol (2018)

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

per Touré, Vasundra, Mazein, Alexander, Waltemath, Dagmar, Balaur, Irina, Saqi, Mansoor, Henkel, Ron, Pellet, Johann, Auffray, Charles
Publicat a BMC Bioinformatics (2016)

Towards standardization guidelines for in silico approaches in personalized medicine

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

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

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

Specifications of Standards in Systems and Synthetic Biology

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

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

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

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

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