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

por Scharm, Martin, Waltemath, Dagmar
Publicado no F1000Res (2016)

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

por Henkel, Ron, Wolkenhauer, Olaf, Waltemath, Dagmar
Publicado no Database (Oxford) (2015)

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

por Scharm, Martin, Wolkenhauer, Olaf, Waltemath, Dagmar
Publicado no Bioinformatics (2016)

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

por Scharm, Martin, Waltemath, Dagmar, Mendes, Pedro, Wolkenhauer, Olaf
Publicado no J Biomed Semantics (2016)

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

por Bergmann, Frank T, Nickerson, David, Waltemath, Dagmar, Scharm, Martin
Publicado no Bioinformatics (2017)

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

por Touré, Vasundra, Le Novère, Nicolas, Waltemath, Dagmar, Wolkenhauer, Olaf
Publicado no PLoS Comput Biol (2018)

Annotation-based feature extraction from sets of SBML models

por Alm, Rebekka, Waltemath, Dagmar, Wolfien, Markus, Wolkenhauer, Olaf, Henkel, Ron
Publicado no 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...

por Inau, Esther Thea, Sack, Jean, Waltemath, Dagmar, Zeleke, Atinkut Alamirrew
Publicado no JMIR Res Protoc (2021)

Ranked retrieval of Computational Biology models

por Henkel, Ron, Endler, Lukas, Peters, Andre, Le Novère, Nicolas, Waltemath, Dagmar
Publicado em 2010

Notions of similarity for systems biology models

por Henkel, Ron, Hoehndorf, Robert, Kacprowski, Tim, Knüpfer, Christian, Liebermeister, Wolfram, Waltemath, Dagmar
Publicado no Brief Bioinform (2016)

Notions of similarity for systems biology models

por Henkel, Ron, Hoehndorf, Robert, Kacprowski, Tim, Knüpfer, Christian, Liebermeister, Wolfram, Waltemath, Dagmar
Publicado no Brief Bioinform (2017)

Identifying frequent patterns in biochemical reaction networks: a workflow

por Lambusch, Fabienne, Waltemath, Dagmar, Wolkenhauer, Olaf, Sandkuhl, Kurt, Rosenke, Christian, Henkel, Ron
Publicado no Database (Oxford) (2018)

Open modeling and exchange (OMEX) metadata specification version 1.0

por Neal, Maxwell L., Gennari, John H., Waltemath, Dagmar, Nickerson, David P., König, Matthias
Publicado no J Integr Bioinform (2020)

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

por Scharm, Martin, Gebhardt, Tom, Touré, Vasundra, Bagnacani, Andrea, Salehzadeh-Yazdi, Ali, Wolkenhauer, Olaf, Waltemath, Dagmar
Publicado no BMC Syst Biol (2018)

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

por Touré, Vasundra, Mazein, Alexander, Waltemath, Dagmar, Balaur, Irina, Saqi, Mansoor, Henkel, Ron, Pellet, Johann, Auffray, Charles
Publicado no BMC Bioinformatics (2016)

Towards standardization guidelines for in silico approaches in personalized medicine

por Brunak, Søren, Bjerre Collin, Catherine, Eva Ó Cathaoir, Katharina, Golebiewski, Martin, Kirschner, Marc, Kockum, Ingrid, Moser, Heike, Waltemath, Dagmar
Publicado no J Integr Bioinform (2020)

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

por Bergmann, Frank T., Cooper, Jonathan, König, Matthias, Moraru, Ion, Nickerson, David, Le Novère, Nicolas, Olivier, Brett G., Sahle, Sven, Smith, Lucian, Waltemath, Dagmar
Publicado no J Integr Bioinform (2018)

Specifications of Standards in Systems and Synthetic Biology

por Schreiber, Falk, Bader, Gary D., Golebiewski, Martin, Hucka, Michael, Kormeier, Benjamin, Le Novère, Nicolas, Myers, Chris, Nickerson, David, Sommer, Björn, Waltemath, Dagmar, Weise, Stephan
Publicado no J Integr Bioinform (2015)

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

por Schreiber, Falk, Sommer, Björn, Bader, Gary D., Gleeson, Padraig, Golebiewski, Martin, Hucka, Michael, Keating, Sarah M., König, Matthias, Myers, Chris, Nickerson, David, Waltemath, Dagmar
Publicado no J Integr Bioinform (2019)

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

por Schreiber, Falk, Sommer, Björn, Czauderna, Tobias, Golebiewski, Martin, Gorochowski, Thomas E., Hucka, Michael, Keating, Sarah M., König, Matthias, Myers, Chris, Nickerson, David, Waltemath, Dagmar
Publicado no J Integr Bioinform (2020)