Dagmar Waltemath

According to our database, Dagmar Waltemath authored at least 82 papers between 2010 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

Making Epidemiological and Clinical Studies FAIR Using the Example of COVID-19.

Iris Pigeot, Wolfgang Ahrens, Johannes Darms, Juliane Fluck, Martin Golebiewski, Horst K. Hahn, Xiaoming Hu, Timm Intemann, Elisa Kasbohm, Toralf Kirsten, Sebastian Klammt, Sophie Anne Ines Klopfenstein, Bianca Lassen-Schmidt, Manuela Peters, Ulrich Sax, Dagmar Waltemath, Carsten Oliver Schmidt

Datenbank-Spektrum, July, 2024

The simulation experiment description markup language (SED-ML): language specification for level 1 version 5.

Lucian P. Smith, Frank T. Bergmann, Alan Garny, Tomás Helikar, Jonathan R. Karr, David P. Nickerson, Herbert M. Sauro, Dagmar Waltemath, Matthias König

J. Integr. Bioinform., 2024

Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024.

Martin Golebiewski, Gary D. Bader, Padraig Gleeson, Thomas E. Gorochowski, Sarah M. Keating, Matthias König, Chris J. Myers, David P. Nickerson, Björn Sommer, Dagmar Waltemath, Falk Schreiber

J. Integr. Bioinform., 2024

MeDaX: A Knowledge Graph on FHIR.

Ilya Mazein, Tom Gebhardt, Lea Michaelis, Dagmar Waltemath, Ron Henkel

Proceedings of the Digital Health and Informatics Innovations for Sustainable Health Care Systems, 2024

Towards FAIR Data Workflows for Multidisciplinary Science: Ongoing Endeavors and Future Perspectives in Plasma Technology.

Robert Wagner, Dagmar Waltemath, Kristina Yordanova, Markus M. Becker

Proceedings of the 13th International Conference on Data Science, 2024

2023

Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022.

Matthias König, Padraig Gleeson, Martin Golebiewski, Thomas E. Gorochowski, Michael Hucka, Sarah M. Keating, Chris J. Myers, David P. Nickerson, Björn Sommer, Dagmar Waltemath, Falk Schreiber

J. Integr. Bioinform., March, 2023

TAPP: Defining standard provenance information for clinical research data and workflows - Obstacles and opportunities.

Kerstin Gierend, Judith A. H. Wodke, Sascha Genehr, Robert Gött, Ron Henkel, Frank Krüger, Markus Mandalka, Lea Michaelis, Alexander Scheuerlein, Max Schröder, Atinkut Zeleke, Dagmar Waltemath

Proceedings of the Companion Proceedings of the ACM Web Conference 2023, 2023

MeDaX project plan: How to sustainably improve biomedical (research) data management.

Judith A. H. Wodke, Ron Henkel, Dagmar Waltemath

Proceedings of the 14th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2023), 2023

Experiences from compiling a FAIR survey in the German Network University Medicine.

Lea Michaelis, Rasim Atakan Poyraz, Michael Rusongoza Muzoora, Kerstin Gierend, Alexander Bartschke, Dagmar Waltemath, Sylvia Thun

Proceedings of the 14th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2023), 2023

First Steps Towards the FAIRification of the DZD CORE DATASET at the German Center for Diabetes Research.

Esther Thea Inau, Angela Dedie, Ivona Anastasova, Andreas Birkenfeld, Brigitte Fröhlich, Martin Hrabe de Angelis, Michael Roden, Renate Schick, Yaroslav Zdravomyslov, Atinkut Zeleke, Dagmar Waltemath, Martin Preusse

Proceedings of the 14th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2023), 2023

Contributions to the reuse and reproducibility of computational biology models.

Ron Henkel, Dagmar Waltemath

Proceedings of the 14th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2023), 2023

Representing Sex and Gender Information in Biomedical Research.

Dagmar Waltemath, Hilke Beelich, Philipp Töpfer, Corinna Bergelt, Agnes Flöel, Elpiniki Katsari, Elke Krüger, Stine Lutze, Michael Schöner, Sebastian Paschen, Moritz Roloff, Hanne Roth, Sylvia Stracke

Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023

Assessing the FAIRness of Deep Learning Models in Cardiovascular Disease Using Computed Tomography Images: Data and Code Perspective.

Kirubel Biruk Shiferaw, Atinkut Zeleke, Dagmar Waltemath

Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023

Insights into the FAIRness of the German Network University Medicine: A Survey.

Lea Michaelis, Rasim Atakan Poyraz, Michael Rusongoza Muzoora, Kerstin Gierend, Alexander Bartschke, Christoph Dieterich, Tim Johann, Dagmar Krefting, Dagmar Waltemath, Sylvia Thun

Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023

Exploring New Possibilities for Research Data Exploration Using the Example of the German Core Data Set.

Felix Menzel, Dagmar Waltemath, Ron Henkel

Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023

Harvesting the Low Hanging Fruits From the FAIRtree.

Esther Thea Inau, Atinkut Zeleke, Dagmar Waltemath

Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023

Exploring Use Cases for CovidGraph.

Lea Gütebier, Ron Henkel, Christian Niklas, Dagmar Waltemath

Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023

Identifying Relevant FHIR Elements for Data Quality Assessment in the German Core Data Set.

Christian Draeger, Erik Tute, Carsten Oliver Schmidt, Dagmar Waltemath, Martin Boeker, Alfred Winter, Matthias Löbe

Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023

Herding Cats in Pandemic Times - Towards Technological and Organizational Convergence of Heterogeneous Solutions for Investigating and Mastering the Pandemic in University Medical Centers.

Dagmar Krefting, Nico T. Mutters, Rüdiger Pryss, Martin Sedlmayr, Martin Boeker, Christoph Dieterich, Carolin Koll, Martina Mueller, Anna Slagman, Dagmar Waltemath, Antje Wulff, Sven Zenker

Proceedings of the MEDINFO 2023 - The Future Is Accessible, 2023

Experiences From FAIRifying Community Data and FAIR Infrastructure in Biomedical Research Domains.

Dagmar Waltemath, Esther Thea Inau, Lea Michaelis, Venkata P. Satagopam, Irina Balaur

Proceedings of the 1st Conference on Research Data Infrastructure - Connecting Communities, 2023

A Survey on the Current Status of Research Data Management in Mecklenburg-Vorpommern Preliminary Results for a Questionnaire Study Among Researchers.

Max Schröder, Sascha Genehr, Rüdiger Köhling, Stefan Schmidt, Ralf Schneider, Sascha Spors, Gero Szepannek, Dagmar Waltemath, Frank Krüger

Proceedings of the 1st Conference on Research Data Infrastructure - Connecting Communities, 2023

Building the Next Generation of Data Savvy Biomedical Researchers.

Jens Dierkes, Birte Lindstädt, Ulrich Sax, Canan Hastik, Julia Fürst, Tanja Hörner, Sebastian Klammt, Ines Perrar, Iris Pigeot, Katja Restel, Carsten Oliver Schmidt, Aliaksandra Shutsko, Dagmar Waltemath, Atinkut Zeleke

Proceedings of the 1st Conference on Research Data Infrastructure - Connecting Communities, 2023

2022

CovidGraph: a graph to fight COVID-19.

Lea Gütebier, Tim Bleimehl, Ron Henkel, Jamie Munro, Sebastian Müller, Axel Morgner, Jakob Laenge, Anke Pachauer, Alexander Erdl, Jens Weimar, Kirsten Walther Langendorf, Vincent Vialard, Thorsten Liebig, Martin Preusse, Dagmar Waltemath, Alexander Jarasch

Bioinform., October, 2022

Addressing <i>barriers in comprehensiveness, accessibility, reusability, interoperability and reproducibility of computational models in systems biology</i>.

Anna Niarakis, Dagmar Waltemath, James A. Glazier, Falk Schreiber, Sarah M. Keating, David P. Nickerson, Claudine Chaouiya, Anne Siegel, Vincent Noël, Henning Hermjakob, Tomás Helikar, Sylvain Soliman, Laurence Calzone

Briefings Bioinform., 2022

Disparities in Regional Publication Trends on the Topic of Artificial Intelligence in Biomedical Science Over the Last Five Years: A Bibliometric Analysis.

Kirubel Biruk Shiferaw, Dagmar Waltemath, Atinkut Zeleke

Proceedings of the Challenges of Trustable AI and Added-Value on Health, 2022

CovidGraph: Integrating COVID-19 Data.

Ron Henkel, Lea Gütebier, Dagmar Waltemath

Proceedings of the Challenges of Trustable AI and Added-Value on Health, 2022

2021

The simulation experiment description markup language (SED-ML): language specification for level 1 version 4.

Lucian P. Smith, Frank T. Bergmann, Alan Garny, Tomás Helikar, Jonathan R. Karr, David P. Nickerson, Herbert M. Sauro, Dagmar Waltemath, Matthias König

J. Integr. Bioinform., 2021

Specifications of standards in systems and synthetic biology: status and developments in 2021.

Falk Schreiber, Padraig Gleeson, Martin Golebiewski, Thomas E. Gorochowski, Michael Hucka, Sarah M. Keating, Matthias König, Chris J. Myers, David P. Nickerson, Björn Sommer, Dagmar Waltemath

J. Integr. Bioinform., 2021

OMEX metadata specification (version 1.2).

John H. Gennari, Matthias König, Goksel Misirli, Maxwell Lewis Neal, David P. Nickerson, Dagmar Waltemath

J. Integr. Bioinform., 2021

SBGN Bricks Ontology as a tool to describe recurring concepts in molecular networks.

Adrien Rougny, Vasundra Touré, John Albanese, Dagmar Waltemath, Denis Shirshov, Anatoly A. Sorokin, Gary D. Bader, Michael L. Blinov, Alexander Mazein

Briefings Bioinform., 2021

COVIDGraph: Connecting Biomedical COVID-19 Resources and Computational Biology Models.

Martin Preusse, Alexander Jarasch, Tim Bleimehl, Sebastian Muller, Jamie Munro, Lea Gütebier, Ron Henkel, Dagmar Waltemath

Proceedings of the 2nd Workshop on Search, 2021

Facilitating Study and Item Level Browsing for Clinical and Epidemiological COVID-19 Studies.

Carsten Oliver Schmidt, Johannes Darms, Aliaksandra Shutsko, Matthias Löbe, Rajini Nagrani, Bastian Seifert, Birte Lindstädt, Martin Golebiewski, Sofiya Koleva, Theresa Bender, Christian Robert Bauer, Ulrich Sax, Xiaoming Hu, Michael Lieser, Vivien Junker, Sophie Klopfenstein, Atinkut Zeleke, Dagmar Waltemath, Iris Pigeot, Juliane Fluck

Proceedings of the Public Health and Informatics, 2021

Investigating the FAIR Equivalency in National Guidance in Health in Kenya.

Esther Thea Inau, Reginald Nalugala, William Muhadi Nandwa, Fredrick Obwanda, Antony Wachira, Dagmar Waltemath, Antonio Cartaxo, Atinkut Zeleke

Proceedings of the Applying the FAIR Principles to Accelerate Health Research in Europe in the Post COVID-19 Era, 2021

2020

The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE).

Dagmar Waltemath, Martin Golebiewski, Michael L. Blinov, Padraig Gleeson, Henning Hermjakob, Michael Hucka, Esther Thea Inau, Sarah M. Keating, Matthias König, Olga Krebs, Rahuman S. Malik-Sheriff, David P. Nickerson, Ernst Oberortner, Herbert M. Sauro, Falk Schreiber, Lucian P. Smith, Melanie I. Stefan, Ulrike Wittig, Chris J. Myers

J. Integr. Bioinform., 2020

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

Falk Schreiber, Björn Sommer, Tobias Czauderna, Martin Golebiewski, Thomas E. Gorochowski, Michael Hucka, Sarah M. Keating, Matthias König, Chris J. Myers, David P. Nickerson, Dagmar Waltemath

J. Integr. Bioinform., 2020

Open modeling and exchange (OMEX) metadata specification version 1.0.

Maxwell Lewis Neal, John H. Gennari, Dagmar Waltemath, David P. Nickerson, Matthias König

J. Integr. Bioinform., 2020

Towards standardization guidelines for in silico approaches in personalized medicine.

Søren Brunak, Catherine Bjerre Collin, Katharina Eva Ó Cathaoir, Martin Golebiewski, Marc Kirschner, Ingrid Kockum, Heike Moser, Dagmar Waltemath

J. Integr. Bioinform., 2020

2019

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

Falk Schreiber, Björn Sommer, Gary D. Bader, Padraig Gleeson, Martin Golebiewski, Michael Hucka, Sarah M. Keating, Matthias König, Chris J. Myers, David P. Nickerson, Dagmar Waltemath

J. Integr. Bioinform., 2019

The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core Release 2.

Michael Hucka, Frank T. Bergmann, Claudine Chaouiya, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Matthias König, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Rahuman S. Malik-Sheriff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson, Fengkai Zhang

J. Integr. Bioinform., 2019

Harmonizing semantic annotations for computational models in biology.

Maxwell Lewis Neal, Matthias König, 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, Samuel H. Friedman, Alan Garny, John H. Gennari, Padraig Gleeson, Martin Golebiewski, Michael Hucka, Nick S. Juty, Chris J. Myers, Brett G. Olivier, Herbert M. Sauro, Martin Scharm, Jacky L. Snoep, Vasundra Touré, Anil Wipat, Olaf Wolkenhauer, Dagmar Waltemath

Briefings Bioinform., 2019

2018

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

Vasundra Touré, Nicolas Le Novère, Dagmar Waltemath, Olaf Wolkenhauer

PLoS Comput. Biol., 2018

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2017.

Falk Schreiber, Gary D. Bader, Padraig Gleeson, Martin Golebiewski, Michael Hucka, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, David P. Nickerson, Björn Sommer, Dagmar Waltemath

J. Integr. Bioinform., 2018

The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core.

Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson

J. Integr. Bioinform., 2018

The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core.

Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson

J. Integr. Bioinform., 2018

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

Frank T. Bergmann, Jonathan Cooper, Matthias König, Ion I. Moraru, David P. Nickerson, Nicolas Le Novère, Brett G. Olivier, Sven Sahle, Lucian P. Smith, Dagmar Waltemath

J. Integr. Bioinform., 2018

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

Identifying frequent patterns in biochemical reaction networks: a workflow.

Fabienne Lambusch, Dagmar Waltemath, Olaf Wolkenhauer, Kurt Sandkuhl, Christian Rosenke, Ron Henkel

Database J. Biol. Databases Curation, 2018

2017

The JWS online simulation database.

Martin Peters, Johann J. Eicher, David D. van Niekerk, Dagmar Waltemath, Jacky L. Snoep

Bioinform., 2017

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

Frank T. Bergmann, David P. Nickerson, Dagmar Waltemath, Martin Scharm

Bioinform., 2017

Notions of similarity for systems biology models.

Ron Henkel, Robert Hoehndorf, Tim Kacprowski, Christian Knüpfer, Wolfram Liebermeister, Dagmar Waltemath

Briefings Bioinform., 2017

A brief history of COMBINE.

Chris J. Myers, Gary D. Bader, Padraig Gleeson, Martin Golebiewski, Michael Hucka, Nicolas Le Novère, David P. Nickerson, Falk Schreiber, Dagmar Waltemath

Proceedings of the 2017 Winter Simulation Conference, 2017

2016

How Modeling Standards, Software, and Initiatives Support Reproducibility in Systems Biology and Systems Medicine.

Dagmar Waltemath, Olaf Wolkenhauer

IEEE Trans. Biomed. Eng., 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, Chris J. Myers, Pinar Pir, Begum Alaybeyoglu, Naveen K. Aranganathan, Kambiz Baghalian, Arne T. Bittig, Paulo E. Pinto Burke, Matteo Cantarelli, Yin Hoon Chew, Rafael S. Costa, Joseph Cursons, Tobias Czauderna, Arthur P. Goldberg, Harold F. Gómez, Jens Hahn, Tuure Hameri, Daniel F. Hernandez Gardiol, Denis Kazakiewicz, Ilya Kiselev, Vincent Knight-Schrijver, Christian Knüpfer, Matthias König, Daewon Lee, Audald Lloret-Villas, Nikita Mandrik, J. Kyle Medley, Bertrand Moreau, Hojjat Naderi-Meshkin, Sucheendra K. Palaniappan, Daniel Priego-Espinosa, Martin Scharm, Mahesh Sharma, Kieran Smallbone, Natalie J. Stanford, Je-Hoon Song, Tom Theile, Milenko Tokic, Namrata Tomar, Vasundra Touré, Jannis Uhlendorf, Thawfeek M. Varusai, Leandro H. Watanabe, Florian Wendland, Markus Wolfien, James T. Yurkovich, Yan Zhu, Argyris Zardilis, Anna Zhukova, Falk Schreiber

IEEE Trans. Biomed. Eng., 2016

Finding patterns in biochemical reaction networks.

Ron Henkel, Fabienne Lambusch, Olaf Wolkenhauer, Kurt Sandkuhl, Christian Rosenke, Dagmar Waltemath

PeerJ Prepr., 2016

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2016.

Falk Schreiber, Gary D. Bader, Padraig Gleeson, Martin Golebiewski, Michael Hucka, Nicolas Le Novère, Chris J. Myers, David P. Nickerson, Björn Sommer, Dagmar Waltemath

J. Integr. Bioinform., 2016

A fully featured COMBINE archive of a simulation study on syncytial mitotic cycles in <i>Drosophila </i>embryos.

Martin Scharm, Dagmar Waltemath

F1000Research, 2016

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

Vasundra Touré, Alexander Mazein, Dagmar Waltemath, Irina Balaur, Mansoor A. S. Saqi, Ron Henkel, Johann Pellet, Charles Auffray

BMC Bioinform., 2016

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

Martin Scharm, Dagmar Waltemath, Pedro Mendes, Olaf Wolkenhauer

J. Biomed. Semant., 2016

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

Martin Scharm, Olaf Wolkenhauer, Dagmar Waltemath

Bioinform., 2016

Challenges and opportunities for system biology standards and tools in medical research.

Matthias König, Anika Oellrich, Dagmar Waltemath, Richard J. B. Dobson, Tim J. P. Hubbard, Olaf Wolkenhauer

Proceedings of the 7th Workshop on Ontologies and Data in Life Sciences, 2016

2015

Finding pattern in biochemical reaction networks - a sub-graph mining approach.

Ron Henkel, Fabienne Lambusch, Dagmar Waltemath

PeerJ Prepr., 2015

Specifications of Standards in Systems and Synthetic Biology.

Falk Schreiber, Gary D. Bader, Martin Golebiewski, Michael Hucka, Benjamin Kormeier, Nicolas Le Novère, Chris J. Myers, David P. Nickerson, Björn Sommer, Dagmar Waltemath, Stephan Weise

J. Integr. Bioinform., 2015

Systems Biology Markup Language (SBML) Level 2 Version 5: Structures and Facilities for Model Definitions.

Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson

J. Integr. Bioinform., 2015

Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 2.

Frank T. Bergmann, Jonathan Cooper, Nicolas Le Novère, David P. Nickerson, Dagmar Waltemath

J. Integr. Bioinform., 2015

Annotation-based feature extraction from sets of SBML models.

Rebekka Alm, Dagmar Waltemath, Markus Wolfien, Olaf Wolkenhauer, Ron Henkel

J. Biomed. Semant., 2015

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

Ron Henkel, Olaf Wolkenhauer, Dagmar Waltemath

Database J. Biol. Databases Curation, 2015

Extracting reproducible simulation studies from model repositories using the combinearchive toolkit.

Martin Scharm, Dagmar Waltemath

Proceedings of the Datenbanksysteme für Business, Technologie und Web (BTW 2015), 2015

2014

Simulation Experiment Description Markup Language (SED-ML).

Dagmar Waltemath, Nicolas Le Novère

Proceedings of the Encyclopedia of Computational Neuroscience, 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, Herbert M. Sauro, Martin Scharm, Stian Soiland-Reyes, Dagmar Waltemath, Florent Yvon, Nicolas Le Novère

CoRR, 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, Herbert M. Sauro, Martin Scharm, Stian Soiland-Reyes, Dagmar Waltemath, Florent Yvon, Nicolas Le Novère

BMC Bioinform., 2014

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

Proceedings of the 7th International Workshop on Semantic Web Applications and Tools for Life Sciences, 2014

How Can Semantic Annotations Support the Identification of Network Similarities?

Christian Rosenke, Dagmar Waltemath

Proceedings of the 7th International Workshop on Semantic Web Applications and Tools for Life Sciences, 2014

MaSyMoS: Finding Hidden Treasures in Model Repositories.

Ron Henkel, Dagmar Waltemath

Proceedings of the 7th International Workshop on Semantic Web Applications and Tools for Life Sciences, 2014

Annotation-Based Feature Extraction from Sets of SBML Models.

Rebekka Alm, Dagmar Waltemath, Olaf Wolkenhauer, Ron Henkel

Proceedings of the Data Integration in the Life Sciences - 10th International Conference, 2014

Information Retrieval in Life Sciences: A Programmatic Survey.

Matthias Lange, Ron Henkel, Wolfgang Müller, Dagmar Waltemath, Stephan Weise

Proceedings of the Approaches in Integrative Bioinformatics - Towards the Virtual Cell, 2014

2013

Improving the reuse of computational models through version control.

Dagmar Waltemath, Ron Henkel, Robert Hälke, Martin Scharm, Olaf Wolkenhauer

Bioinform., 2013

2012

Considerations of graph-based concepts to manage of computational biology models and associated simulations.

Ron Henkel, Nicolas Le Novère, Olaf Wolkenhauer, Dagmar Waltemath

Proceedings of the 57. Jahrestagung der Deutschen Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie, 42. Jahrestagung der Gesellschaft für Informatik, Was bewegt uns in der/die Zukunft?, 2012

2011

Annotation-based storage and retrieval of models and simulation descriptions in computational biology

Dagmar Waltemath

PhD thesis, 2011

Minimum Information About a Simulation Experiment (MIASE).

Dagmar Waltemath, Richard R. Adams, Daniel A. Beard, Frank T. Bergmann, Upinder S. Bhalla, Randall Britten, Vijayalakshmi Chelliah, Mike T. Cooling, Jonathan Cooper, Edmund J. Crampin, Alan Garny, Stefan Hoops, Michael Hucka, Peter J. Hunter, Edda Klipp, Camille Laibe, Andrew K. Miller, Ion I. Moraru, David P. Nickerson, Poul M. F. Nielsen, Macha Nikolski, Sven Sahle, Herbert M. Sauro, Henning Schmidt, Jacky L. Snoep, Dominic P. Tolle, Olaf Wolkenhauer, Nicolas Le Novère

PLoS Comput. Biol., 2011

Das Sombi-Framework zum Ermitteln geeigneter Suchfunktionen für biologische Modelldatenbasen.

Dagmar Waltemath, Ron Henkel, Holger Meyer, Andreas Heuer

Datenbank-Spektrum, 2011

Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language.

Dagmar Waltemath, Richard R. Adams, Frank T. Bergmann, Michael Hucka, Fedor A. Kolpakov, Andrew K. Miller, Ion I. Moraru, David P. Nickerson, Sven Sahle, Jacky L. Snoep, Nicolas Le Novère

BMC Syst. Biol., 2011

2010

Ranked retrieval of Computational Biology models.

Ron Henkel, Lukas Endler, André Peters, Nicolas Le Novère, Dagmar Waltemath

BMC Bioinform., 2010