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Dagmar Waltemath · SciRah

Researcher profile · Semantic Scholar

Dagmar Waltemath

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Dagmar Waltemath — researcher profile on SciRah

h-index: 14
Works: 35
Citations: 1,298

Most-cited papers

Controlled vocabularies and semantics in systems biology
Mélanie Courtot, N. Juty, C. Knüpfer, Dagmar Waltemath +23 more
2011Molecular Systems Biology326 citations Open access
Semantic Scholar
Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language
Dagmar Waltemath, R. Adams, Frank T. Bergmann, M. Hucka +7 more
2011BMC Systems Biology268 citations Open access
Semantic Scholar
COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project
Frank T. Bergmann, R. Adams, S. Moodie, Jonathan Cooper +14 more
2014BMC Bioinformatics159 citations Open access
Semantic Scholar
Bioengineering and Biotechnology Perspective Article Promoting Coordinated Development of Community-based Information Standards for Modeling in Biology: the Combine Initiative
M. Hucka, D. Nickerson, Gary D Bader, Frank T. Bergmann +8 more
98 citations
Semantic Scholar
Harmonizing semantic annotations for computational models in biology
M. Neal, Matthias König, D. Nickerson, Goksel Misirli +25 more
2018bioRxiv64 citations Open access
Semantic Scholar
Toward community standards and software for whole-cell modeling
Dagmar Waltemath, Jonathan R. Karr, Frank T. Bergmann, V. Chelliah +53 more
2016IEEE Transactions on Biomedical Engineering54 citations Open access
Semantic Scholar
Explorer Minimum Information About a Simulation Experiment ( MIASE )
Dagmar Waltemath, R. Adams, D. Beard, Frank T. Bergmann +24 more
201748 citations
Semantic Scholar
Addressing barriers in comprehensiveness, accessibility, reusability, interoperability and reproducibility of computational models in systems biology
A. Niarakis, Dagmar Waltemath, James A. Glazier, Falk Schreiber +9 more
2022Briefings Bioinform.34 citations Open access
Semantic Scholar
Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)
Dagmar Waltemath, Frank T. Bergmann, C. Chaouiya, Tobias Czauderna +17 more
2011Standards in Genomic Sciences31 citations Open access
Semantic Scholar
Systems Biology Markup Language (SBML) Level 2 Version 5: Structures and Facilities for Model Definitions
M. Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops +9 more
2015Journal of Integrative Bioinformatics27 citations Open access
Semantic Scholar
Specifications of Standards in Systems and Synthetic Biology
Falk Schreiber, Gary D Bader, Martin Golebiewski, M. Hucka +7 more
2015Journal of Integrative Bioinformatics20 citations Open access
Semantic Scholar
Minimum Information About a Simulation Experiment (MIASE)
Dagmar Waltemath, R. Adams, Daniel Beard, Frank T. Bergmann +24 more
2011PLoS Comput. Biol.19 citations Open access
Semantic Scholar
From FAIR to CURE: Guidelines for Computational Models of Biological Systems
Herbert M. Sauro, E. Agmon, M. Blinov, J. Gennari +47 more
2025arXiv.org18 citations
Semantic Scholar
Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 2
Frank T. Bergmann, Jonathan Cooper, N. Le Novère, D. Nickerson +1 more
2015Journal of Integrative Bioinformatics15 citations Open access
Semantic Scholar
Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019
Falk Schreiber, B. Sommer, Gary D Bader, Padraig Gleeson +7 more
2019Journal of Integrative Bioinformatics14 citations Open access
Semantic Scholar
Simulation Experiment Description Markup Language (SED-ML) : Level 1 Version 1
Dagmar Waltemath, Frank T. Bergmann, R. Adams, N. Le Novère
201113 citations Open access
Semantic Scholar
SED‐ML web tools: generate, modify and export standard‐compliant simulation studies
Frank T. Bergmann, D. Nickerson, Dagmar Waltemath, Martin Scharm
2017Bioinform.10 citations Open access
Semantic Scholar
A brief history of COMBINE
C. Myers, Gary D Bader, Padraig Gleeson, Martin Golebiewski +5 more
2017Online World Conference on Soft Computing in Industrial Applications10 citations
Semantic Scholar
Kinetic Simulation Algorithm Ontology
A. Zhukova, Dagmar Waltemath, N. Juty, C. Laibe +1 more
20119 citations Open access
Semantic Scholar
Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2017
Falk Schreiber, Gary D Bader, Padraig Gleeson, Martin Golebiewski +7 more
2018Journal of Integrative Bioinformatics8 citations Open access
Semantic Scholar
Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 2.
Frank T. Bergmann, Jonathan Cooper, N. Le Novère, D. Nickerson +1 more
2015Journal of Integrative Bioinformatics8 citations
Semantic Scholar
Simulation Experiment Description Markup Language (SED-ML)
Dagmar Waltemath, N. Le Novère
2014Encyclopedia of Computational Neuroscience8 citations
Semantic Scholar
Data Management in Computational Systems Biology: Exploring Standards, Tools, Databases, and Packaging Best Practices.
N. Stanford, Martin Scharm, P. Dobson, Martin Golebiewski +10 more
2019Methods in molecular biology6 citations
Semantic Scholar
Correction to: Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)
Dagmar Waltemath, Frank T. Bergmann, Claudine Chaouiya, Tobias Czauderna +17 more
2018Standards in Genomic Sciences6 citations Open access
Semantic Scholar
Ten Simple Rules for FAIR Sharing of Experimental and Clinical Data with the Modeling Community
Matthias König, J. Grzegorzewski, Martin Golebiewski, H. Hermjakob +7 more
20215 citations Open access
Semantic Scholar
Overview: Standards for Modeling in Systems Medicine
Andreas Dräger, Dagmar Waltemath
20204 citations Open access
Semantic Scholar
Systems Biology Markup Language (SBML) Level 2 Version 5: Structures and Facilities for Model Definitions
M. Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops +9 more
2015Journal of Integrative Bioinformatics4 citations
Semantic Scholar
SBML Level 3 Package Proposal: Annotation
M. Hucka, C. Laibe, N. Juty, Wolfram Liebermeister +14 more
20114 citations Open access
Semantic Scholar
COMBINE archive: One File To Share Them All
Frank T. Bergmann, R. Adams, S. Moodie, Jonathan Cooper +14 more
2014arXiv.org3 citations
Semantic Scholar
Ontologies for use in Systems Biology: SBO, KiSAO and TEDDY
N. Juty, N. Le Novère, Dagmar Waltemath, Christian Knuepfer
20103 citations Open access
Semantic Scholar
Ten Simple Rules for Sharing Experimental and Clinical Data with the Modeling Community
Matthias König, J. Grzegorzewski, Martin Golebiewski, H. Hermjakob +7 more
20211 citations Open access
Semantic Scholar
Making Models That Matter: How to Build Trustworthy and Useful Systems Biology Models
John M. Hancock, Mihail Anton, Frank T. Bergmann, Irina Balaur +22 more
20260 citations
Semantic Scholar
Graphical Editor for Systems Biology Models
Andreas Dräger, Peter W. Rose, S. Burley, R. Fleming +7 more
20200 citations
Semantic Scholar
Toward standards for tomorrow’s whole-cell models
Dagmar Waltemath, Jonathan R. Karr, Frank T. Bergmann, V. Chelliah +49 more
20150 citations
Semantic Scholar
Searching BioModels Database
R. Henkel, Dagmar Waltemath, Andre Peters, L. Endler +1 more
20100 citations Open access
Semantic Scholar

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M. Hucka×22
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M. Hucka — researcher profile on SciRah
N. Le Novère×18
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N. Le Novère — researcher profile on SciRah
Frank T. Bergmann×16
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Frank T. Bergmann — researcher profile on SciRah
D. Nickerson×16
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D. Nickerson — researcher profile on SciRah

Martin Golebiewski

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Falk Schreiber×12

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Falk Schreiber — researcher profile on SciRah

Sarah M. Keating×11

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Sarah M. Keating — researcher profile on SciRah

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C. Myers — researcher profile on SciRah

Brett G. Olivier×9

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Andreas Dräger×7

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Andreas Dräger — researcher profile on SciRah

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