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ORCIDBibTeX records: Dagmar Waltemath
@article{DBLP:journals/jib/KonigGGGHKMNSWS23,
author = {Matthias K{\"{o}}nig and
Padraig Gleeson and
Martin Golebiewski and
Thomas E. Gorochowski and
Michael Hucka and
Sarah M. Keating and
Chris J. Myers and
David P. Nickerson and
Bj{\"{o}}rn Sommer and
Dagmar Waltemath and
Falk Schreiber},
title = {Specifications of standards in systems and synthetic biology: status
and developments in 2022 and the {COMBINE} meeting 2022},
journal = {J. Integr. Bioinform.},
volume = {20},
number = {1},
year = {2023},
url = {https://doi.org/10.1515/jib-2023-0004},
doi = {10.1515/JIB-2023-0004},
timestamp = {Wed, 17 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/KonigGGGHKMNSWS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cordi/DierkesLSHFHKPP23,
author = {Jens Dierkes and
Birte Lindst{\"{a}}dt and
Ulrich Sax and
Canan Hastik and
Julia F{\"{u}}rst and
Tanja H{\"{o}}rner and
Sebastian Klammt and
Ines Perrar and
Iris Pigeot and
Katja Restel and
Carsten Oliver Schmidt and
Aliaksandra Shutsko and
Dagmar Waltemath and
Atinkut Zeleke},
editor = {York Sure{-}Vetter and
Carole A. Goble},
title = {Building the Next Generation of Data Savvy Biomedical Researchers},
booktitle = {1st Conference on Research Data Infrastructure - Connecting Communities,
CoRDI 2023, Karlsruhe, Germany, September 12-14, 2023},
publisher = {{TIB} Open Publishing},
year = {2023},
url = {https://doi.org/10.52825/cordi.v1i.368},
doi = {10.52825/CORDI.V1I.368},
timestamp = {Sat, 21 Oct 2023 10:46:27 +0200},
biburl = {https://dblp.org/rec/conf/cordi/DierkesLSHFHKPP23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cordi/SchroderGKSSSSW23,
author = {Max Schr{\"{o}}der and
Sascha Genehr and
R{\"{u}}diger K{\"{o}}hling and
Stefan Schmidt and
Ralf Schneider and
Sascha Spors and
Gero Szepannek and
Dagmar Waltemath and
Frank Kr{\"{u}}ger},
editor = {York Sure{-}Vetter and
Carole A. Goble},
title = {A Survey on the Current Status of Research Data Management in Mecklenburg-Vorpommern
Preliminary Results for a Questionnaire Study Among Researchers},
booktitle = {1st Conference on Research Data Infrastructure - Connecting Communities,
CoRDI 2023, Karlsruhe, Germany, September 12-14, 2023},
publisher = {{TIB} Open Publishing},
year = {2023},
url = {https://doi.org/10.52825/cordi.v1i.303},
doi = {10.52825/CORDI.V1I.303},
timestamp = {Thu, 14 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/cordi/SchroderGKSSSSW23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cordi/WaltemathIMSB23,
author = {Dagmar Waltemath and
Esther Thea Inau and
Lea Michaelis and
Venkata P. Satagopam and
Irina Balaur},
editor = {York Sure{-}Vetter and
Carole A. Goble},
title = {Experiences From FAIRifying Community Data and {FAIR} Infrastructure
in Biomedical Research Domains},
booktitle = {1st Conference on Research Data Infrastructure - Connecting Communities,
CoRDI 2023, Karlsruhe, Germany, September 12-14, 2023},
publisher = {{TIB} Open Publishing},
year = {2023},
url = {https://doi.org/10.52825/cordi.v1i.415},
doi = {10.52825/CORDI.V1I.415},
timestamp = {Thu, 14 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/cordi/WaltemathIMSB23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/medinfo/KreftingMPSBDKM23,
author = {Dagmar Krefting and
Nico T. Mutters and
R{\"{u}}diger Pryss and
Martin Sedlmayr and
Martin Boeker and
Christoph Dieterich and
Carolin Koll and
Martina Mueller and
Anna Slagman and
Dagmar Waltemath and
Antje Wulff and
Sven Zenker},
editor = {Jen Bichel{-}Findlay and
Paula Otero and
Philip Scott and
Elaine Huesing},
title = {Herding Cats in Pandemic Times - Towards Technological and Organizational
Convergence of Heterogeneous Solutions for Investigating and Mastering
the Pandemic in University Medical Centers},
booktitle = {{MEDINFO} 2023 - The Future Is Accessible - Proceedings of the 19th
World Congress on Medical and Health Informatics, Sydney, NSW, Australia,
8-12 July 2023},
series = {Studies in Health Technology and Informatics},
volume = {310},
pages = {1271--1275},
publisher = {{IOS} Press},
year = {2023},
url = {https://doi.org/10.3233/SHTI231169},
doi = {10.3233/SHTI231169},
timestamp = {Sat, 10 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/medinfo/KreftingMPSBDKM23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/ShiferawZW23,
author = {Kirubel Biruk Shiferaw and
Atinkut Zeleke and
Dagmar Waltemath},
editor = {Maria H{\"{a}}gglund and
Madeleine Blusi and
Stefano Bonacina and
Lina Nilsson and
Inge Cort Madsen and
Sylvia Pelayo and
Anne Moen and
Arriel Benis and
Lars Lindsk{\"{o}}ld and
Parisis Gallos},
title = {Assessing the FAIRness of Deep Learning Models in Cardiovascular Disease
Using Computed Tomography Images: Data and Code Perspective},
booktitle = {Caring is Sharing - Exploiting the Value in Data for Health and Innovation
- Proceedings of {MIE} 2023, Gothenburg, Sweden, 22 - 25 May 2023},
series = {Studies in Health Technology and Informatics},
volume = {302},
pages = {63--67},
publisher = {{IOS} Press},
year = {2023},
url = {https://doi.org/10.3233/SHTI230065},
doi = {10.3233/SHTI230065},
timestamp = {Fri, 07 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/ShiferawZW23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/DraegerTSWBWL23,
author = {Christian Draeger and
Erik Tute and
Carsten Oliver Schmidt and
Dagmar Waltemath and
Martin Boeker and
Alfred Winter and
Matthias L{\"{o}}be},
editor = {Maria H{\"{a}}gglund and
Madeleine Blusi and
Stefano Bonacina and
Lina Nilsson and
Inge Cort Madsen and
Sylvia Pelayo and
Anne Moen and
Arriel Benis and
Lars Lindsk{\"{o}}ld and
Parisis Gallos},
title = {Identifying Relevant {FHIR} Elements for Data Quality Assessment in
the German Core Data Set},
booktitle = {Caring is Sharing - Exploiting the Value in Data for Health and Innovation
- Proceedings of {MIE} 2023, Gothenburg, Sweden, 22 - 25 May 2023},
series = {Studies in Health Technology and Informatics},
volume = {302},
pages = {272--276},
publisher = {{IOS} Press},
year = {2023},
url = {https://doi.org/10.3233/SHTI230117},
doi = {10.3233/SHTI230117},
timestamp = {Fri, 07 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/DraegerTSWBWL23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/InauZW23,
author = {Esther Thea Inau and
Atinkut Zeleke and
Dagmar Waltemath},
editor = {Maria H{\"{a}}gglund and
Madeleine Blusi and
Stefano Bonacina and
Lina Nilsson and
Inge Cort Madsen and
Sylvia Pelayo and
Anne Moen and
Arriel Benis and
Lars Lindsk{\"{o}}ld and
Parisis Gallos},
title = {Harvesting the Low Hanging Fruits From the FAIRtree},
booktitle = {Caring is Sharing - Exploiting the Value in Data for Health and Innovation
- Proceedings of {MIE} 2023, Gothenburg, Sweden, 22 - 25 May 2023},
series = {Studies in Health Technology and Informatics},
volume = {302},
pages = {390--391},
publisher = {{IOS} Press},
year = {2023},
url = {https://doi.org/10.3233/SHTI230155},
doi = {10.3233/SHTI230155},
timestamp = {Sun, 06 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/InauZW23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/MichaelisPMGBDJ23,
author = {Lea Michaelis and
Rasim Atakan Poyraz and
Michael Rusongoza Muzoora and
Kerstin Gierend and
Alexander Bartschke and
Christoph Dieterich and
Tim Johann and
Dagmar Krefting and
Dagmar Waltemath and
Sylvia Thun},
editor = {Maria H{\"{a}}gglund and
Madeleine Blusi and
Stefano Bonacina and
Lina Nilsson and
Inge Cort Madsen and
Sylvia Pelayo and
Anne Moen and
Arriel Benis and
Lars Lindsk{\"{o}}ld and
Parisis Gallos},
title = {Insights into the FAIRness of the German Network University Medicine:
{A} Survey},
booktitle = {Caring is Sharing - Exploiting the Value in Data for Health and Innovation
- Proceedings of {MIE} 2023, Gothenburg, Sweden, 22 - 25 May 2023},
series = {Studies in Health Technology and Informatics},
volume = {302},
pages = {741--742},
publisher = {{IOS} Press},
year = {2023},
url = {https://doi.org/10.3233/SHTI230251},
doi = {10.3233/SHTI230251},
timestamp = {Fri, 07 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/MichaelisPMGBDJ23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/GutebierHNW23,
author = {Lea G{\"{u}}tebier and
Ron Henkel and
Christian Niklas and
Dagmar Waltemath},
editor = {Maria H{\"{a}}gglund and
Madeleine Blusi and
Stefano Bonacina and
Lina Nilsson and
Inge Cort Madsen and
Sylvia Pelayo and
Anne Moen and
Arriel Benis and
Lars Lindsk{\"{o}}ld and
Parisis Gallos},
title = {Exploring Use Cases for CovidGraph},
booktitle = {Caring is Sharing - Exploiting the Value in Data for Health and Innovation
- Proceedings of {MIE} 2023, Gothenburg, Sweden, 22 - 25 May 2023},
series = {Studies in Health Technology and Informatics},
volume = {302},
pages = {747--748},
publisher = {{IOS} Press},
year = {2023},
url = {https://doi.org/10.3233/SHTI230254},
doi = {10.3233/SHTI230254},
timestamp = {Wed, 05 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/GutebierHNW23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/MenzelWH23,
author = {Felix Menzel and
Dagmar Waltemath and
Ron Henkel},
editor = {Maria H{\"{a}}gglund and
Madeleine Blusi and
Stefano Bonacina and
Lina Nilsson and
Inge Cort Madsen and
Sylvia Pelayo and
Anne Moen and
Arriel Benis and
Lars Lindsk{\"{o}}ld and
Parisis Gallos},
title = {Exploring New Possibilities for Research Data Exploration Using the
Example of the German Core Data Set},
booktitle = {Caring is Sharing - Exploiting the Value in Data for Health and Innovation
- Proceedings of {MIE} 2023, Gothenburg, Sweden, 22 - 25 May 2023},
series = {Studies in Health Technology and Informatics},
volume = {302},
pages = {749--750},
publisher = {{IOS} Press},
year = {2023},
url = {https://doi.org/10.3233/SHTI230255},
doi = {10.3233/SHTI230255},
timestamp = {Wed, 05 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/MenzelWH23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/WaltemathBTBFKK23,
author = {Dagmar Waltemath and
Hilke Beelich and
Philipp T{\"{o}}pfer and
Corinna Bergelt and
Agnes Fl{\"{o}}el and
Elpiniki Katsari and
Elke Kr{\"{u}}ger and
Stine Lutze and
Michael Sch{\"{o}}ner and
Sebastian Paschen and
Moritz Roloff and
Hanne Roth and
Sylvia Stracke},
editor = {Maria H{\"{a}}gglund and
Madeleine Blusi and
Stefano Bonacina and
Lina Nilsson and
Inge Cort Madsen and
Sylvia Pelayo and
Anne Moen and
Arriel Benis and
Lars Lindsk{\"{o}}ld and
Parisis Gallos},
title = {Representing Sex and Gender Information in Biomedical Research},
booktitle = {Caring is Sharing - Exploiting the Value in Data for Health and Innovation
- Proceedings of {MIE} 2023, Gothenburg, Sweden, 22 - 25 May 2023},
series = {Studies in Health Technology and Informatics},
volume = {302},
pages = {757--758},
publisher = {{IOS} Press},
year = {2023},
url = {https://doi.org/10.3233/SHTI230259},
doi = {10.3233/SHTI230259},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/WaltemathBTBFKK23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/HenkelW23,
author = {Ron Henkel and
Dagmar Waltemath},
editor = {Atsuko Yamaguchi and
Andrea Splendiani and
M. Scott Marshall and
Chris Baker and
Jerven T. Bolleman and
Albert Burger and
Leyla Jael Castro and
Ole Eigenbrod and
Sabine {\"{O}}sterle and
Martin Romacker and
Andra Waagmeester},
title = {Contributions to the reuse and reproducibility of computational biology
models},
booktitle = {14th International Conference on Semantic Web Applications and Tools
for Health Care and Life Sciences {(SWAT4HCLS} 2023), Basel, Switzerland,
February 13-16, 2023},
series = {{CEUR} Workshop Proceedings},
volume = {3415},
pages = {122--123},
publisher = {CEUR-WS.org},
year = {2023},
url = {https://ceur-ws.org/Vol-3415/paper-20.pdf},
timestamp = {Mon, 28 Aug 2023 17:23:07 +0200},
biburl = {https://dblp.org/rec/conf/swat4ls/HenkelW23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/WodkeHW23,
author = {Judith A. H. Wodke and
Ron Henkel and
Dagmar Waltemath},
editor = {Atsuko Yamaguchi and
Andrea Splendiani and
M. Scott Marshall and
Chris Baker and
Jerven T. Bolleman and
Albert Burger and
Leyla Jael Castro and
Ole Eigenbrod and
Sabine {\"{O}}sterle and
Martin Romacker and
Andra Waagmeester},
title = {MeDaX project plan: How to sustainably improve biomedical (research)
data management},
booktitle = {14th International Conference on Semantic Web Applications and Tools
for Health Care and Life Sciences {(SWAT4HCLS} 2023), Basel, Switzerland,
February 13-16, 2023},
series = {{CEUR} Workshop Proceedings},
volume = {3415},
pages = {133--134},
publisher = {CEUR-WS.org},
year = {2023},
url = {https://ceur-ws.org/Vol-3415/paper-25.pdf},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/swat4ls/WodkeHW23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/InauDABFARSZZWP23,
author = {Esther Thea Inau and
Angela Dedie and
Ivona Anastasova and
Andreas Birkenfeld and
Brigitte Fr{\"{o}}hlich and
Martin Hrabe de Angelis and
Michael Roden and
Renate Schick and
Yaroslav Zdravomyslov and
Atinkut Zeleke and
Dagmar Waltemath and
Martin Preusse},
editor = {Atsuko Yamaguchi and
Andrea Splendiani and
M. Scott Marshall and
Chris Baker and
Jerven T. Bolleman and
Albert Burger and
Leyla Jael Castro and
Ole Eigenbrod and
Sabine {\"{O}}sterle and
Martin Romacker and
Andra Waagmeester},
title = {First Steps Towards the FAIRification of the {DZD} {CORE} {DATASET}
at the German Center for Diabetes Research},
booktitle = {14th International Conference on Semantic Web Applications and Tools
for Health Care and Life Sciences {(SWAT4HCLS} 2023), Basel, Switzerland,
February 13-16, 2023},
series = {{CEUR} Workshop Proceedings},
volume = {3415},
pages = {139--140},
publisher = {CEUR-WS.org},
year = {2023},
url = {https://ceur-ws.org/Vol-3415/paper-28.pdf},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/swat4ls/InauDABFARSZZWP23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/MichaelisPMGBWT23,
author = {Lea Michaelis and
Rasim Atakan Poyraz and
Michael Rusongoza Muzoora and
Kerstin Gierend and
Alexander Bartschke and
Dagmar Waltemath and
Sylvia Thun},
editor = {Atsuko Yamaguchi and
Andrea Splendiani and
M. Scott Marshall and
Chris Baker and
Jerven T. Bolleman and
Albert Burger and
Leyla Jael Castro and
Ole Eigenbrod and
Sabine {\"{O}}sterle and
Martin Romacker and
Andra Waagmeester},
title = {Experiences from compiling a {FAIR} survey in the German Network University
Medicine},
booktitle = {14th International Conference on Semantic Web Applications and Tools
for Health Care and Life Sciences {(SWAT4HCLS} 2023), Basel, Switzerland,
February 13-16, 2023},
series = {{CEUR} Workshop Proceedings},
volume = {3415},
pages = {157--158},
publisher = {CEUR-WS.org},
year = {2023},
url = {https://ceur-ws.org/Vol-3415/paper-37.pdf},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/swat4ls/MichaelisPMGBWT23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/www/GierendWGGH0MMS23,
author = {Kerstin Gierend and
Judith A. H. Wodke and
Sascha Genehr and
Robert G{\"{o}}tt and
Ron Henkel and
Frank Kr{\"{u}}ger and
Markus Mandalka and
Lea Michaelis and
Alexander Scheuerlein and
Max Schr{\"{o}}der and
Atinkut Zeleke and
Dagmar Waltemath},
editor = {Ying Ding and
Jie Tang and
Juan F. Sequeda and
Lora Aroyo and
Carlos Castillo and
Geert{-}Jan Houben},
title = {{TAPP:} Defining standard provenance information for clinical research
data and workflows - Obstacles and opportunities},
booktitle = {Companion Proceedings of the {ACM} Web Conference 2023, {WWW} 2023,
Austin, TX, USA, 30 April 2023 - 4 May 2023},
pages = {1551--1554},
publisher = {{ACM}},
year = {2023},
url = {https://doi.org/10.1145/3543873.3587562},
doi = {10.1145/3543873.3587562},
timestamp = {Mon, 28 Aug 2023 21:17:11 +0200},
biburl = {https://dblp.org/rec/conf/www/GierendWGGH0MMS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/NiarakisWGSKNCS22,
author = {Anna Niarakis and
Dagmar Waltemath and
James A. Glazier and
Falk Schreiber and
Sarah M. Keating and
David P. Nickerson and
Claudine Chaouiya and
Anne Siegel and
Vincent No{\"{e}}l and
Henning Hermjakob and
Tom{\'{a}}s Helikar and
Sylvain Soliman and
Laurence Calzone},
title = {Addressing \emph{barriers in comprehensiveness, accessibility, reusability,
interoperability and reproducibility of computational models in systems
biology}},
journal = {Briefings Bioinform.},
volume = {23},
number = {4},
year = {2022},
url = {https://doi.org/10.1093/bib/bbac212},
doi = {10.1093/BIB/BBAC212},
timestamp = {Wed, 05 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/NiarakisWGSKNCS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GutebierBHMMMLPEWLVLPWJ22,
author = {Lea G{\"{u}}tebier and
Tim Bleimehl and
Ron Henkel and
Jamie Munro and
Sebastian M{\"{u}}ller and
Axel Morgner and
Jakob Laenge and
Anke Pachauer and
Alexander Erdl and
Jens Weimar and
Kirsten Walther Langendorf and
Vincent Vialard and
Thorsten Liebig and
Martin Preusse and
Dagmar Waltemath and
Alexander Jarasch},
title = {CovidGraph: a graph to fight {COVID-19}},
journal = {Bioinform.},
volume = {38},
number = {20},
pages = {4843--4845},
year = {2022},
url = {https://doi.org/10.1093/bioinformatics/btac592},
doi = {10.1093/BIOINFORMATICS/BTAC592},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/GutebierBHMMMLPEWLVLPWJ22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/ShiferawWZ22,
author = {Kirubel Biruk Shiferaw and
Dagmar Waltemath and
Atinkut Zeleke},
editor = {Brigitte S{\'{e}}roussi and
Patrick Weber and
Ferdinand Dhombres and
Cyril Grouin and
Jan{-}David Liebe and
Sylvia Pelayo and
Andrea Pinna and
Bastien Rance and
Lucia Sacchi and
Adrien Ugon and
Arriel Benis and
Parisis Gallos},
title = {Disparities in Regional Publication Trends on the Topic of Artificial
Intelligence in Biomedical Science Over the Last Five Years: {A} Bibliometric
Analysis},
booktitle = {Challenges of Trustable {AI} and Added-Value on Health - Proceedings
of {MIE} 2022, Medical Informatics Europe, Nice, France, May 27-30,
2022},
series = {Studies in Health Technology and Informatics},
volume = {294},
pages = {609--613},
publisher = {{IOS} Press},
year = {2022},
url = {https://doi.org/10.3233/SHTI220541},
doi = {10.3233/SHTI220541},
timestamp = {Mon, 05 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/mie/ShiferawWZ22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/HenkelGW22,
author = {Ron Henkel and
Lea G{\"{u}}tebier and
Dagmar Waltemath},
editor = {Brigitte S{\'{e}}roussi and
Patrick Weber and
Ferdinand Dhombres and
Cyril Grouin and
Jan{-}David Liebe and
Sylvia Pelayo and
Andrea Pinna and
Bastien Rance and
Lucia Sacchi and
Adrien Ugon and
Arriel Benis and
Parisis Gallos},
title = {CovidGraph: Integrating {COVID-19} Data},
booktitle = {Challenges of Trustable {AI} and Added-Value on Health - Proceedings
of {MIE} 2022, Medical Informatics Europe, Nice, France, May 27-30,
2022},
series = {Studies in Health Technology and Informatics},
volume = {294},
pages = {711--712},
publisher = {{IOS} Press},
year = {2022},
url = {https://doi.org/10.3233/SHTI220565},
doi = {10.3233/SHTI220565},
timestamp = {Wed, 29 Jun 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/HenkelGW22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/RougnyTAWSSBBM21,
author = {Adrien Rougny and
Vasundra Tour{\'{e}} and
John Albanese and
Dagmar Waltemath and
Denis Shirshov and
Anatoly A. Sorokin and
Gary D. Bader and
Michael L. Blinov and
Alexander Mazein},
title = {{SBGN} Bricks Ontology as a tool to describe recurring concepts in
molecular networks},
journal = {Briefings Bioinform.},
volume = {22},
number = {5},
year = {2021},
url = {https://doi.org/10.1093/bib/bbab049},
doi = {10.1093/BIB/BBAB049},
timestamp = {Sat, 27 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/RougnyTAWSSBBM21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/GennariKMNNW21,
author = {John H. Gennari and
Matthias K{\"{o}}nig and
Goksel Misirli and
Maxwell Lewis Neal and
David P. Nickerson and
Dagmar Waltemath},
title = {{OMEX} metadata specification (version 1.2)},
journal = {J. Integr. Bioinform.},
volume = {18},
number = {3},
year = {2021},
url = {https://doi.org/10.1515/jib-2021-0020},
doi = {10.1515/JIB-2021-0020},
timestamp = {Sun, 22 Oct 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/GennariKMNNW21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/SchreiberGGGHKK21,
author = {Falk Schreiber and
Padraig Gleeson and
Martin Golebiewski and
Thomas E. Gorochowski and
Michael Hucka and
Sarah M. Keating and
Matthias K{\"{o}}nig and
Chris J. Myers and
David P. Nickerson and
Bj{\"{o}}rn Sommer and
Dagmar Waltemath},
title = {Specifications of standards in systems and synthetic biology: status
and developments in 2021},
journal = {J. Integr. Bioinform.},
volume = {18},
number = {3},
year = {2021},
url = {https://doi.org/10.1515/jib-2021-0026},
doi = {10.1515/JIB-2021-0026},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/SchreiberGGGHKK21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/SmithBGHKNSWK21,
author = {Lucian P. Smith and
Frank T. Bergmann and
Alan Garny and
Tom{\'{a}}s Helikar and
Jonathan R. Karr and
David P. Nickerson and
Herbert M. Sauro and
Dagmar Waltemath and
Matthias K{\"{o}}nig},
title = {The simulation experiment description markup language {(SED-ML):}
language specification for level 1 version 4},
journal = {J. Integr. Bioinform.},
volume = {18},
number = {3},
year = {2021},
url = {https://doi.org/10.1515/jib-2021-0021},
doi = {10.1515/JIB-2021-0021},
timestamp = {Sat, 25 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jib/SmithBGHKNSWK21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/efmi-stc/InauNNOWWCZ21,
author = {Esther Thea Inau and
Reginald Nalugala and
William Muhadi Nandwa and
Fredrick Obwanda and
Antony Wachira and
Dagmar Waltemath and
Antonio Cartaxo and
Atinkut Zeleke},
editor = {Jaime Delgado and
Arriel Benis and
Paula de Toledo and
Parisis Gallos and
Mauro Giacomini and
Alicia Martinez{-}Garc{\'{\i}}a and
Dario Salvi},
title = {Investigating the {FAIR} Equivalency in National Guidance in Health
in Kenya},
booktitle = {Applying the {FAIR} Principles to Accelerate Health Research in Europe
in the Post {COVID-19} Era - Proceedings of the 2021 {EFMI} Special
Topic Conference, {EFMI-STC} 2021, Virtual Event / Seville, Spain,
22 - 24 November 2021},
series = {Studies in Health Technology and Informatics},
volume = {287},
pages = {59--60},
publisher = {{IOS} Press},
year = {2021},
url = {https://doi.org/10.3233/SHTI210813},
doi = {10.3233/SHTI210813},
timestamp = {Sun, 06 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/efmi-stc/InauNNOWWCZ21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/SchmidtDSLNSLGK21,
author = {Carsten Oliver Schmidt and
Johannes Darms and
Aliaksandra Shutsko and
Matthias L{\"{o}}be and
Rajini Nagrani and
Bastian Seifert and
Birte Lindst{\"{a}}dt and
Martin Golebiewski and
Sofiya Koleva and
Theresa Bender and
Christian Robert Bauer and
Ulrich Sax and
Xiaoming Hu and
Michael Lieser and
Vivien Junker and
Sophie Klopfenstein and
Atinkut Zeleke and
Dagmar Waltemath and
Iris Pigeot and
Juliane Fluck},
editor = {John Mantas and
Lacramioara Stoicu{-}Tivadar and
Catherine E. Chronaki and
Arie Hasman and
Patrick Weber and
Parisis Gallos and
Mihaela Marcella Vida and
Emmanouil Zoulias and
Oana Sorina Chirila},
title = {Facilitating Study and Item Level Browsing for Clinical and Epidemiological
{COVID-19} Studies},
booktitle = {Public Health and Informatics - Proceedings of {MIE} 2021, Medical
Informatics Europe, Virtual Event, May 29-31, 2021},
series = {Studies in Health Technology and Informatics},
volume = {281},
pages = {794--798},
publisher = {{IOS} Press},
year = {2021},
url = {https://doi.org/10.3233/SHTI210284},
doi = {10.3233/SHTI210284},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/SchmidtDSLNSLGK21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/vldb/PreusseJBMMGHW21,
author = {Martin Preusse and
Alexander Jarasch and
Tim Bleimehl and
Sebastian Muller and
Jamie Munro and
Lea G{\"{u}}tebier and
Ron Henkel and
Dagmar Waltemath},
editor = {Davide Mottin and
Matteo Lissandrini and
Senjuti Basu Roy and
Yannis Velegrakis},
title = {COVIDGraph: Connecting Biomedical {COVID-19} Resources and Computational
Biology Models},
booktitle = {Proceedings of the 2nd Workshop on Search, Exploration, and Analysis
in Heterogeneous Datastores (SEA-Data 2021) co-located with 47th International
Conference on Very Large Data Bases {(VLDB} 2021), Copenhagen, Denmark,
August 20, 2021},
series = {{CEUR} Workshop Proceedings},
volume = {2929},
pages = {34--37},
publisher = {CEUR-WS.org},
year = {2021},
url = {https://ceur-ws.org/Vol-2929/paper6.pdf},
timestamp = {Fri, 10 Mar 2023 16:22:19 +0100},
biburl = {https://dblp.org/rec/conf/vldb/PreusseJBMMGHW21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/BrunakCCGKKMW20,
author = {S{\o}ren Brunak and
Catherine Bjerre Collin and
Katharina Eva {\'{O}} Cathaoir and
Martin Golebiewski and
Marc Kirschner and
Ingrid Kockum and
Heike Moser and
Dagmar Waltemath},
title = {Towards standardization guidelines for in silico approaches in personalized
medicine},
journal = {J. Integr. Bioinform.},
volume = {17},
number = {2-3},
year = {2020},
url = {https://doi.org/10.1515/jib-2020-0006},
doi = {10.1515/JIB-2020-0006},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/BrunakCCGKKMW20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/NealGWNK20,
author = {Maxwell Lewis Neal and
John H. Gennari and
Dagmar Waltemath and
David P. Nickerson and
Matthias K{\"{o}}nig},
title = {Open modeling and exchange {(OMEX)} metadata specification version
1.0},
journal = {J. Integr. Bioinform.},
volume = {17},
number = {2-3},
year = {2020},
url = {https://doi.org/10.1515/jib-2020-0020},
doi = {10.1515/JIB-2020-0020},
timestamp = {Tue, 01 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/NealGWNK20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/SchreiberSCGGHK20,
author = {Falk Schreiber and
Bj{\"{o}}rn Sommer and
Tobias Czauderna and
Martin Golebiewski and
Thomas E. Gorochowski and
Michael Hucka and
Sarah M. Keating and
Matthias K{\"{o}}nig and
Chris J. Myers and
David P. Nickerson and
Dagmar Waltemath},
title = {Specifications of standards in systems and synthetic biology: status
and developments in 2020},
journal = {J. Integr. Bioinform.},
volume = {17},
number = {2-3},
year = {2020},
url = {https://doi.org/10.1515/jib-2020-0022},
doi = {10.1515/JIB-2020-0022},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jib/SchreiberSCGGHK20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/WaltemathGBGHHI20,
author = {Dagmar Waltemath and
Martin Golebiewski and
Michael L. Blinov and
Padraig Gleeson and
Henning Hermjakob and
Michael Hucka and
Esther Thea Inau and
Sarah M. Keating and
Matthias K{\"{o}}nig and
Olga Krebs and
Rahuman S. Malik{-}Sheriff and
David P. Nickerson and
Ernst Oberortner and
Herbert M. Sauro and
Falk Schreiber and
Lucian P. Smith and
Melanie I. Stefan and
Ulrike Wittig and
Chris J. Myers},
title = {The first 10 years of the international coordination network for standards
in systems and synthetic biology {(COMBINE)}},
journal = {J. Integr. Bioinform.},
volume = {17},
number = {2-3},
year = {2020},
url = {https://doi.org/10.1515/jib-2020-0005},
doi = {10.1515/JIB-2020-0005},
timestamp = {Tue, 01 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/WaltemathGBGHHI20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/NealKNMKDACCCCA19,
author = {Maxwell Lewis Neal and
Matthias K{\"{o}}nig and
David P. Nickerson and
Goksel Misirli and
Reza Kalbasi and
Andreas Dr{\"{a}}ger and
Koray Atalag and
Vijayalakshmi Chelliah and
Michael T. Cooling and
Daniel L. Cook and
Sharon M. Crook and
Miguel de Alba and
Samuel H. Friedman and
Alan Garny and
John H. Gennari and
Padraig Gleeson and
Martin Golebiewski and
Michael Hucka and
Nick S. Juty and
Chris J. Myers and
Brett G. Olivier and
Herbert M. Sauro and
Martin Scharm and
Jacky L. Snoep and
Vasundra Tour{\'{e}} and
Anil Wipat and
Olaf Wolkenhauer and
Dagmar Waltemath},
title = {Harmonizing semantic annotations for computational models in biology},
journal = {Briefings Bioinform.},
volume = {20},
number = {2},
pages = {540--550},
year = {2019},
url = {https://doi.org/10.1093/bib/bby087},
doi = {10.1093/BIB/BBY087},
timestamp = {Fri, 14 May 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/NealKNMKDACCCCA19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/HuckaBCDHKKNMOS19,
author = {Michael Hucka and
Frank T. Bergmann and
Claudine Chaouiya and
Andreas Dr{\"{a}}ger and
Stefan Hoops and
Sarah M. Keating and
Matthias K{\"{o}}nig and
Nicolas Le Nov{\`{e}}re and
Chris J. Myers and
Brett G. Olivier and
Sven Sahle and
James C. Schaff and
Rahuman S. Malik{-}Sheriff and
Lucian P. Smith and
Dagmar Waltemath and
Darren J. Wilkinson and
Fengkai Zhang},
title = {The Systems Biology Markup Language {(SBML):} Language Specification
for Level 3 Version 2 Core Release 2},
journal = {J. Integr. Bioinform.},
volume = {16},
number = {2},
year = {2019},
url = {https://doi.org/10.1515/jib-2019-0021},
doi = {10.1515/JIB-2019-0021},
timestamp = {Fri, 14 May 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/HuckaBCDHKKNMOS19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/SchreiberSBGGHK19,
author = {Falk Schreiber and
Bj{\"{o}}rn Sommer and
Gary D. Bader and
Padraig Gleeson and
Martin Golebiewski and
Michael Hucka and
Sarah M. Keating and
Matthias K{\"{o}}nig and
Chris J. Myers and
David P. Nickerson and
Dagmar Waltemath},
title = {Specifications of Standards in Systems and Synthetic Biology: Status
and Developments in 2019},
journal = {J. Integr. Bioinform.},
volume = {16},
number = {2},
year = {2019},
url = {https://doi.org/10.1515/jib-2019-0035},
doi = {10.1515/JIB-2019-0035},
timestamp = {Wed, 08 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jib/SchreiberSBGGHK19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/HenkelHKKLW18,
author = {Ron Henkel and
Robert Hoehndorf and
Tim Kacprowski and
Christian Kn{\"{u}}pfer and
Wolfram Liebermeister and
Dagmar Waltemath},
title = {Notions of similarity for systems biology models},
journal = {Briefings Bioinform.},
volume = {19},
number = {1},
pages = {77--88},
year = {2018},
url = {https://doi.org/10.1093/bib/bbw090},
doi = {10.1093/BIB/BBW090},
timestamp = {Thu, 04 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/HenkelHKKLW18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodb/LambuschWWSRH18,
author = {Fabienne Lambusch and
Dagmar Waltemath and
Olaf Wolkenhauer and
Kurt Sandkuhl and
Christian Rosenke and
Ron Henkel},
title = {Identifying frequent patterns in biochemical reaction networks: a
workflow},
journal = {Database J. Biol. Databases Curation},
volume = {2018},
pages = {bay051},
year = {2018},
url = {https://doi.org/10.1093/database/bay051},
doi = {10.1093/DATABASE/BAY051},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biodb/LambuschWWSRH18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ScharmGTBSWW18,
author = {Martin Scharm and
Tom Gebhardt and
Vasundra Tour{\'{e}} and
Andrea Bagnacani and
Ali Salehzadeh{-}Yazdi and
Olaf Wolkenhauer and
Dagmar Waltemath},
title = {Evolution of computational models in BioModels Database and the Physiome
Model Repository},
journal = {{BMC} Syst. Biol.},
volume = {12},
number = {1},
pages = {53:1--53:10},
year = {2018},
url = {https://doi.org/10.1186/s12918-018-0553-2},
doi = {10.1186/S12918-018-0553-2},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/ScharmGTBSWW18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/BergmannCKMNNOS18,
author = {Frank T. Bergmann and
Jonathan Cooper and
Matthias K{\"{o}}nig and
Ion I. Moraru and
David P. Nickerson and
Nicolas Le Nov{\`{e}}re and
Brett G. Olivier and
Sven Sahle and
Lucian P. Smith and
Dagmar Waltemath},
title = {Simulation Experiment Description Markup Language {(SED-ML)} Level
1 Version 3 {(L1V3)}},
journal = {J. Integr. Bioinform.},
volume = {15},
number = {1},
year = {2018},
url = {https://doi.org/10.1515/jib-2017-0086},
doi = {10.1515/JIB-2017-0086},
timestamp = {Fri, 14 May 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/BergmannCKMNNOS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/HuckaBDHKNMOSSS18,
author = {Michael Hucka and
Frank T. Bergmann and
Andreas Dr{\"{a}}ger and
Stefan Hoops and
Sarah M. Keating and
Nicolas Le Nov{\`{e}}re and
Chris J. Myers and
Brett G. Olivier and
Sven Sahle and
James C. Schaff and
Lucian P. Smith and
Dagmar Waltemath and
Darren J. Wilkinson},
title = {The Systems Biology Markup Language {(SBML):} Language Specification
for Level 3 Version 1 Core},
journal = {J. Integr. Bioinform.},
volume = {15},
number = {1},
year = {2018},
url = {https://doi.org/10.1515/jib-2017-0080},
doi = {10.1515/JIB-2017-0080},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/HuckaBDHKNMOSSS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/HuckaBDHKNMOSSS18a,
author = {Michael Hucka and
Frank T. Bergmann and
Andreas Dr{\"{a}}ger and
Stefan Hoops and
Sarah M. Keating and
Nicolas Le Nov{\`{e}}re and
Chris J. Myers and
Brett G. Olivier and
Sven Sahle and
James C. Schaff and
Lucian P. Smith and
Dagmar Waltemath and
Darren J. Wilkinson},
title = {The Systems Biology Markup Language {(SBML):} Language Specification
for Level 3 Version 2 Core},
journal = {J. Integr. Bioinform.},
volume = {15},
number = {1},
year = {2018},
url = {https://doi.org/10.1515/jib-2017-0081},
doi = {10.1515/JIB-2017-0081},
timestamp = {Tue, 14 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/HuckaBDHKNMOSSS18a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/SchreiberBGGHKN18,
author = {Falk Schreiber and
Gary D. Bader and
Padraig Gleeson and
Martin Golebiewski and
Michael Hucka and
Sarah M. Keating and
Nicolas Le Nov{\`{e}}re and
Chris J. Myers and
David P. Nickerson and
Bj{\"{o}}rn Sommer and
Dagmar Waltemath},
title = {Specifications of Standards in Systems and Synthetic Biology: Status
and Developments in 2017},
journal = {J. Integr. Bioinform.},
volume = {15},
number = {1},
year = {2018},
url = {https://doi.org/10.1515/jib-2018-0013},
doi = {10.1515/JIB-2018-0013},
timestamp = {Wed, 08 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jib/SchreiberBGGHKN18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ToureNWW18,
author = {Vasundra Tour{\'{e}} and
Nicolas Le Nov{\`{e}}re and
Dagmar Waltemath and
Olaf Wolkenhauer},
title = {Quick tips for creating effective and impactful biological pathways
using the Systems Biology Graphical Notation},
journal = {PLoS Comput. Biol.},
volume = {14},
number = {2},
year = {2018},
url = {https://doi.org/10.1371/journal.pcbi.1005740},
doi = {10.1371/JOURNAL.PCBI.1005740},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/ToureNWW18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/peerjpre/LambuschWWSRH18,
author = {Fabienne Lambusch and
Dagmar Waltemath and
Olaf Wolkenhauer and
Kurt Sandkuhl and
Christian Rosenke and
Ron Henkel},
title = {Identifying frequent patterns in biochemical reaction networks - a
workflow},
journal = {PeerJ Prepr.},
volume = {6},
pages = {e1479},
year = {2018},
url = {https://doi.org/10.7287/peerj.preprints.1479v4},
doi = {10.7287/PEERJ.PREPRINTS.1479V4},
timestamp = {Thu, 09 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/peerjpre/LambuschWWSRH18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/HenkelHKKLW17,
author = {Ron Henkel and
Robert Hoehndorf and
Tim Kacprowski and
Christian Kn{\"{u}}pfer and
Wolfram Liebermeister and
Dagmar Waltemath},
title = {Notions of similarity for systems biology models},
journal = {Briefings Bioinform.},
volume = {18},
number = {5},
pages = {902},
year = {2017},
url = {https://doi.org/10.1093/bib/bbw146},
doi = {10.1093/BIB/BBW146},
timestamp = {Thu, 04 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/HenkelHKKLW17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BergmannNWS17,
author = {Frank T. Bergmann and
David P. Nickerson and
Dagmar Waltemath and
Martin Scharm},
title = {{SED-ML} web tools: generate, modify and export standard-compliant
simulation studies},
journal = {Bioinform.},
volume = {33},
number = {8},
pages = {1253--1254},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btw812},
doi = {10.1093/BIOINFORMATICS/BTW812},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BergmannNWS17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/PetersENWS17,
author = {Martin Peters and
Johann J. Eicher and
David D. van Niekerk and
Dagmar Waltemath and
Jacky L. Snoep},
title = {The {JWS} online simulation database},
journal = {Bioinform.},
volume = {33},
number = {10},
pages = {1589--1590},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btw831},
doi = {10.1093/BIOINFORMATICS/BTW831},
timestamp = {Tue, 29 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/PetersENWS17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wsc/MyersBGGHNNSW17,
author = {Chris J. Myers and
Gary D. Bader and
Padraig Gleeson and
Martin Golebiewski and
Michael Hucka and
Nicolas Le Nov{\`{e}}re and
David P. Nickerson and
Falk Schreiber and
Dagmar Waltemath},
title = {A brief history of {COMBINE}},
booktitle = {2017 Winter Simulation Conference, {WSC} 2017, Las Vegas, NV, USA,
December 3-6, 2017},
pages = {884--895},
publisher = {{IEEE}},
year = {2017},
url = {https://doi.org/10.1109/WSC.2017.8247840},
doi = {10.1109/WSC.2017.8247840},
timestamp = {Wed, 16 Oct 2019 14:14:56 +0200},
biburl = {https://dblp.org/rec/conf/wsc/MyersBGGHNNSW17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/peerjpre/LambuschWWSRH17,
author = {Fabienne Lambusch and
Dagmar Waltemath and
Olaf Wolkenhauer and
Kurt Sandkuhl and
Christian Rosenke and
Ron Henkel},
title = {Identifying frequent patterns in biochemical reaction networks - a
workflow},
journal = {PeerJ Prepr.},
volume = {5},
pages = {e1479},
year = {2017},
url = {https://doi.org/10.7287/peerj.preprints.1479v3},
doi = {10.7287/PEERJ.PREPRINTS.1479V3},
timestamp = {Thu, 09 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/peerjpre/LambuschWWSRH17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ScharmWW16,
author = {Martin Scharm and
Olaf Wolkenhauer and
Dagmar Waltemath},
title = {An algorithm to detect and communicate the differences in computational
models describing biological systems},
journal = {Bioinform.},
volume = {32},
number = {4},
pages = {563--570},
year = {2016},
url = {https://doi.org/10.1093/bioinformatics/btv484},
doi = {10.1093/BIOINFORMATICS/BTV484},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ScharmWW16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/ScharmWMW16,
author = {Martin Scharm and
Dagmar Waltemath and
Pedro Mendes and
Olaf Wolkenhauer},
title = {{COMODI:} an ontology to characterise differences in versions of computational
models in biology},
journal = {J. Biomed. Semant.},
volume = {7},
pages = {46},
year = {2016},
url = {https://doi.org/10.1186/s13326-016-0080-2},
doi = {10.1186/S13326-016-0080-2},
timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biomedsem/ScharmWMW16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ToureMWBSHPA16,
author = {Vasundra Tour{\'{e}} and
Alexander Mazein and
Dagmar Waltemath and
Irina Balaur and
Mansoor A. S. Saqi and
Ron Henkel and
Johann Pellet and
Charles Auffray},
title = {{STON:} exploring biological pathways using the {SBGN} standard and
graph databases},
journal = {{BMC} Bioinform.},
volume = {17},
pages = {494:1--494:9},
year = {2016},
url = {https://doi.org/10.1186/s12859-016-1394-x},
doi = {10.1186/S12859-016-1394-X},
timestamp = {Tue, 21 Feb 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ToureMWBSHPA16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/SchreiberBGGHNM16,
author = {Falk Schreiber and
Gary D. Bader and
Padraig Gleeson and
Martin Golebiewski and
Michael Hucka and
Nicolas Le Nov{\`{e}}re and
Chris J. Myers and
David P. Nickerson and
Bj{\"{o}}rn Sommer and
Dagmar Waltemath},
title = {Specifications of Standards in Systems and Synthetic Biology: Status
and Developments in 2016},
journal = {J. Integr. Bioinform.},
volume = {13},
number = {3},
year = {2016},
url = {https://doi.org/10.2390/biecoll-jib-2016-289},
doi = {10.2390/BIECOLL-JIB-2016-289},
timestamp = {Wed, 08 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jib/SchreiberBGGHNM16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tbe/WaltemathW16,
author = {Dagmar Waltemath and
Olaf Wolkenhauer},
title = {How Modeling Standards, Software, and Initiatives Support Reproducibility
in Systems Biology and Systems Medicine},
journal = {{IEEE} Trans. Biomed. Eng.},
volume = {63},
number = {10},
pages = {1999--2006},
year = {2016},
url = {https://doi.org/10.1109/TBME.2016.2555481},
doi = {10.1109/TBME.2016.2555481},
timestamp = {Wed, 02 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tbe/WaltemathW16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tbe/WaltemathKBCHKL16,
author = {Dagmar Waltemath and
Jonathan R. Karr and
Frank T. Bergmann and
Vijayalakshmi Chelliah and
Michael Hucka and
Marcus Krantz and
Wolfram Liebermeister and
Pedro Mendes and
Chris J. Myers and
Pinar Pir and
Begum Alaybeyoglu and
Naveen K. Aranganathan and
Kambiz Baghalian and
Arne T. Bittig and
Paulo E. Pinto Burke and
Matteo Cantarelli and
Yin Hoon Chew and
Rafael S. Costa and
Joseph Cursons and
Tobias Czauderna and
Arthur P. Goldberg and
Harold F. G{\'{o}}mez and
Jens Hahn and
Tuure Hameri and
Daniel F. Hernandez Gardiol and
Denis Kazakiewicz and
Ilya Kiselev and
Vincent Knight{-}Schrijver and
Christian Kn{\"{u}}pfer and
Matthias K{\"{o}}nig and
Daewon Lee and
Audald Lloret{-}Villas and
Nikita Mandrik and
J. Kyle Medley and
Bertrand Moreau and
Hojjat Naderi{-}Meshkin and
Sucheendra K. Palaniappan and
Daniel Priego{-}Espinosa and
Martin Scharm and
Mahesh Sharma and
Kieran Smallbone and
Natalie J. Stanford and
Je{-}Hoon Song and
Tom Theile and
Milenko Tokic and
Namrata Tomar and
Vasundra Tour{\'{e}} and
Jannis Uhlendorf and
Thawfeek M. Varusai and
Leandro H. Watanabe and
Florian Wendland and
Markus Wolfien and
James T. Yurkovich and
Yan Zhu and
Argyris Zardilis and
Anna Zhukova and
Falk Schreiber},
title = {Toward Community Standards and Software for Whole-Cell Modeling},
journal = {{IEEE} Trans. Biomed. Eng.},
volume = {63},
number = {10},
pages = {2007--2014},
year = {2016},
url = {https://doi.org/10.1109/TBME.2016.2560762},
doi = {10.1109/TBME.2016.2560762},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tbe/WaltemathKBCHKL16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/odls/KonigOWDHW16,
author = {Matthias K{\"{o}}nig and
Anika Oellrich and
Dagmar Waltemath and
Richard J. B. Dobson and
Tim J. P. Hubbard and
Olaf Wolkenhauer},
editor = {Frank Loebe and
Martin Boeker and
Heinrich Herre and
Ludger Jansen and
Daniel Schober},
title = {Challenges and opportunities for system biology standards and tools
in medical research},
booktitle = {Proceedings of the 7th Workshop on Ontologies and Data in Life Sciences,
{ODLS} 2016, organized by the {GI} Workgroup Ontologies in Biomedicine
and Life Sciences (OBML), Halle (Saale), Germany, September 29-30,
2016},
series = {{CEUR} Workshop Proceedings},
volume = {1692},
pages = {1--6},
publisher = {CEUR-WS.org},
year = {2016},
url = {https://ceur-ws.org/Vol-1692/paperC.pdf},
timestamp = {Fri, 10 Mar 2023 16:22:13 +0100},
biburl = {https://dblp.org/rec/conf/odls/KonigOWDHW16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/f1000research/ScharmW16,
author = {Martin Scharm and
Dagmar Waltemath},
title = {A fully featured {COMBINE} archive of a simulation study on syncytial
mitotic cycles in \emph{Drosophila }embryos},
journal = {F1000Research},
volume = {5},
pages = {2421},
year = {2016},
url = {https://doi.org/10.12688/f1000research.9379.1},
doi = {10.12688/F1000RESEARCH.9379.1},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/f1000research/ScharmW16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/peerjpre/HenkelLWSRW16,
author = {Ron Henkel and
Fabienne Lambusch and
Olaf Wolkenhauer and
Kurt Sandkuhl and
Christian Rosenke and
Dagmar Waltemath},
title = {Finding patterns in biochemical reaction networks},
journal = {PeerJ Prepr.},
volume = {4},
pages = {e1479},
year = {2016},
url = {https://doi.org/10.7287/peerj.preprints.1479v2},
doi = {10.7287/PEERJ.PREPRINTS.1479V2},
timestamp = {Thu, 09 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/peerjpre/HenkelLWSRW16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodb/HenkelWW15,
author = {Ron Henkel and
Olaf Wolkenhauer and
Dagmar Waltemath},
title = {Combining computational models, semantic annotations and simulation
experiments in a graph database},
journal = {Database J. Biol. Databases Curation},
volume = {2015},
year = {2015},
url = {https://doi.org/10.1093/database/bau130},
doi = {10.1093/DATABASE/BAU130},
timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biodb/HenkelWW15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/AlmWWWH15,
author = {Rebekka Alm and
Dagmar Waltemath and
Markus Wolfien and
Olaf Wolkenhauer and
Ron Henkel},
title = {Annotation-based feature extraction from sets of {SBML} models},
journal = {J. Biomed. Semant.},
volume = {6},
pages = {20},
year = {2015},
url = {https://doi.org/10.1186/s13326-015-0014-4},
doi = {10.1186/S13326-015-0014-4},
timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biomedsem/AlmWWWH15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/BergmannCNNW15,
author = {Frank T. Bergmann and
Jonathan Cooper and
Nicolas Le Nov{\`{e}}re and
David P. Nickerson and
Dagmar Waltemath},
title = {Simulation Experiment Description Markup Language {(SED-ML)} Level
1 Version 2},
journal = {J. Integr. Bioinform.},
volume = {12},
number = {2},
year = {2015},
url = {https://doi.org/10.2390/biecoll-jib-2015-262},
doi = {10.2390/BIECOLL-JIB-2015-262},
timestamp = {Tue, 14 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/BergmannCNNW15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/HuckaBDHKNMOSSS15,
author = {Michael Hucka and
Frank T. Bergmann and
Andreas Dr{\"{a}}ger and
Stefan Hoops and
Sarah M. Keating and
Nicolas Le Nov{\`{e}}re and
Chris J. Myers and
Brett G. Olivier and
Sven Sahle and
James C. Schaff and
Lucian P. Smith and
Dagmar Waltemath and
Darren J. Wilkinson},
title = {Systems Biology Markup Language {(SBML)} Level 2 Version 5: Structures
and Facilities for Model Definitions},
journal = {J. Integr. Bioinform.},
volume = {12},
number = {2},
year = {2015},
url = {https://doi.org/10.2390/biecoll-jib-2015-271},
doi = {10.2390/BIECOLL-JIB-2015-271},
timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/HuckaBDHKNMOSSS15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/SchreiberBGHKNM15,
author = {Falk Schreiber and
Gary D. Bader and
Martin Golebiewski and
Michael Hucka and
Benjamin Kormeier and
Nicolas Le Nov{\`{e}}re and
Chris J. Myers and
David P. Nickerson and
Bj{\"{o}}rn Sommer and
Dagmar Waltemath and
Stephan Weise},
title = {Specifications of Standards in Systems and Synthetic Biology},
journal = {J. Integr. Bioinform.},
volume = {12},
number = {2},
year = {2015},
url = {https://doi.org/10.2390/biecoll-jib-2015-258},
doi = {10.2390/BIECOLL-JIB-2015-258},
timestamp = {Wed, 08 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jib/SchreiberBGHKNM15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/btw/ScharmW15,
author = {Martin Scharm and
Dagmar Waltemath},
editor = {Norbert Ritter and
Andreas Henrich and
Wolfgang Lehner and
Andreas Thor and
Steffen Friedrich and
Wolfram Wingerath},
title = {Extracting reproducible simulation studies from model repositories
using the combinearchive toolkit},
booktitle = {Datenbanksysteme f{\"{u}}r Business, Technologie und Web {(BTW}
2015) - Workshopband, 2.-3. M{\"{a}}rz 2015, Hamburg, Germany},
series = {{LNI}},
volume = {{P-242}},
pages = {137--142},
publisher = {{GI}},
year = {2015},
url = {https://dl.gi.de/handle/20.500.12116/2376},
timestamp = {Tue, 04 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/btw/ScharmW15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/peerjpre/HenkelLW15,
author = {Ron Henkel and
Fabienne Lambusch and
Dagmar Waltemath},
title = {Finding pattern in biochemical reaction networks - a sub-graph mining
approach},
journal = {PeerJ Prepr.},
volume = {3},
pages = {e1479},
year = {2015},
url = {https://doi.org/10.7287/peerj.preprints.1479v1},
doi = {10.7287/PEERJ.PREPRINTS.1479V1},
timestamp = {Thu, 09 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/peerjpre/HenkelLW15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/BergmannAMCGGHLMNORSSSWYN14,
author = {Frank T. Bergmann and
Richard R. Adams and
Stuart L. Moodie and
Jonathan Cooper and
Mihai Glont and
Martin Golebiewski and
Michael Hucka and
Camille Laibe and
Andrew K. Miller and
David P. Nickerson and
Brett G. Olivier and
Nicolas Rodriguez and
Herbert M. Sauro and
Martin Scharm and
Stian Soiland{-}Reyes and
Dagmar Waltemath and
Florent Yvon and
Nicolas Le Nov{\`{e}}re},
title = {{COMBINE} archive and {OMEX} format: one file to share all information
to reproduce a modeling project},
journal = {{BMC} Bioinform.},
volume = {15},
pages = {369},
year = {2014},
url = {https://doi.org/10.1186/s12859-014-0369-z},
doi = {10.1186/S12859-014-0369-Z},
timestamp = {Thu, 03 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/BergmannAMCGGHLMNORSSSWYN14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/dils/AlmWWH14,
author = {Rebekka Alm and
Dagmar Waltemath and
Olaf Wolkenhauer and
Ron Henkel},
editor = {Helena Galhardas and
Erhard Rahm},
title = {Annotation-Based Feature Extraction from Sets of {SBML} Models},
booktitle = {Data Integration in the Life Sciences - 10th International Conference,
{DILS} 2014, Lisbon, Portugal, July 17-18, 2014. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {8574},
pages = {81--95},
publisher = {Springer},
year = {2014},
url = {https://doi.org/10.1007/978-3-319-08590-6\_8},
doi = {10.1007/978-3-319-08590-6\_8},
timestamp = {Tue, 14 May 2019 10:00:43 +0200},
biburl = {https://dblp.org/rec/conf/dils/AlmWWH14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/HenkelW14,
author = {Ron Henkel and
Dagmar Waltemath},
editor = {Adrian Paschke and
Albert Burger and
Paolo Romano and
M. Scott Marshall and
Andrea Splendiani},
title = {MaSyMoS: Finding Hidden Treasures in Model Repositories},
booktitle = {Proceedings of the 7th International Workshop on Semantic Web Applications
and Tools for Life Sciences, Berlin, Germany, December 9-11, 2014},
series = {{CEUR} Workshop Proceedings},
volume = {1320},
publisher = {CEUR-WS.org},
year = {2014},
url = {https://ceur-ws.org/Vol-1320/paper\_33.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:02 +0100},
biburl = {https://dblp.org/rec/conf/swat4ls/HenkelW14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/RosenkeW14,
author = {Christian Rosenke and
Dagmar Waltemath},
editor = {Adrian Paschke and
Albert Burger and
Paolo Romano and
M. Scott Marshall and
Andrea Splendiani},
title = {How Can Semantic Annotations Support the Identification of Network
Similarities?},
booktitle = {Proceedings of the 7th International Workshop on Semantic Web Applications
and Tools for Life Sciences, Berlin, Germany, December 9-11, 2014},
series = {{CEUR} Workshop Proceedings},
volume = {1320},
publisher = {CEUR-WS.org},
year = {2014},
url = {https://ceur-ws.org/Vol-1320/paper\_37.pdf},
timestamp = {Fri, 10 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/swat4ls/RosenkeW14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/ScharmWPWTW14,
author = {Martin Scharm and
Florian Wendland and
Martin Peters and
Markus Wolfien and
Tom Theile and
Dagmar Waltemath},
editor = {Adrian Paschke and
Albert Burger and
Paolo Romano and
M. Scott Marshall and
Andrea Splendiani},
title = {The CombineArchiveWeb Application - {A} Web-based Tool to Handle Files
Associated with Modelling Results},
booktitle = {Proceedings of the 7th International Workshop on Semantic Web Applications
and Tools for Life Sciences, Berlin, Germany, December 9-11, 2014},
series = {{CEUR} Workshop Proceedings},
volume = {1320},
publisher = {CEUR-WS.org},
year = {2014},
url = {https://ceur-ws.org/Vol-1320/paper\_19.pdf},
timestamp = {Fri, 10 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/swat4ls/ScharmWPWTW14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:books/sp/14/LangeHMWW14,
author = {Matthias Lange and
Ron Henkel and
Wolfgang M{\"{u}}ller and
Dagmar Waltemath and
Stephan Weise},
editor = {Ming Chen and
Ralf Hofest{\"{a}}dt},
title = {Information Retrieval in Life Sciences: {A} Programmatic Survey},
booktitle = {Approaches in Integrative Bioinformatics - Towards the Virtual Cell},
pages = {73--109},
publisher = {Springer},
year = {2014},
url = {https://doi.org/10.1007/978-3-642-41281-3\_3},
doi = {10.1007/978-3-642-41281-3\_3},
timestamp = {Sun, 25 Oct 2020 22:32:13 +0100},
biburl = {https://dblp.org/rec/books/sp/14/LangeHMWW14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:reference/cn/WaltemathN14,
author = {Dagmar Waltemath and
Nicolas Le Nov{\`{e}}re},
editor = {Dieter Jaeger and
Ranu Jung},
title = {Simulation Experiment Description Markup Language {(SED-ML)}},
booktitle = {Encyclopedia of Computational Neuroscience},
publisher = {Springer},
year = {2014},
url = {https://doi.org/10.1007/978-1-4614-7320-6\_377-6},
doi = {10.1007/978-1-4614-7320-6\_377-6},
timestamp = {Wed, 12 Jul 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/reference/cn/WaltemathN14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/BergmannAMCGGHLMNORSSSWYN14,
author = {Frank T. Bergmann and
Richard Adams and
Stuart L. Moodie and
Jonathan Cooper and
Mihai Glont and
Martin Golebiewski and
Michael Hucka and
Camille Laibe and
Andrew K. Miller and
David P. Nickerson and
Brett G. Olivier and
Nicolas Rodriguez and
Herbert M. Sauro and
Martin Scharm and
Stian Soiland{-}Reyes and
Dagmar Waltemath and
Florent Yvon and
Nicolas Le Nov{\`{e}}re},
title = {{COMBINE} archive: One File To Share Them All},
journal = {CoRR},
volume = {abs/1407.4992},
year = {2014},
url = {http://arxiv.org/abs/1407.4992},
eprinttype = {arXiv},
eprint = {1407.4992},
timestamp = {Thu, 03 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/BergmannAMCGGHLMNORSSSWYN14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WaltemathHHSW13,
author = {Dagmar Waltemath and
Ron Henkel and
Robert H{\"{a}}lke and
Martin Scharm and
Olaf Wolkenhauer},
title = {Improving the reuse of computational models through version control},
journal = {Bioinform.},
volume = {29},
number = {6},
pages = {742--748},
year = {2013},
url = {https://doi.org/10.1093/bioinformatics/btt018},
doi = {10.1093/BIOINFORMATICS/BTT018},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/WaltemathHHSW13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/gi/HenkelNWW12,
author = {Ron Henkel and
Nicolas Le Nov{\`{e}}re and
Olaf Wolkenhauer and
Dagmar Waltemath},
editor = {Ursula Goltz and
Marcus A. Magnor and
Hans{-}J{\"{u}}rgen Appelrath and
Herbert K. Matthies and
Wolf{-}Tilo Balke and
Lars C. Wolf},
title = {Considerations of graph-based concepts to manage of computational
biology models and associated simulations},
booktitle = {57. Jahrestagung der Deutschen Gesellschaft f{\"{u}}r Medizinische
Informatik, Biometrie und Epidemiologie, 42. Jahrestagung der Gesellschaft
f{\"{u}}r Informatik, Was bewegt uns in der/die Zukunft? - Neue
Lebenswelten in der Informationsgesellschaft, {GMDS/INFORMATIK} 2012,
Braunschweig, Germany, September 16-21, 2012},
series = {{LNI}},
volume = {{P-208}},
pages = {1545--1551},
publisher = {{GI}},
year = {2012},
url = {https://dl.gi.de/handle/20.500.12116/17789},
timestamp = {Tue, 04 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/gi/HenkelNWW12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@phdthesis{DBLP:phd/basesearch/Waltemath11,
author = {Dagmar Waltemath},
title = {Annotation-based storage and retrieval of models and simulation descriptions
in computational biology},
school = {Rostock University, Germany},
year = {2011},
url = {https://rosdok.uni-rostock.de/resolve/id/rosdok\_disshab\_0000000707},
doi = {10.18453/ROSDOK\_ID00000903},
urn = {urn:nbn:de:gbv:28-diss2011-0134-5},
timestamp = {Mon, 15 Apr 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/phd/basesearch/Waltemath11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/WaltemathABHKMMNSSN11,
author = {Dagmar Waltemath and
Richard R. Adams and
Frank T. Bergmann and
Michael Hucka and
Fedor A. Kolpakov and
Andrew K. Miller and
Ion I. Moraru and
David P. Nickerson and
Sven Sahle and
Jacky L. Snoep and
Nicolas Le Nov{\`{e}}re},
title = {Reproducible computational biology experiments with {SED-ML} - The
Simulation Experiment Description Markup Language},
journal = {{BMC} Syst. Biol.},
volume = {5},
pages = {198},
year = {2011},
url = {https://doi.org/10.1186/1752-0509-5-198},
doi = {10.1186/1752-0509-5-198},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/WaltemathABHKMMNSSN11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/dbsk/WaltemathHMH11,
author = {Dagmar Waltemath and
Ron Henkel and
Holger Meyer and
Andreas Heuer},
title = {Das Sombi-Framework zum Ermitteln geeigneter Suchfunktionen f{\"{u}}r
biologische Modelldatenbasen},
journal = {Datenbank-Spektrum},
volume = {11},
number = {1},
pages = {27--36},
year = {2011},
url = {https://doi.org/10.1007/s13222-011-0050-x},
doi = {10.1007/S13222-011-0050-X},
timestamp = {Thu, 14 Sep 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/dbsk/WaltemathHMH11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/WaltemathABBBBCCCCGHHHKLMMNNNSSSSTWN11,
author = {Dagmar Waltemath and
Richard R. Adams and
Daniel A. Beard and
Frank T. Bergmann and
Upinder S. Bhalla and
Randall Britten and
Vijayalakshmi Chelliah and
Mike T. Cooling and
Jonathan Cooper and
Edmund J. Crampin and
Alan Garny and
Stefan Hoops and
Michael Hucka and
Peter J. Hunter and
Edda Klipp and
Camille Laibe and
Andrew K. Miller and
Ion I. Moraru and
David P. Nickerson and
Poul M. F. Nielsen and
Macha Nikolski and
Sven Sahle and
Herbert M. Sauro and
Henning Schmidt and
Jacky L. Snoep and
Dominic P. Tolle and
Olaf Wolkenhauer and
Nicolas Le Nov{\`{e}}re},
title = {Minimum Information About a Simulation Experiment {(MIASE)}},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {4},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1001122},
doi = {10.1371/JOURNAL.PCBI.1001122},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/WaltemathABBBBCCCCGHHHKLMMNNNSSSSTWN11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/HenkelEPNW10,
author = {Ron Henkel and
Lukas Endler and
Andr{\'{e}} Peters and
Nicolas Le Nov{\`{e}}re and
Dagmar Waltemath},
title = {Ranked retrieval of Computational Biology models},
journal = {{BMC} Bioinform.},
volume = {11},
pages = {423},
year = {2010},
url = {https://doi.org/10.1186/1471-2105-11-423},
doi = {10.1186/1471-2105-11-423},
timestamp = {Mon, 13 Feb 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/HenkelEPNW10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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