Publications

@online{suchanek23dswBH,
  author    = {Marek Suchánek and Vojtěch Knaisl and Renato Alves and Leyla Jael Castro and Fotis E. Psomopoulos and Eva Martin del Pico},
  title     = {Building Towards a Machine-Actionable Software Management Plan: A BioHackathon Europe 2023 Report},
  publisher = {BioHackrXiv},
  year      = {2023},
  url       = {https://biohackrxiv.org/t94g8/},
  doi       = {10.37044/osf.io/t94g8}
}

@phdthesis{suchanek23phdNSGO4CM,
  author = {Marek Suchánek},
  title = {Towards a Normalized Systems Gateway Ontology for Conceptual Models},
  school = {CTU in Prague \& University of Antwerp},
  year = {2023},
  url = {https://dspace.cvut.cz/handle/10467/112897},
  isbn = {978-90-5728-828-9},
  type = {PhD thesis}
}

@inproceedings{miksaAssessmentToolboxMADMP,
  author = {Tomasz Miksa and Marek Suchánek and Jan Slifka and Vojtěch Knaisl and Fajar J. Ekaputra and Filip Kovacevic and Annisa Maulida Ningtyas and Alaa El{-}Ebshihy and Robert Pergl},
  title = {Towards a Toolbox for Automated Assessment of Machine-Actionable Data Management Plans},
  journal = {Data Science Journal},
  volume = {22},
  year = {2023},
  url = {https://doi.org/10.5334/dsj-2023-028},
  doi = {10.5334/DSJ-2023-028},
}

@inproceedings{machacovaQualityOntoUML,
  author = {Jana Martínková and Marek Suchánek},
  editor = {Hamido Fujita and Guido Guizzi},
  title = {Towards Quality Assessment of OntoUML Conceptual Models Using {RDF} and {SPARQL}},
  booktitle = {New Trends in Intelligent Software Methodologies, Tools and Techniques - Proceedings of the 22nd International Conference on New Trends in Intelligent Software Methodologies, Tools and Techniques (SoMeT 23), Naples, Italy, 20-22 September 2023},
  series = {Frontiers in Artificial Intelligence and Applications},
  volume = {371},
  pages = {137--148},
  publisher = {{IOS} Press},
  year = {2023},
  url = {https://doi.org/10.3233/FAIA230230},
  doi = {10.3233/FAIA230230},
}

@inproceedings{martinkovaDataStewarshipOnto,
  author = {Jana Martínková and Marek Suchánek},
  editor = {Hamido Fujita and Guido Guizzi},
  title = {Laying Foundations for Connecting Data Stewardship Domain Ontologies},
  booktitle = {New Trends in Intelligent Software Methodologies, Tools and Techniques - Proceedings of the 22nd International Conference on New Trends in Intelligent Software Methodologies, Tools and Techniques (SoMeT 23), Naples, Italy, 20-22 September 2023},
  series = {Frontiers in Artificial Intelligence and Applications},
  volume = {371},
  pages = {125--136},
  publisher = {{IOS} Press},
  year = {2023},
  url = {https://doi.org/10.3233/FAIA230229},
  doi = {10.3233/FAIA230229}
}

@article{DBLP:journals/dint/BenhamedBKSSSW23,
  author       = {Oussama Mohammed Benhamed and Kees Burger and Rajaram Kaliyaperumal and Luiz Olavo Bonino da Silva Santos and Marek Such{\'{a}}nek and Jan Slifka and Mark D. Wilkinson},
  title        = {{The FAIR Data Point: Interfaces and Tooling}},
  journal      = {Data Intelligence},
  volume       = {5},
  number       = {1},
  pages        = {184--201},
  year         = {2023},
  url          = {https://doi.org/10.1162/dint\_a\_00161},
  doi          = {10.1162/dint\_a\_00161}
}

@inproceedings{suchanek22nsSparql,
  author = {Marek Suchánek and Herwig Mannaert and Robert Pergl},
  editor = {Hamido Fujita and Yutaka Watanobe and Takuya Azumi},
  title  = {{Towards Normalized Systems from RDF with SPARQL}},
  booktitle = {New Trends in Intelligent Software Methodologies, Tools and Techniques - Proceedings of the 21st International Conference on New Trends in Intelligent Software Methodologies, Tools and Techniques, SoMeT 2022, Kitakyushu, Japan, 20-22 September, 2022},
  series = {Frontiers in Artificial Intelligence and Applications},
  volume = {355},
  pages  = {609--620},
  publisher = {{IOS Press}},
  year   = {2022},
  doi    = {10.3233/FAIA220290}
}

@article{cardoso22dcso,
  author    = {Mariam Basajja and Marek Suchánek and Getu Tadelle Taye and Samson Yohannes Amare and Mutwalibi Nambobi and Sakinat Folorunso and Ruduan Plug and Francisca Oladipo and Mirjam van Reisen},
  title     = {{Proof of Concept and Horizons on Deployment of FAIR Data Points in the COVID-19 Pandemic}},
  journal   = {Data Intelligence},
  year      = {2022},
  url       = {https://direct.mit.edu/dint/article/doi/10.1162/dint_a_00179/112733/Proof-of-Concept-and-Horizons-on-Deployment-of},
  doi       = {10.1162/dint_a_00179}
}

@article{cardoso22dcso,
  author    = {Jo{\~{a}}o Cardoso and Leyla Jael Castro and Fajar J. Ekaputra and Marie C. Jacquemot and Marek Such{\'{a}}nek and Tomasz Miksa and Jos{\'{e}} Borbinha},
  title     = {{DCSO: Towards an Ontology for Machine-Actionable Data Management Plans}},
  journal   = {Journal of Biomedical Semantics},
  volume    = {13},
  number    = {1},
  pages     = {21},
  year      = {2022},
  url       = {https://jbiomedsem.biomedcentral.com/articles/10.1186/s13326-022-00274-4},
  doi       = {10.1186/s13326-022-00274-4}
}

@article{senkyr22nsTEMOS,
  author    = {David \v{S}enk\'{y}\v{r} and Marek Such{\'{a}}nek and Petr Kroha and Herwig Mannaert and Robert Pergl},
  title     = {{Expanding Normalized Systems from Textual Domain Descriptions using TEMOS}},
  journal   = {Journal of Intelligent Information Systems},
  publisher = {Springer},
  issn      = {1573-7675},
  year      = {2022},
  url       = {https://doi.org/10.1007/s10844-022-00706-8},
  doi       = {10.1007/s10844-022-00706-8}
}

@article{miksa2021madmp,
  author    = {Tomasz Miksa and Paul Walk and Peter Neish and Simon Oblasser and Hollydawn Murray and Tom Renner, Marie-Christine Jacquemot-Perbal and João Cardoso and Trond Kvamme and Maria Praetzellis and Marek Such{\'{a}}nek and Rob Hooft and Benjamin Faure and Hanne Moa and Adil Hasan and Sarah Jones},
  title     = {Application Profile for Machine-Actionable Data Management Plans},
  journal   = {Data Science Journal},
  booktitle = {Research Data Alliance Results},
  issue     = {1},
  volume    = {20},
  publisher = {CODATA},
  year      = {2021},
  url       = {https://doi.org/10.5334/dsj-2021-032},
  doi       = {10.5334/dsj-2021-032}
}

@inproceedings{suchanek21ontoborm,
  author    = {Marek Such{\'{a}}nek and Robert Pergl},
  editor    = {David Aveiro and Jan Dietz and Joaquim Filipe},
  title     = {Representing BORM Process Models using OWL and RDF},
  booktitle = {Proceedings of the 13th International Joint Conference on Knowledge Discovery, Knowledge Engineering and Knowledge Management - KEOD},
  volume    = {2},
  isbn      = {978-989-758-533-3},
  issn      = {2184-3228},
  pages     = {170--177},
  publisher = {SciTePress},
  year      = {2021},
  url       = {https://doi.org/10.5220/0010653900003064},
  doi       = {10.5220/0010653900003064}
}

@inproceedings{suchanek21nsEcore,
  author    = {Marek Such{\'{a}}nek and Herwig Mannaert and Peter Uhn{\'{a}}k and Robert Pergl},
  editor    = {Hamido Fujita and Hector Perez-Meana},
  title     = {Towards Evolvable Ontology-Driven Development with Normalized Systems},
  booktitle = {New Trends in Intelligent Software Methodologies, Tools and Techniques},
  series    = {Frontiers in Artificial Intelligence and Applications},
  volume    = {337},
  isbn      = {978-1-64368-194-8},
  pages     = {169--182},
  publisher = {IOS Press},
  year      = {2021},
  url       = {https://doi.org/10.3233/FAIA210018},
  doi       = {10.3233/FAIA210018}
}

@inproceedings{suchanek21rdfSparql,
  author    = {Marek Such{\'{a}}nek and Robert Pergl},
  editor    = {Herwig Mannaert and Cosmin Dini},
  title     = {{Pattern-Based Ontological Transformations for RDF Data using SPARQL}},
  booktitle = {PATTERNS 2021, The Thirteenth International Conference on Pervasive Patterns and Applications},
  pages     = {11--16},
  publisher = {IARIA},
  year      = {2021},
  url       = {https://www.thinkmind.org/index.php?view=article&articleid=patterns_2021_1_20_78002},
  isbn      = {978-1-61208-850-1},
  issn      = {2308-3557}
}

@inproceedings{schultes20fipConvergence,
  author    = {Erik Schultes and Barbara Magagna and Kristina Maria Hettne and Robert Pergl and Marek Such{\'{a}}nek and Tobias Kuhn},
  editor    = {Georg Grossmann and Sudha Ram},
  title     = {Reusable {FAIR} Implementation Profiles as Accelerators of {FAIR} Convergence},
  booktitle = {Advances in Conceptual Modeling - {ER} 2020 Workshops CMAI, CMLS, CMOMM4FAIR, CoMoNoS, EmpER, Vienna, Austria, November 3-6, 2020, Proceedings},
  series    = {Lecture Notes in Computer Science},
  volume    = {12584},
  pages     = {138--147},
  publisher = {Springer},
  year      = {2020},
  url       = {https://doi.org/10.1007/978-3-030-65847-2\_13},
  doi       = {10.1007/978-3-030-65847-2\_13}
}

@online{suchanek20dswBH,
  author    = {Marek Such{\'{a}}nek and Rob Hooft and Konogan Bourhy},
  title     = {Progress on Data Stewardship Wizard during BioHackathon Europe 2020},
  publisher = {BioHackrXiv},
  year      = {2020},
  url       = {https://biohackrxiv.org/9mnkb/},
  doi       = {10.37044/osf.io/9mnkb}
}

@inproceedings{suchanek20nsowl2,
  author    = {Marek Such{\'{a}}nek and Herwig Mannaert and Peter Uhn{\'{a}}k and Robert Pergl},
  editor    = {Raian Ali and Hermann Kaindl and Leszek A. Maciaszek},
  title     = {Towards Evolvable Ontology-Driven Development with Normalized Systems},
  booktitle = {Evaluation of Novel Approaches to Software Engineering - 15th International Conference, {ENASE} 2020, Prague, Czech Republic, May 5-6, 2020, Revised Selected Papers},
  series    = {Communications in Computer and Information Science},
  volume    = {1375},
  pages     = {208--231},
  publisher = {Springer},
  year      = {2020},
  url       = {https://doi.org/10.1007/978-3-030-70006-5\_9},
  doi       = {10.1007/978-3-030-70006-5\_9}
}

@inproceedings{suchanek20evoInheritancePython,
  author    = {Marek Such{\'{a}}nek and Robert Pergl},
  editor    = {Herwig Mannaert and Ida Pu and Jacqueline Daykin},
  title     = {{Evolvability Analysis of Multiple Inheritance and Method Resolution Order in Python}},
  booktitle = {PATTERNS 2020, The Twelfth International Conference on Pervasive Patterns and Applications},
  pages     = {19--24},
  publisher = {IARIA},
  year      = {2020},
  url       = {http://www.thinkmind.org/index.php?view=article&articleid=patterns_2020_2_10_79},
  isbn      = {978-1-61208-783-2},
  issn      = {2308-3557}
}

@inproceedings{suchanek20umlOwlReview,
  author    = {Marek Such{\'{a}}nek and Robert Pergl},
  title     = {Case-Study-Based Review of Approaches for Transforming {UML} Class Diagrams to {OWL} and Vice Versa},
  booktitle = {22nd {IEEE} Conference on Business Informatics, {CBI} 2020, Antwerp, Belgium, June 22-24, 2020. Volume 1},
  pages     = {270--279},
  publisher = {{IEEE}},
  year      = {2020},
  url       = {https://doi.org/10.1109/CBI49978.2020.00036},
  doi       = {10.1109/CBI49978.2020.00036}
}

@inproceedings{suchanek20nsowl1,
  author    = {Marek Such{\'{a}}nek and Herwig Mannaert and Peter Uhn{\'{a}}k and Robert Pergl},
  editor    = {Raian Ali and Hermann Kaindl and Leszek A. Maciaszek},
  title     = {Bi-directional Transformation between Normalized Systems Elements and Domain Ontologies in {OWL}},
  booktitle = {Proceedings of the 15th International Conference on Evaluation of Novel Approaches to Software Engineering, {ENASE} 2020, Prague, Czech Republic, May 5-6, 2020},
  pages     = {74--85},
  publisher = {{SCITEPRESS}},
  year      = {2020},
  url       = {https://doi.org/10.5220/0009356800740085},
  doi       = {10.5220/0009356800740085}
}

@article{PerglHSKS19,
  author    = {Robert Pergl and Rob W. W. Hooft and Marek Such{\'{a}}nek and Vojtech Knaisl and Jan Slifka},
  title     = {"Data Stewardship Wizard": {A} Tool Bringing Together Researchers, Data Stewards, and Data Experts around Data Management Planning},
  journal   = {Data Science Journal},
  volume    = {18},
  pages     = {59},
  year      = {2019},
  url       = {https://doi.org/10.5334/dsj-2019-059},
  doi       = {10.5334/dsj-2019-059}
}

@inproceedings{suchanek19mappingUFOB,
  author    = {Marek Such{\'{a}}nek and Robert Pergl},
  editor    = {Robert Pergl and Eduard Babkin and Russell Lock and Pavel Malyzhenkov and Vojtech Merunka},
  title     = {Mapping {UFO-B} to BPMN, BORM, and {UML} Activity Diagram},
  booktitle = {Enterprise and Organizational Modeling and Simulation - 15th International Workshop, {EOMAS} 2019, Held at CAiSE 2019, Rome, Italy, June 3-4, 2019, Selected Papers},
  series    = {Lecture Notes in Business Information Processing},
  volume    = {366},
  pages     = {82--98},
  publisher = {Springer},
  year      = {2019},
  url       = {https://doi.org/10.1007/978-3-030-35646-0\_7},
  doi       = {10.1007/978-3-030-35646-0\_7}
}

@inproceedings{suchanek19evosoa,
  author    = {Marek Such{\'{a}}nek and Jan Slifka},
  editor    = {Robert Pergl and Eduard Babkin and Russell Lock and Pavel Malyzhenkov and Vojtech Merunka},
  title     = {Evolvable and Machine-Actionable Modular Reports for Service-Oriented Architecture},
  booktitle = {Enterprise and Organizational Modeling and Simulation - 15th International Workshop, {EOMAS} 2019, Held at CAiSE 2019, Rome, Italy, June 3-4, 2019, Selected Papers},
  series    = {Lecture Notes in Business Information Processing},
  volume    = {366},
  pages     = {43--59},
  publisher = {Springer},
  year      = {2019},
  url       = {https://doi.org/10.1007/978-3-030-35646-0\_4},
  doi       = {10.1007/978-3-030-35646-0\_4}
}

@inproceedings{suchanek19ocmi,
  author    = {Marek Such{\'{a}}nek},
  editor    = {Robert Pergl and Eduard Babkin and Russell Lock and Pavel Malyzhenkov and Vojtech Merunka},
  title     = {Designing an Ontology for Semantic Integration of Various Conceptual Models},
  booktitle = {Enterprise and Organizational Modeling and Simulation - 15th International Workshop, {EOMAS} 2019, Held at CAiSE 2019, Rome, Italy, June 3-4, 2019, Selected Papers},
  series    = {Lecture Notes in Business Information Processing},
  volume    = {366},
  pages     = {3--17},
  publisher = {Springer},
  year      = {2019},
  url       = {https://doi.org/10.1007/978-3-030-35646-0\_1},
  doi       = {10.1007/978-3-030-35646-0\_1}
}

@inproceedings{suchanek19evoInheritance,
  author    = {Marek Such{\'{a}}nek and Robert Pergl},
  editor    = {Herwig Mannaert and Alexander Mirnig},
  title     = {{Evolvability Evaluation of Conceptual-Level Inheritance Implementation Patterns}},
  booktitle = {PATTERNS 2019, The Eleventh International Conference on Pervasive Patterns and Applications},
  pages     = {1--6},
  publisher = {IARIA},
  year      = {2019},
  url       = {https://www.thinkmind.org/index.php?view=article&articleid=patterns_2019_1_10_78001},
  isbn      = {978-1-61208-708-5},
  issn      = {2308-3557}
}

@inproceedings{suchanek2018dsw4os,
  title      = {{Data Stewardship Wizard for Open Science}},
  author     = {Marek Such{\'a}nek and Robert Pergl},
  editor     = {Jaroslav Zendulka and Mária Bieliková and Radek Burget and Zbyněk Křivka},
  booktitle  = {Data a znalosti & WIKT 2018, Sborník konference},
  pages      = {121--125},
  publisher  = {Fakulta informačních technologií, VUT v Brně},
  url        = {http://daz2018.fit.vutbr.cz/DaZ_WIKT_2018_Sbornik.pdf},
  year       = {2018}
}

@inproceedings{suchanek18evoDocs,
  author    = {Marek Such{\'{a}}nek and Robert Pergl},
  editor    = {Herwig Mannaert and Christian Kohls and Yuji Iwahori and Hiroyasu Usami and Peter De Bruyn},
  title     = {{Evolvable Documents –- an Initial Conceptualization}},
  booktitle = {PATTERNS 2018, The Tenth International Conference on Pervasive Patterns and Applications},
  pages     = {39--44},
  publisher = {IARIA},
  year      = {2018},
  url       = {https://www.thinkmind.org/index.php?view=article&articleid=patterns_2018_4_10_78002},
  isbn      = {978-1-61208-612-5},
  issn      = {2308-3557}
}