PUBLICATIONS
Biochemical Space: A framework for formal description and annotation of complex biological processes
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TROJÁK, Matej, David ŠAFRÁNEK, Jakub ŠALAGOVIČ, Františka ROMANOVSKÁ and Matej HAJNAL
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In Computational Modeling in Biology Network meeting (COMBINE 2017).
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Materials: [presentation] [poster]
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Biochemical Space: A Framework for Formal Description and Annotation of Complex Biological Processes
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TROJÁK, Matej, David ŠAFRÁNEK, Jakub ŠALAGOVIČ, Františka ROMANOVSKÁ and Matej HAJNAL
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In The 8th International Workshop on Static Analysis for Systems Biology (SASB 2017).
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Materials: [presentation]
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E-cyanobacterium.org: A Web-based Platform for Systems Biology of Cyanobacteria
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TROJÁK, Matej, David ŠAFRÁNEK, Jakub HRABEC, Jakub ŠALAGOVIČ, Františka ROMANOVSKÁ, Matej HAJNAL and Jan ČERVENÝ
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In International Conference on Systems Biology 2017 (ICSB 2017).
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Materials: [poster]
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E-cyanobacterium.org: A Web-based Platform for Systems Biology of Cyanobacteria
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TROJÁK, Matej, David ŠAFRÁNEK, Jakub HRABEC, Jakub ŠALAGOVIČ, Františka ROMANOVSKÁ, Matej HAJNAL and Jan ČERVENÝ
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In The Biomania Student Scientific Meeting 2017.
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Materials: [poster]
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E-cyanobacterium.org: A Web-based Platform for Systems Biology of Cyanobacteria
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TROJÁK, Matej, David ŠAFRÁNEK, Jakub HRABEC, Jakub ŠALAGOVIČ, Františka ROMANOVSKÁ, Matej HAJNAL and Jan ČERVENÝ
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In Doctoral Workshop on Mathematical and Engineering Methods in Computer Science 2017 (MEMICS 2017).
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Materials: [poster]
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E-cyanobacterium.org: A Web-based Platform for Systems Biology of Cyanobacteria
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TROJÁK, Matej, David ŠAFRÁNEK, Jakub HRABEC, Jakub ŠALAGOVIČ, Františka ROMANOVSKÁ, Matej HAJNAL and Jan ČERVENÝ
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In Intelligent Systems for Molecular Biology and European Conference on Computational Biology (ISMB/ECCB 2017).
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Materials: [poster]
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2017
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Biochemical Space: A Language for Formal Description and Annotation of Complex Biological Processes
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TROJÁK, Matej, Tadeáš DĚD, David ŠAFRÁNEK, Matej KLEMENT, Jan ČERVENÝ and Františka ROMANOVSKÁ
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In Doctoral Workshop on Mathematical and Engineering Methods in Computer Science 2016 (MEMICS 2016).
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Materials: [poster]
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E-Cyanobacterium.org: A Web-Based Platform for Systems Biology of Cyanobacteria
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TROJÁK, Matej, David ŠAFRÁNEK, Jakub HRABEC, Jakub ŠALAGOVIČ, Františka ROMANOVSKÁ and Jan ČERVENÝ
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Computational Methods in Systems Biology (CMSB 2016).
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Materials: [doi] [paper] [presentation]
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Biochemical Space: A Language for Formal Description and Annotation of Complex Biological Processes
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TROJÁK, Matej, Tadeáš DĚD, David ŠAFRÁNEK, Matej KLEMENT, Jan ČERVENÝ and Luboš BRIM
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In 13th Conference on Computational Methods in Systems Biology (CMSB 2015).
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Biochemical Space: A Language for Formal Description and Annotation of Complex Biological Processes
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TROJÁK, Matej, David ŠAFRÁNEK, Matej KLEMENT, Tadeáš DĚD, Jan ČERVENÝ and Luboš BRIM
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In Doctoral Workshop on Mathematical and Engineering Methods in Computer Science (MEMICS 2015).
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E-cyanobacterium.org: A Web-based Platform for Systems Biology of Cyanobacteria
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KLEMENT, Matej, David ŠAFRÁNEK, Jan ČERVENÝ, Tadeáš DĚD, Matej TROJÁK, Luboš BRIM and Stefan MUELLER
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In Fourth International Workshop on Hybrid Systems Biology (HSB 2015).
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Formal specification of phosphorylation states and related reactions
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TROJÁK, Matej.
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Bachelor's thesis. Masaryk University, Faculty of Informatics. Thesis supervisor David Šafránek. In Slovak Language
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Materials: [paper]
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2016
2015
2018
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Fully Automated Attractor Analysis of Cyanobacteria Models.
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BENEŠ, Nikola, Luboš BRIM, Jan ČERVENÝ, Samuel PASTVA, David ŠAFRÁNEK, Jakub ŠALAGOVIČ and Matej TROJÁK
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In Marian Barbu, Răzvan Şolea, Adrian Filipescu. 22nd International Conference on System Theory, Control and Computing.
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Materials: [doi] [paper] [presentation]
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Formal Biochemical Space for Specification and Analysis of Biochemical Processes
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TROJÁK, Matej
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Master's thesis. Masaryk University, Faculty of Informatics. Thesis supervisor David Šafránek.
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Acquired Deans' award for the excellent master thesis.
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Materials: [paper]
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