%0 Unpublished Work %1 Burek2020-av %A Burek, Patryk %A Scherf, Nico %A Herre, Heinrich %D 2020 %J bioRxiv %K %T On the ontological foundations of cellular development %X AbstractTime-lapse microscopy is a principal tool to unravel the mystery of how cells form and maintain organisms. The complexity of the domain of cellular dynamics demands a conceptual architecture as a solid theoretical foundation that supports the integration of knowledge obtained across experiments and theories. In this work, we outline the ontological foundation of cellular genealogies, a key concept for describing and representing of cellular development. We build the conceptual framework following the onto-axiomatic method: We first analyse the domain within the context of a top-level ontology (GFO). The resulting domain-specification provides the basis for a conceptualisation where we introduce concepts and relations. From these conceptualisations, we then construct model-structures adhering to the principles of model-theory. We finally elaborate axioms based on these model-structures. The developed framework provides the fundamental concepts underlying a Cell Tracking Ontology (CTO) that supports extraction and integration of biological knowledge from systems-level experiments across different types of observations at the single-cell level.

@unpublished{Burek2020-av, abstract = {AbstractTime-lapse microscopy is a principal tool to unravel the mystery of how cells form and maintain organisms. The complexity of the domain of cellular dynamics demands a conceptual architecture as a solid theoretical foundation that supports the integration of knowledge obtained across experiments and theories. In this work, we outline the ontological foundation of cellular genealogies, a key concept for describing and representing of cellular development. We build the conceptual framework following the onto-axiomatic method: We first analyse the domain within the context of a top-level ontology (GFO). The resulting domain-specification provides the basis for a conceptualisation where we introduce concepts and relations. From these conceptualisations, we then construct model-structures adhering to the principles of model-theory. We finally elaborate axioms based on these model-structures. The developed framework provides the fundamental concepts underlying a Cell Tracking Ontology (CTO) that supports extraction and integration of biological knowledge from systems-level experiments across different types of observations at the single-cell level.}, added-at = {2024-09-10T11:56:37.000+0200}, author = {Burek, Patryk and Scherf, Nico and Herre, Heinrich}, biburl = {https://puma.scadsai.uni-leipzig.de/bibtex/2be23a12a2987f422108f4bf8060a4363/scadsfct}, institution = {bioRxiv}, interhash = {3bf8769a7219e3199372d007481ba0d5}, intrahash = {be23a12a2987f422108f4bf8060a4363}, journal = {bioRxiv}, keywords = {}, month = may, timestamp = {2024-09-10T15:15:57.000+0200}, title = {On the ontological foundations of cellular development}, year = 2020 }