Browsing by Subject "Ontology."
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Item Open Access Modeling cellular processes with PATİKA(Bilkent University, 2001) Demir, EmekAvailability of the sequences of entire genomes shifts the scientific curiosity toward the identification of function of the genomes in large scale as in genome studies. In the near future data produced about cellular processes at molecular level will accumulate with an accelerating rate as a result of proteomics studies. In this regard, it is essential to develop tools for storing, integrating, accessing, and analyzing this data effectively. We define an ontology for a comprehensive representation of cellular events. The model presented here enables integration of fragmented or incomplete pathway information and supports manipulation and incorporations of the stored data, as well as multiple levels of abstraction. Based on this model, we present an integrated environment named PATIKA (Pathway Analysis Tool for Integration and Knowledge Acquisition). PATIKA is composed of a server-side, scalable, object-oriented database and client-side editors to provide an integrated, multi-user environment for visualizing and manipulating network of cellular events. This tool features automated pathway layout, functional computation support, advanced querying and a user-friendly graphical interface. We expect that PATIKA will be a valuable tool for rapid knowledge acquisition; micro array generated large-scale data interpretation; disease gene identification and drug developmentItem Open Access Problems of ontology in Gilles Deleuze's philosophy(Bilkent University, 2008) Öztürk, HaydarThis thesis bases on the examination of Deleuze and Guattari’s some philosophical concepts to argue that existence means connections and we need an ontology of “and” that is able to reflect this meaning. In this thesis, the relations of things are grasped without introducing ontological hierarchy between them and traditional ontological concepts are introduced in order to refer the problem of connection. In that respect, the concept of machine and its correspondences in their philosophy are read in an ontological context, and some aesthetical and political results of ontology of “and” are emphasized.