Ankara : The Department of Molecular Biology and Genetics and the Institute of Engineering and Science of Bilkent University, 2001.Thesis (Master's) -- Bilkent University, 2001.Includes bibliographical references leaves 49-51Availability 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
developmentDemir, EmekM.S
