Gultekin Ozsoyoglu

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In this paper, we discuss the properties of biological data and challenges it poses for data management, and argue that, in order to meet the data management requirements for 'digital biology', careful integration of the existing technologies and the development of new data management techniques for biological data are needed. Based on this premise, we(More)
BACKGROUND Kyoto Encyclopedia of Genes and Genomes (KEGG) is an online and integrated molecular database for several organisms. KEGG has been a highly useful site, helping domain scientists understand, research, study, and teach metabolisms by linking sequenced genomes to higher level systematic functions. KEGG databases are accessible through the web pages(More)
A metabolic network describes how different cellular processes (i.e., pathways) are connected and work together as part of a metabolism. The complexity of metabolisms and their working principles increase dramatically in higher order organisms (e.g., mammalians) in comparison to relatively lower level organisms (e.g., prokaryotes). As the complexity(More)
Within publication digital collections, citation analysis and publication score assignment are commonly used (i) to evaluate the impact of publications (and scientific collections, e.g., journals and conferences), and (ii) to order digital collection search outputs, e.g., Google Scholar. The popular citation-based web page (and, thus, publication) score(More)
In this work we compare and contrast proposed techniques and experiments in the subdomain of radiology text classification. In the past, systems have relied on two main approaches: rule-based or natural language processing plus machine learning (NLP/ML). Simple rule-based approaches have demonstrated great efficacy, at the high cost of requiring medical(More)
6/16/00 Abstract In this paper, we propose adding metadata to web for the purpose of performing semantics-based web searches and for producing multimedia presentations as a response to users’ requests. The model uses (a) topics and “topic maps” as metadata in reaching to relevant worldwide web documents, (b) topic prerequisites and corequisites, also called(More)
The continuous sliding-window query model is used widely in data stream management systems where the focus of a continuous query is limited to a set of the most recent tuples. In this paper, we show that an interesting and important class of queries over data streams cannot be answered using the sliding-window query model. Thus, we introduce a new model for(More)
Using functions in various forms, recent database publications have assigned “scores”, “preference values”, and “probabilistic values” to object-relational database tuples. We generalize these functions and their evaluations as sideway functions and sideway values, respectively. Sideway values represent the advices (recommendations) of data creators or(More)