Advisors
Now showing items 1-20 of 28
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Algorithms for effective querying of graph-based pathway databases
(Bilkent University, 2007)As the scientific curiosity shifts toward system-level investigation of genomicscale information, data produced about cellular processes at molecular level has been accumulating with an accelerating rate. Graph-based ... -
Automated layout of process description maps drawn in systems biology graphical notation = Systems biology graphical notation kullanılarak çizilen proses diyagramlarının otomatik yerleştirilmesi
(Bilkent University, 2014)Evolving technology has increased the focus on genomics. The combination of today’s advanced studies with decades of molecular biology research yield in huge amount of pathway data. These models can be used to improve ... -
Causality analysis in biological networks
(Bilkent University, 2010)Systems biology is a rapidly emerging field, shaped in the last two decades or so, which promises understanding and curing several complex diseases such as cancer. In order to get an insight about the system – specifically ... -
Chisio : a visual framework for compound graph editing and layout
(Bilkent University, 2007)Graphs are data models, widely used in many areas from networking to biology to computer science. Visualization, interactive editing ability and layout of graphs are critical issues when analyzing the underlying relational ... -
Chisio Web : a web-based framework for customizable visualization of relational information
(Bilkent University, 2012)Graphs are widely used to represent complex relational information. Graph visualization is crucial for effective analysis of information. In simple graphs, nodes are generally considered as uniform-sized components and ... -
A circular layout algorithm for clustered graphs
(Bilkent University, 2009)Visualization of information is essential for comprehension and analysis of the acquired data in any field of study. Graph layout is an important problem in information visualization and plays a crucial role in the drawing ... -
Clustering protein-protein interactions based on conversed domain similarities
(Bilkent University, 2004)Protein interactions govern most cellular processes, including signal transduction, transcriptional regulation and metabolism. Saccharomyces ceravisae is estimated to have 16,000 protein interactions. Appereantly only a ... -
A compound graph layout algorithm with support for ports
(Bilkent University, 2020-10)Information visualization is a eld of study that aims to represent abstract data in an aesthetically pleasing and easy to comprehend visual manner. Various approaches and standards have been created to reinforce the ... -
Efficient querying of SBGN maps stored in a graph database
(Bilkent University, 2019-02)Graph visualization is an important research area that endeavors to make graphs more understandable and easier to analyze. In various domains, graph visualization techniques and standards are developed to effectively ... -
Extending constrained hierarchical layout for drawing UML activity diagrams
(Bilkent University, 2002)While modeling an object-oriented software, a visual language called Unified Modeling Language (UML) may be used. UML is a language and notation for specification, construction, visualization, and documentation of models ... -
A framework for complexity for complexity management in graph visualization
(Bilkent University, 2002) -
A framework for management of multiple views of cellular pathway graphs
(Bilkent University, 2003)The enhancements in genomic studies have given birth to the necessity of advanced techniques for storing, integrating and analyzing the accumulated data regarding molecular level cellular processes. Since this data is ... -
An improved spring embedder layout algorithm for compound graphs
(Bilkent University, 2012)Interactive graph editing plays an important role in information visualization systems. For qualified analysis of the given data, an automated layout calculation is needed. There have been numerous results published about ... -
Improvements on pathwaymapper: a collaborative pathway curation tool
(Bilkent University, 2018-07)Information visualization focuses on visually representing abstract data to amplify human cognition. Graph visualization is one of the most common types in the eld of information visualization because of its capabilities ... -
Integrating biological pathways and genomic profiles with ChiBE 2
(Bilkent University, 2013)Biological pathways store information about spatial and temporal organization of interactions taking place in an organism. They hold valuable information that can assist scientific community in understanding the details ... -
A layout algorithm for graphs with overlapping clusters = Kesişen kümelenmiş çizgeler için bir yerleştirme algoritması
(Bilkent University, 2014)Graphs are often used for visualizing relational data such as social or biological networks. Numerous methods have been proposed for automatic layout of simple graphs. However, simple graphs are usually insufficient in ... -
A layout algorithm for undirected compount graphs
(Bilkent University, 2005)Graph layout is an important problem in information visualization. All datadriven graph-based information visualization systems require some sort of an automatic geometry generation mechanism, as it is generally not ... -
Libraries and tools for viewing and editing biological maps in SBGN
(Bilkent University, 2017-07)Information about cellular processes and pathways is becoming increasingly available in detailed, computable standard formats including Systems Biology Graphical Notation (SBGN). E ective visualization of this information ... -
Methods and tools for synchronized visualization of evolving networks
(Bilkent University, 2018-07)Graph visualization is a powerful tool to convey and analyze relational information in the form of networks such as biological networks, social networks, and computer networks. Abundant research has been conducted on the ... -
Methods and tools for visualization and management of SBGN process description maps
(Bilkent University, 2014)Graphs are commonly used to model relational information in many areas such as relational databases, software engineering, biological and social networks. In visualization of graphs, automatic layout, interactive editing ...
