A new dynamical layout algorithm for complex biochemical reaction networks

Background: To study complex biochemical reaction networks in living cells researchers more and more rely on databases and computational methods. In order to facilitate computational approaches, visualisation techniques are highly important. Biochemical reaction networks, e.g. metabolic pathways are often depicted as graphs and these graphs should be drawn dynamically to provide flexibility in the context of different data. Conventional layout algorithms are not sufficient for every kind of pathway in biochemical research. This is mainly due to certain conventions to which biochemists/biologists are used to and which are not in accordance to conventional layout algorithms. A number of approaches has been developed to improve this situation. Some of these are used in the context of biochemical databases and make more or less use of the information in these databases to aid the layout process. However, visualisation becomes also more and more important in modelling and simulation tools ...

• Type: Journal
• Year: 2005
• Where: BMCBI
• Authors: Katja Wegner, Ursula Kummer
• Keywords: Algorithm, Biochemical Reaction Networks, BMCBI 2005, Conventional Layout Algorithms