Revealing subnetwork roles using contextual visualization: Comparison of metabolic networks

Proceedings of the International Conference on Information Visualisation

Volumn , Issue , 2008, Pages 638-643

  Bourqui, Romain ^a   Jourdan, Fabien ^b  

^a UNIVERSITÉ BORDEAUX 1   (France)

^b CEMAGREF   (France)

Author keywords

[No Author keywords available]

Indexed keywords

COMPUTER NETWORKS; INFORMATION ANALYSIS; KETONES;

INTERNATIONAL CONFERENCES; METABOLIC NETWORKS; VISUALISATION;

VISUALIZATION;

EID: 51749121532     PISSN: 10939547     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/IV.2008.93     Document Type: Conference Paper

References (14)

1. D. Auber. Tulip : A huge graph visualisation framework. In Graph Drawing Softwares, Mathematics and Visualization, pages 105-126. Springer-Verlag, 2003.
2. M. Becker and I. Rojas. A Graph Layout Algorithm for Drawing Metabolic Pathways. Bioinformatics, 17:461-467, 2001.
3. R. Bourqui, V. Lacroix, L. Cottret, D. Auber, P. Mary, M.-F. Sagot, and F. Jourdan. Metabolic network visualization eliminating node redundance and preserving metabolic pathways. BMC Systems Biology, 1(29), 2007.
4. U. Brandes, T. Dwyer, and F. Schreiber. Visualizing Related Metabolic Pathways in Two and Half Dimensions. LNCS, 2912:11-122, 2004.
5. G.W. Furnas. The FISHEYE view: A new look at structured files. Technical report, Murray Hill, U.S.A., 1981.
6. M. R. Garey and D. S. Johnson. Computers and Intractabil-ity: A Guide to the Theory of NP-Completeness. W. H. Freeman & Co., New York, NY, USA, 1979.
7. F. Jourdan, R. Breitling, M. Barrett, and D. Gilbert. MetaNetter: inference and visualization of high-resolution metabolomic networks. Bioinformatics, 24:143-145, 2008.
8. P. Karp, C. Ouzounis, C. Moore-Kochlacs, L. Goldovsky, P. Kaipa, D. Ahren, S. Tsoka, N. Darzentas, V. Kunin, and N. Lopez-Bigas. Expansion of the biocyc collection of pathway/ genome databases to 160 genomes. Nucleic Acids Re-search, 19:6083-6089, 2005.
9. G. Michal. On representation of metabolic pathways. BioSystems, 47:1-7, 1998.
10. R. Pinter, O. Rokhlenko, E. Y.-L. E, and M. Ziv-Ukelson. Alignment of metabolic pathways. Bioinformatics, 21:34013408, 2005.
11. P. Saraiya, C. North, and K. Duca. Visualizing biological pathways: requirements analysis, systems evaluation and research agenda. Information Visualization, pages 1-15, 2005.
12. M. Sarkar and M. H. Brown. Graphical fisheye views. Com-munications of the ACM, 37(12):73-84, 1994.
13. J. van Helden, L. Wernisch, D. Gilbert, and S. Wodak. Graph-based analysis of metabolic networks. Ernst Schering Research Foundation Workshop, 38:245-274, 2002.
14. K. Wegner and U. Kummer. A new dynamical layout algoritmh for complex biochemical reaction networks. BMC Bioinformatics, 2005.