Graphminator

21 Mart 2015 Cumartesi

Drug Disease Network Visualization

Visualization of Drug-Disease network provided by;

"A global view of drug-therapy interactions" Jose C Nacher and Jean-Marc Schwartz

Background data for the construction of the bipartite network at level 2 of the ATC classification[http://www.biomedcentral.com/content/supplementary/1471-2210-8-5-S4.xls]

We obtained below visualization using YED graph editor's "Organic Layout".

19 Aralık 2012 Çarşamba

Cytoscape Web Plugin

Cytoscape visualization tool can be used in web applications. Refer to the demo at here: http://cytoscapeweb.cytoscape.org/demos/showcase It can provide good visualizations. Sample snapshot;

18 Aralık 2012 Salı

Today's Graph: Social Network Visualization

10 Kasım 2012 Cumartesi

Graph of Today: US Electricity Network

U.S. electricity network routes

20 Ekim 2012 Cumartesi

Graph of Today: Twitter Replies

Graph of #slaname tweet messages between October 14, 2009 to December 11, 2009. It is colored and visualized with Processing(http://www.processing.org/).

My Publications

Journal Papers

3. Ahmet Emre Aladağ, Cesim Erten, Melih Sozdinler, "Robinviz: Reliability Oriented Bioinformatic Networks Visualization", Bioinformatics(2011) 27(11):1583-1584, doi: 10.1093/bioinformatics/btr178,

http://bioinformatics.oxfordjournals.org/content/27/11/1583

website: http://code.google.com/p/robinviz/

2. Cesim Erten, Melih Sozdinler, "Improving performances of suboptimal greedy iterative biclustering heuristics via localization" Bioinformatics 26(20): 2594-2600 ,2010,

website: http://code.google.com/p/biclustering/

1. A.O. Cakiroglu, C. Erten, O. Karatas, M. Sozdinler, "Crossing Minimization in Weighted Bipartite Graphs", Journal of Discrete Algorithms (JDA), vol.7, no.4, pp.439-452, 2009.

Conference Papers

4. A. E. Aladağ, C. Erten, M. Sozdinler,"An integrated model for visualizing biclusters from gene expression data and PPI networks", Proc. Int. Symp. on Biocomputing (ISB), ACM New York, NY, USA, pp.1-8, 2010

3. C. Erten, M. Sozdinler, "Biclustering Expression Data Based on Expanding Localized Substructures", Proc. Int. Conf. on Bioinformatics and Computational Biology (BICOB), Lecture Notes in Bioinformatics 5462, pp.224-235, 2009.

2. C. Erten, M. Sozdinler, "A Robust Biclustering Method Based on Crossing Minimization in Bipartite Graphs", Proc. Int. Symp. Graph Drawing (GD), Lecture Notes in Computer Science 5417, pp. 439-440, 2009.

1. A.O. Cakiroglu, C. Erten, O. Karatas, M. Sozdinler, "Crossing Minimization in Weighted Bipartite Graphs", Proc. 6th Workshop on Experimental Algorithms (WEA), Lecture Notes in Computer Science 4525, pp. 122-135, 2007.