Name
Abstract | ||
|---|---|---|
Metabolic networks combine metabolism and regulation. These complex networks are difficult to understand and visualize due to the amount and diverse types of information that need to be represented. For example, pathway information gives indications of interactions. Experimental data, such as transcriptomics, proteomics and metabolomics data, give snapshots of the system state. Stereoscopic virtual environments provide a true three-dimensional representation of metabolic networks, which can be intuitively manipulated, and may help to manage the data complexity.MetNet3D, a 3D virtual reality system, allows a user to explore gene expression and metabolic pathway data simultaneously. Normalized gene expression data are processed in R and visualized as a 3D plot. Users can find a particular gene of interest or a cluster of genes that behave similarly and see how these genes function in metabolic networks from MetNetDB, a database of Arabidopsis metabolic networks, using animated network graphs. Interactive virtual reality, with its enhanced ability to display more information, makes such integration more effective by abstracting key relationships.MetNet3D and some sample datasets are available at http://www.vrac.iastate.edu/research/sites/metnet/Download/Download.htm.Color snapshots and movies are available at http://www.vrac.iastate.edu/research/sites/metnet/Bioinformatics/SupplementaryInformation.htm. |
Year | DOI | Venue |
|---|---|---|
2005 | 10.1093/bioinformatics/bti581 | Bioinformatics |
Keywords | Field | DocType |
arabidopsis metabolic network,virtual reality,metabolic network,data complexity,metabolomics data,metabolic pathway data,experimental data,normalized gene expression data,stereoscopic virtual environment,pathway information,supplementary information,three dimensional,complex network,virtual environment,gene expression,metabolic pathway | Graph,Data mining,Virtual reality,Proteomics,Computer science,Stereoscopy,Complex network,Bioinformatics,Snapshot (computer storage),Data complexity | Journal |
Volume | Issue | ISSN |
21 | 18 | 1367-4803 |
Citations | PageRank | References |
10 | 0.65 | 14 |
Authors | ||
5 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Yuting Yang | 1 | 44 | 10.79 |
| Levent Engin | 2 | 10 | 0.65 |
| Eve Syrkin Wurtele | 3 | 173 | 11.62 |
| Carolina Cruz-Neira | 4 | 1744 | 287.24 |
| Julie A. Dickerson | 5 | 293 | 27.27 |