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iPath/iPath2 has been extensively used for customized pathway rendering and visualization of experimental data and can conveniently be employed to visualize differential usage of pathways in a global pathway map (for typical applications of iPath2, see, for instance, Navid and Almaas 24 and Erickson et al 25).
By combining this approach with visualization of experimental data, we can provide domain experts with a highly valuable tool.
The comparison of the newly obtained genome-scale metabolic models for L. reuteri ATCC PTA 6475 and ATCC 55730, along with the visualization of experimental data was carried out within the SimPheny™ software platform (Genomatica, Inc., San Diego, CA).
Cytoscape also allows the visualization of experimental data in the network, as in Figure 2C which shows the cardiac stem cell tissue development expression data.
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To deal with technical advances and the consequent increase of genome-wide datasets, a number of very diverse tools has been developed for network-centered visualization and analysis of experimental data [ 2, 3].
An original mode of experimental data visualization is proposed.
Bengler advocates for making more public data available through projects such as Westvang's series of experimental data visualizations, which have been featured in The Guardian, Fast Company, and Norwegian national media.
The visualizations focus is on the display of experimental data in hierarchical and pre-defined pathway maps.
The analysis of experimental data, extensive flow visualization and the identification of the operational constraints set the basis for the mechanistic modeling.
ChromoZoom is, therefore, ideal for exploration of experimental data by researchers, enabling the visualization of custom results alongside a dynamic representation of curated genomic information.
Figure 3: Bayesian analysis of experimental data.
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CEO of Professional Science Editing for Scientists @ prosciediting.com