Visualization of the workflow results

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Circos visualizations

These workflow visualizations were created with the Circos software visualization toolkit.


The connections in the middle are from drugs to the microbe genes that they affect. The colour of the connections is the same as the colour of drug arcs.

Viz1.jpg


The following one includes connections to genes which didn't have any targets in the tb_protein_info file. This gives us results for homology models as well. As a test case, you can see that Amantadine is in the top few drugs here instead of being at the bottom, which is consistent with the paper.

Viz2.jpg


The following one includes a histogram for the genes (showing the number of times that each gene is connected to a drug):

Viz3.jpg


The following visualization has only genes from tb_protein_info:

Viz4.jpg

Other visualizations

Earlier visualizations were made testing different software tools. The visualizations below depict the drug-target interaction network obtained as a result of executing the TB-Drugome Workflow (see file here). No additional annotations were performed on the file.

Gephi Visualizations

The next visualizations have been obtained with the Gephi graph visualization tool.

Visualization showing the connections between drugs and proteins. Drugs are represented in yellow and the proteins in purple. The bigger the drug is, the more connections it has. Click here for a full view of the image (it might take a little bit to load).

DrugsVisualization.jpg

Visualization showing the connections between drugs and proteins. Drugs are represented in yellow and the proteins in purple. The bigger the protein is, the more connections it has. Click here for a full view of the image (it might take a little bit to load).

StructuresVisualization.jpg

yEd visualizations

Visualization showing the connections between drugs and proteins, created with the yEd graph editor. Proteins are represented in purple circles and drugs in yellow rounded rectangles. Click here for a full view of the image (it might take a little bit to load). Due to the size of the network the outcome is little confusing:

GraphNetwork21-02-2013.jpg

Other layouts couldn't be tested with yEd due to the minimum memory required by the program to compute the images.

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