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- A heatmap can also be a useful way to look at signaling differences across populations. In this section, let's create a heatmap illustration by starting with the saved "U937 histogram overlay." Go to the experiment summary page and click on Edit next to the saved illustration "U937 histogram overlay." Click on OK when the prompt comes up indicating that this will replace your "Working Illustration."
- In the working illustration page under "Plot Controls", select "Plot Type" Heatmap. For the X axis, make sure "Use Panel/Channel values" is selected and click Update Plots.
- This will show you a heatmap where each column is a phosphoprotein and each row is a condition. In this case, the brightest spots in each column will indicate the condition which had the highest change when compared to unstimulated.
- We can change the view so that each column is a condition and each protein is a row. Move the Condition dimension to the left past the Channels dimension and click on Update Dimensions.
- Note that the values in the table will not make sense as the control is specified as the first row. Select First Column in the control selectbox in "Plot Statistics" and click on Update Plot.
- Mousing over a square in the heatmap displays the underlying data as a 2-d or 1-d plot. This configuration is controlled by the "Viewthrough Plot Type" selection in "Plot Statistics". The X and the Y-axis shown on the viewthrough plot can be configured in the "Plot Controls" section. In this case, set the viewthrough plot type to Histogram X, the X-axis to Use Panel/Channel Values and click on Update Plots. This will display a histogram of the underlying distribution when mousing over a heatmap square.
- The heatmap can be printed or exported by clicking on the Print Illustration link. This will open the illustration in a new window and display the heatmap as a single image. You can print using your browser or copy that image to the clipboard.
- Save the illustration as "U937 heatmap"
