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Figure 4 | BMC Genomics

Figure 4

From: A database of circadian and diel rhythmic gene expression in the yellow fever mosquito Aedes aegypti

Figure 4

Screenshot of the Aedes aegypti Circadian Database demonstrates the key features of the user interface. In this example, tools are being utilized to identify the period gene (AAEL008141). A. On click, the search function allows for querying of gene names, gene descriptions and assigned AAEL numbers. B. The “mouseover” of each individual data point provides specific values for: (1) Timepoint, time (in hours) of collection of sample after onset of experiment (at ZT or CT 0), (2) LD/DD, light/dark or constant dark conditions of the sample, (3) Expression Value, raw fluorescence intensity of the data point, (4) Probability (p) value, for the individual gene that determines likelihood of rhythmicity (p <0.05 assigned as rhythmic), (5) False discovery rate (FDR) q-value for each gene (6) Amplitude, a measure of the maximum extent of oscillation of each optimal cyclical pattern, (7) Peak, time of day a gene was determined to have its highest intensity based on the cosine wave fit, and (8) Period, the time interval between one event in the cycle (e.g. peak or trough) in expression and the next sequential event in expression. The JTK_CYCLE algorithm was used to calculate the probability, amplitude, peak and period values. C. Image, Data, Crosstab, or PDF files can be generated and downloaded from the database. To download the data and visualizations for a given profile, click the download button depicted as a right facing arrow in an open box. Immediately to the right of the download button is a refresh button, identifiable as the circular left-facing arrow, that resets the database to its default settings. D. Double clicking on the profile screen allows the user to zoom in on a profile for close examination of profiles. Clicking the home button returns the screen to the original image.

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