Fig. 3

Visualization of overrepresented biological processes in clusters 1–4 using BiNGO for gene ontology (GO) analysis. Each node in the networks for a cluster 1, b cluster 2, c cluster 3, and d cluster 4 represents a single GO annotation for an overrepresented biological process. The size of the node corresponds to the number of transcripts associated with the GO annotation, while the color shade of the node indicates the padj of each GO annotation (hypergeometric test; Benjamini and Hochberg false discovery rate correction; threshold padj < 0.05). Deeper color = lower padj. Blank nodes do not contain transcripts associated with clusters 1–4. Networks are organized hierarchically from broader “parent” terms containing large numbers of transcripts (e.g., “cellular process”) to more specific “child” terms containing fewer numbers of transcripts (e.g., “regulation of T cell proliferation”). Families of similar GO annotations are grouped into boxes; representative GO annotations contained within are indicated next to each box. A zoomed-in view of each network and GO annotation can be viewed in (Additional File 7: Fig. S3). Note that GO biological processes are not the same as pathways, but rather a grouping of molecular activities contributing to a single event