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The number K of clusters was set to 7. For each cluster and for each GO group defined above, GO enrichment based on Fisher's Exact Test was calculated separately, so that the resulting p-value represents the probability that the observed numbers of selected genes belonging to the cluster and annotated with the GO group have resulted from random sampling.
The transcriptional GO group differs from the general GO group in several aspects.
The "transcriptional GO group" contains 160 MGLCs that belong to the following four GO classes: transcription, regulation of transcription, DNA-dependent regulation of transcription and development (Table S2).
We found that the GO classes are divided into two groups: the "transcriptional GO group" of 1476 genes, whose promoters have relatively high GC concentrations upstream of 200bp from the TSS (giving rise to a broad distribution of BSs, peaking at ∼ −400 bp), and a "general GO group", of 6646 genes (with BSs concentrated in the first 200bp upstream of the TSS).
The weighting has the effect of counting membership in a GO group by how much the gene contributes to that GO group.
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