Table 12.

Enriched GO biological process categories for the target genes differentially expressed in the AAA neck and found to have binding sites for transcription factors RUNX1, ELF1, ETS2 and STAT5 based on the current ChIP-chip analyses.

GO Biological Process Category	GO ID	Number of Genes			p	FDR
		Reference Set	AAA Neck Set	Expected
Regulation of apoptotic process	0042981	1150	30	13	5.72 × 10−06	1.50 × 10−03
Positive regulation of macromolecule metabolic process	0010604	1842	40	20	1.10 × 10−05	2.10 × 10−03
Cardiovascular system development	0072358	754	22	8.2	2.25 × 10−05	3.50 × 10−03
Negative regulation of programmed cell death	0043069	580	17	6.3	2.00 × 10−04	9.00 × 10−03
Signal transduction in response to DNA damage	0042770	116	7	1.2	3.00 × 10−04	1.21 × 10−02
Leukocyte migration	0050900	248	10	2.7	4.00 × 10−04	1.43 × 10−02

The gene list was obtained from a previously published study on RNA samples isolated from the neck regions of AAAs [40]. From this list, genes enriched in the ChIP-chip experiments identified in the current study were identified. This gene set (see Table S9) was then compared to the reference gene set in the human genome annotated to at least one GO category. The analysis was carried out using a set of chers in the AAA sample pool. The analyses presented here were carried out using the combined set of all target genes for all four transcription factors. All of the categories listed here are from the 6th level of hierarchy. Size of the category (number of genes) and the number of genes overlapping with the list of genes are given. The analysis was carried out using the Webgestalt tool [31,32]. p values were calculated using a hypergeometric test and adjustment for multiple hypothesis testing (FDR) was performed using Benjamini-Hochberg correction [33]. See Figure 8 for a DAG image of the categories, and Table S11 for a list of the genes in the aorta set in each category.