Table 6.

Most enriched GO terms: Biological Process, classed hierarchically by fold increase.

GO biological processes	Hit count in query list	Hit count in the genome	Hit in query list	Fold	P value
collagen fibril organization GO:0030199	10	103	PLOD3, TGFB2, COL6A3, PLOD1, COL14A1, COL6A2, COL8A1, LUM, GREM1, BMP1.	60.59	1.23E-11
glycosaminoglycan catabolic process GO:0006027	4	62	HSPG2, LUM, DCN, CEMIP	40.26	3.32E-02
negative regulation of angiogenesis GO:0016525	6	103	HSPG2, THBS2, SERPINF1, TGFB2, PTN, DCN	36.35	1.70E-04
negative regulation of blood vessel morphogenesis GO:2000181	6	104		36.01	1.80E-04
negative regulation of vasculature development GO:1901343	6	105		35.66	1.90E-04
extracellular matrix organization GO:0030198	18	383	HSPG2, TIMP2, PLOD3, TGFB2, COL6A3, HAPLN1, QSOX1, MMP2, NID2, PLOD1, COL14A1, COL6A2, COL8A1, DCN LUM, GREM1, BMP1.	29.33	7.79E-19
extracellular structure organization GO:0043062	18	384		29.25	8.15E-19
external encapsulating structure organization GO:0045229	18	385		29.10	8.92E-19
regulation of angiogenesis GO:0045765	7	282	HSPG2, THBS2, SERPINF1, TGFB2, PTN, DCN, GREM1	15.49	2.81E-03
regulation of vasculature development GO:1901342	7	283	HSPG2, THBS2, SERPINF1, TGFB2, PTN, DCN, GREM1	15.27	3.08E-03
angiogenesis GO:0001525	7	318	HSPG2, MMP2, COL8A1, GREM1, FAP, ANGPTL2, FN1	13.74	6.19E-03
blood vessel morphogenesis GO:0048514	8	492	HSPG2, MMP2, COL8A1, GREM1, FAP, ANGPTL2, FN1, TGFB2	12.18	2.16E-13

Selection based on p-value and adjusted with Bonferroni correction. Hit count in genome shows the number of genes in a given pathway, and the hit count in query list shows how many genes in the query list are hit in a given GO term. In BLUE, themes belonging to ECM organization along with collagen fibril organization and glycosaminoglycan catabolic processes and in YELLOW terms belonging to angiogenesis. The full output table generated by ToppFun is shown in Supplementary Table S7.