. Author manuscript; available in PMC: 2016 Apr 12.

Published in final edited form as: J Autoimmun. 2015 Feb 17;59:26–37. doi: 10.1016/j.jaut.2015.01.011

Table 3.

GO pathways identified in uniquely down-regulated genes using BiNGO.

RANK	GO_Term	P-value	Nr. Genes	Associated Gene Symbol
1	negative regulation of metabolic process	3.0E-05	10	Prkcd\| Foxp1\| Skil\| Satb1\| Tgfb1\| Jun\| Ago1\| Nr1h2\| Msh2
2	negative regulation of cellular metabolic process	9.5E-05	9	Prkcd\| Foxp1\| Skil\| Satb1\| Tgfb1\| Jun\| Nr1h2\| Msh2\|
3	negative regulation of macromolecule metabolic process	1.2E-04	9	Prkcd\| Foxp1\| Skil\| Satb1\| Tgfb1\| Jun\| Ago1\| Nr1h2\| Msh2
4	regulation of cellular protein metabolic process	1.9E-04	7	Casc3\| Prkcd\| Csnk1e\| Tgfb1\| Jun\| Ago1\| Nr1h2\|
5	intracellular signaling pathway	2.4E-04	10	Il6st\| Prkcd\| Rcan1\| Xpc\| Sos1\| Prkci\| Nr1h2\| Msh2\| Cdc42ep4
6	immune system process	2.4E-04	9	Prkcd\| Foxp1\| Skil\| C1qa\| Bcl2l11\| Satb1\| Tgfb1\| Msh2\| Polr3e
7	regulation of protein metabolic process	5.0E-04	7	Casc3\| Prkcd\| Csnk1e\| Tgfb1\| Jun\| Ago1\| Nr1h2\|
8	regulation of developmental process	5.1E-04	9	Il6st\| Iqcb1\| Rcan1\| Skil\| Bcl2l11\| Tgfb1\| Jun\| Ntn4\| Cdc42ep4
9	regulation of transcription from RNA polymerase II promoter	1.0E-03	8	Ahr\| Foxp1\| Skil\| Satb1\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
10	cellular response to stimulus	1.2E-03	8	Ahr\| Ash2l\| Xpc\| Tgfb1\| Jun\| Prkci\| Msh2\|
11	cell death	1.4E-03	7	Ahr\| Mef2a\| Bcl2l11\| Tgfb1\| Jun\| Pacs2\| Msh2\|
12	death	1.5E-03	7	Ahr\| Mef2a\| Bcl2l11\| Tgfb1\| Jun\| Pacs2\| Msh2\|
13	positive regulation of transcription	2.2E-03	7	Ahr\| Mef2a\| Zscan21\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
14	positive regulation of macromolecule metabolic process	2.5E-03	8	Ahr\| Mef2a\| Zscan21\| Csnk1e\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
15	positive regulation of gene expression	2.7E-03	7	Ahr\| Mef2a\| Zscan21\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
16	positive regulation of cellular metabolic process	2.8E-03	8	Ahr\| Mef2a\| Zscan21\| Csnk1e\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
17	positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	3.0E-03	7	Ahr\| Mef2a\| Zscan21\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
18	cellular localization	3.3E-03	7	Casc3\| Khsrp\| Vps26b\| Tgfb1\| Prkci\| Copa\|
19	positive regulation of nitrogen compound metabolic process	3.4E-03	7	Ahr\| Mef2a\| Zscan21\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
20	positive regulation of macromolecule biosynthetic process	3.4E-03	7	Ahr\| Mef2a\| Zscan21\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
21	macromolecule localization	3.5E-03	8	Rab11fip5\| Casc3\| Khsrp\| Vps26b\| Tgfb1\| Rab3ip\| Copa\|
22	positive regulation of metabolic process	3.8E-03	8	Ahr\| Mef2a\| Zscan21\| Csnk1e\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
23	positive regulation of cellular biosynthetic process	4.2E-03	7	Ahr\| Mef2a\| Zscan21\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
24	positive regulation of biosynthetic process	4.5E-03	7	Ahr\| Mef2a\| Zscan21\| Tgfb1\| Jun\| Nr1h2\| Pbx2\|
25	phosphate metabolic process	4.7E-03	8	Prkcd\| Tnks\| Csnk1e\| Dusp2\| Tgfb1\| Prkci\| Dusp4\| Msh2\|
26	phosphorus metabolic process	4.7E-03	8	Prkcd\| Tnks\| Csnk1e\| Dusp2\| Tgfb1\| Prkci\| Dusp4\| Msh2\|