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. 2016 Jun 2;8(7):761–774. doi: 10.1039/c6ib00040a

Table 5. GO enrichment of network genes identifies processes associated with B-cell leukemia. GOrilla identified enriched GO processes using the network nodes as the foreground against a background of the whole genome.

GO process p-value q-value Enrichment Genes
Transforming growth factor beta receptor signaling pathway 1.27 × 10–12 9.29 × 10–11 13.76 (20 822; 69; 307; 14) Fos, Parp1, Skil, Smad4, Tgfb3, Smad2, Smad9, Ptk2, Smad3, Trp53, Creb1, Jun, Map3k1, Src
Negative regulation of cell differentiation 7.07 × 10–12 4.92 × 10–10 3.89 (20 822; 610; 307; 35) Med1, Hdac2, Vhl, Lmo2, Tcf7l2, Pparg, Hoxa9, Ptk2, Il18, Trp53, Foxo1, Jdp2, Apcs, Pkp2, Xdh, Itgb1, Vim, Ezh2, Erbb2, E2f1, Skil, Erbb4, Myc, Smad3, Hmga2, Meis1, Gsk3b, Itgb1bp1, Mapk1, Pax6, Suz12, Trp73, Ctnnb1, Stat5a, Nfkbia
Positive regulation of protein import into nucleus 8.16 × 10–12 5.65 × 10–10 3.00 (20 822; 1084; 307; 48) Mcph1, Jak2, Med1, Plscr1, Pcna, Bag5, Map2k1, Vhl, Brca1, Pparg, Fadd, Hif1a, Crnkl1, Trp53, Foxo1, Trim28, Mdfi, Traf2, Gch1, Mecom, Atxn3, Ubqln2, Traf6, Atf4, Bag6, Xdh, Nck1, Zbp1, Klf4, Ccr2, Parp1, Skil, Epm2a, Dvl2, Myc, Smad3, Mapk1, Ppp4c, Trp73, Rela, Cd28, Il2ra, Map3k3, Stat5a, Map3k1, Map2k4, Nfkbia, Rab33a
Leukocyte homeostasis 1.50 × 10–11 9.76 × 10–10 13.16 (20 822; 67; 307; 13) Ahr, Sos1, Fas, Lat, Skil, Ppp3cb, Hif1a, Fadd, Casp3, Ikbkb, Il2ra, Stat5a, Mecom
Lymphocyte homeostasis 2.66 × 10–11 1.67 × 10–9 14.53 (20 822; 56; 307; 12) Sos1, Ikbkb, Ahr, Lat, Fas, Il2ra, Skil, Ppp3cb, Stat5a, Fadd, Hif1a, Casp3
Regulation of leukocyte differentiation 3.73 × 10–10 2.05 × 10–8 5.75 (20 822; 236; 307; 20) Sos1, Fas, Ccr2, Erbb2, Fos, Fadd, Myc,Tal1, Creb1, Gfi1b, Jun, Apcs, Asxl2, Cd28, Il2ra, Ctnnb1, Rb1, Stat5a, Traf6, Tyrobp
Regulation of myeloid leukocyte differentiation 4.13 × 10–10 2.24 × 10–8 9.13 (20 822; 104; 307;14) Fos, Fadd, Myc, Tal1, Creb1, Gfi1b, Jun, Asxl2, Apcs, Ctnnb1, Rb1, Stat5a, Traf6, Tyrobp
Hemopoiesis 7.79 × 10–10 4.16 × 10–8 8.71 (20 822; 109; 307; 14) Jak2, Med1, Klf4, Ahr, Ccr2, Lmo2, Hif1a, Hoxa9, Meis1, Tal1, Sox6, Ctnnb1, Sp3, Sp1
Positive regulation of chromosome organization 4.45 × 10–9 2.13 × 10–7 8.48 (20 822; 104; 307; 13) Brca1, Smad4, Eed, Trp53, Tal1, Plk1, Ctbp1, Jdp2, Gfi1b, Asxl2, Ctnnb1, Rb1, Ep300
Positive regulation of myeloid leukocyte differentiation 7.35 × 10–8 3.06 × 10–6 11.52 (20 822; 53; 307; 9) Gfi1b, Jun, Fos, Asxl2, Rb1, Stat5a, Fadd, Traf6, Creb1
Positive regulation of cytokine production 7.47 × 10–8 3.10 × 10–6 4.21 (20 822; 322; 307; 20) Jak2, 2Atp6ap2, Ccr2, Brca1, Fadd, Hif1a, Smad3, Il18, Creb1, Rela, Cd28, Rel, Traf2, Stat5a, Arnt, Hdac1, Traf6, Src, Atf4,
Regulation of apoptotic signaling pathway 1.16 × 10–6 3.79 × 10–5 5.31 (20 822; 166; 307; 13) Jak2, Plscr1, Nck1, Fas, Skil, Fadd, Mapk8, Smad3, Myc, Trp53, Gsk3b, Trp73, Traf2
Myeloid cell development 4.62 × 10–6 1.31 × 10–4 10.32 (20 822; 46; 307; 7) Sox6, Med1, Ptpn11, Tal1, Meis1, Ep300, Src
Positive regulation of lymphocyte proliferation 7.38 × 10–6 1.97 × 10–4 5.95 (20 822; 114; 307; 10) Nck1, Ccr2, Cdkn1a, Cd28, Stat5a, Fadd, Traf6
Regulation of Wnt signaling pathway 3.49 × 10–5 7.84 × 10–4 3.88 (20 810; 227; 307; 13) Hdac2, Cdh1, Atp6ap2, Tcf7l2, Dvl2, Smad3, Dkk3 Dvl1, Foxo1, Mdfi, Hdac1, Src, Xiap