Table 4.
List of top 12 networks whose enrichment scores were at least 20 (see Section 2)
| ID | Molecules in network | Score | No. of moleculesa |
Top functions |
|---|---|---|---|---|
| 1 | BTRC, CD3, DDX20, FBXW11, FYN, HNRNPA1, HNRNPM, HNRNPR, HNRNPU, Ikb, IKBKG, Ikk (family), Importin alpha, Importin beta, KPNA1, KPNA2, KPNB1, NCL, NFKB1, NFKB2, NFKBIA, NMT1, PKM2, RAN, RANBP2, RELB, RPL7, RPL18, SIP1, SNRPD2, SRSF1, SRSF2, SUMO1, WDR77, XPO1 | 50 | 30 | RNA post-transcriptional modification, cancer, infectious disease |
| 2 | 26s Proteasome, CCNT2, COBRA1, CTDP1, CUL5, E3 RING, Early Elongation, FOS, GTF2H2, HIF1A, Holo RNA polymerase II, Immunoproteasome Pa28/20s, MED8, PSMA2, PSMA6, PSMA7, PSMB, PSMB1, PSMB3, PSMB4, PSMB5, PSMB7, PSMB8, PSMB10, Psmb5-Psmb6-Psmb8-Psmb9, RBX1 (includes EG:9978), RDBP, RPS9, RPS25, RPS17 (includes EG:6218), Stat1-Stat3, TCEB1, TCEB2, VHL-Cul2-Elongin-RBX1, WHSC2 | 36 | 26 | Haematological disease, dermatological diseases and conditions, infectious disease |
| 3 | BRCA1-BARD1, CDK2-CyclinE, Cpt, CPT1, CPT2, CPT1A, CPT1B, CPT1C, H2AF, H2AFX, HNRNPA0, Ku, Mre11, NONO, NPM1 (includes EG:4869), PRKDC, Rnr, RPA1, RPS8, RPS13, RPS18, RPS2 (includes EG:6187), RPS3A, Tenascin, TERF2, TNF, TOP1, Trypsin, Ube3, WRN (includes EG:7486), Xrcc, XRCC1, XRCC4, XRCC5, XRCC6 | 34 | 23 | Cell morphology, cellular function and maintenance, DNA replication, recombination, and repair |
| 4 | Angiotensin II receptor type 1, BRCA1, Cbp/p300, CCNT1, CDK7, CDK9, Cyclin T, DHX9, ERCC2, ERK, GTF2B, GTF2H1, GTF2H3, GTF2H4, Hd- neuronal intranuclear inclusions, MNAT1, POLR1A, RNA polymerase I, SUPT16H, Taf, TAF1, TAF4, TAF5, TAF6, TAF9, TAF10, TAF11, TAF13, TAF12 (includes EG:6883), Tak, TBP, TFIIA, TFIIE, TFIIF, TFIIH | 34 | 23 | Gene expression, cell signalling, DNA replication, recombination, and repair |
| 5 | Ahr-aryl hydrocarbon, alcohol group acceptor phosphotransferase, BUB1, BUB3, Casein, CCND3, CCNE1, CDK1, CDK2, CDK1-Cyclin B, CEBPA, collagen, Cyclin B, E2F1, E2F4, EIF2AK2, JUNB, Mmp, PCNA, PKN1, PLAU, PPP1CA, PRKCE, RB1, RBL2, RNA polymerase iii, SF3B1, SF3B2, SF3B3, SL1, Smad2/3, Smad2/3-Smad4, Tgf beta, TOPBP1, UBTF | 28 | 23 | Cell cycle, connective tissue development and function, cellular development |
| 6 | APOA2, Basal transcriptional machinery, BAX, BCL2L11, Caspase, CAV1, CD4, CSNK2A1, Cytochrome c, DFF, DNAJ, Focal adhesion kinase, GATA1, GZMB, HNRNPD, HSP, Hsp70, HSP90AA1, HSPA5, HSPA8, HSPB1, IL12 (complex), KAT2B, MAGED1, MDM2, MHC Class II (complex), Nc2, PP2A, Pro-inflammatory Cytokine, RNA polymerase II, RPL12 (includes EG:6136), SAT1, SP1, TRAF2, YBX1 | 28 | 21 | Cell death, cellular function and maintenance, cellular compromise |
| 7 | 19S proteasome, 20s proteasome, ATM/ATR, ATPase, BANF1, Basc, BLM, DNA-directed DNA polymerase, ERCC3, Gm-Csf Receptor, Jnk, Lamin, Lamin b, LMNA, LMNB1, LMNB2, MAD2L2, MRE11A, NBS1-Rad50-MRE11, POLA1, Proteasome PA700/20s, PSMA4, PSMB2, PSMB6, PSMC, PSMC1, PSMC2, PSMC3, PSMC6, PSMD2, RAD50, Rfc, RFC3, RPA, SMC1A | 27 | 20 | DNA replication, recombination, and repair, cell morphology, cell cycle |
| 8 | Adaptor protein 1, Adaptor protein 2, Alpha tubulin, Ap1 gamma, AP1B1, AP1G1, Ap2 alpha, AP2A2, AP2B1, AP2M1, AP2S1, ARF1, atypical protein kinase C, Beta Arrestin, CD28, Ck2, Clathrin, CLTC, Cofilin, Dynamin, FURIN, Gamma tubulin, Hexokinase, HLA Class I, IL6 RECEPTOR, IL6ST, PACS1, Pld, PPP2CA, PPP2R2A, PTK2, SYK, TUBA1B, TUBA4A, Tubulin | 24 | 18 | Cellular assembly and organisation, nervous system development and function, cell morphology |
| 9 | Alp, APOA1, ATP6V1H, CHEMOKINE, DDB1, Endothelin, FN1, FSH, GLUD1, GNRH, Gsk3, hCG, Histone h3, IKK (complex), IRS1, Lh, MIR124, MYC, NR3C1, P38 MAPK, PAK1, PARP, PPP2CB, PRKACA, PRKCA, RAB11A, Rap1, RELA, RPL22, RPS23, SEC13, Tnf, TP53, TRAF6, Vegf | 24 | 19 | Cell death, haematological system development and function, cell cycle |
| 10 | Actin, ACTN1, Alpha catenin, Cadherin, Collagen type I, Collagen type III, Collagen type IV, Cytochrome c oxidase, Elastase, EZR, Fgf, Fgfr, Gap, GIPC1, GPIIB-IIIA, Hspg, ITGB1, LAMA1, Laminin1, Laminin2, MSN, NUP93, PXN, Rab5, Rho gdi, RPL8, RPL10, RPL13, SDC1, SDC2, SDC3, SDC4, Secretase gamma, SRC, THBS1 | 22 | 17 | Cell-to-cell signalling and interaction, cellular assembly and organisation, cell morphology |
| 11 | Ampa Receptor, CDK1/2, CITED1, Cpla2, Cyclin A/Cdk2, Cyclin E, E2f, EEF1A1, EGR2, EIF3B, EIF5B, Histone H1, Il8r, LRP, MAG, N- cor, NADPH oxidase, NUP54, P4HB, Pdi, PKC (α,β,γ,δ,ε,ι), PKC (α,β,ε,γ), Pkc(s), POU2F1, PRKCB, PRKCG, PRKCH, RPL23, RPS6, RPS16, Rsk, Sod, Thymidine Kinase, TSC2, VDR | 22 | 17 | Protein synthesis, cardiovascular system development and function, cell morphology |
| 12 | Ap1, CDKN1A, CEBPB, Creb, CREBBP, CYP19, E3 HECT, EGR1, ENaC, EP300, Ep300/Pcaf, JUN, LDL, NCOA, NEDD4, NEDD4L, P110, PDGF BB, Rac, RARB, RBPJ, RXRA, Smad, Smad1/5/8, SOCS, STAT, STAT1, STAT3, Stat1 dimer, Stat1/3, TGFA, THRA, UBE2D1, UBE2I, Ubiquitin | 20 | 17 | Gene expression, cellular development, cellular growth and proliferation |
a
Number of focus molecules in the network.