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Table 2 The top 6 gene networks associated with the TBI-I dataset

From: Bilateral gene interaction hierarchy analysis of the cell death gene response emphasizes the significance of cell cycle genes following unilateral traumatic brain injury

Network ID Molecules in network Score Focus molecules Top diseases and functions
1 CADM1, CALB1, CBFB, CDCA7L, CMIP, Cytochrome bc1, cytochrome-c oxidase, DAB2, DEDD, FGF9, FLNA, FYN, GCLC, GCLM, GFAP, GFRA1, ITGA6, JDP2, MAOA, MED14, MGEA5, NFE2L1, NFE2L2, NPTX1, NRP1, PDHA1, PDLIM7, RET, Rnr, RPS24, RTN4, SLC18A2, Sos, STK17B, TAF4B 46 31 Cell Death and Survival, Drug Metabolism, Molecular Transport
2 AMOT, ANXA1, API5, ATF3, ATG12, BAG3, CCNA2, Cdc2, CDK1, CDK2, CDKN1B, ETV5, FGFR3, FN1, GJA1, Hedgehog, LATS1, MCL1, MCM2, MCM8, MLLT4, MMS22L, NAA15, Patched, PIK3C2A, PKP2, PSMA7, RAB35, RPRM, SPIN1, TAGLN2, THOC2, TJP2, UNC5B, XPO1 46 32 Cell Death and Survival, Cell Cycle, Reproductive System Development and Function
3 AHCTF1, AKAP12, amylase, BCL11A, CA4, CACNA1G, CCND1, CLCN7, CREB1, CREBBP, CSF1, CSRNP1, CTNNB1, DES, Histone h3, IKK (complex), ITPR2, KLF6, KPNB1, MITF, MTMR1, NFIX, PRKD3, PTGR1, RAI14, RNA polymerase II, RRM2, SENP2, SMAD4, SMARCA4, SUDS3, TBL1XR1, TGM2, THRA, ZBTB18 43 31 Cell Death and Survival, Organismal Survival, Gene Expression
4 ABCA1, ALB, ALDH1A2, BTG2, Ccl2, Ccl7, CD36, CEBPB, chemokine, CREM, CXCL3, DUSP5, EGR2, FGF2, FGL2, FOSL1, FSH, Hmgb2 (includes others), HMOX1, IL1, IL12 (family), IL6R, ITGB2, KLF4, MAPK9, NEK6, NEK7, PDE4B, Pld, PRKCI, PTGS2, SPP1, THBD, TLR4, WNT5A 42 30 Cellular Movement, Hematological System Development and Function, Immune Cell Trafficking
5 ACSL5, AGTR2, AMFR, AVP, CAMK2N1, CAPRIN1, CHSY1, CUL5, DCK, ELAVL1, Endothelin, GMCL1, GNRH, Insulin, MAP4K4, MSI2, MTORC1, NEO1, OPA1, Proinsulin, PTGER3, Relaxin, RNF2, SLC2A3, SMAD7, STAG1, TACR1, TCEB3, TMEM123, TRAF6, WAPAL, WFS1, WTAP, ZMYM2, ZNF280B 41 29 Cell Death and Survival, Cardiovascular System Development and Function, Hereditary Disorder
6 26 s Proteasome, ARL11, BCL2L1, CAMK1G, CAMK2D, CASP3, CAV1, CISD2, CLASP1, CLN5, DLG4, EN2, ENC1, Esr1-Esr1-estrogen-estrogen, FBXO9, G2E3, Hsp70, Hsp90, HSP90AB1, IDE, KIF1B, MDM2, PCDH15, PGR, PI4K2A, PRDM2, PSEN1, SGPL1, SNCA, SPTBN1, SRC (family), SRPK2, TMEM109, TRIM2, VPS41 40 30 Cell Death and Survival, Cancer, Neurological Disease
  1. Bold= > Gene included in the dataset
  2. Note: Some of the nodes in the original networks represent gene groups, complexes or families that, when expanded, contain more potential GOI