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Table 2 Genes associated with IPA bio-functions and canonical pathways that are different from the GO categories shown in Table 1

From: Transcriptomic responses in mouse brain exposed to chronic excess of the neurotransmitter glutamate

Bio-Functions Associated Genes
Molecular Transport  
   Up-regulated genes (41) Anp32a, Atp1a1, Atp2b2, Atp2c1, Atxn1, Cacna1c, Cacna1d, Cacna1h, Cacna2d1, Cacnb2, Camk2a, Camk2b, Erc2, Frap1, Gja1, Gnaq, Gpam, Grin2a, Grin2b, Htr1a, Kcna6, Kcnd2, Kcnip2, Kcnq1, Kcnq2, Lyk5, Nrxn3, Ntrk2, Ppp3ca, Ptk2, Rgs14, Ryr1, Scd, Scn2a, Scn8a, Smg6, Snca, Trpc4, Trpm7, Uhmk1, Ywhae
   Down-regulated genes (18) Adra2a, Atp1a2, Calca, Camk2d, Cast, Cav2, Cckbr, Dcn, Gap43, Igf1, Igfbp3, Nts, Rgs2, Satb1, Slc17a6, Trhr, Vip, Wnt7a
Cellular Assembly and Organization  
   Up-regulated genes (100) Actb, Adam17, Add1, Ank3, Anp32a, Ap2a2, Apc, Arf3, Arhgef12, Arhgef2, Arpc2, Atp2b2, Atp2c1, Bcl11b, Bin1, Cacna1c, Cacnb2, Camk2a, Cap2, Capn10, Centb2, Centg2, Clasp1, Clip1, Coro1c, Cttn, Diaph1, Dlg1, Dlg4, Dmd, Dnaja3, Dpysl2, Dsp, Dst, Eif4a1, Eif4e, Enah, Enc1, Epha4, Erc2, Exoc5, Frap1, Gas7, Gja1, Gnaq, Gng2, Gosr1, Gpm6a, Grin2a, Grip1, Htr1a, Itga8, Junb, Kalrn, Kcnq1, Klf2, Kpnb1, Ksr1, Map2, Map7, Mapk14, Mapk8, Mbp, Myo9b, Napg, Nav1, Ncam1, Ndel1, Neo1, Net1, Nfia, Nisch, Nmt1, Nrcam, Nrp1, Ntrk2, Ntrk3, Pafah1b1, Pex5l, Picalm, Prkg1, Psap, Ptk2, Ptk2b, Reps1, Rictor, Rims1, Rps6kb1, Rtn4, Sec24b, Sema5a, Slit3, Snca, Spire1, Top2b, Tpm1, Trpc4, Wasf3, Wasl, Ywhaz
   Down-regulated genes (26) Cacnb4, Calca, Cast, Cav2, Cd24, Cd44, Cdc42ep1, Cdh13, Cit, Cntn4, Ctgf, Dcx, Efna5, Gap43, Grin3a, Igf1, Igfbp3, Klf5, Nts, Ppard, Reln, Rgs2, Sdc2, Sparc, Stmn1, Wnt7a
Amino Acid Metabolism  
   Up-regulated genes (35) Acvr1, Acvr2a, Akt3, B3gnt2, Brsk2, Btg2, Camk2a, Camk2b, Col4a3bp, Csnk1a1, Dusp6, Dyrk1a, Fer, Frap1, Gmfb, Hipk2, Kalrn, Large, Lyk5, Mapk14, Mapk8, Mtmr3, Ndst1, Phka2, Ppp3ca, Prkca, Prkg1, Ptk2b, Ptprd, Ptprj, Rps6kb1, Srpk2, St6galnac3, Tlk2, Trpm7
   Down-regulated genes (6) Ass1, Igf1, Igfbp3, Nts, Reln, Slc17a6
Cell Death  
   Up-regulated genes (99) Acvr1, Akt3, Aldh2, Ap2a2, Apc, Arc, Atf2, Atf6, Atp1a1, Atp2c1, Atrx, Atxn1, Bclaf1, Bin1, Btg2, Cacna1c, Cacnb2, Calb1, Camk2a, Capn10, Chka, Csnk1a1, Dmd, Dnaja3, Dsp, Dusp6, Egr1, Egr2, Eif4e, Fem1b, Fer, Fos, Frap1, Fubp1, Fus, Gabbr1, Gja1, Gmfb, Gnaq, Gng2, Grin2a, Hdac2, Hipk2, Hpca, Junb, Klf2, Ksr1, Lrig1, Map2k4, Mapk14, Mapk8, Mbp, Mef2a, Mgat3, Ncam1, Ndel1, Ndst1, Nptx1, Nr4a1, Nrcam, Nrf1, Nrp1, Ntrk2, Ntrk3, Pafah1b1, Phip, Polb, Ppp1r13b, Ppp3ca, Prkca, Psap, Ptk2, Ptk2b, Rad23b, Rasgrp1, Rbm5, Rps6kb1, Rraga, Rtn4, Scn2a, Scn3b, Sh3rf1, Ski, Slk, Snca, Tacc1, Tfrc, Tnfrsf25, Tnks2, Tpm1, Ube2k, Ubtf, Usp7, Vps33a, Ywhae, Yy1, Zbtb16, Zeb2, Zfr
   Down-regulated genes (37) Acvr2b, Angpt1, Anxa1, Atp1a2, Calca, Camk2d, Casp1, Cast, Cd24, Cd44, Cit, Ctgf, Dcn, Ecop, Etv6, Gulp1, Hoxc6, Igf1, Igfbp3, Igfbp6, Klf5, Mef2c, Nedd9, Phlda1, Plagl1, Ppard, S100a10, Satb1, Sdc2, Sparc, Stmn1, Tgm2, Timp2, Tmsb10, Vip, Wnt7a, Wwox
Organismal Survival  
   Up-regulated genes (44) Adar, Akt3, Apc, Aplp2, Cacnb2, Dmd, Dnaja3, Dsp, Dyrk1a, Egr2, Enah, Fus, Fut8, Gabrb3, Gja1, Gnaq, Grip1, Hapln1, Hipk2, Klf2, Magi2, Map2k4, Mapk14, Mapk8, Mef2a, Nfia, Nrf1, Nrp1, Ntrk2, Ntrk3, Pbx1, Pnpla6, Polb, Prkca, Ptk2, Ptprs, Rad23b, Ski, Spred2, Top2b, Wasl, Wdr1, Yy1, Zfr
RNA Trafficking  
   Up-regulated genes (3) Eif3a, Eif4a1, Eif4e
DNA Replication, Recombination, and Repair  
   Up-regulated genes (13) Atf2, Atp1a1, Fos, Gnaq, Gng2, Iqgap2, Kpnb1, Mapk8, Myo9b, Ptk2, Ptk2b, Ubtf, Yy1
Canonical Pathways Associated Genes
Huntington's Disease Signalling  
   Up-regulated genes (Total number: 17) Akt3, Ap2a2, Atf2, Capn10, Capn3, Dlg4, Frap1, Gnaq, Gng2, Gosr1, Grin2b, Hdac2, Map2k4, Mapk8, Napg, Prkca, Snca
   Down-regulated genes (5) Casp1, Gng4, Igf1, Pik3r5, Tgm2
Axonal Guidance Signalling  
   Up-regulated genes (23) Adam17, Akt3, Arhgef12, Arpc2, Dpysl2, Eif4e, Epha3, Epha4, Epha6, Epha7, Gnaq, Gng2, Kalrn, Nrp1, Ntrk2, Ntrk3, Ppp3ca, Prkca, Ptk2, Rtn4, Sema5a, Slit3, Wasl
   Down-regulated genes (10) Arhgef15, Efna5, Gng4, Igf1, Pik3r5, Sdc2, Sema4a, Unc5d, Wnt4, Wnt7a
Chemokine Signalling  
   Up-regulated genes (9) Camk2a, Camk2b, Fos, Gnaq, Mapk14, Mapk8, Prkca, Ptk2, Ptk2b
   Down-regulated genes (1) Camk2d
Ephrin Receptor Signalling  
   Up-regulated genes (14) Akt3, Arpc2, Atf2, Epha3, Epha4, Epha6, Epha7, Gnaq, Gng2, Grin2a, Grin2b, Kalrn, Ptk2, Wasl
   Down-regulated genes (6) Angpt1, Arhgef15, Efna5, Gng4, Sdc2, Sh2d3c
Synaptic Long Term Potentiation  
   Up-regulated genes (9) Atf2, Cacna1c, Camk2a, Camk2b, Gnaq, Grin2a, Grin2b, Ppp3ca, Prkca
   Down-regulated genes (2) Camk2d, Grin3a
Integrin Signalling  
   Up-regulated genes (12) Actb, Akt3, Arf3, Arpc2, Capn10, Capn3, Itga8, Map2k4, Mapk8, Ptk2, Tspan5, Wasl
NRF2-mediated Oxidative Stress Response  
   Up-regulated genes (11) Actb, Dnaja3, Dnajb5, Dnajc1, Fos, Junb, Map2k4, Mapk14, Mapk8, Prkca, Ube2k
   Down-regulated genes (3) Maf, Pik3r5, Slc35a2
Neuregulin Signalling  
   Up-regulated genes (7) Adam17, Akt3, Dlg4, Frap1, Nrg3, Prkca, Rps6kb1
   Down-regulated genes (1) Dcn
Neurotrophin/TRK Signalling  
   Up-regulated genes (6) Atf2, Fos, Map2k4, Mapk8, Ntrk2, Ntrk3
   Down-regulated genes (1) Pik3r5
Toll-like Receptor Signalling  
   Up-regulated genes (5) Fos, Map2k4, Mapk14, Mapk8, Tollip