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

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