Table 3.
List of genes regulated >2- and <0.5-fold in Sv129 Nogo-A knock-out mice compared with BL/6
| Cytoskeleton | ||
| ARP1 actin-related protein 1 homolog A (yeast) | Actr1a | 0.12 |
| Axonemal dynein heavy chain 7 | 0.46 | |
| Beaded filament structural protein 2, phakinin | Bfsp2 | 0.37 |
| Beaded filament structural protein 2, phakinin | Bfsp2 | 0.31 |
| Bicaudal D homolog 1 (Drosophila) | Bicd1 | 2.15 |
| Centrin 4 | LOC207175 | 0.43 |
| CLIP-associating protein 1 | Clasp1 | 2.07 |
| CLIP-associating protein 1 | Clasp1 | 2.99 |
| CLIP-associating protein 2 | Clasp2 | 3.22 |
| Coiled-coil-helix-coiled-coil-helix domain containing 3 | 0610041L09Rik | 2.45 |
| Cysteine-rich hydrophobic domain 1 | Chic1 | 0.14 |
| Fascin homolog 1, actin bundling protein | Fscn1 | 0.40 |
| Formin 2 | Fmn2 | 0.44 |
| Gelsolin | Gsn | 0.25 |
| Gelsolin | Gsn | 0.10 |
| Keratin complex 2, basic, gene 8 | Krt2–8 | 0.42 |
| Microtubule-associated protein 1 light chain 3α | 1010001H21Rik | 0.47 |
| Myosin VIIa | Myo7a | 0.34 |
| Myosin, heavy polypeptide 4, skeletal muscle | Myh4 | 0.03 |
| Myosin, heavy polypeptide 6, cardiac muscle, α | Myh6 | 0.43 |
| T-complex testis expressed 1 | Tctex1 | 2.54 |
| Tropomodulin 2 | Tmod2 | 0.25 |
| Troponin I, skeletal, slow 1 | Tnni1 | 0.06 |
| Troponin I, skeletal, slow 1 | Tnni1 | 0.05 |
| ECM/cell adhesion | ||
| Bone morphogenetic protein 1 | Bmp1 | 0.32 |
| Chondroitin sulfate proteoglycan 2 | Cspg2 | 2.25 |
| Chondroitin sulfate proteoglycan 3 | 2.20 | |
| Claudin 19 | Cldn19 | 0.46 |
| Contactin 2 | Cntn2 | 2.69 |
| Dedicator of cytokinesis 1 | Dock1 | 0.34 |
| Dedicator of cytokinesis 4 | Dock4 | 5.18 |
| Dentin matrix protein 1 | Dmp1 | 0.46 |
| EGF-like repeats and discordin I-like domains 3 | Edil3 | 2.23 |
| Fibromodulin | Fmod | 0.46 |
| Fibulin 1 | Fbln1 | 0.42 |
| Glypican 6 | Gpc6 | 2.09 |
| Hemicentin; fibulin 6 | 0.40 | |
| Hyaluronic acid binding protein 4 | Habp4 | 2.55 |
| Integrin α 4 | Itga4 | 2.66 |
| Integrin α 4 | Itga4 | 3.76 |
| Integrin, β -like 1 | B930011D01R | 0.26 |
| Kin of IRRE-like 3 (Drosophila) | Kirrel3 | 2.67 |
| Laminin B1 subunit 1 | Lamb1–1 | 2.58 |
| Matrilin-2 precursor | 0.42 | |
| Neural cell adhesion molecule 1 | Ncam1 | 2.19 |
| Neural cell adhesion molecule 2 | Ncam2 | 2.12 |
| Procollagen, type VIII, α 2 | Col8a2 | 0.47 |
| Protocadherin 8 | Pcdh8 | 2.15 |
| Protocadherin β 16 | Pcdhb16 | 3.60 |
| Protocadherin γ subfamily A, 12 | Pcdhga12 | 0.49 |
| Spondin 1 (f-spondin) extracellular matrix protein | Spon1 | 0.42 |
| Spondin 2, extracellular matrix protein | Spon2 | 0.45 |
| Thrombospondin 1 | Thbs1 | 0.24 |
| UBX domain containing 2 | 1300013G12R | 0.31 |
| Growth machinery | ||
| BMP2 inducible kinase | Bmp2k | 0.30 |
| CAP, adenylate cyclase-associated protein 1 | Cap1 | 9.03 |
| CAP, adenylate cyclase-associated protein 1 | Cap1 | 3.99 |
| c-fos induced growth factor | Figf | 2.40 |
| Doublecortin | Dcx | 0.41 |
| Fibroblast growth factor inducible 15 | Fin15 | 2.43 |
| Growth arrest-specific 5 | Gas5 | 0.43 |
| Growth factor receptor bound protein 14 | Grb14 | 2.35 |
| Growth factor receptor bound protein 14 | Grb14 | 2.11 |
| Hepatoma-derived growth factor | Hdgf | 6.78 |
| Hepatoma-derived growth factor, related protein 3 | Hdgfrp3 | 2.13 |
| Insulin-like growth factor binding protein 2 | Igfbp2 | 0.50 |
| Insulin-like growth factor binding protein 2 | Igfbp2 | 0.50 |
| Myocilin | Myoc | 0.06 |
| Myocilin | Myoc | 0.05 |
| Papillary renal cell carcinoma | Prcc | 0.32 |
| Platelet-derived growth factor, D polypeptide | Pdgfd | 0.20 |
| Platelet-derived growth factor, D polypeptide | Pdgfd | 0.29 |
| T-cell lymphoma invasion and metastasis 1 | Tiam1 | 2.07 |
| Tumor necrosis factor α induced protein 6 | Tnfaip6 | 2.39 |
| Myelin | ||
| Galactosylceramidase | Galc | 0.10 |
| Galactosylceramidase | Galc | 0.11 |
| Myelin basic protein | Mbp | 6.05 |
| Myelin basic protein | Mbp | 3.14 |
| Synapse formation/maintenance | ||
| Cellubrevin | Vamp3 | 0.39 |
| Rab6 interacting protein 2 | Rab6ip2 | 0.24 |
| SNAP-associated protein | Ilf2 | 2.54 |
| Synaptic vesicle glycoprotein 2c | Sv2c | 13.36 |
| Synaptic vesicle glycoprotein 2c | Sv2c | 14.06 |
| Synaptotagmin 2 | Syt2 | 0.30 |
| Synaptotagmin 7 | Syt7 | 2.73 |
| Tubulin, β 2 | Tubb2 | 2.11 |
| Signaling | ||
| Adenylate cyclase 7 | Adcy7 | 2.50 |
| Adenylate kinase 3 α -like | Ak3l | 0.32 |
| Adenylate kinase 3 α -like | Ak3l | 0.24 |
| Calcium/calmodulin-dependent kinase II α | Camk2a | 2.26 |
| Calcium/calmodulin-dependent kinase II, δ | Camk2d | 0.40 |
| Calmodulin-like 4 | Calml4 | 2.52 |
| Casein kinase II, α 1 polypeptide | Csnk2a1 | 2.51 |
| Deleted in liver cancer 1 | Dlc1 | 4.18 |
| Diaphanous homolog 2 (Drosophila) | Diap2 | 2.10 |
| Doublecortin and calcium/calmodulin-dependent protein kinase-like 1 | Dcamkl1 | 0.32 |
| Down syndrome critical region gene 1-like 1 | Dscr1l1 | 0.36 |
| Dual specificity phosphatase 16 | Dusp16 | 2.17 |
| Era (G-protein)-like 1 (Escherichia coli) | Eral1 | 2.01 |
| G-protein-coupled receptor 23 | Gpr23 | 2.19 |
| G-protein-coupled receptor 34 | Gpr34 | 2.00 |
| G-protein-coupled receptor 64 | Gpr64 | 2.80 |
| G-protein-coupled receptor, family C, group 5, B | Gprc5b | 4.30 |
| G-protein-coupled receptor, family C, group 5, B | Gprc5b | 5.22 |
| Guanine nucleotide binding protein, γ 4 | Gng4 | 0.33 |
| Guanine nucleotide binding protein, β 1 | Gnb1 | 3.04 |
| Guanine nucleotide binding protein, β 1 | Gnb1 | 3.12 |
| Guanylate nucleotide binding protein 1 | Gbp1 | 8.53 |
| REC8-like 1 (yeast) | Rec8L1 | 0.07 |
| REC8-like 1 (yeast) | Rec8L1 | 0.02 |
| Suprabasin | Sbsn | 0.31 |
| Suprabasin | Sbsn | 0.26 |
| Teratocarcinoma-derived growth factor | Tdgf1 | 0.30 |
| Teratocarcinoma-derived growth factor | Tdgf1 | 0.33 |
| Timeless interacting protein | 1110005A05Rik | 4.53 |
| Transforming growth factor β 1 induced 4 | Tgfb1i4 | 9.50 |
| Guidance | ||
| Deleted in colorectal carcinoma | Dcc | 2.38 |
| Eph receptor B2 | Ephb2 | 2.19 |
| Ephrin B2 | Efnb2 | 2.11 |
| Netrin G1 | Ntng1 | 2.05 |
| Neuron navigator 1 | Nav1 | 0.35 |
| Plexin C1 | Plxnc1 | 0.47 |
| Sema domain 5A | Sema5a | 3.21 |
| Sema domain 6D | Sema6d | 6.62 |
| Sema domain 7A | Sema7a | 2.01 |
| Sema domain 6D | Sema6d | 4.13 |
| Slit homolog 2 (Drosophila) | Slit2 | 2.38 |
| Immune response | ||
| Baculoviral IAP repeat-containing 6 | Birc6 | 2.03 |
| B-cell stimulating factor 3 | Bsf3 | 0.35 |
| Bcl2-like 11 (apoptosis facilitator) | Bcl2l11 | 0.36 |
| Bcl2-like 2 | Bcl2l2 | 3.09 |
| C1q and tumor necrosis factor-related protein 4 | 0710001E10R | 17.35 |
| Caspase 8-associated protein 2 | Casp8ap2 | 2.75 |
| Caspase recruitment domain family 10 | Card10 | 2.48 |
| Cathepsin E | Ctse | 5.72 |
| CD1d1 antigen | Cd1d1 | 2.36 |
| CD5 antigen-like | Cd5l | 0.01 |
| CD59a antigen | Cd59a | 2.58 |
| CD84 antigen | Cd84 | 0.20 |
| Chemokine (C-C) receptor 2 | Ccr2 | 0.35 |
| Chemokine (C-C) receptor-like 1 | Ccrl1 | 2.52 |
| Chemokine (C-X-C motif) ligand 13 | Cxcl13 | 2.93 |
| Chemokine (C-X-C motif) ligand 7 | Cxcl7 | 0.47 |
| Complement component 1, q subcomponent, β | C1qb | 0.35 |
| Complement component 1, q subcomponent, β | C1qb | 0.33 |
| Complement component1,q subcomponent, γ | C1qg | 0.31 |
| Complement component factor h | Cfh | 0.34 |
| Complement protein C1q B-chain | C1qb | 0.35 |
| Constant region of Ig μ | Igh-6 | 0.29 |
| Cystatin F (leukocystatin) | Cst7 | 0.42 |
| Cytotoxic granule-associated RNA binding protein 1 | Tia1 | 0.01 |
| EF hand domain containing 2 | D4Wsu27e | 0.11 |
| Engulfment and cell motility 1, ced-12 homology | Elmo1 | 2.17 |
| Friend virus susceptibility 1 | Fv1 | 3.20 |
| Guanylate nucleotide binding protein 1 | Gbp1 | 48.55 |
| Guanylate nucleotide binding protein 3 | Gbp3 | 2.24 |
| Heat shock protein 4 | Hspa4 | 2.33 |
| Histocompatibility 2, class II antigen A, α | H2-Aa | 0.32 |
| Histocompatibility 2, class II antigen A, β 1 | H2-Ab1 | 2.06 |
| Histocompatibility 2, class II antigen E β | H2-Eb1 | 0.26 |
| Histocompatibility 2, class II antigen E β | H2-Eb1 | 0.41 |
| Histocompatibility 2, K region | H2-K | 2.55 |
| Histocompatibility 2, T region locus 24 | H2-T24 | 2.14 |
| Histocompatibility 28 | H28 | 34.75 |
| Hypoxia upregulated 1 | Cab140 | 2.26 |
| Ig heavy chain 6 (of IgM) | Igh-6 | 0.39 |
| Ig heavy chain 6 (of IgM) | Igh-6 | 0.28 |
| Ig κ chain variable 8 (V8) | Igk-V8 | 0.21 |
| Interferon activated gene 202B | Ifi202b | 45.89 |
| Interferon activated gene 202B | Ifi202b | 37.97 |
| Interferon activated gene 205 | Ifi205 | 0.21 |
| Interferon-stimulated protein | Isg20 | 0.45 |
| Interleukin 15 | Il15 | 0.50 |
| Interleukin 6 signal transducer | Il6st | 3.16 |
| Macrophage scavenger receptor 2 | Msr2 | 0.08 |
| Macrophage scavenger receptor 2 | Msr2 | 0.15 |
| Myeloid/lymphoid or mixed-lineage leukemia 5 | Mll5 | 2.92 |
| Pentaxin-related gene | Ptx3 | 0.37 |
| Programmed cell death 4 | Pdcd4 | 2.39 |
| Serine/cysteine proteinase inhibitor, clade A, 1b | Serpina1b | 49.97 |
| Serine/cysteine proteinase inhibitor, clade A, 1b | Serpina1b | 59.35 |
| Guanylate nucleotide binding protein 2 | Gbp2 | 0.39 |
| Inositol polyphosphate-4phosphatase, type I | Inpp4a | 2.31 |
| Intersectin (SH3 domain protein 1A) | Itsn | 2.62 |
| Mitogen-activated protein kinase 8 | Mapk8 | 4.27 |
| Mitogen-activated protein kinase 8 | Mapk8 | 3.48 |
| Mitogen-activated protein kinase kinase kinase 12 | Map3k12 | 4.12 |
| Mitogen-activated protein kinase 6 | Mapk6 | 0.43 |
| Myristoylated alanine-rich protein kinase C substrate | Marcks | 2.56 |
| Patched homolog | Ptch | 0.36 |
| PDZ and LIM domain 2 | Pdlim2 | 0.49 |
| Phosphatidylinositol 3 kinase, regulatory subunit, polypeptide 4, p150 | Pik3r4 | 0.44 |
| Phosphatidylinositol 3 kinase, regulatory subunit, polypeptide 4, p150 | Pik3r4 | 0.39 |
| Phosphatidylinositol 4-kinase, catalytic, β | Pik4cb | 6.59 |
| Phosphoinositide-3-kinase adaptor protein 1 | Pik3ap1 | 4.15 |
| Phosphoinositide-3-kinase adaptor protein 1 | Pik3ap1 | 2.56 |
| Protein kinase inhibitor, γ | Pkig | 0.41 |
| Protein kinase inhibitor, γ | Pkig | 0.40 |
| Protein phosphatase 1, catalytic subunit, β | Ppp1cb | 2.21 |
| Protein phosphatase 1, regulatory (inhibitor) 16B | Ppp1r16b | 2.13 |
| Protein phosphatase 2, regulatory B α | Ppp2r5a | 2.03 |
| Protein phosphatase 2, regulatory B, ϵ | Ppp2r5e | 2.19 |
| Protein phosphatase 2, regulatory B, δ | Ppp2r2d | 2.19 |
| Protein tyrosine phosphatase 4a2 | Ptp4a2 | 6.46 |
| Protein tyrosine phosphatase, nonreceptor type 11 | Ptpn11 | 0.39 |
| Protein-tyrosine kinase | 0.42 | |
| ras homolog gene family, member G | Arhg | 0.40 |
| Rhophilin, Rho GTPase binding protein 2 | Rhpn2 | 0.50 |
| Secreted frizzled-related sequence protein 1 | Sfrp1 | 0.50 |
| Serine/threonine kinase 25 (yeast) | Stk25 | 0.48 |
| Sorting nexin 5 | Snx5 | 0.49 |
| Sorting nexin 6 | Snx6 | 0.04 |
| Spinocerebellar ataxia 1 homolog (human) | Sca1 | 2.09 |
| Spinocerebellar ataxia 2 homolog (human) | Sca2 | 2.21 |
| Sprouty homolog 4 (Drosophila) | Spry4 | 0.50 |
| Suppressor of cytokine signaling 3 | Socs3 | 2.42 |
| T-complex expressed gene 1 | Tce1 | 0.27 |
| T-complex expressed gene 1 | Tce1 | 0.09 |
| Tripartite motif protein 12 | Trim12 | 0.03 |
| Tripartite motif protein 30-like | LOC209387 | 0.19 |
| Tripartite motif protein 34 | Trim34 | 0.27 |
| Tubby-like protein 4 | Tulp4 | 2.44 |
Differentially regulated genes (Sv129 compared with BL/6) belonging to the categories cytoskeleton, neurite growth and guidance, ECM/cell adhesion, immune response, myelin, synaptic function, and signaling, which show fold changes >2 or <0.5 (regulated genes 1 week after lesion in bold). CLIP, Cytoplasmic linker protein; EGF, epidermal growth factor; Eph, ephrin; IAP, inhibitor of apoptosis; IL2, interleukin 2; IRRE, irregular chiasm; L1CAM, L1 cell adhesion molecule; LIM, Lin-11/Isl-1/Mec-3; MAD, max dimerization protein; PDZ, postsynaptic density 95/Discs large/zona occludens-1; REC8, recombination 8; Sema, semaphorin; SH3, Src homology 3; TAP, tapasin precursor; TRAF, tumor necrosis factor receptor-associated factor; UBX, ubiquitin-like.