Table 2 of
Piri, Mol Vis 2006;
12:1660-1673.Table 2 of
Piri, Mol Vis 2006;
12:1660-1673.
Table 2. Gene expression profiles in the retina after optic nerve transection
Upregulated (+) and downregulated (-) genes in the rat retina after optic nerve transection. Genes were clustered based on their function using the Expression Analysis Systematic Explorer software (EASE).
Genome map
Accession -------------------------- Fold
number Name Symbol Rat Human change
--------- ----------------------------------------------- -------- -------- --------------- ------
protein and amino acid metabolism
NM_012993 N-arginine dibasic convertase 1 Nrd1 5q35 1p32.2-p32.1 +1.59
NM_013087 CD 81 antigen Cd81 1q41 11p15.5 +1.77
NM_013128 Carboxypeptidase E Cpe 16 4q32.3 +1.64
NM_017125 CD63 antigen Cd63 7q11 12q12-q13 +2.10
NM_017151 Ribosomal protein S15 Rps15 7q11 19p13.3 +1.71
NM_017226 Peptidyl arginine deiminase, type 2 Pdi2 5q36 1p35.2-p35.1 +1.69
NM_017245 Translation elongation factor 2 Eef2 7q11 19pter-q12 +1.50
NM_022226 Protease, cysteine, 1 (legumain) Prsc1 6q32 14q32.1 +1.64
NM_022402 Acidic ribosomal protein P0 Arbp 12q16 12q24.2 +1.62
NM_022510 Ribosomal protein L4 Rpl4 8q24 15q22 +1.98
NM_022536 Cyclophilin B Ppib 8q24 15q21-q22 +1.57
NM_022799 Nuclear ubiquitous casein kinase 2 Nucks 6q33 1q32.1 +1.76
NM_024000 Vesicle-assoc. calmodulin-binding pr. 1G5 8q32 3p21.31 +1.53
NM_024487 GrpE-like 1, mitochondrial Grpel1 14q21 4p16 +2.09
NM_031097 Aminopeptidase B Rnpep 13q13 1q32 +1.69
NM_031603 Tyrosine/tryptophan monooxygenase Ywhae 10q24 17p13.3 +2.10
NM_031706 Ribosomal protein S8 Rps8 5q36 1p34.1-p32 +1.67
NM_031721 Protease, serine, 11 Prss11 1q37 10q26.3 +1.50
NM_031973 Dipeptidylpeptidase 7 Dpp7 3p13 9q34.3 +1.55
NM_053596 Endothelin converting enzyme 1 Ece1 5q36 1p36.1 +1.56
NM_053748 Dipeptidylpeptidase III Dpp3 1q43 11q12-q13.1 +1.95
NM_133404 Protease, serine, 15 Prss15 9q11 19p13.2 +1.61
NM_134334 Cathepsin D Ctsd 1q41 11p15.5 +1.80
NM_031718 RAB2, member RAS oncogene family Rab2 5q13 8q12.1 +1.61
NM_032617 RAB11B, member RAS oncogene family Rab11b 7q12 19p13.2 +1.58
NM_017253 Branched chain aminotransferase 1 Bcat1 4q44 12pter-q12 +1.73
NM_017353 Tumor-associated protein 1 TA1 19q12 16q24.3 +2.23
NM_053335 C-terminal binding protein 2 Ctbp2 19p14 10q26.13 +1.56
NM_139081 Ornithine decarboxylase antizyme 1 Oaz1 7q11 19p13.3 +1.99
NM_145776 Solute carrier family 38, member 3 Slc38a3 8q32 3p21.3 +1.79
NM_019243 Prostaglandin F2 rec. neg. regulator Ptgfrn 2q34 1p13.1 -1.54
NM_022865 Gephyrin Gphn 6q24 14q23.3 -1.50
NM_017134 Arginase 1 Arg1 1p12 6q23 -1.87
carbohydrate metabolism
NM_012495 Aldolase A Aldoa 1q36 16q22-q24 +1.81
NM_012498 Aldehyde reductase 1 Aldr1 4q22 1p33-p32 +1.85
NM_012554 Enolase 1, alpha Eno1 5q36 1p36.3-p36.2 +2.29
NM_017008 Glyceraldehyde-3-ph. dehydrogenase Gapd 4q42 12p13 +1.66
NM_017025 Lactate dehydrogenase A Ldha 1q22 11p15.4 +1.79
NM_017033 Phosphoglucomutase 1 Pgm1 5q33 1p31 +1.65
NM_019283 Solute carrier family 3, member 2 Slc3a2 1q43 11q13 +1.59
NM_023964 Glyceraldehyde-3-ph.dehydrogenase 2 Gapds 1q21 19q13.1 +1.73
NM_024398 Mitochondrial aconitase Aco2 7q34 22q13.2-q13.31 +1.69
NM_030861 N-acetylglucosaminyltransferase I Mgat1 10q21 5q35 +2.03
NM_031522 Neuraminidase 1 Neu1 20p12 6p21.3 +1.57
NM_053765 N-acetylmannosamine kinase Uae1 5q22 9p13.2 +1.57
NM_053994 Pyruvate dehydrogenase E1 alpha-like Pdhal 2q44 4q22-q23 +1.53
NM_031840 Farensyl diphosphate synthase Fdps 2q34 1q22 +1.70
NM_012595 Lactate dehydrogenase B Ldhb 4q44 12p12.2-p12.1 +1.72
transcription
NM_013154 CCAAT/enhancer binding, protein, delta Cebpd 11 8p11.2-p11.1 +1.80
NM_022399 Calreticulin Calr 19q11 19p13.3-p13.2 +1.69
NM_022681 Activity-dependent neuroprotective pr. Adnp 3q42 20q13.13 +1.59
NM_031041 General transcription factor IIB Gtf2b 2q44 1p22-p21 +1.56
NM_031563 Nuclease sensitive element binding pr. 1 Nsep1 10q22 1p34 +1.59
NM_031647 Scm-related, cont.four mbt domains Sfmbt 16p16 3p21.1 +1.56
NM_031777 Upstream transcription factor 1 Usf1 13q24 1q22-q23 +1.53
NM_053358 Single-stranded-DNA-binding protein Ssdp 5q34 1p32.3 +1.68
NM_053678 Retina and anterior neural fold homeobox Rax 18q12.1 18q21.32 +1.93
NM_057211 Kruppel-like factor 9 Klf9 1q51 9q13 +1.81
NM_080778 Nuclear receptor Nr2f2 1q31 15q26 +1.86
NM_138909 Forkhead box E1 Foxe1 5q22 9q22 +1.54
NM_139327 High mobility group AT-hook 1 Hmga1 20p12 6p21 +2.32
NM_053662 Cyclin L Ccnl 2q31 3q25.31 -1.77
NM_053820 Olfactory neuronal transcription factor 1 Ebf 10q21 5q34 -1.50
neurogenesis
NM_024130 Dynactin 1 Dctn1 4q34 2p13 +1.79
NM_080777 Synuclein, beta Sncb 17p14 5q35 +2.14
NM_145098 Neuropilin Nrp 19q12 10p12 +1.54
NM_012633 Peripherin 1 Prph1 7q34 12q12-q13 -7.80
NM_031783 Neurofilament, light polypeptide Nfl 15p12 8p21 -5.26
AF031879 Neurofilament, heavy polypeptide Nefh 14q21 22q12.2 -2.47
NM_017029 Neurofilament 3, medium Nef3 15p12 8p21 -2.31
NM_019128 Internexin, alpha Inexa 1q54 10q24.33 -2.02
NM_012521 Calbindin 3 Calb3 Xq21 Xp22.2 -1.50
NM_031069 Protein kinase C-binding protein NELL1 Nell1 1q22 11p15.2-p15.1 -1.56
NM_031727 LIM motif-containing protein kinase 1 Limk1 12q12 7q11.23 -1.53
NM_153735 Neuronal pentraxin 1 Nptx1 10q32.3 17q25.1-q25.2 -1.81
signal transduction
NM_012783 Basigin Bsg 7q11 19p13.3 +1.58
NM_017147 Cofilin 1 Cfl1 1q43 11q13 +1.89
NM_022266 Connective tissue growth factor Ctgf 1p12 6q23.1 +1.53
NM_022385 ADP-ribosylation factor-like 1 Arl1 7q13 12q23.3 +1.68
NM_023957 Collybistin I Arhgef9 Xq31 Xq11.2 +1.60
NM_031021 Casein kinase II beta subunit Csnk2b 20p12 6p21.3 +1.62
NM_131911 Acidic leucine rich protein PAL31 PAL31 5q22 9q22.32 +2.09
NM_012904 Annexin 1 Anxa1 1q51 9q12-q21.2 -1.64
NM_016989 Adenylate cyclase act. polypeptide 1 Adcyap1 9q37 18p11 -2.25
NM_017214 Regulator of G-protein signaling 4 Rgs4 13q24 1q23.3 -1.71
NM_053440 Stathmin-like 2 Stmn2 2q23 8q21.13 -1.61
cell death
NM_012679 Clusterin Clu 15p12 8p21-p12 +1.93
NM_012771 Lysozyme Lyz 7q22 12q15 +1.60
NM_017059 Bcl2-associated X protein Bax 1q31.2 19q13.3-q13.4 +1.66
NM_022546 Death-associated like kinase Dapkl 7q11 19p13.3 +1.53
NM_022698 Bcl-2 associated death agonist Bad 1q43 11q13.1 +1.50
NM_031356 Programmed cell death 8 (AIF) Pdcd8 Xq35 Xq25-q26 +1.54
NM_080895 Fas apoptotic inhibitory molecule Faim 8q31 3q22.3 +1.55
NM_138828 Apolipoprotein E Apoe 1q21 19q13.2 +2.52
ion transport
NM_012504 ATPase, Na+K+ transporting, alpha 1 Atp1a1 2q34 1p21 +2.25
NM_012506 ATPase, Na+/K+ transporting, alpha 3 Atp1a3 1q21 19q13.31 +1.60
NM_012532 Ceruloplasmin Cp 2q24 3q23-q25 +1.68
NM_001013110 Transferrin Tf 8q32 3q22.1 +2.45
NM_053608 K inwardly-rectifying channel, J13 Kcnj13 9q35 2q37 +1.51
NM_053311 ATPase, Ca++ transporting Atp2b1 7q13 12q21.3 +1.56
NM_053425 Cu chaperone for superoxide dismutase Ccs 1q43 11q13 +1.84
NM_133556 ATP synthase, H+ transport, isoform 2 Atp5g2 7q36 12q13.13 +1.69
M59313 K voltage gated channel, member 2 Kcnc2 7q12-q22 12q14.1 -1.57
vesicle-mediated transport
NM_012663 Vesicle-associated membrane protein 2 Vamp2 10q24 17p13.1 +3.61
NM_013018 RAB3A, member RAS oncogene family Rab3a 16p14 19p13.2 +1.62
NM_031091 Rab3B protein Rab3b 5q35 1p32-p31 +1.78
NM_031704 Syntaxin 5a Stx5a 1q43 11q12.3 +1.51
NM_031711 ADP-ribosylation-like 2 Arl2 1q43 11q13 +1.58
NM_053411 Sorting nexin 1 Snx1 8q24 15q22.31 +1.99
NM_053837 Adaptor-related protein complex 2, mu 1 Ap2m1 11q23 3q28 +2.54
NM_080585 N-ethylmaleimide attachment pr. alpha Napa 1q21 19q13.32 +1.61
vision
NM_013021 Peripherin 2 Prph2 9q12 6p21.2-p12.3 +2.31
NM_013023 Retinal S-antigen Sag 9q35 2q37.1 +2.31
NM_017188 UNC-119 homolog (C. elegans) Uncl19 10q25 17q11.2 +2.29
NM_031689 Crystallin, beta A4 Cryba4 22q12.1 +1.81
NM_031690 Crystallin, beta B3 Crybb3 22q11.23 +1.53
NM_033441 Rhodopsin Rho 4q42 3q21-q24 +2.31
X69523 Retinol binding protein 3 Rbp3 16p16 10q11.2 +2.91
transmission of nerve impulse
NM_012664 Synaptophysin Syp Xq13-q14 Xp11.23-p11.22 +198
NM_057207 Synaptic vesicle glycoprotein 2 b Sv2b 2q12 15q26.1 +1.56
NM_017110 Cocaine and amphetamine regulated Cart 2q12 5q13.2 -1.91
NM_012647 Na channel, V-gated, type 2, alpha 1 Scn2a1 3q24 2q24 -1.94
NM_017288 Na channel, Ve-gated, type I, beta Scn1b 1q21 19q13.1 -1.68
NM_153735 Neuronal pentraxin 1 Nptx1 10q32.3 17q25.1-q25.2 -1.81
immune response
NM_012488 Alpha-2-macroglobulin A2m 4q42 12p13.3-p12.3 +1.92
NM_012645 RT1 class Ib gene(Aw2) RT1Aw2 20p12 +1.63
NM_016994 Complement component 3 C3 9q11 19p13.3-p13.2 +3.44
NM_080767 Proteosome subunit, beta type 8 Psmb8 20p12 6p21.3 +1.65
NM_138913 25 oligoadenylate synthetase Oas1 12q16 12q24.1 +1.58
heart rate, blood pressure, and coagulation
NM_021858 G protein beta-subunit gene LOC60449 4q42 12p13 +2.24
NM_134432 Angiotensinogen Agt 19q12 1q42-q43 +1.59
NM_031140 Vimentin Vim 17q12.3 10p13 +1.53
NM_024156 Annexin VI Anxa6 10q22 5q32-q34 +2.04
NM_024382 Leuserpin-2 Serpind1 11q23 22q11.21 +1.66
G-protein coupled receptor protein signaling pathway
NM_017238 Vasopressive intestinal peptide rec. 2 Vipr2 6q33 7q36.3 +1.50
NM_022700 ADP-ribosylation-like 3 Arl3 1q54 10q23.3 +1.74
NM_030987 Guanine nucleotide binding pr., beta 1 Gnb1 5q36 1p36.33 +2.10
NM_031969 Calmodulin 1 Calm1 6q31-q32 14q24-q31 +1.68
neurotransmitter transport
NM_031782 Vesicular inhibitory aa transporter Viaat 3q42 20q11.23 +2.06
NM_053492 Transporter-like protein Ctl1 5q24 9q31.2 +1.52
response to stress
NM_138911 Stress-induced-phosphoprotein 1 Stip1 1q43 11q13 +1.96
NM_031147 Cold inducible RNA-binding protein Cirbp 7q11 19p13.3 +1.80
circadian rhythm
AB012600 Aryl hydrocarbon rec. nuclear translocator-like Arntl 1q34 11p15 +1.68
Other
NM_022398 2-oxoglutarate carrier LOC64201 10q24 +1.88
NM_053864 Valosin-containing protein Vcp 5q22 9p13-p12 +2.12
NM_024386 3-hydroxy-3-methylglutaryl CoA lyase Hmgcl 5q36 1p36.1-p35 +1.62
NM_030865 Myocilin Myoc 13q22 1q23-q24 +1.61
NM_019170 Carbonyl reductase 1 Cbr1 11q11 21q22.13 +1.62
NM_012656 Secreted acidic cysteine rich glycopr. Sparc 10q22 5q31 +1.81
NM_013000 Peptidylglycine monooxygenase Pam 9q36 5q14-q21 +1.69
NM_057100 Growth arrest specific 6 Gas6 16q12.5 13q34 +1.92
NM_013177 Glutamate oxaloacetate transaminase 2 Got2 19p13 16q21 +1.67
NM_017165 Glutathione peroxidase 4 Gpx4 7q11 19p13.3 +1.97
NM_017009 Glial fibrillary acidic protein 10q32.1 17q21 +1.97
NM_017236 Phosphatidylethanolamine binding pr. Pbp 12q16 12q24.23 +2.30
NM_022382 Myomegalin LOC64183 2q34 1q12 +1.67
NM_017271 Nuclear distribution gene C homolog Nudc 5q36 1p35-p34 +2.06
NM_053807 GRIP-associated protein 1 Xq13 Xp11 +1.56
NM_012811 Milk fat globule-EGF factor 8 protein Mfge8 1q31 15q25 +2.11
NM_053572 MT-protocadherin KIAA1775 16p14 10q22.1-q22.3 +2.19
NM_138519 Dickkopf homolog 3 (Xenopus laevis) Dkk3 1q33 11p15.2 +2.20
NM_057144 Cysteine-rich protein 3 Csrp3 1q22 11p15.1 +2.35
NM_130433 Acetyl-Coenzyme A acyltransferase 2 Acaa2 18q12.3 18q21.1 +2.10
NM_022516 Polypyrimidine tract binding protein Ptb 7q11 1p22.1-p21.3 +1.59
NM_017148 Cysteine and glycine-rich protein 1 Csrp1 13q13 1q32 +1.95
NM_012681 Transthyretin Ttr 18p 18q12.1 +1.72
NM_031785 ATPase, H+ transport, lysosomal, sub. 1 Atp6s1 Xq37 Xq28 +1.57
NM_017202 Cytochrome c oxidase, subunit 4a Cox4a 19q12 16q22-qter +1.66
NM_022607 MIPP65 protein Mipp65 20p12 +1.57
NM_053431 Quiescin Q6 Qscn6 13q21 1q24 +1.60
NM_012915 ATPase inhibitor Atpi 5q36 1 -1.54
NM_019238 Farnesyl diphosphate farnesyl transf-se 1 Fdft1 15p12 8p23.1-p22 -1.56
NM_022499 Parvalbumin Pva 7q34 18q12.1-q12.2 -1.98
NM_031070 Nel-like 2 homolog (chicken) Nell2 7q35 12q13.11-q13.12 -2.64
L06238 Platelet derived growth factor, alpha Pdgfa 12q11 7p22 -1.93
NM_053927 Erythrocyte protein band 4.1-like 3 Epb4.1l3 9q38 18p11.32 -1.65
NM_017195 Growth associated protein 43 Gap43 11q21 3q13.1-q13.2 -1.57
U78517 Guanine nucleotide exchange factor GEF 3q22 4q32.1 -2.08
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