Table 1 of
Naskar, Mol Vis 2006;
12:1199-1210.Table 1 of
Naskar, Mol Vis 2006;
12:1199-1210.
Table 1. List of regulated genes and the biological processes they mediate in the hereditary-intraocular pressure model
Other retinal diseases in which some of the genes were found regulated are indicated. The values are an average of three separate experiments. A ratio greater than 3.0 was considered to be upregulation, and a ratio less than 0.3 downregulation. Regulation of genes marked with an asterisk were confirmed using qRT-PCR.
Regulation in other Ratio Ref Seq. Gene Biological process retinal disorders ----- --------- ------------------------------ ------------------------------------------------------------ ---------------------------- Upregulated genes 3.33 NM_019214 Pendrin Anion transport, extracellular transport and import 4.25 L22654 Immunoglobulin gamma-2a chain B-cell and antibody-mediated immunity 3.30 AB055895 Histidine-rich glycoprotein 1 Blood clotting 3.25 NM_013185 Hemopoietic cell tyrosine Carbohydrate transport, protein phosphorylation, general kinase homeostasis 9.83 NM_019266 Sodium channel, Cation transport voltage-gated,type viii 9.63 NM_053608 Potassium inwardly-rectifying Cation transport channel,subfamily j, member 13 7.96 AF061957 Potassium channel elk1 Cation transport 5.82 L05557 Plasma membrane calcium atpase Cation transport, calcium ion homeostasis 5.97 AF177685 Protocadherin alpha 11 homolog Cell adhesion mediated signaling,cell adhesion 11.19 AF107841 T-cell receptor alpha chain Cell adhesion, cell structure 5.98 NM_017241 Glutamate receptor, Cell communication, cation transport, synaptic transmission Ischemia, ON injury ionotropic, kainate 8.73 X81448 Keratin 1 Cell structure 5.38 M63482 Cytokeratin 8 polypeptide Cell structure 4.21 NM_019289 Actin-related protein complex Cell structure 1b 3.53 AF028784 Glial fibrillary acidic Cell structure All types of retinal injury protein delta 3.36 X03369 beta-tubulin Cell structure 3.30 M27208 alpha-1 type i collagen Cell structure 4.40 NM_030865 Myocilin* Cell surface receptor mediated signal transduction, vision, Human and exptl. glaucoma cell structure and motility 13.71 S77793 Herr-2 homolog Cell surface receptor mediated signal transduction,cell structure and motility 4.71 NM_013163 Interleukin 2 receptor, Cytokine and chemokine mediated signaling, JAK-STAT cascade, Ischemia alpha-chain Ligand mediated signaling, T-cell mediated immunity 4.39 NM_019127 Interferon, beta 1 Cytokine and chemokine mediated signaling, JAK-STAT cascade, Ligand mediated signaling, T-cell mediated immunity 3.66 NM_013110 Interleukin 7 Cytokine and chemokine mediated Signaling, JAK-STAT cascade, Ischemia Ligand mediated signaling, T-cell mediated immunity 7.04 NM_019165 Interferon-gamma inducing Cytokine and chemokine mediated signaling, MAPKKK cascade, factor, precursor JAK-STAT cascade, ligand mediated signaling, immunity and defense 7.91 NM_012792 Flavin-containing Electron transport, metabolism monooxygenase 1 3.23 NM_012904 Annexin 1 p35 lipocortin 1 Fatty acid metabolism, cell surface receptor mediated signal transduction, cell motility 3.51 NM_013061 Sucrase-isomaltase Glucose metabolism 3.88 U32438 Rgs11 G-protein mediated signaling 3.10 NM_024377 G protein gamma-5 subunit G-protein mediated signaling 4.10 NM_021866 Chemokine receptor ccr2 gene G-protein mediated signaling, cytokine and chemokine mediated signaling, immunity 14.66 S62903 Genetic hypertension Ligand mediated signaling, angiogenesis, cell component sa cycle control, cell proliferation and differentiation 5.19 NM_012868 Atrial natriuretic peptide Metabolism of cyclic nucleotides clearence receptor 3 5.44 U49058 ra4 mRNA processing 5.16 AF072439 Zinc-finger protein-37 mRNA transcription regulation 3.54 U78136 Zinc finger protein 8 mRNA transcription regulation 9.79 NM_012603 c-myc* mRNA transcription, apoptosis, cell cycle control, oncogenesis 8.86 U56936 nkr-p1b Natural killer cell mediated immunity 5.61 NM_012532 Ceruloplasmin ferroxidase Oxidase Diabetes, glaucoma 4.15 M11794 Metallothionein 2 Oxidase Light injury 4.23 U94856 paraoxonase Phosphate metabolism, detoxification 5.89 U90215 polysialyltransferase Polysaccharide metabolism, lipid metabolism, protein glycosylation Downregulated genes 3.41 NM_012875 Ribosomal protein l39 Protein biosynthesis 3.05 AY061639 Ankyrin binding Protein biosynthesis, cell adhesion mediated cell adhesion molecule signaling, cell adhesion, neurogenesis neurofascin 5.09 NM_031970 Heat shock protein 27* Protein folding, stress response Diabetes, glaucoma 3.50 NM_012886 Tissue inhibitor of Proteolysis Diabetes, glaucoma metalloproteinase 3 6.9 NM_053819 Tissue inhibitor of Proteolysis, developmental processes Diabetes, glaucoma metalloproteinase 1* 3.13 NM_031056 Matrix metalloproteinase 14 Proteolysis 4.08 NM_019321 Mast-cell protease 4 precursor Proteolysis, granulocyte mediated immunity, apoptosis 5.11 NM_022679 Trispanning orphan tore Receptor 4.08 NM_030988 Thyroglobulin tg Signal transduction 6.52 NM_053485 Calcium binding protein a6 Signal transduction, cell cycle control, cell proliferation Ischemia calcyclin s100a6 and differentiation 10.37 AF010466 Interferon-gamma aa 103-137 T-cell mediated immunity 3.38 NM_031721 Insulin-like growth factor Transport binding protein 5 protease 4.29 NM_021588 Myoglobin mb Transport, blood circulation and gas exchange 3.22 NM_053653 Transformation related protein Tumor suppressor 63 15.35 NM_053653 Vascular endothelial growth Ligand mediated signaling, angiogenesis, cell cycle control, 15.32 AJ005396 Collagen alpha 1 xi Unclassified 15.04 AJ249562 Proline rich synapse Unclassified associated protein 1 6.94 M34007 Bilirubin Unclassified udp-glucuronosyltransferase 6.64 NM_022603 Growth factor binding Unclassified protein-1 6.05 NM_057104 Phosphodiesterase i/nucleotide Unclassified pyrophosphatase 2 4.18 NM_019358 Epithelial cell surface Unclassified transmembrane protein antigen precursor 3.16 NM_021261 Thymosin beta-10 Unclassified 3.08 NM_013027 Selenoprotein w muscle 1 Unclassified 3.04 L41683 orf Unclassified 11.16 J02811 Myadenylate deaminase No data 9.39 M13801 Immunoglobulin alpha-chain No data 8.88 X13295 Alpha-2u protein aa 1-198 No data 5.63 S79820 Hepatic leukemia factor alpha isoform No data 4.62 S82911 rhox protein No data 3.85 U42719 c4 complement protein No data 3.41 AF352174 Guanine nucleotide regulatory No data protein 3.38 M95762 GABA transporter No data 3.27 Y17048 Caldendrin No data 3.17 X76489 Platelet-cell surface No data glycoprotein cd9 3.11 X65036 Integrin alpha chain No data Ratio Ref Seq. Gene Biological process 0.254 NM_016986 Acyl-coenzyme a dehydrogenase Acyl-CoA metabolism, electron transport 0.245 U75923 Isoleucyl trna synthetase Amino acid activation 0.275 AB041723 Apoptosis-inducing factor Apoptosis 0.267 X86561 Fibrinogen alpha Blood clotting, cell proliferation and differentiation 0.265 U17967 Voltage-gated potassium Cation transport Channel beta subunit 0.184 NM_020090 Sodium/calcium/potassium Cation transport, vision exchanger 0.242 NM_031653 Chondroitin sulfate Cell adhesion, neurogenesis proteoglycan 3 0.144 NM_013021 Peripherin retinal degradation Cell adhesion, vision slow 0.149 L75825 Decorin Cell adhesion-mediated signaling 0.194 L14851_6 Neurexin iii-alpha Cell adhesion-mediated signaling, cell adhesion, synaptic transmission 0.228 D26499 Dynein-like protein 8 Cell motility 0.298 AF436847 Complement factor h-related Complement component mediated immunity protein 0.265 AJ006070 Rag1 DNA recombination, B-cell and antibody mediated immunity 0.258 NM_080410 Synaptotagmin-like 4 Exocytosis granuphilin-a 0.291 AF084544 Versican vint isoform Extracellular matrix protein mediated signaling, cell proliferation and differentiation, cell motility 0.055 X65747 Gustducin gnat-3 G-protein mediated signaling 0.245 L26398 Orphan receptor tr2 G-protein mediated signaling 0.234 NM_017018 Histamine receptor h1 G-protein mediated signaling, neurogenesis, stress response 0.123 NM_012872 Phototransducing protein, 33 G-protein mediated signaling, vision kda phosducin 0.225 NM_017111 Solute carrier family organic Ion transport anion transporter member 3 0.257 NM_013068 Fatty acid binding protein 2 Lipid and fatty acid transport and binding, vitamin/cofactor transport, steroid-hormone mediated signaling 0.300 NM_012556 Fatty acid binding protein 1 Lipid and fatty acid transport and binding, vitamin/cofactor transport, steroid-hormone mediated signaling 0.216 NM_031515 Kirsten rat sarcoma viral MAPKKK cascade, cell proliferation and oncogene homolog 2 active differentiation, oncogenesis kras2 0.255 M12021 Myosin light chain Muscle contraction 0.269 AF059344 Titin Muscle contraction, cell structure 0.256 NM_012604 Myosin, heavy polypeptide 3 Muscle contraction, muscle development, cytokines 0.183 L10639 Type ii activin receptor Protein phosphorylation, cytokine and chemokine mediated signaling 0.265 NM_022441 Serine-threonine kinase Protein phosphorylation, cytokine and chemokine receptor type I mediated signaling 0.231 NM_024135 Lim motif-containing protein Protein phosphorylation, intracellular signaling cascade kinase 2 0.174 NM_019231 Mitogen activated protein Protein phosphorylation, MAPKKK cascade kinase 13 0.214 AF352021 Nima related kinase 2 Protein phosphorylation, phosphate metabolism 0.248 U89514 Calpain large subunit ncl-4 Proteolysis, signal transduction 0.271 NM_022621 Nucleolin-related protein rRNA metabolism 0.123 AF416291 High-affinity immunoglobulin Signal transduction, immunity gamma fc receptor I 0.033 NM_053497 Rod photoreceptor cyclic Signal transduction, transport gmp-gated cation channel alpha subunit 0.165 U76551 Mucin Unclassified 0.211 U96138 Cd44 Unclassified 0.191 NM_021590 Aryl-hydrocarbon interacting Vision protein-like 1 0.246 X15143 Beta a3/a1 crystallin Vision, developmental processes 0.238 NM_053648 Beta-carotene 15, Vitamin biosynthesis, vision 15'-dioxygenase 0.143 AF228917 Small rec srec No data 0.184 M18845 T-cell receptor No data beta-chain v-j region 0.196 AB030644 Tudor repeat associator No data 0.264 AF148797 Alpha 8 integrin No data 0.295 L20988 T-cell receptor; tcraj No data |