Identification of gene expression profiles in rat ears with cDNA microarrays

Hearing Research

Volumn 175, Issue SUPPL., 2003, Pages 2-13

  Lin, Jizhen ^a,c   Ozeki, Masashi ^a   Javel, Eric ^a   Zhao, Zhenfen ^a   Pan, Wei ^b   Schlentz, Eileen ^a   Levine, Samuel ^a  

^a UNIVERSITY OF MINNESOTA MEDICAL SCHOOL   (United States)

^b UNIVERSITY OF MINNESOTA   (United States)

^c 216 Lions Research Bldg ^*  (United States)

Author keywords

Cochlea; Gene profile; Microarray; Rat

Indexed keywords

4 AMINOBUTYRIC ACID; ACETYLCHOLINE; CALCIUM CHANNEL; CATION CHANNEL; DNA BINDING PROTEIN; DOPAMINE; ENZYME; GLUTAMATE DECARBOXYLASE; NEUROPEPTIDE Y RECEPTOR; NEUROTENSIN; NEUROTRANSMITTER; SEROTONIN; TRANSCRIPTION FACTOR; CALCIUM CHANNEL L TYPE; COMPLEMENTARY DNA; GLUTAMIC ACID; HOMEODOMAIN PROTEIN; I KAPPA B; ION CHANNEL; NEUROPEPTIDE Y5 RECEPTOR;

ANGIOGENESIS; ANIMAL TISSUE; ARTICLE; CELL PROLIFERATION; CHANNEL GATING; CHEMICAL ANALYSIS; CONTROLLED STUDY; CORTI ORGAN; DNA MICROARRAY; DNA SYNTHESIS INHIBITION; EAR; ELECTRIC POTENTIAL; GENE EXPRESSION; GENE IDENTIFICATION; HOMEOBOX; MULTIGENE FAMILY; NERVOUS SYSTEM DEVELOPMENT; NONHUMAN; NUCLEOTIDE SEQUENCE; POSTSYNAPTIC INHIBITION; PRIORITY JOURNAL; RAT; SPIRAL GANGLION; STRIA VASCULARIS; UNINDEXED SEQUENCE; ENZYME ACTIVITY; ENZYME RELEASE; HEARING; INHIBITION KINETICS; NEUROTRANSMISSION; PROTEIN FUNCTION; PROTEIN LOCALIZATION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION;

ANIMALS; CALCIUM CHANNELS, L-TYPE; CATIONS; EAR, INNER; EAR, MIDDLE; GENE EXPRESSION PROFILING; GLUTAMATE DECARBOXYLASE; HOMEODOMAIN PROTEINS; I-KAPPA B PROTEINS; INHIBITOR OF DIFFERENTIATION PROTEIN 1; ION CHANNEL GATING; ION CHANNELS; MUSCLE PROTEINS; NEURAL INHIBITION; NEUROTRANSMITTER AGENTS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTONS; RATS; RATS, SPRAGUE-DAWLEY; REPRESSOR PROTEINS; TRANSCRIPTION FACTORS;

EID: 0037228535     PISSN: 03785955     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-5955(02)00704-9     Document Type: Article

References (40)

1. Arnold T., Oestreicher E., Ehrenberger K., Felix D. GABA(A) receptor modulates the activity of inner hair cell afferents in guinea pig cochlea. Hear. Res. 125:1998;147-153.
2. Avraham K.B. Hear come more genes! Nat. Med. 4:1998;1238-1239.
3. Bain G., Ramkumar T.P., Cheng J.M., Gottlieb D.I. Expression of the genes coding for glutamic acid decarboxylase in pluripotent cell lines. Brain Res. Mol. Brain Res. 17:1993;23-30.
4. Benezra R., Davis R.L., Lockshon D., Turner D.L., Weintraub H. The protein Id: a negative regulator of helix-loop-helix DNA binding proteins. Cell. 61:1990;49-59.
5. Chen, Z.Y., Cpreu, D.P., 2001. An inner ear gene expression database. JARO 3, 140-148.
6. Cho Y., Gong E.L., Stover T., Lomax M.I., Altschuler R.A. Gene expression profiles of the rat cochlea, cochlear nucleus, and inferior colliculus. JARO. 3:2002;54-67.
7. Efron, B., Tibshirani, R., Goss, V., Chu, G., 2000. Microarrays and their use in a comparative experiment. In: Technical report, Statistics Department, Stanford University.
8. Gerald C., Walker M.W., Criscione L., Gustafson E.L., Batzl-Hartmann C., Smith K.E., Vaysse P., Durkin M.M., Laz T.M., Linemeyer D.L., Schaffhauser A.O., Whitebread S., Hofbauer K.G., Taber R.I., Branchek T.A., Weinshank R.L. A receptor subtype involved in neuropeptide-Y-induced food intake. Nature. 382:1996;168-171.
9. Green G.E., Khan K.M., Beisel D.W., Drescher M.J., Hatfield J.S., Drescher D.G. Calcium channel subunits in the mouse cochlea. J. Neurochem. 67:1996;37-45.
10. Higuchi H., Yang H.Y., Sabol S.L. Rat neuropeptide Y precursor gene expression. mRNA structure, tissue distribution, and regulation by glucocorticoids, cyclic AMP, and phorbol ester. J. Biol. Chem. 263:1988;6288-6295.
11. Ho M.W., Beck-Sickinger A.G., Colmers W.F. Neuropeptide Y(5) receptors reduce synaptic excitation in proximal subiculum, but not epileptiform activity in rat hippocampal slices. J. Neurophysiol. 83:2000;723-734.
12. Hu Y., Bloomquist B.T., Cornfield L.J., DeCarr L.B., Flores-Riveros J.R., Friedman L., Jiang P., Lewis-Higgins L., Sadlowski Y., Schaefer J., Velazquez N., McCaleb M.L. Identification of a novel hypothalamic neuropeptide Y receptor associated with feeding behavior. J. Biol. Chem. 271:1996;26315-26319.
13. Koch W.J., Ellinor P.T., Schwartz A. cDNA cloning of a dihydropyridine-sensitive calcium channel from rat aorta. Evidence for the existence of alternatively spliced forms. J. Biol. Chem. 265:1990;17786-17791.
14. Kollmar R., Fak J., Montgomery L.G., Hudspeth A.J. Hair cell-specific splicing of mRNA for the alpha1D subunit of voltage-gated Ca2+ channels in the chicken's cochlea. Proc. Natl. Acad. Sci. USA. 94:1997;14889-14893.
15. Kollmar R., Montgomery L.G., Fak J., Henry L.J., Hudspeth A.J. Predominance of the alpha1D subunit in L-type voltage-gated Ca2+ channels of hair cells in the chicken's cochlea. Proc. Natl. Acad. Sci. USA. 94:1997;14883-14888.
16. Kovalchuk Y.N., Krishtal O.A., Nowycky M.C. The proton-activated inward current of rat sensory neurons includes a calcium component. Neurosci. Lett. 115:1990;237-242.
17. Krishtal O.A., Pidoplichko V.I. A receptor for protons in the nerve cell membrane. Neuroscience. 5:1980;2325-2327.
18. Lin J., Ho S.B., Schekels L.L., Paparella M.M., Kim Y. Mucin expression in the rat middle ear: an improved method for RNA harvest. Ann. Otol. Rhinol. Laryngol. 108:1999;762-768.
19. Lin J., Kawano H., Paparella M.M., Ho S.B. Improved RNA analysis for immediate autopsy of temporal bone soft tissues. Acta Otorhinolaryngol. 119:1999;787-795.
20. Lin J., Tsprun V., Kawano H., Paparella M.M., Zhang Z.-Q., Anway R., Ho S.B. Characterization of mucins in human middle ear and eustachian tube. Am. J. Physiol. Lung Cell Mol. Physiol. 280:2001;L1157-1167.
21. Lin J., Tsuboi Y., Pan W., Giebink S.G., Adams G.L., Kim Y. Analysis by cDNA microarrays of altered gene expression in middle ears of rats following pneumococcal otitis media. Int. J. Ped. Otolarynogol. 65:2002;203-211.
22. Lin J., Vambutas A., Haruta A., Paparella M.M., Giebink G.S., Kim Y. Pneumococcus activation of the 5-lipoxygenase pathway and production of glycoproteins in the middle ear of rats. J. Infect. Dis. 179:1999;1145-1151.
23. Littlewood T.D., Evan G.I. Transcription factors 2: helix-loop-helix. Protein Profile. 1:1994;635-709.
24. Lomax M.I., Huang L., Cho Y., Gong T.L., Altschuler R.A. Differential display and gene arrays to examine auditory plasticity. Hear. Res. 147:2000;293-302.
25. Lyden D., Young A.Z., Zagzag D., Yan W., Gerald W., O'Reilly R., Bader B.L., Hynes R.O., Zhuang Y., Manova K., Benezra R. Id1 and Id3 are required for neurogenesis, angiogenesis and vascularization of tumour xenografts. Nature. 401:1999;670-677.
26. Maisonpierre P.C., Le Beau M.M., Espinosa R., Ip N.Y., Belluscio L., de la Monte S.M., Squinto S., Furth M.E., Yancopoulos G.D. Human and rat brain-derived neurotrophic factor and neurotrophin-3: gene structures, distributions, and chromosomal localizations. Genomics. 10:1991;558-568.
27. Mu M.Y., Pao X., Jie T. SEM observation and GABA immunoreactivity of human embryonic organ of Corti tissue culture. Acta Otolaryngol. 114:1994;516-519.
28. Murre C., McCaw P.S., Baltimore D. A new DNA binding and dimerization motif in immunoglobulin enhancer binding, daughterless, MyoD, and myc proteins. Cell. 56:1989;777-783.
29. Nagata Y., Todokoro K. Activation of helix-loop-helix proteins Id1, Id2 and Id3 during neural differentiation. Biochem. Biophys. Res. Commun. 199:1994;1355-1362.
30. Nelson N. Microarrays pave the way to 21st century medicine. J. Natl. Cancer Inst. 88:1996;1803-1805.
31. Norton J.D., Deed R.W., Craggs G., Sablitzky F. Id helix-loop-helix proteins in cell growth and differentiation. Trends Cell Biol. 8:1998;58-65.
32. Pan, W., Lin, J., Le, C.T., 2002. Model-based cluster analysis of cDNA microarray data. Genome Biol.3, research 0022.1-0022.10.
33. Platzer J., Engel J., Schrott-Fischer A., Stephan K., Bova S., Chen H., Zheng H., Striessnig J. Congenital deafness and sinoatrial node dysfunction in mice lacking class D L-type Ca2+ channels. Cell. 102:2000;89-97.
34. Rivolta M.N. Transcription factors in the ear: molecular switches for development and differentiation. Audiol. Neurootol. 2:1997;36-49.
35. Schena M., Shalon D., Davis R.W., Brown P.O. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science. 270:1995;467-470.
36. Vale C., Sanes D.H. Afferent regulation of inhibitory synaptic transmission in the developing auditory midbrain. J. Neurosci. 20:2000;1912-1921.
37. Waldmann R., Bassilana F., de Weille J., Champigny G., Heurteaux C., Lazdunski M. Molecular cloning of a non-inactivating proton-gated Na+ channel specific for sensory neurons. J. Biol. Chem. 272:1997;20975-20978.
38. Waldmann R., Champigny G., Bassilana F., Heurteaux C., Lazdunski M. A proton-gated cation channel involved in acid-sensing. Nature. 386:1997;173-177.
39. Weintraub H., Davis R., Tapscott S., Thayer M., Krause M., Benezra R., Blackwell T.K., Turner D., Rupp R., Hollenberg S., et al. The myoD gene family: nodal point during specification of the muscle cell lineage. Science. 251:1991;761-766.
40. Wyborski R.J., Bond R.W., Gottlieb D.I. Characterization of a cDNA coding for rat glutamic acid decarboxylase. Mol. Brain Res. 8:1990;193-198.