Production of custom microarrays for neuroscience research

Methods

Volumn 37, Issue 3, 2005, Pages 238-246

  Newton, Samuel S ^a   Bennett, Alicia ^a   Duman, Ronald S ^a  

^a YALE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Customarray; Gene expression; Genomics; Neurobiology

Indexed keywords

ARTICLE; BIOLOGY; COMPARATIVE STUDY; DNA MICROARRAY; GENOMICS; HUMAN; LABORATORY; MEDICAL RESEARCH; NEUROBIOLOGY; NEUROSCIENCE; NONHUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; TECHNOLOGY;

ANIMALS; BUFFERS; DNA PRIMERS; DNA, COMPLEMENTARY; ELECTROPHORESIS, AGAR GEL; GENE EXPRESSION PROFILING; HUMANS; NEUROSCIENCES; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; POLYMERASE CHAIN REACTION; QUALITY CONTROL; RNA;

EID: 27844488637     PISSN: 10462023     EISSN: 10959130     Source Type: Journal    
DOI: 10.1016/j.ymeth.2005.09.004     Document Type: Article

References (26)

1. C. Barlow, and D.J. Lockhart DNA arrays and neurobiology-what's new and what's next Curr. Opin. Neurobiol. 12 2002 554 561
2. C.I. Dumur, C.T. Garrett, K.J. Archer, S. Nasim, D.S. Wilkinson, and A. Ferreira-Gonzalez Evaluation of a linear amplification method for small samples used on high-density oligonucleotide microarray analysis Anal. Biochem. 331 2004 314 321
3. S.G. Heil, L.A. Kluijtmans, O. Spiegelstein, R.H. Finnell, and H.J. Blom Gene-specific monitoring of T7-based RNA amplification by real-time quantitative PCR Biotechniques 35 2003 502 504 506-508
4. J. Hellsten, M. Wennstrom, J. Bengzon, P. Mohapel, and A. Tingstrom Electroconvulsive seizures induce endothelial cell proliferation in adult rat hippocampus Biol. Psychiatry 55 2004 420 427
5. W.P. Kuo, T.K. Jenssen, A.J. Butte, L. Ohno-Machado, and I.S. Kohane Analysis of matched mRNA measurements from two different microarray technologies Bioinformatics 18 2002 405 412
6. Y.F. Leung, and D. Cavalieri Fundamentals of cDNA microarray data analysis Trends Genet. 19 2003 649 659
7. R.J. Lipshutz, S.P. Fodor, T.R. Gingeras, and D.J. Lockhart High density synthetic oligonucleotide arrays Nat. Genet. 21 1999 20 24
8. A. Louissaint Jr., S. Rao, C. Leventhal, and S.A. Goldman Coordinated interaction of neurogenesis and angiogenesis in the adult songbird brain Neuron 34 2002 945 960
9. I.M. Mackay, K.E. Arden, and A. Nitsche Real-time PCR in virology Nucleic Acids Res. 30 2002 1292 1305
10. T.M. Madsen, A. Treschow, J. Bengzon, T.G. Bolwig, O. Lindvall, and A. Tingstrom Increased neurogenesis in a model of electroconvulsive therapy Biol. Psychiatry 47 2000 1043 1049
11. S. Mocellin, C.R. Rossi, P. Pilati, D. Nitti, and F.M. Marincola Quantitative real-time PCR: a powerful ally in cancer research Trends Mol. Med. 9 2003 189 195
12. N. Mutsuga, T. Shahar, J.G. Verbalis, M.J. Brownstein, C.C. Xiang, R.F. Bonner, and H. Gainer Selective gene expression in magnocellular neurons in rat supraoptic nucleus J. Neurosci. 24 2004 7174 7185
13. S.S. Newton, E.F. Collier, J. Hunsberger, D. Adams, R. Terwilliger, E. Selvanayagam, and R.S. Duman Gene profile of electroconvulsive seizures: induction of neurotrophic and angiogenic factors J. Neurosci. 23 2003 10841 10851
14. M. Nibuya, S. Morinobu, and R.S. Duman Regulation of BDNF and trkB mRNA in rat brain by chronic electroconvulsive seizure and antidepressant drug treatments J. Neurosci. 15 1995 7539 7547
15. S. Panda, T.K. Sato, G.M. Hampton, and J.B. Hogenesch An array of insights: application of DNA chip technology in the study of cell biology Trends Cell Biol. 13 2003 151 156
16. E.A. Raetz, and P.J. Moos Impact of microarray technology in clinical oncology Cancer Invest. 22 2004 312 320
17. M. Schena, D. Shalon, R.W. Davis, and P.O. Brown Quantitative monitoring of gene expression patterns with a complementary DNA microarray Science 270 1995 467 470
18. J. Schneider, A. Buness, W. Huber, J. Volz, P. Kioschis, M. Hafner, A. Poustka, and H. Sultmann Systematic analysis of T7 RNA polymerase based in vitro linear RNA amplification for use in microarray experiments BMC Genomics 5 2004 29
19. R. Shippy, T.J. Sendera, R. Lockner, C. Palaniappan, T. Kaysser-Kranich, G. Watts, and J. Alsobrook Performance evaluation of commercial short-oligonucleotide microarrays and the impact of noise in making cross-platform correlations BMC Genomics 5 2004 61
20. A.N. Spiess, N. Mueller, and R. Ivell Amplified RNA degradation in T7-amplification methods results in biased microarray hybridizations BMC Genomics 4 2003 44
21. P.K. Tan, T.J. Downey, E.L. Spitznagel Jr., P. Xu, D. Fu, D.S. Dimitrov, R.A. Lempicki, and B.M. Raaka Evaluation of gene expression measurements from commercial microarray platforms Nucleic Acids Res. 31 2003 5676 5684
22. S. Venkatasubbarao Microarrays-status and prospects Trends Biotechnol. 22 2004 630 637
23. E. Wurmbach, T. Yuen, and S.C. Sealfon Focused microarray analysis Methods 31 2003 306 316
24. C.L. Yauk, M.L. Berndt, A. Williams, and G.R. Douglas Comprehensive comparison of six microarray technologies Nucleic Acids Res. 32 2004 e124
25. T. Yuen, E. Wurmbach, R.L. Pfeffer, B.J. Ebersole, and S.C. Sealfon Accuracy and calibration of commercial oligonucleotide and custom cDNA microarrays Nucleic Acids Res. 30 2002 e48
26. H. Zipper, H. Brunner, J. Bernhagen, and F. Vitzthum Investigations on DNA intercalation and surface binding by SYBR Green I, its structure determination and methodological implications Nucleic Acids Res. 32 2004 e103