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Journal of Biomolecular Techniques : JBT logoLink to Journal of Biomolecular Techniques : JBT
. 2002 Sep;13(3):143–157.

Hits and misses from gene expression ratio measurements in cDNA microarray studies

D Iacobas, A Massimi, M Urban, S Iacobas, D Spray
PMCID: PMC2279857  PMID: 19498978

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Selected References

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  1. Bartosiewicz M., Trounstine M., Barker D., Johnston R., Buckpitt A. Development of a toxicological gene array and quantitative assessment of this technology. Arch Biochem Biophys. 2000 Apr 1;376(1):66–73. doi: 10.1006/abbi.2000.1700. [DOI] [PubMed] [Google Scholar]
  2. Butte A. J., Dzau V. J., Glueck S. B. Further defining housekeeping, or "maintenance," genes Focus on "A compendium of gene expression in normal human tissues". Physiol Genomics. 2001 Dec 21;7(2):95–96. doi: 10.1152/physiolgenomics.2001.7.2.95. [DOI] [PubMed] [Google Scholar]
  3. Carlisle A. J., Prabhu V. V., Elkahloun A., Hudson J., Trent J. M., Linehan W. M., Williams E. D., Emmert-Buck M. R., Liotta L. A., Munson P. J. Development of a prostate cDNA microarray and statistical gene expression analysis package. Mol Carcinog. 2000 May;28(1):12–22. [PubMed] [Google Scholar]
  4. Cheung V. G., Morley M., Aguilar F., Massimi A., Kucherlapati R., Childs G. Making and reading microarrays. Nat Genet. 1999 Jan;21(1 Suppl):15–19. doi: 10.1038/4439. [DOI] [PubMed] [Google Scholar]
  5. Dixon A. E., Damaskinos S. Confocal scanning of genetic microarrays. Methods Mol Biol. 2001;170:237–246. doi: 10.1385/1-59259-234-1:237. [DOI] [PubMed] [Google Scholar]
  6. Eisen M. B., Brown P. O. DNA arrays for analysis of gene expression. Methods Enzymol. 1999;303:179–205. doi: 10.1016/s0076-6879(99)03014-1. [DOI] [PubMed] [Google Scholar]
  7. Harris T. M., Massimi A., Childs G. Injecting new ideas into microarray printing. Nat Biotechnol. 2000 Apr;18(4):384–385. doi: 10.1038/74435. [DOI] [PubMed] [Google Scholar]
  8. Hsiao L. L., Dangond F., Yoshida T., Hong R., Jensen R. V., Misra J., Dillon W., Lee K. F., Clark K. E., Haverty P. A compendium of gene expression in normal human tissues. Physiol Genomics. 2001 Dec 21;7(2):97–104. doi: 10.1152/physiolgenomics.00040.2001. [DOI] [PubMed] [Google Scholar]
  9. Iacobaş A. D., Urban M., Spray D. C. New protocol in spotting microarray technique. Rom J Physiol. 2000 Jan-Dec;37(1-4):69–80. [PubMed] [Google Scholar]
  10. Kerr M. K., Churchill G. A. Bootstrapping cluster analysis: assessing the reliability of conclusions from microarray experiments. Proc Natl Acad Sci U S A. 2001 Jul 24;98(16):8961–8965. doi: 10.1073/pnas.161273698. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Kerr M. K., Churchill G. A. Statistical design and the analysis of gene expression microarray data. Genet Res. 2001 Apr;77(2):123–128. doi: 10.1017/s0016672301005055. [DOI] [PubMed] [Google Scholar]
  12. Kerr M. K., Martin M., Churchill G. A. Analysis of variance for gene expression microarray data. J Comput Biol. 2000;7(6):819–837. doi: 10.1089/10665270050514954. [DOI] [PubMed] [Google Scholar]
  13. Knight J. When the chips are down. Nature. 2001 Apr 19;410(6831):860–861. doi: 10.1038/35073680. [DOI] [PubMed] [Google Scholar]
  14. Lee M. L., Kuo F. C., Whitmore G. A., Sklar J. Importance of replication in microarray gene expression studies: statistical methods and evidence from repetitive cDNA hybridizations. Proc Natl Acad Sci U S A. 2000 Aug 29;97(18):9834–9839. doi: 10.1073/pnas.97.18.9834. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Loguinov A. V., Anderson L. M., Crosby G. J., Yukhananov R. Y. Gene expression following acute morphine administration. Physiol Genomics. 2001 Aug 28;6(3):169–181. doi: 10.1152/physiolgenomics.2001.6.3.169. [DOI] [PubMed] [Google Scholar]
  16. Newton M. A., Kendziorski C. M., Richmond C. S., Blattner F. R., Tsui K. W. On differential variability of expression ratios: improving statistical inference about gene expression changes from microarray data. J Comput Biol. 2001;8(1):37–52. doi: 10.1089/106652701300099074. [DOI] [PubMed] [Google Scholar]
  17. Pritchard C. C., Hsu L., Delrow J., Nelson P. S. Project normal: defining normal variance in mouse gene expression. Proc Natl Acad Sci U S A. 2001 Nov 6;98(23):13266–13271. doi: 10.1073/pnas.221465998. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Ramdas L., Coombes K. R., Baggerly K., Abruzzo L., Highsmith W. E., Krogmann T., Hamilton S. R., Zhang W. Sources of nonlinearity in cDNA microarray expression measurements. Genome Biol. 2001 Oct 18;2(11):RESEARCH0047–RESEARCH0047. doi: 10.1186/gb-2001-2-11-research0047. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Randolph J. B., Waggoner A. S. Stability, specificity and fluorescence brightness of multiply-labeled fluorescent DNA probes. Nucleic Acids Res. 1997 Jul 15;25(14):2923–2929. doi: 10.1093/nar/25.14.2923. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Rudie Hovland A., Nahreini P., Andreatta C. P., Edwards-Prasad J., Prasad K. N. Identifying genes involved in regulating differentiation of neuroblastoma cells. J Neurosci Res. 2001 May 1;64(3):302–310. doi: 10.1002/jnr.1079. [DOI] [PubMed] [Google Scholar]
  21. Uittenbogaard M., Chiaramello A. Expression of the bHLH transcription factor Tcf12 (ME1) gene is linked to the expansion of precursor cell populations during neurogenesis. Brain Res Gene Expr Patterns. 2002 Jan;1(2):115–121. doi: 10.1016/s1567-133x(01)00022-9. [DOI] [PMC free article] [PubMed] [Google Scholar]

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