Skip Navigation

This Article
Right arrow Full Text Freely available
Right arrow Print PDF (178K) Freely available
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Schuchhardt, J.
Right arrow Articles by Herzel, H.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Schuchhardt, J.
Right arrow Articles by Herzel, H.
Related Collections
Right arrow Miscellaneous/other
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2000, Vol. 28, No. 10 E47-e47
© 2000 Oxford University Press

Normalization strategies for cDNA microarrays

Johannes Schuchhardt*, Dieter Beule, Arif Malik1, Eryc Wolski1, Holger Eickhoff1, Hans Lehrach1 and Hanspeter Herzel

Institute for Theoretical Biology, Humboldt-Universität zu Berlin, Invalidenstrasse 43, D-10115 Berlin, Germany and 1Max Planck Institute of Molecular Genetics, Ihnestrasse 73, D-14195 Berlin, Germany

Multiple Arabidopsis thaliana clones from an experimental series of cDNA microarrays are evaluated in order to identify essential sources of noise in the spotting and hybridization process. Theoretical and experimental strategies for an improved quantitative evaluation of cDNA microarrays are proposed and tested on a series of differently diluted control clones. Several sources of noise are identified from the data. Systematic and stochastic fluctuations in the spotting process are reduced by control spots and statistical techniques. The reliability of slide to slide comparison is critically assessed within the statistical framework of pattern matching and classification.

* To whom correspondence should be addressed. Tel: +49 030 2093 9106; Fax: +49 30 2099 8801; Email: jo@itb.biologie.hu-berlin.de


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 BioinformaticsHome page
T.-t. Soong, K. O. Wrzeszczynski, and B. Rost
Physical protein-protein interactions predicted from microarrays
Bioinformatics, November 15, 2008; 24(22): 2608 - 2614.
[Abstract] [Full Text] [PDF]

Home page
 BiostatisticsHome page
R. B. Scharpf, C. A. Iacobuzio-Donahue, J. B. Sneddon, and G. Parmigiani
When should one subtract background fluorescence in 2-color microarrays?
Biostat., October 1, 2007; 8(4): 695 - 707.
[Abstract] [Full Text] [PDF]

Home page
 Crop Sci.Home page
J. Burgueno, J. Crossa, D. Grimanelli, O. Leblanc, and D. Autran
Spatial Analysis of cDNA Microarray Experiments
Crop Sci., February 23, 2005; 45(2): 748 - 757.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
G. Sinvany-Villalobo, O. Davydov, G. Ben-Ari, A. Zaltsman, A. Raskind, and Z. Adam
Expression in Multigene Families. Analysis of Chloroplast and Mitochondrial Proteases
Plant Physiology, July 1, 2004; 135(3): 1336 - 1345.
[Abstract] [Full Text] [PDF]

Home page
 Toxicol PatholHome page
R. D. Irwin, G. A. Boorman, M. L. Cunningham, A. N. Heinloth, D. E. Malarkey, and R. S. Paules
Application of Toxicogenomics to Toxicology: Basic Concepts in the Analysis of Microarray Data
Toxicol Pathol, January 1, 2004; 32(1_suppl): 72 - 83.
[Abstract] [PDF]

Home page
 ADRHome page
W.P. Kuo
Overview of Bioinformatics and its Application to Oral Genomics
Advances in Dental Research, December 1, 2003; 17(1): 89 - 94.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
A. W. Machl, C. Schaab, and I. Ivanov
Improving DNA array data quality by minimising 'neighbourhood' effects
Nucleic Acids Res., November 15, 2002; 30(22): e127 - e127.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
A. M. Talaat, S. T. Howard, W. Hale IV, R. Lyons, H. Garner, and S. A. Johnston
Genomic DNA standards for gene expression profiling in Mycobacterium tuberculosis
Nucleic Acids Res., October 15, 2002; 30(20): e104 - e104.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
I. Guterman, M. Shalit, N. Menda, D. Piestun, M. Dafny-Yelin, G. Shalev, E. Bar, O. Davydov, M. Ovadis, M. Emanuel, et al.
Rose Scent: Genomics Approach to Discovering Novel Floral Fragrance-Related Genes
PLANT CELL, October 1, 2002; 14(10): 2325 - 2338.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
T.-K. Jenssen, M. Langaas, W. P. Kuo, B. Smith-Sorensen, O. Myklebost, and E. Hovig
Analysis of repeatability in spotted cDNA microarrays
Nucleic Acids Res., July 15, 2002; 30(14): 3235 - 3244.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
P. H. Tran, D. A. Peiffer, Y. Shin, L. M. Meek, J. P. Brody, and K. W. Y. Cho
Microarray optimizations: increasing spot accuracy and automated identification of true microarray signals
Nucleic Acids Res., June 15, 2002; 30(12): e54 - e54.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
T. C. Kroll and S. Wolfl
Ranking: a closer look on globalisation methods for normalisation of gene expression arrays
Nucleic Acids Res., June 1, 2002; 30(11): e50 - e50.
[Abstract] [Full Text] [PDF]

Home page
 BloodHome page
U. Steidl, R. Kronenwett, U.-P. Rohr, R. Fenk, S. Kliszewski, C. Maercker, P. Neubert, M. Aivado, J. Koch, O. Modlich, et al.
Gene expression profiling identifies significant differences between the molecular phenotypes of bone marrow-derived and circulating human CD34+ hematopoietic stem cells
Blood, March 15, 2002; 99(6): 2037 - 2044.
[Abstract] [Full Text] [PDF]

Home page
 Toxicol PatholHome page
G. A. Boorman, S. P. Anderson, W. M. Casey, R. H. Brown, L. M. Crosby, K. Gottschalk, M. Easton, Hong Ni, and K. T. Morgan
Toxicogenomics, Drug Discovery, and the Pathologist
Toxicol Pathol, January 1, 2002; 30(1): 15 - 27.
[Abstract] [PDF]

Home page
 Nucleic Acids ResHome page
R. Herwig, P. Aanstad, M. Clark, and H. Lehrach
Statistical evaluation of differential expression on cDNA nylon arrays with replicated experiments
Nucleic Acids Res., December 1, 2001; 29(23): e117 - e117.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.