Skip Navigation

This Article
Right arrow Full Text Freely available
Right arrow Print PDF (374K) 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 ISI Web of Science
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 arrow Search for citing articles in:
ISI Web of Science (34)
Right arrowRequest Permissions
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Jenssen, T.-K.
Right arrow Articles by Hovig, E.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Jenssen, T.-K.
Right arrow Articles by Hovig, E.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2002, Vol. 30, No. 14 3235-3244
© 2002 Oxford University Press

Analysis of repeatability in spotted cDNA microarrays

Tor-Kristian Jenssen*,1,3, Mette Langaas2,3,4, Winston P. Kuo5,6,7, Birgitte Smith-Sørensen3, Ola Myklebost3 and Eivind Hovig3

1 Department of Computer and Information Science and 2 Department of Mathematical Sciences, Norwegian University of Science and Technology, NO-7491 Trondheim, Norway, 3 Department of Tumor Biology, The Norwegian Radium Hospital, Montebello, NO-0310 Oslo, Norway, 4 Norwegian Computing Center, PO Box 114 Blindern, NO-0314 Oslo, Norway, 5 Children’s Hospital Informatics Program and Division of Endocrinology, Department of Medicine, Children’s Hospital, Boston, MA 02115, USA, 6 Decision Systems Group, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA and 7 Division of Health Sciences and Technology, Harvard University and Massachusetts Institute of Technology, Cambridge, MA 02139, USA

*To whom correspondence should be addressed at: Department of Tumor Biology, The Norwegian Radium Hospital, Montebello, NO-0310 Oslo, Norway. Tel: +47 22 93 53 92; Fax: +47 22 52 24 21; Email: tkj{at}idi.ntnu.no

We report a strategy for analysis of data quality in cDNA microarrays based on the repeatability of repeatedly spotted clones. We describe how repeatability can be used to control data quality by developing adaptive filtering criteria for microarray data containing clones spotted in multiple spots. We have applied the method on five publicly available cDNA microarray data sets and one previously unpublished data set from our own laboratory. The results demonstrate the feasibility of the approach as a foundation for data filtering, and indicate a high degree of variation in data quality, both across the data sets and between arrays within data sets.


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
G. K. Smyth, J. Michaud, and H. S. Scott
Use of within-array replicate spots for assessing differential expression in microarray experiments
Bioinformatics, May 1, 2005; 21(9): 2067 - 2075.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
U. Sauer, C. Preininger, and R. Hany-Schmatzberger
Quick and simple: quality control of microarray data
Bioinformatics, April 15, 2005; 21(8): 1572 - 1578.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
A. A. Ahmed, M. Vias, N. G. Iyer, C. Caldas, and J. D. Brenton
Microarray segmentation methods significantly influence data precision
Nucleic Acids Res., March 17, 2004; 32(5): e50 - e50.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
R. Konig, D. Baldessari, N. Pollet, C. Niehrs, and R. Eils
Reliability of gene expression ratios for cDNA microarrays in multiconditional experiments with a reference design
Nucleic Acids Res., February 13, 2004; 32(3): e29 - e29.
[Abstract] [Full Text] [PDF]

Home page
 J. Bacteriol.Home page
J. Bjarnason, C. M. Southward, and M. G. Surette
Genomic Profiling of Iron-Responsive Genes in Salmonella enterica Serovar Typhimurium by High-Throughput Screening of a Random Promoter Library
J. Bacteriol., August 15, 2003; 185(16): 4973 - 4982.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
N. M. Luscombe, T. E. Royce, P. Bertone, N. Echols, C. E. Horak, J. T. Chang, M. Snyder, and M. Gerstein
ExpressYourself: a modular platform for processing and visualizing microarray data
Nucleic Acids Res., July 1, 2003; 31(13): 3477 - 3482.
[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.