Statistical evaluation of differential expression on cDNA nylon arrays ...
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Statistical evaluation of differential expression on cDNA nylon arrays ...
Raw data are accessible via the web site (http:// www.molgen.mpg.de/~lh_bioinf/projects/statistics/zebrafish/ zebrafish.html). mRNA labeling and hybridization.
Statistical evaluation of differential expression on cDNA nylon arrays with replicated experiments Ralf Herwig*, Pia Aanstad, Matthew Clark and Hans Lehrach Max-Planck Institut für Molekulare Genetik, Ihnestraße 73, D-14195 Berlin, Germany Received July 16, 2001; Revised and Accepted October 8, 2001
ABSTRACT In this paper we focus on the detection of differentially expressed genes according to changes in hybridization signals using statistical tests. These tests were applied to 14 208 zebrafish cDNA clones that were immobilized on a nylon support and hybridized with radioactively labeled target mRNA from wild-type and lithium-treated zebrafish embryos. The methods were evaluated with respect to 16 control clones that correspond to eight different genes which are known to be involved in dorso-ventral axis specification. Moreover, 4608 Arabidopsis thaliana clones on the same array were used to judge statistical significance of expression changes and to control the false positive rates of the test decisions. Utilizing this special array design we show that differential expression of a high proportion of cDNA clones (15/16) and the respective genes (7/8) were identified, with a false positive error of
