Author:
Lynch Andy ;
Neal David ;
Kelly John ;
Burtt Glyn ;
Thorne Natalie

Abstract

Background
There are mechanisms, including ozone degradation, which can damage a single channel of two-channel microarray experiments. Analysis therefore often choose between unacceptable inclusion of the poor quality of data or exclusion of certain unpleasant (perhaps a lot of) good quality data as well as the bad. Two of these approaches will be a single channel using some data analysis of all tables, and an analysis of all data, but only about paintings unchanged. In this paper we examine a "combined" approach to the analysis of these experiments affected that uses all the data unchanged.

Results
A simulation experience shows that if a single channel performs an analysis relatively well while the majority of the tables are affected, and the exclusion of affected tables performs relatively well when some tables are affected (as would be expected in both cases) the combined approach performs both off. There are advantages to actively pursue the estimation of the key parameters of the approach, but if they offset the rising cost of computation and complexity of more than just setting parameter to a fixed value n ' is unclear. The inclusion data affected ozone results in poor performance, with a clear purpose in the apparent damage.

Conclusion
It is not necessary to exclude data not allocated, in order to remove those that are damaged. The combined approach discussed here is displayed on the outside make more usual approach, but it seems that if the damage is limited to very few tables, or spreads almost everything, then the benefits will be limited. In other circumstances, however, major improvements in performance can be achieved through the adoption of such an approach.

Journal : BMC Bioinformatics [Year: 2007 ; Volume: 8; Issue: 1]