Microarray analysis techniques: Difference between revisions

Revision as of 21:05, 1 January 2008

Revision as of 21:10, 1 January 2008

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==Background correction==

Depending on the type of array, signal related to nonspecific binding of the fluorophore can be subtracted to achieve better results. One approach involves subtracting the average

signal intensity of the area between spots. A variety of tools for background correction and further analysis are available from TIGR.<ref>{{cite web |url=http://www.tigr.org/software/microarray.shtml |title=J. Craig Venter Institute -- Software |accessdate=2008-01-01 |format= |work=}}</ref>

signal intensity of the area between spots.

==Quality control==

Entire arrays have obvious flaws detectable by visual inspection, pairwise comparisons to arrays in the same experimental group, or by analysis of RNA degredation<ref>{{cite journal |author=Wilson CL, Miller CJ |title=Simpleaffy: a BioConductor package for Affymetrix Quality Control and data analysis |journal=Bioinformatics |volume=21 |issue=18 |pages=3683–5 |year=2005 |pmid=16076888 |doi=10.1093/bioinformatics/bti605}}</ref>. Results may improve by removing these arrays from the analysis entirely.