Microarray analysis techniques: Difference between revisions

Revision as of 20:56, 1 January 2008

Revision as of 21:05, 1 January 2008

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signal intensity of the area between spots.

==Quality control==

Entire arrays have obvious flaws detectable by visual inspection, pairwise comparisons to other 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.

==Spot filtering==

Visual identification of local artifacts, such as printing or washing defects, may likewise suggest the removal of individual spots. In addition, some procedures call for the elimination of all spots with an expression value below a certain threshold.