On the causes of outliers in Affymetrix GeneChip data.
We describe various types of outliers seen in Affymetrix GeneChip data. We have been able to utilise the data in the Gene Expression Omnibus to screen GeneChips across a range of scales, from single probes, to spatially adjacent fractions of arrays, to whole arrays, to whole experiments. In this review we describe a number of causes for why some reported intensities might be misleading on GeneChips.
Upton
Graham J G
GJ
University of Essex, Wivenhoe Park, Colchester, Essex CO4 3SQ, UK.
Sanchez-Graillet
Olivia
O
Rowsell
Joanna
J
Arteaga-Salas
Jose M
JM
Graham
Neil S
NS
Stalteri
Maria A
MA
Memon
Farhat N
FN
May
Sean T
ST
Harrison
Andrew P
AP
D016477:Artifacts; D001483:Base Sequence; D015342:DNA Probes / Q000378:metabolism; D006801:Humans; D008969:Molecular Sequence Data; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods* / Q000706:statistics & numerical data*; D013223:Statistics as Topic
D015342:DNA Probes