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Table 4 Comparison of variance of log ratios for control spots in SW480/620 experiments

From: Model selection and efficiency testing for normalization of cDNA microarray data

Control spot

Number of replicate spots per slide

Global lowess

P-lowess

S-lowess

OLIN

OSLIN

SS-DNA

48

6.46

3.33

4.03

1.90

2.82

Cot-1 DNA

12

4.34

4.10

5.07

2.90

3.73

Rice DNA

12

12.0

4.34

5.03

2.35

2.79

  1. The average within-slide variance (× 10-2) of log ratios M of control spots is shown after applying different normalization schemes. The three types of control spots derived from genomic DNA were used: salmon sperm (SS) DNA; Cot-1 DNA; rice DNA. Their intensities were above background as a result of nonspecific cross-hybridization. The locations of the replicated control spots were spatially distributed across the array. Comparison of corresponding log ratios M thus provides a measure for the spatial consistency of results produced by normalization.
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Genome Biology

ISSN: 1474-760X

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