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This practice also validates the statistical program used for array data analysis and gives us a higher confidence in the inferred significant genes.
Hatched parts of GOS2A are used for array analysis.
From both analyses, two genes were selected for confirmatory experiments and their respective transcript expression levels quantified using transcript-specific real-time RT-PCR on the identical mRNA used for array hybridization.
We found that the enrichment values (a) were maximal at the fractions containing DNA in the short size range used for array experiments (0.7 1.5 kb); (b) they progressively decreased as the size range of the DNA increased; and (c) this activity was not significantly affected by prior treatment of the nascent DNA preparation with either RNase or λ-exonuclease (Supporting Figure S1).
was used for array analysis.
Clone sequencing was used for array validation.
Independent biological samples were used for Array Format 2 compared to Array Format 1.
The same RNA samples that were used for array hybridization were used for cDNA synthesis.
Strains used for array design (D); comparative sequence analysis (S), comparative genomic hybridizations (A).
NimbleScan software was used for array scanning and quantile normalization [ 64].
The locations of all the clones used for array CGH were confirmed by FISH.
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