RNA isolated from 4 independent pooled Ahr+/+ primary keratinocyte cultures and 3 Ahr-/- cultures were reverse transcribed and hybridized to Affymetrix Mouse Gene ST 2.0 arrays in the Penn State Genomics Core Facility according to the manufacturers protocol. Arrays were scanned using a GeneChip Scanner 3000 7G and analyzed using ArrayStar 11 Software (DNASTAR, Madison WI) with RMA background correction and quantile normalization. Mean log2 signal was used to compare gene expression between groups and significantly different genes identified using a 1.5-fold cut off and p value <.05 using a one sided equal variance Student t test. Functional annotation clustering with genes identified as differentially expressed using ArrayStar11 was conducted using DAVID Bioinformatics Software (Huang et al., 2009a (link); Huang et al., 2009b (link)). GEO accession number:GSE62490.
Genechip scanner 3000 7g
Manufactured by DNASTAR
The GeneChip Scanner 3000 7G is a high-performance microarray scanner designed for the analysis of gene expression, genotyping, and other genomic applications. It is capable of scanning a wide range of microarray formats and provides accurate and reliable data acquisition, with a focus on delivering consistent and reproducible results.
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2 protocols using genechip scanner 3000 7g
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Differential Keratinocyte Gene Expression
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Differential Keratinocyte Gene Expression
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RNA isolated from 4 independent pooled Ahr+/+ primary keratinocyte cultures and 3 Ahr-/- cultures were reverse transcribed and hybridized to Affymetrix Mouse Gene ST 2.0 arrays in the Penn State Genomics Core Facility according to the manufacturers protocol. Arrays were scanned using a GeneChip Scanner 3000 7G and analyzed using ArrayStar 11 Software (DNASTAR, Madison WI) with RMA background correction and quantile normalization. Mean log2 signal was used to compare gene expression between groups and significantly different genes identified using a 1.5-fold cut off and p value <.05 using a one sided equal variance Student t test. Functional annotation clustering with genes identified as differentially expressed using ArrayStar11 was conducted using DAVID Bioinformatics Software (Huang et al., 2009a (link); Huang et al., 2009b (link)). GEO accession number:GSE62490.
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