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Gene expression profiling was carried out as described previously; using GeneChip mouse expression set 430 (Affymetrix 430 2.0, Santa Clara, CA) [5].
Two other data sets were generated at the Functional Genomics Unit at the W. M. Keck Center for Comparative and Functional Genomics at the University of Illinois using an in-house printed cDNA mouse array and Affymetrix mouse expression set 430A, and the data sets are available at.
These samples were processed using Affymetrix GeneChip Mouse Expression Set 430 Array MOE430A (Affymetrix Inc., Santa Clara, CA, USA).
The platforms were the Affymetrix (Santa Clara, CA) platform Mouse Expression Set 430 (MOE430) and the cDNA arrays NIA15K manufactured at the University of Colorado's School of Medicine.
Gene names and gene symbols for each probeset were derived from the Bioconductor Affymetrix Mouse Expression Set 430 annotation data package (moe430a.db).
RNA was hybridized to Affymetrix's Mouse Expression Set 430 A; chips were scanned with the GeneChip Scanner 3000 and VSN normalization was applied to the gene expression data for normalization.
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In this paper, a human and a mouse expression data set were analyzed.
How has expression set you free?
Because some transcripts are represented by more than one probe set on the MOE 430A mouse expression arrays, redundant probe sets had to be removed from the list of differentially expressed probe sets before GO browsing.
The fragmented cRNA was hybridized overnight (45°C) to the Affymetrix MOE 430A mouse expression arrays (~20,000 probe sets = mouse gene specificities).
To determine, if the transcriptional profiles associated with primed microglia are preserved in mouse brain tissue, expression sets of App-Ps1, aged, rTg4510 and ME7 prion infected mice (-/+ LPS) were analyzed.
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