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The chip description file (CDF) used for the analysis was an update created and freely distributed by the microarray lab of the university of Michigan (http://brainarray.mbni.med.umich.edu) [36] based on UniGenes (version 8).
The chip description file (CDF) used for the analysis was an update created and freely distributed by the microarray lab of the University of Michigan [ 24] based on Ensembl (version 10).
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Genomic DNA was bisulfite treated and assayed by the Illumina Infinium HumanMethylation450 BeadChip (Illumina, San Diego, CA, USA) at the Genomics and Microarray lab at University of Cincinnati Medical Center.
HA is the director of microarray lab at Howard University Cancer Center.
We would like to thank the Genentech sequencing lab, oligo lab, and microarray lab for assistance with experimental results, and the Pathology lab for support of tissue management.
AS collected leaf samples, performed microarray lab work for the POP2 dataset, analyzed all microarray data and drafted the manuscript.
Microarray analysis was performed by the UNMC microarray core facility using established lab protocol on a Phalanx whole genome cDNA microarray containing 30,275 features probing for approximately 22,000 unique genes.
The Ambystoma microarray platform was produced by the Voss lab and Affymetrix and has been described elsewhere [ 35, 37].
For Affymetrix microarray analyses, we used RNA isolated by the Chesebro lab and shipped to the Skinner lab, from five male C57BL/10 mice that were infected with 50 μl of a 1% scrapie brain homogenate derived from mice at the end stage of scrapie infection.
We utilized two yeast gene expression datasets (Brem et al., 2002; Smith and Kruglyak, 2008) produced by the same lab, covering the same strains and same genes but produced 5 years apart using different microarray platforms.
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