Whats the difference between the Affymetrix ATH1 and AtGenome arrays?
The Affymetrix ATH1 and AtGenome arrays are two versions/platforms comprising oligonucleotide probe sets respectively recognising around 22 000 and 8000 Arabidopsis genes. The ATH1 array, with more complete representation of the genome, will give you a more complete picture of gene expression patterns. However, there may be specific experiments of interest to you using the smaller AtGenome array which may be useful for correlation analysis. Where probe sets for the same gene are present on both arrays, note that they will have different probe IDs. Use our ID exchanger tools (use links below) to see if your genes of interest are represented by probes on either array platform. On both arrays, there are multiple probe sets hybridising to different regions of some transcripts. Code conversion tools: ID Exchanger and ID/Func.