What is the scan time for GeneChip Human Exon 1.0 ST Array?
The scan time for GeneChip Human Exon 1.0 ST Array is 35 min.
Find additional tips, troubleshooting help, and resources within our Microarray Analysis Support Center.
For my GeneChip Human Exon 1.0 St Array, how can I find the probe set location on the genome?
The probe set start and stop locations can be found in the following downloadable annotation file for the array: http://www.affymetrix.com/Auth/analysis/downloads/na32/wtexon/HuEx-1_0-st-v2.na32.hg19.probeset.csv.zip
Additionally, the following sequence file can be used to get the coordinates for the probes: http://www.affymetrix.com/Auth/analysis/downloads/na25/wtexon/HuEx-1_0-st-v2.probe.tab.zip
Find additional tips, troubleshooting help, and resources within our Microarray Analysis Support Center.
Why is Detection Above Background (DABG) only available on Exon array?
DABG is statistical algorithm that assumes that each probe in the probe set is used. If each probe is not used, the statistics are skewed or biased to create a false negative situation. A transcript-level probe set on a WT array consists of all possible exon probe sets for that isoform and some may not be used due to alternative splicing. For this reason, it is always appropriate to determine if an exon is detectable. It is not always appropriate to assume all exon probe sets at the transcript level are detectable.
Find additional tips, troubleshooting help, and resources within our Microarray Analysis Support Center.
Can I compare Exon Array results with those obtained on the GeneChip Human Genome U133 (HG-U133) Array?
Signal and detection values from the exon arrays cannot be directly compared to that of the HG-U133 arrays. Major differences in array design and assay prevent meaningful comparisons at the signal level. Splice variation and polyadenylation variation can confound comparisons at the biological level (i.e., direction of change) due to differences in probe placement and bias in the target preparation assays.
Find additional tips, troubleshooting help, and resources within our Microarray Analysis Support Center.
What Fluidics protocol do I use for the GeneChip Human Exon Array?
A new Fluidics Protocol has been developed for this assay, FS450_0001.
Find additional tips, troubleshooting help, and resources within our Microarray Analysis Support Center.