Are Clariom D arrays simply renamed HTA-3.0 arrays?

Question

[AliStairR]

Anecdotally I've heard that Clariom D arrays are simply renamed HTA-3.0 (or even HTA-2.0) arrays.

Is this true?

If yep, can HTA-based Bioconductor annotations / packages be used to wrangle data on Clariom D arrays? Wrangling in terms of transcript-to-gene mappings and possibly as far as digging into probesets.

Answer 1

[Charles Warden]

I'm not sure how different it is for different species, but I think it is safe to say the Clariom arrays are different than the HTA arrays. For example, you could compare the number of transcripts in the annotation files.

For at least one Clariom array, I needed to use Affy Power Tools (APT) rather than a Bioconductor package to process the arrays. Some additional information about the apt-probeset-summarize command can be found here.

I hope this helps. Good luck with your project!

[AliStairR]

Thanks a lot for the pointers! I just need to roll-up my sleeves and have a dig through the various annotation packages across in Bioconductor and see how the numbers come out.