presence/absence calls of the GCRMA-ed human gene atlas data

[mmu...@gmail.com]

hi all --

i know i can grab the .CEL files and run through a presence/absence-calling procedure (probably the R 'panp' package)... but to possibly save a few headaches, has anyone already posted this data?

the AD of 200 used in the original publication, i think, shouldn't apply with the alternative (GCRMA) normalization method, and ultimately i'd like to obtain present/absent calls for transcripts across multiple tissue types.

cheers and thanks for any tips,

-murat

[Andrew Su]

Hi Murat,

Apologies for the late reply. To my knowledge, no one (including us)
has publicly posted A/P calls on any of our data sets.

And keep in mind that A/P calls aren't perfect -- usually I suggest
just setting a numeric threshold on the expression values that is
tailored to your tolerance for false positives and false negatives.

Cheers,
-andrew

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