[BioC] Re: RNA deg. Affy 133 chips

[cope at ams.jhu.edu]

>
> We are looking at some HG-U133A arrays in which the RNA degredation plot
> shows a large increase from 5' to 3'. Is it neccessarily bad? Is there a
> condition on the slope that defines "bad"?
>
> Here are the slopes and pvs.
>
> slope 1.88 1.34 1.86 1.71
> pvalue 1.94e-07 3.74e-05 1.14e-07 6.48e-07
>
> Any advice, or pointers to references would be appreciated.


>From what I have seen, slopes like this are typical of 133 chips.
-Leslie cope