[R] Accessing/Visualizing Probe Sets to determine Data Association

[Bert Gunter]

This query should almost certainly be posted on the Bioconductor Help site
rather than here. Especially so as it is a general question about a
genomics "workflow" rather than a question about R programming.

Bert Gunter

"The trouble with having an open mind is that people keep coming along and
sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )


On Thu, Jul 18, 2019 at 12:55 PM Spencer Brackett <
spbrackett20 using saintjosephhs.com> wrote:

>  Good evening,
>
>   I am dealing with an already analyzed  .RData file consisting of
> pre-configured data objects loaded into my environment. I am attempting to
> take this data, which shows an overall correlation of survival with
> methylation pattern for a form of brain cancer, and go to the individual
> probe sets and see if MGMT is one of the genes whose methylation show an
> association with survival. To do this I am under the impression that I have
> to visualize the probesets in order to view them/determine what gene or
> genes (unbiasedly) show an association between meth. and survival. I have
> been trying to run a few different methods such as microarray probe set
> mapping through Ensembl, but without avail.
> Would anyone perhaps know of a procedure/workflow that I could use to
> achieve this?
>
> Best,
>
> Spencer
>
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>
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