Message-ID: <264855a00807291422o3a62436dp3ff8ac8b5ef3f961@mail.gmail.com>
Date: 2008-07-29T21:22:34Z
From: Sean Davis
Subject: [Bioc-devel] biocViews and DNA-methylation
In-Reply-To: <996031a10807291124u3f689027j2a895b2f984ef152@mail.gmail.com>
On Tue, Jul 29, 2008 at 2:24 PM, mattia pelizzola
<mattia.pelizzola at gmail.com> wrote:
> Hi,
>
> I'm going to submit to Bioconductor a package for the estimation of
> absolute and relative DNA-methylation levels from MeDIP enrichment
> measures. MeDIP is a methodology based on an antibody specific for
> 5-methyl-Cytosines (Weber et al, 2005).
> I'm confused about the choice of the biocViews terms. The library has
> been developed based on MeDIP-enrichment measures derived from
> two-channel arrays. Nevertheless, there are people working with it
> with enrichment measures determined by one-channel technologies.
> Moreover, the library is not strictly dependent on microarray data.
> Even next gen sequencing data could be potentially suitable. All that
> is necessary is enrichment measures associated with genomic positions.
> For these reason I do not know if to choose any of the terms related
> to microarray. Also Microarray/CpGIsland is not really appropriate.
> Maybe Technology/Genetics. Is it finally necessary to add new term(s)
> related with epigenetics / DNA-methylation?
Hi, Mattia. I would include all the terms that might be relevant.
That said, we could consider adding terms for epigenetics or dna
methylation.
Sean