All, this has been an extension of my work on magetab2rdf (
http://magetab2rdf.googlecode.com) for the caBIG Information Representation
Working Group, which has been looking at mapping the caBIG Life Sciences
Domain Analysis Model (LS-DAM) into existing ontologies. We chose a use
case that had its
Thanks Michael for sending on Jim's figure. I'll look into making the
server public.
James
On 30/11/2011 20:13, Michael Miller wrote:
hi james,
thanks for the example, it looks very promising.
i believe this is jim's link to his illustration of his work (in no way
reflects any effort on my
Hi all,
just a few things.
We are adding a very similar export of data from the SampleTAB format
(http://nar.oxfordjournals.org/content/early/2011/11/16/nar.gkr937.full), with
the idea to integrate these two sources of data in a unified
representation.
I've seen the diagram in the mail titl
> It seems like a reasonable use case!
I'm actually working on a project that's doing basically this (indexing and
aggregating data abstracted from single-visit and multi-site epi studies), and
I agree that this is a great use case. Right now, we're using a relational data
model, but I am firml
hi tim,
thanks for your comments, i'll be interested to see how the Factors are
related to the assays, not sure how subclasses would work since one
actually needs different factor values for the factors, i.e. a time factor
can't tell you where in the time sequence the assay was done.
interest
Hi Michael,
Thanks for your comments. I appreciate them. I've incorporated the one about
factors into a subsequent version of the model, and decided to pass on the
protocol relationships to data output, for pragmatic reasons, although I am
certain you are formally correct.
Factors were associ
Hi Vijay & all,
So essentially, you'd like to aggregate single-visit epidemiological studies?
And this paper [1] is just an example?
It seems like you'd need to identify the factors of interest--e.g. disease,
selection criteria, research questions--and aggregate on those. Someone who
actually
hi lena,
it looks like it is actually an indication of possibly a bad alignment
mapping (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2813481/)
"MicroRNAs (miRNAs) are short (20–23 nt) RNAs that are sequence-specific
mediators of transcriptional and post-transcriptional regulation of gene
expr
I was just informed that the link below requires a logon. Here is
additional information about this article.
Journal: The Journal of International Medical Research
Title: Prevalence of painful diabetic peripheral neuropathy among
patients with diabetes mellitus in the middle east region
Team HCLS,
I was recently asked if there is a way to aggregate epidemiological
study findings (such as the one mentioned in the publication listed
below) in a computationally accessible way (Linked Data, Semantic Web
etc.).
Any ideas/thoughts?
http://www.jimronline.net/content/fullpdf.asp?Ar
This is great, Michael, Thank!
I assume the read per million have to do with normalization/QC of the data.
Any idea what the "cross map to other miRNA forms means"; by the name, I
assume these are miRNA that can target more than one gene.
Now the question is: should we blindly create an RDF repre
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