On Feb 24, 2006, at 8:41 AM, Susie Stephens wrote:
Here's the conference call information for Monday.
Lets also decide who is going to be working on which NCBI data
sources.
Do we have list of those resources that we will be working from?
We need to discuss which are important for us, some idea of use case.
There is *a lot* of information at NCBI. I think we need to targeted
some specific, limited size, sets that
would be relevant to the domain so that we don't get bogged down on
scaling issues.
Some ideas:
Neuroactive substances from pubchem. We would need someone to propose
a list or a query that retrieves a reasonable list. Need to define a
subset of interesting information from the entry.
Gene expression tissue localization information, so we can do a query
to find those expressed in neural tissues.
Omim records for neurological diseases - text and links to papers.
Need do get list or query. Issue: Much useful information is freetext.
Geo array to tissue map. Problem: This tends to be freetext in the
source or description fields.
Also, we should review some of the resources in the list that
Matthias sent: http://big.sfn.org/NDG/site/eavObList.asp?
c=81&menu_item=dblist
Some candidates found in quick browsing there:
Alzforum has a resource for antibodies http://www.alzforum.org/res/
com/ant/default.asp
SynDB: Database of Synaptic Proteins http://syndb.cbi.pku.edu.cn/
information on proteins known or predicted to be related to the
synapse or synaptic activity
Functional MRI Data Center, Dataset metadata such as http://
www.fmridc.org/f/fmridc/protege/view_experiment.html?expid=2%2d2005%
2d119CE&id=csXtuKzc. Problem: Freetext.
Mapping of abnormality type to images in the Whole Brain Atlas,
http://www.med.harvard.edu/AANLIB/home.html. Not controlled
vocabulary - needs some structuring/ontology work.
Perhaps Tim Clark could suggest some resources that are on his
groups' target list, and the rest of us spend some time scouting
around the links looking for promising sources.
Regards,
Alan
