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Re: DTD/Schema for biological/biomedical datasets
- To: <xml-dev@l...>
- Subject: Re: DTD/Schema for biological/biomedical datasets
- From: "Karen Harker" <Karen.Harker@U...>
- Date: Fri, 18 Oct 2002 12:19:04 -0500
Thanks for the lead. I looked at the documentation for both
descriptions, but they seemed to concentrate too much on the physical
descriptions of the human body (i.e. arm, leg, etc.). Actually, very
little research will be conducted on humans, so I've been looking at animal
models (i.e. mouse, drosophila (mosquito), worms), but no luck there.
Thanks, again, and if you have any other ideas, I am more than willing to
try them out.
Karen R. Harker, MLS
UT Southwestern Medical Library
5323 Harry Hines
Dallas, TX 75390-9049
Rex Brooks <rexb@s...> 10/17/02 6:40:10 PM
The Human Markup Language being developed by the OASIS HumanMarkup TC (you
can look it up on the OASIS website) will have a subset called the Human
Physical Characteristics Description Markup Language which will intersect some
of what you are looking for, and in a similar vein, will be including all the
existing web, academic and medical standards, as well as coordinating with the
Biometrics TC , which I have not followed closely because at the moment we are
finishing up our Primary Base Schema and once we call for the 30-day public
comment period, I will personally be switching over to the Physical
Characteristics Description ML, probably early-mid-Novbember. If you remember
you might want to look us up and contact me then. I would be happy to work with
you on this.
At 4:39 PM -0500 10/17/02, Karen Harker wrote:
I am a Web Developer/Librarian
at UT Southwestern Medical Center Library in Dallas. The center will be
conducting a large number of studies regarding bioterrorism in the near
future (grant proposals are going out now) and I am considering proposing
a project to provide a central repository for the
We have just purchased a portal
system (ENCompass) that organizes and searches resources using any DTD/Schema
that is appropriate for that resource, and I would like to use that as the
structure. Since I don't want to re-invent the wheel, I would like to
know if somebody is aware of a DTD or schema that has been developed for these
objects, and if so, which would be the best to use. The primary purpose
I envision would be to store datasets (most likely after the data has been
gathered, but before publication of results), easily find and download
datasets based on such parameters as topics, objectives, hypotheses, animal
models, exposures, etc., relate datasets with biomedical literature, and
to share preliminary results with colleagues.
I am aware of a few DTDs, but
I'm not sure if any would fit:
DDI - for social science &
HDF5 - used by NCSA, but mostly
Tissue micro array DTD - uses
DC, Gene Ontology, RDF, and a self-referenced TMA - is particular to
Admittedly, I am only in the
environmental scanning stage (who has done what) but I have not found much
information. I would like to be more knowledgeable before I approach the
Thank you very much for your
Karen R. Harker, MLS
Southwestern Medical Library
5323 Harry Hines Blvd.
President, CEO, Starbourne Communications
Executive Director, Humanmarkup.org, Inc.
Vice Chair, Secretary,
Webmaster, OASIS HumanMarkup Technical Committee
Webmaster, OASIS Web
Services for Interactive Applications Technical Committee
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