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[protege-discussion] CfP: Applied Ontology - MetaOntology Issue: Biomedical Ontologies

Olivier Bodenreider olivier at
Thu Nov 2 17:46:52 PST 2006

                 [apologies for multiple postings]

                         Call for Papers

       Call for Submissions to the journal Applied Ontology
              MetaOntology Issue: Biomedical Ontologies

  (complete CFP in PDF form available at:
               contact: metaontology at


Deadline: January 1, 2007.

Applied Ontology plans to devote one issue each year to publishing
information on ontological resources (ontologies and ontology-related
tools) of interest to different professional communities. The
MetaOntology Issue has two components.

1) The print issue
The print issue contains brief descriptions of high-quality, publicly
available ontological resources, focusing on content, formalism,
applications, and access mechanisms. These descriptions are available in
both print and online versions. Because of space limitations, the
systems presented in the print issue are selected for significance and

2) The MetaOntology
The MetaOntology itself is an evolving ontology of ontologies and of
ontology-related tools that will be available on the journal's Web
site. As opposed to the print issue, the MetaOntology will feature a
larger number of systems. It will serve as a pointer to high-quality,
publicly available resources developed for specialized domains, as well
as to upper-level ontologies and general reference ontologies.
Ontology-related tools, such as ontology management systems
and reasoners, also will be integrated in the MetaOntology. Not only
will the MetaOntology provide a brief summary and contact information
for each system, but also it will classify the systems according to
their properties. It will function as a registry where ontology
developers can provide information about their systems and where
ontology users can learn about existing systems.

The first Applied Ontology MetaOntology Issue will be devoted to the
theme of ontologies in biomedicine. All ontologies related to the life
sciences, clinical medicine, health care, and related fields will be
considered for publication. The issue will be edited by Olivier
Bodenreider, M.D., Ph.D., of the United States National Library of
Medicine. The deadline for submission to this special issue of the
journal is January 1, 2007.

Submission to the MetaOntology Issue does not guarantee that the
submission will appear in the print version of the MetaOntology Issue or
even will be included in the MetaOntology. All submissions will be
subject to editorial review.


* Instructions for submission to the MetaOntology Issue (print)

Authors should submit their manuscript electronically through the same
mechanism used for regular submissions to the journal.

The template of information to be filled for submission to the
MetaOntology issue is available as part of the complete CFP in PDF form

In addition to filling out the template, authors should produce a brief
description of their resource (ontology or related tool). This
description should concentrate on the factual content of the ontology or
on the basic functions of the tool. The description must also provide
sufficient information so that the reader can easily access the
resource. Submissions to the MetaOntology Issue are expected to be 4 to
5 printed journal pages in length, but exceptions may be
considered. Additional content (e.g., screen shots, a list of top-level
classes, code snippets) may be made available as supplementary material
available online on the MetaOntology Web site. All supplementary
material is subject to editorial review before publication.

Authors should refer to the Applied Ontology "author guidelines" for
instructions regarding preparation of manuscripts.

Authors are encouraged to supply the names, affiliations, and email
addresses of four suggested referees. Referees should be scientists
working independently (i.e., not a recent collaborator) in areas similar
to that of the author who have relevant expertise.

Authors whose submissions are accepted for publication will receive
additional information on submitting an entry to the MetaOntology.

Due to page restrictions, not all accepted submissions can be included
in the MetaOntology Issue as individual articles. Accordingly to the
Journal's policy, descriptions of tools will be published only where a
contribution to the practice of ontological analysis and conceptual
modeling is clearly established. If a manuscript is not accepted for
publication, but the resource described is deemed appropriate for
inclusion in the MetaOntology, authors will receive additional
information on how to submit their entry to that collection.


For further information, please contact the editor of the MetaOntology
Issue at metaontology at


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