[Apologies for cross-posting]
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CALL FOR PAPERS (02)
Journal of Biomedical Informatics (Elsevier)
-http://www.elsevier.com/locate/yjbin
Special Issue on Community-Driven Curation of Ontologies and Knowledge Bases in
HealthCare and Life Sciences (03)
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Important Dates
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* Submission deadline: October 1st, 2011
* Notification: December 2011
* Final Version due: January 2011
* Publication: Early 2012 (05)
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Submission Guidelines
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* Manuscript preparation - Instructions for
Authors:http://www.elsevier.com/wps/find/journaldescription.cws_home/622857/authorinstructions
* Manuscript submission:http://ees.elsevier.com/jbi/ (07)
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Aims and objectives
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We are inviting submissions for a special issue of the Journal of Biomedical
Informatics devoted to the topic of community-driven curation of ontologies and
knowledge bases in Health Care and Life Sciences. The use of formal systems to
define biomedical concepts and to represent and store biomedical knowledge has
never been more important. In the past decade, ontologies have become central
to the construction of intelligent decision-support systems, simulation
systems, information-retrieval systems, and natural language systems. With the
adoption of ontologies, especially by the broad biomedical community, the
further development of ontologies and knowledge bases evolved into a
community-driven process. This resulted in an increased number of knowledge
bases published openly on the Web. Ontologies and knowledge bases are now
authored/curated by more domain and knowledge experts than ever before. To
ensure a high quality of the community-generated content, a well-defined curat
ion process has to become a prominent and integral part of the life cycle of
biomedical knowledge artifacts. (09)
Several large biomedical projects are trying to apply the ÔÔwisdom of the
crowdsÕÕ model for building and curating their knowledge content. This model is
already familiar to most experts (c.f. Web 2.0) and has already been proven
successful in large community projects in other domains. The emergence of
different types of collaborative environments, such as, Wikis, content
management systems, and collaborative ontology editors, enables novel ways of
curating knowledge, hence transforming the workflow from being curator-centered
to being community-driven. Such systems provide the means for communities of
experts in different fields to collaboratively create, share and re-use
knowledge. Their goal is to foster long term expansion and maximization of
knowledge curation, extraction and reasoning, by creating live knowledge bases
within their specific domains. (010)
The collaborative aspect of curation raises a series of challenges ranging from
specific initial design decisions to capturing and maintaining temporal and
change elements of the knowledge content. The aim of this issue is to build
upon and complement the research detailed in the Special Issue on Ontologies
for Clinical and Translational Research (Vol. 44, Issue 1, 2011) by focusing on
collaboration, its associated challenges and emerging methods for knowledge and
ontology curation. The use of ontologies, as shared conceptualizations of a
domain, has proved to provide support in diverse areas of biomedical
informatics, such as the development of databases or biosample repositories.
This issue intends to take a step back and analyze the foundational aspect of
achieving and maintaining the shared (community-driven) agreement of the
conceptualization (and of the resulting knowledge bases) by scrutinizing a
series of intrinsic issues like design patterns, consistency or emerging
knowledge discovery. (011)
The issue is seeking, in particular, original methodological research papers,
but will also consider survey papers, meant to provide a clear overview of the
current state of the art in its specific themes of interest. Applications or
system descriptions will be considered only as providing a context or use case
for a detailed methodology, and not as individual (stand-alone) submissions.
The topics of interest for the issue can be grouped into three main categories: (012)
1. Challenges and experiences emerging from the collaborative aspects of
knowledge capture in HealthCare and Life Sciences, including:
* design patterns
* workflows for knowledge capture or refinement
* managing change or revision of knowledge
* managing inconsistent knowledge
* hypotheses Ð representation, evaluation and validation
* using linked data to support knowledge capture
* user experience (013)
2. Innovative methods for collaborative knowledge management, including:
* knowledge representation and reasoning
* knowledge discovery
* knowledge revision
* hypotheses management
* use of statistics in decision support systems
* intelligent knowledge-based retrieval
* knowledge integration from external sources (014)
3. Evaluation methods and metrics for:
* the quality of the resulting curated knowledge
* collaborative knowledge acquisition
* collaborative knowledge discovery
* intelligent knowledge-based retrieval (015)
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Guest Editors
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* Tudor Groza
School of ITEE, The University of Queensland, Australia (017)
* Tania Tudorache
Stanford Center for Biomedical Informatics Research, Stanford University, USA (018)
* Michel Dumontier
Department of Biology, Institute of Biochemistry and School of Computer
Science, Carleton University, Canada (019)
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