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Haug Peter

There are a number of Natural Language Processing (NLP) annotation and Information Extraction (IE) systems and platforms that have been successfully used within the medical domain. Although these groups share components of their systems, there has not been a successful effort in the medical domain to codify and standardize either the syntax or semantics between systems to allow for interoperability between annotation tools, NLP tools, IE tools, corpus evaluation tools and encoded clinical documents. There are two components to a successful interoperability standard: an information and a semantic model.

Objective

The Consortium for Healthcare Informatics Research, a Department of Veterans Affairs (VA) Office of Research and Development is sponsoring the development of a standard ontology and information model for Natural Language Processing interoperability within the biomedical domain.

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Submitted by uysz on

Mining text for real-time syndromic surveillance usually requires a comprehensive knowledge base (KB) which contains detailed information about concepts relevant to the domain, such as disease names, symptoms, drugs, and radiology findings. Two such resources are the Biocaster Ontology [1] and the Extended Syndromic Surveillance Ontology (ESSO) [2]. However, both these resources are difficult to manipulate, customize, reuse and extend without knowledge of ontology development environments (like Protege) and Semantic Web standards (like RDF and OWL). The cKASS software tool provides an easy-to-use, adaptable environment for extending and modifying existing syndrome definitions via a web-based Graphical User Interface, which does not require knowledge of complex, ontology-editing environments or semantic web standards. Further, cKASS allows for - indeed encourages - the sharing of user-defined syndrome definitions, with collaborative features that will enhance the ability of the surveillance community to quickly generate new definitions in response to emerging threats.

Objective

We describe cKASS (clinical Knowledge Authoring & Sharing Service), a system designed to facilitate the authoring and sharing of knowledge resources that can be applied to syndromic surveillance.

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Submitted by elamb on

Influenza is a contagious disease that causes epidemics in many parts of the world. The World Health Organization estimates that influenza causes three to five million severe illnesses each year and 250,000-500,000 deaths. Predicting and characterizing outbreaks of influenza is an important public health problem and significant progress has been made in predicting single outbreaks. However, multiple temporally overlapping outbreaks are also common. These may be caused by different subtypes or outbreaks in multiple demographic groups. We describe our Multiple Outbreak Detection System (MODS) and its performance on two actual outbreaks. This work extends previous work by our group by using model-averaging and a new method to estimate non-influenza influenza-like illness (NI-ILI). We also apply MODS to a real dataset with a double outbreak.

Submitted by teresa.hamby@d… on
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