Towards structured sharing of raw and derived neuroimaging data across existing resources

Data sharing efforts increasingly contribute to the acceleration of scientific discovery. Neuroimaging data is accumulating in distributed domain-specific databases and there is currently no integrated access mechanism nor an accepted format for the critically important meta-data that is necessary for making use of the combined, available neuroimaging data. In this manuscript, we present work from the Derived Data Working Group, an open-access group sponsored by the Biomedical Informatics Research Network (BIRN) and the International Neuroimaging Coordinating Facility (INCF) focused on practical tools for distributed access to neuroimaging data. The working group develops models and tools facilitating the structured interchange of neuroimaging meta-data and is making progress towards a unified set of tools for such data and meta-data exchange. We report on the key components required for integrated access to raw and derived neuroimaging data as well as associated meta-data and provenance across neuroimaging resources. The components include (1) a structured terminology that provides semantic context to data, (2) a formal data model for neuroimaging with robust tracking of data provenance, (3) a web service-based application programming interface (API) that provides a consistent mechanism to access and query the data model, and (4) a provenance library that can be used for the extraction of provenance data by image analysts and imaging software developers. We believe that the framework and set of tools outlined in this manuscript have great potential for solving many of the issues the neuroimaging community faces when sharing raw and derived neuroimaging data across the various existing database systems for the purpose of accelerating scientific discovery

Study of Tools Interoperability

Interoperability of tools usually refers to a combination of methods and techniques that address the problem of making a collection of tools to work together. In this study we survey different notions that are used in this context: interoperability, interaction and integration. We point out relation between these notions, and how it maps to the interoperability problem. We narrow the problem area to the tools development in academia. Tools developed in such environment have a small basis for development, documentation and maintenance. We scrutinise some of the problems and potential solutions related with tools interoperability in such environment. Moreover, we look at two tools developed in the Formal Methods and Tools group1, and analyse the use of different integration techniques

Multilingual Information Framework for Handling textual data in Digital Media

This document presents MLIF (Multi Lingual Information Framework), a high-level model for describing multilingual data across a wide range of possible applications in the translation/localization process within several multimedia domains (e.g. broadcasting interactive programs within a multilingual community)

ATLAS: A flexible and extensible architecture for linguistic annotation

We describe a formal model for annotating linguistic artifacts, from which we derive an application programming interface (API) to a suite of tools for manipulating these annotations. The abstract logical model provides for a range of storage formats and promotes the reuse of tools that interact through this API. We focus first on ``Annotation Graphs,'' a graph model for annotations on linear signals (such as text and speech) indexed by intervals, for which efficient database storage and querying techniques are applicable. We note how a wide range of existing annotated corpora can be mapped to this annotation graph model. This model is then generalized to encompass a wider variety of linguistic ``signals,'' including both naturally occuring phenomena (as recorded in images, video, multi-modal interactions, etc.), as well as the derived resources that are increasingly important to the engineering of natural language processing systems (such as word lists, dictionaries, aligned bilingual corpora, etc.). We conclude with a review of the current efforts towards implementing key pieces of this architecture.Comment: 8 pages, 9 figure

Construction and abstraction: contrasting methods of supporting model building in learning science

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Common vocabularies for collective intelligence - work in progress

Web based applications and tools offer a great potential to increase the efficiency of information flow and communication among different agents during emergencies. Among the different factors, technical and non technical, that hinder the integration of an information model in emergency management sector, is a lack of a common, shared vocabulary. This paper furthers previous work in the area of ontology development, and presents a summary and overview of the goal, process and methodology to construct a shared set of metadata that can be used to map existing vocabulary. This paper is a work in progress report

A Language Description is More than a Metamodel

Within the context of (software) language engineering, language descriptions are considered first class citizens. One of the ways to describe languages is by means of a metamodel, which represents the abstract syntax of the language. Unfortunately, in this process many language engineers forget the fact that a language also needs a concrete syntax and a semantics. In this paper I argue that neither of these can be discarded from a language description. In a good language description the abstract syntax is the central element, which functions as pivot between concrete syntax and semantics. Furthermore, both concrete syntax and semantics should be described in a well-defined formalism