AUTHOR=Prodanov Dimiter 

TITLE=Data Ontology and an Information System Realization for Web-Based Management of Image Measurements

JOURNAL=Frontiers in Neuroinformatics

VOLUME=Volume 5 - 2011

YEAR=2011

URL=https://www.frontiersin.org/journals/neuroinformatics/articles/10.3389/fninf.2011.00025

DOI=10.3389/fninf.2011.00025

ISSN=1662-5196

ABSTRACT=Image acquisition, processing and quantification of objects (morphometry) require the integration of data inputs and outputs originating from heterogeneous sources. Management of the data exchange along this workflow in a systematic manner poses several challenges, notably the description of the heterogeneous meta data and the interoperability between the software used. The use of integrated software solutions for morphometry and management of imaging data in combination ontologies can reduce metadata data loss and greatly facilitate subsequent data analysis. This paper presents an integrated information system, called LabIS. The system has the objectives to automate (i) the process of storage, annotation and querying of image measurements and (ii) to provide means for data sharing with 3rd party applications consuming measurement data using open standard communication protocols. LabIS implements 3-tier architecture with a relational database back-end and an application logic middle tier realizing web-based user interface for reporting and annotation and a web service communication layer. The image processing and morphometry functionality is backed by interoperability with ImageJ, a public domain image processing software, via integrated clients. Instrumental for the latter was the construction of a data ontology representing the common measurement data model. LabIS supports user profiling and can store arbitrary types of measurements, regions of interest, calibrations and ImageJ settings. Integration of the stored measurements is facilitated by atlas mapping and ontology-based markup. The system can be used as an experimental workflow management tool allowing for description and reporting of the performed experiments. LabIS can be also used as a measurements repository that can be transparently accessed by computational environments, such as Matlab. Finally, the system can be used as a data sharing tool.