D3.2.2

D3.2.2 - Data management platform software release v2

Abstract

This report details the current implementation of the Data Management Platform. It covers the architecture of the platform, discussions of the technologies implemented and demonstrations of the platform.

Executive summary

This report documents the release of the second version of the Data Management Platform (DMP). Its overall architecture is discussed while expanding to some degree on its constituent parts. This report primarily shows how users and administrators would interact with the platform but also discusses the developed and utilised technologies and tools. This is not a user guide but details the combination of technologies developed and integrated to improve and enhance the working prototype of the DMP. This report describes the capabilities of the DMP and therefore is a follow up of year one deliverable D3.2.1 with a main focus on the achievements made in year two.

The DMP facilitates data management in the VPH-Share project. The DMP supports the data providers with tools to select data to be exposed, semantically annotate the data and securely provide the data to the VPH community by hosting it in the VPH-Share Cloud environment and exposing it via web service, REST and Linked Data interfaces.

The DMP involves client software known as the Data Publication Suite (DPS), to extract, semantically annotate, de-identify and publish data to the cloud hosted secure data storage servers. This suite overcomes issues for institutions whereby they cannot directly host their data on the internet and where patient identifiable data needs to be de-identified due to legal, ethical and internal policy restrictions. These servers are accessed through web services where data can be accessed in numerous ways including the standard database query language, SQL, but also semantically through Linked Data and the semantic query language, SPARQL.
The DMP server uses a ‘Database to RDF Server’ to enable semantic interactions with the data by creating a bridge between the relational database using a mapping file constructed from the annotations made by the user via the DPS. The DMP incorporates the dataset service provisioning environment (DSE) of the Vienna Cloud Environment which harnesses the power of ODSA-DAI for the provisioning of individual and virtual dataset services. The DSE supports exposing relational and semantic data sources and facilitates data mediation technologies as well as distributed query processing. This technology chain enables linking VPH-Share internal data sources and incorporating external datasets into the community. This allows VPH-Share to incorporate existing datasets on the internet and accommodate for new data provided by the VPH community.
The main achievements in year two have been made in the area of distributed queries and semantic data access which mainly arises in the virtual datasets. Additionally, the DMP prototype has been prototypically integrated in the VPH-Share Cloud environment and the security framework has been integrated. The current state of the DMP has been published in a conference and a workshop paper.
The report outlines functionality which needs to be included in future versions of the software, such as imaging support and greater de-identification algorithms in the DPS, and notes that much integration between other work packages is required. While the DMP functionality has been extended substantially in year two and the integration with WP2 (security and Cloud infrastructure) is well under way, the major focus in year three will be publishing of more datasets and integration work with the workflows as well as the user interfaces. To summarise, much work has been done on delivering the core services needed to support the project and now the focus will be on integrating these services together and improving the user experience.
It concludes WP3 has delivered, as stated in the description of work, a second prototype of the DMP which ‘includes both, the cloud-based data services’ for semantic and relational service access including data mediation and DQP support ‘as well as the data access interfaces’ with major improvements in the data annotation process as well as the distributed semantic query processing engine.
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