WP3 - Database Management System

WP3, “Database Management Systems”.The primary focus of the work in this WP has been on Tasks1 and 3 - the capture of metadata and the creation of upload facilities to a centralized repository. To establish the computational infrastructure needed to efficiently capture experiment metadata as a key prerequisite to render different metabolomics datasets comparable, the graphics-supported metadata capturing software suite (XEML) was developed, D3.1(m18). The software backend of XEML was rendered compatible to different operating systems and export functionality from XEML to ISA-Tab (Task 3) were added to allow upload of metadata into MetaboLights, D3.1 and D3.3. Furthermore, the work on establishing experiment description ontologies has progressed. To achieve cross-platform integration (Tasks 2), a number of collaboration partners have further developed their technology-specific data processing and warehousing and have already uploaded or are in the process of preparing for an upload of metabolomics datasets to MetaboLights, Tasks 3,D3.3 (m36). Towards achieving Task 4 and to facilitate integration of metabolomics datasets with other -omics data types and cross-linking between databases, steps towards a consequent and robust cross-database identifier referencing system have been taken,D3.2 (m24).

Participants: MPG coordinate, All COSMOS partners participate.

Deliverables:

D3.1 - Software infrastructure for capturing and exchanging metadata (m18)

D3.2 - Integrable technology-specific software tools (m24)

D3.3 - Deposition of 50 standardised community datasets in MetaboLights (m36)