-

FAIRDOM approach for semantic interoperability of systems biology data and models

Olga Krebs

Katy Wolstencroft

Natalie Stanford

Norman Morrison

Martin Golebiewski

Stuart Owen

Quyen Nguyen

Jacky Snoep

Wolfgang Mueller

Carole Goble

2 0 Heidelberg Institute for Theoretical Studies , Heidelberg , Germany 1 Leiden Institute of Advanced Computer Science , Leiden, NL 2 School of Computer Science, University of Manchester , UK

The ability to collect and interlink heterogeneous data and model collections is essential in Systems Biology. Effective data exchange and comparison requires sufficient data annotation. This is particularly apparent in Systems Biology, where data heterogeneity means that multiple community metadata standards are required for the annotation of a whole investigation, including data, models and protocols. Here we describe FAIRDOM (http://fair-dom.org/) strategy in the context of semantic data management in the openSEEK , a webbased resource for sharing and exchanging Systems Biology data and models.

INTRODUCTION Data integration is an essential part of Systems Biology.

Scientists need to combine different sources of information in order to model biological systems, and relate those models to available experimental data for validation. . Currently, only a small fraction of the data and models produced during Systems Biology investigations are deposited for reuse by the community, and only a smaller fraction of that data is standards compliant, semantic content.

By embedding semantic technologies into familiar data management tools, the SEEK [ 1 ] enables semantic annotation of new data and the generation and querying of linkeddata compliant datasets, whilst hiding the complexities of ontologies and metadata from its users. The SEEK is based on the ISA infrastructure (Investigations, Studies and Assays), a standard format for describing how individual experiments (assays) are aggregated into wider studies and investigations [ 2 ]. This poster will present the semantic data integration in SEEK, and how it supports the whole life cycle of data collection, annotation, sharing and reuse of Systems Biology data and resources. Copyright c 2015 for this paper by its authors. Copying permitted for private and academic purposes

1. Wolstencroft , K. , Owen , S. , du Preez , F. , Krebs , O. , Mueller , W. , Goble , C. and Snoep , J.L. ( 2011 ) The SEEK: a platform for sharing data and models in Systems Biology . Methods Enzymol , 500 , 629 - 655 .

2. Rocca-Serra , P. , Brandizi , M. , Maguire , E. , Sklyar , N. , Taylor , C., Begley , K. , Field , D. , Harris , S. , Hide , W. , Hofmann , O. et al.( 2010 ) ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level . Bioinformatics , 26 , 2354 - 2356 .

3. Wolstencroft , K. , Owen , S. , Horridge , M. , Krebs , O. , Mueller , W. , Snoep , J.L. , du Preez , F. and Goble , C. ( 2011 ) RightField: embedding ontology annotation in spreadsheets . Bioinformatics , 27 , 2021 - 2022