Welcome to Observ-OM and Observ-TAB

The simple system to format and exchange observation data.

Background

Observ-OM is a model capture 'any' phenotype observation lead by ​EU-GEN2PHEN. Our mission mission: store individual and summary level observations in a uniform way to enable harmonization and interoperability of phenotypic and genotypic data across human genetics, model organisms and biobanks. Next to the object model we have an tabular exchange format Observ-TAB and user interfaces, search wizard, ​ontology links and Excel import/export.

Developers

Core of Pheno-OM and Pheno-TAB was developed by:

• ​UMC Groningen/GCC (Swertz),
• ​EBI Hinxton/FG (Adamusiak, Parkinson),
• ​FIMM Helsinki (Muilu) and
• ​U Leicester (Thorisson, Brookes)
• ​other members of EU-GEN2PHEN.

Applications using Pheno-OM are developed by:

• ​NBIC Biobanking for BiobankCatalog and SemanticSearch? (Antonakaki, van Enckevort, Marshall, Swertz),
• ​LifeLines for BiobankCatalog (Antonakaki, Lops, Swertz)
• ​BioSHARE for biobank data integration (Chao, Swertz)
• ​BBMRI-NL for BiobankCatalog and NgsWorkbench (Antonakaki, Swertz)
• ​U Groningen for ​AnimalDB (Roos, Boerema, Swertz)

View and download applications

Currently the Observ-OM model has been picked up to produce:

• the reference implementation which is available at ​http://www.ebi.ac.uk/microarray-srv/pheno (Adamusiak, Parkinson, GEN2PHEN, Swertz)
• the xQTL workbench which is available at ​http://www.xqtl.org (Arends, van der Velde)
• the BiobankCatalog by the ​NBIC Biobanking Task force (Antonakaki, Enckevoort), ​LifeLines (Lops) and ​BBMRI-NL (Swertz).
• the ​AnimalDB database for tracking animal observations (Roos)
• the NGS workbench for tracking all around next generation sequencing experiment by ​BBMRI-NL (Dijkstra)

Source code

The most recent sourcecode of all these projects is available from SVN at ​http://www.molgenis.org/svn/molgenis_apps/trunk