About EuroPhenome

EuroPhenome (http://www.europhenome.org) is a open source project to develop a software system for capturing, storing and analysing raw phenotyping data from SOPs contained in EMPReSS.

EuroPhenome is primarily based in the bioinformatics group at MRC Harwell. The development of EuroPhenome is in collaboration with the Helmholtz Zentrum Munchen , Germany, the Wellcome Trust Sanger Institute, UK and the Institut Clinique de la Souris, France.

Initially EuroPhenome was developed within the EUMORPHIA programme to capture and store pilot phenotyping data obtained on four background strains (C57BL/6J, C3H/HeBFeJ, BALB/cByJ and 129/SvPas). EUMORPHIA (European Union Mouse Research for Public Health and Industrial Applications) was a large project comprising of 18 research centres in 8 European countries,with the main focus of the project being the development of novel approaches in phenotyping, mutagenesis and informatics to improve the characterisation of mouse models for understanding human molecular physiology and pathology.

The current version of EuroPhenome is capturing data from the EUMODIC project as well as the WTSI MGP, HMGU GMC pipeline and the CMHD. EUMODIC is undertaking a primary phenotype assessment of up to 500 mouse mutant lines derived from ES cells developed in the EUCOMM project as well as other lines. Lines showing an interesting phenotype will be subject to a more in depth assessment.

EUMODIC is building upon the comprehensive database of standardised phenotyping protocols, called EMPReSS, developed by the EUMORPHIA project. EUMODIC has developed a selection of these screens, called EMPReSSslim, to enable comprehensive, high throughput, primary phenotyping of large numbers of mice.

EuroPhenome Annotation of Phenovariants

Phenovariants are annotated using a automated pipeline, which assigns a MP term if the mutant data is statistically different to the baseline data. This data is shown in the Phenomap and the mine for a mutant tool. Please note that a statistically significant result and the subsequent MP annotation does not necessarily mean a true phenovariant. There are other factors that could cause this result that have not been accounted for in the analysis. It is the responsibility of the user to download the data and use their expert knowledge or further analysis to decide whether they agree or not.

Citing EuroPhenome

Please cite one of the following publications when referring to EuroPhenome in your papers.

Mallon A-M, Blake A, Hancock JM (2008) EuroPhenome and EMPReSS: online mouse phenotyping resource. Nucleic Acids Res 36: D715-D718.

Morgan H, Beck T, Blake A, Gates H, Adams N, Debouzy G, Leblanc S, Lengger C, Maier H, Melvin D, Meziane H, Richardson D, Wells S, White J, Wood J; EUMODIC Consortium, de Angelis MH, Brown SD, Hancock JM, Mallon AM. EuroPhenome: a repository for high-throughput mouse phenotyping data. Nucleic Acids Res. 2010 Jan;38(Database issue):D577-85. Epub 2009 Nov 23.

Disclaimer

EuroPhenome provides this data and software in good faith, but make no warranty, express or implied, nor assume any legal liability or responsibility for any purpose for which they are used.