Europhenome is a resource for presenting, searching and analysing mouse phenotypes that were revealed by high throughput mouse phenotyping programmes such as EUMODIC. The EuroPhenome project provides access to raw and annotated mouse phenotyping data generated from primary pipelines such as EMPReSSlim and secondary procedures from specialist centres. Mutants of interest can be identified by searching the gene or the predicted phenotype.

Description

EuroPhenome is an open source project to develop a software system for capturing, storing, and analysing raw phenotyping data from

standard operating procedure A standard operating procedure (SOP) is a set of step-by-step instructions compiled by an organization to help workers carry out routine operations. SOPs aim to achieve efficiency, quality output, and uniformity of performance, while reducing misc ...

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EMPReSS An emperor (from la, imperator, via fro, empereor) is a monarch, and usually the sovereignty, sovereign ruler of an empire or another type of imperial realm. Empress, the female equivalent, may indicate an emperor's wife (empress consort), ...

. EuroPhenome is primarily based in the bioinformatics group at MRC Harwell. The development of EuroPhenome is in collaboration with the

Helmholtz Zentrum München Helmholtz Zentrum München Deutsches Forschungszentrum für Gesundheit und Umwelt (GmbH), also known as Helmholtz Munich, is a member of the Helmholtz Association of German Research Centres. It was founded in 1960 and is a joint venture by the Fede ...

, the

Wellcome Trust Sanger Institute The Wellcome Sanger Institute, previously known as The Sanger Centre and Wellcome Trust Sanger Institute, is a non-profit British genomics and genetics research institute, primarily funded by the Wellcome Trust. It is located on the Wellcome G ...

, and the Clinique de la Souris (France). Initially, EuroPhenome was developed within the EUMORPHIA (European Union Mouse Research for Public Health and Industrial Applications) programme to capture and store pilot phenotyping data obtained on four background strains ( C57BL/6J, C3H/HeBFeJ, BALB/cByJ and 129/SvPas). EUMORPHIA was a large project consisting 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

Mouse Genetics Programme, HMGU German Mouse Clinic 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 database of standardised phenotyping protocols, 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 an automated pipeline, which assigns an MP term if the mutant data is statistically different from the baseline data. This data is shown in the Phenomap and the mine for a mutant tool. 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.

References

External links

* {{Official website, http://www.europhenome.org
EUMODIC

EMPReSSlim
Classical genetics Genetics in the United Kingdom Science and technology in Oxfordshire

Description

EuroPhenome annotation of phenovariants

See also

References

External links