Nucleic Acids Res. 2010 Jan;38(Database issue):D577-85. Epub 2009 Nov 23.
EuroPhenome: a repository for high-throughput mouse phenotyping data.
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.
Bosch F, Ruberte J, Ferre T, Pujol A, Otaegui P, Franckhauser S, Marvel J, Queste V, Dacquin R, Djebali S, Jurdic P, Kollias G, Chandras C, Douni E, Aidinis V, Barbacid M, Cañamero M, Dubus P, Balling R, Hauser H, Pasche B, Müller W, Lengeling A, Tocchini-Valentini G, Mandillo S, Golini E, Marazziti D, Deidda G, Rossi N, Matteoni R, Raspa M, Scavizzi F, Rossi N, Matteoni R, Raspa M, Scavizzi F, Butler RH, Di Segni G, Fruscoloni P, Calandra P, Mannironi C, Scarabino D, Tocchini-Valentini GD, Zamboni M, Putti S, Di Pietro C, Gastaldi S, Herault Y, Ryffel B, le Bert M, Pereirea PL, Brault V, Dalloneau E, Pothion S, Rosenthal N, Al Banchaabouchi M, Migliozzi R, Salimova E, de Angelis MH, Gailus-Durner V, Fuchs H, Adler T, Aguilar-Pimentel A, Becker L, Bekeredjian R, Busch DH, Calzada-Wack J, Da Silva-Buttkus P, Esposito I, Favor J, Fleischmann W, Garrett L, Glasl L, Götz A, Graw J, Hans W, Hölter-Koch SM, Ivandic B, Katus HA, Klingenspor M, Klopstock T, Lengger C, Ludwig T, Maier H, Micklich K, Minxuan S, Naton B, Neff F, Ollert M, Puk O, Quintanilla-Fend L, Racz I, Rathkolb B, Rozman J, Schäble KH, Schiller E, Schrewe A, Steinkamp R, Stöger C, Stöger T, Schulz H, Tost M, Treise I, Vogt-Weisenhorn D, Willershäuser M, Wolf E, Wolff-Muscate A, Wurst W, Zeh R, Zimmer A, Mandel JL, Hérault Y, Champy MF, Selloum M, Meziane H, Monassier L, Combe R, Roux M, Ayadi A, Muller S, Bedu E, Becker J, Leblanc S, Sorg T, Vasseur L, Jackson I, Cross S, Joynson R, Jadeja S, Avraham K, Dror A, Shivatzki S, Ballabio A, Diez-Roux G, Brown S, Gates H, Adams N, Atkins S, Beck T, Blake A, Chiev KP, Chouankam A, Cox R, Denny P, Emelyanova I, Fray M, Greenaway S, Hancock J, Hough T, Hunt K, Kendall R, Lee K, Mallon AM, Morgan H, Nolan P, Potter P, Stewart M, Teboul L, Vowell S, Wells S, Wood J, Zaman R, Schofield P, Gruenberger M, Griffin J, Wahli W, Preitner F, Delgado MB, Desvergne B, Michalik L, Bedu E, Neyses L, Cartwright E, Prehar S, Zi M, Ramirez-Solis R, Steel K, White J, Sunter D, Melvin D, Gerdin AK, Igosheva N, Estabel J, Messager S, Karp N, Shannon C, Roberson L, Richardson D, Podrini C, Lucas M.
MRC Harwell, Mammalian Genetics Unit, MRC Harwell, Mary Lyon Centre, Harwell Science and Innovation Campus, Oxfordshire OX11 0RD, UK.
The broad aim of biomedical science in the postgenomic era is to link genomic and phenotype information to allow deeper understanding of the processes leading from genomic changes to altered phenotype and disease. The EuroPhenome project (http://www.EuroPhenome.org) is a comprehensive resource for raw and annotated high-throughput phenotyping data arising from projects such as EUMODIC. EUMODIC is gathering data from the EMPReSSslim pipeline (http://www.empress.har.mrc.ac.uk/) which is performed on inbred mouse strains and knock-out lines arising from the EUCOMM project. The EuroPhenome interface allows the user to access the data via the phenotype or genotype. It also allows the user to access the data in a variety of ways, including graphical display, statistical analysis and access to the raw data via web services. The raw phenotyping data captured in EuroPhenome is annotated by an annotation pipeline which automatically identifies statistically different mutants from the appropriate baseline and assigns ontology terms for that specific test. Mutant phenotypes can be quickly identified using two EuroPhenome tools: PhenoMap, a graphical representation of statistically relevant phenotypes, and mining for a mutant using ontology terms. To assist with data definition and cross-database comparisons, phenotype data is annotated using combinations of terms from biological ontologies.