MEPD: a resource for medaka gene expression patterns.

Thorsten Henrich (1) , Mirana Ramialison (1) , Beate Wittbrodt (1) , Beatrice Assouline (1, 2) , Franck Bourrat (3, 4) , Anja Berger (5) , Heinz Himmelbauer (5) , Takashi Sasaki (6) , Nobuyoshi Shimizu (6) , Monte Westerfield (7) , Hisato Kondoh (8) , Joachim Wittbrodt (1)

1 COS - Centre for Organismal Studies EMBL
2 EMI 363 - Développement normal et pathologique des organes endocrines
3 DEPSN - Développement, évolution et plasticité du système nerveux
4 INAF - Institut de Neurobiologie Alfred Fessard
5 MPIMG - Max-Planck-Institut für Molekulare Genetik
6 Department of Molecular Biology -School of Medicine
7 ZFIN
8 Japan Science and Technology Agency, ERATO Kondoh Differentiation Signaling Project

The Medaka Expression Pattern Database (MEPD) is a database for gene expression patterns determined by in situ hybridization in the small freshwater fish medaka (Oryzias latipes). Data have been collected from various research groups and MEPD is developing into a central expression pattern depository within the medaka community. Gene expression patterns are described by images and terms of a detailed medaka anatomy ontology of over 4000 terms; which we have developed for this purpose and submitted to Open Biological Ontologies. Sequences have been annotated via BLAST match results and using Gene Ontology terms. These new features will facilitate data analyses using bioinformatics approaches and allow cross-species comparisons of gene expression patterns. Presently, MEPD has 19,757 entries, for 1024 of them the expression pattern has been determined.

Mots clés: Gene Expression Profiling methods; Information Storage and Retrieval; Internet; Oryzias; Proteome; Sequence Analysis Protein

Domaines: Neurosciences [q-bio.NC]

Thorsten Henrich, Mirana Ramialison, Beate Wittbrodt, Beatrice Assouline, Franck Bourrat, et al.. MEPD: a resource for medaka gene expression patterns.. Bioinformatics, 2005, 21, pp.3195. ⟨10.1093/bioinformatics/bti478⟩. ⟨hal-00019514⟩