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MEPD: A Medaka gene expression pattern database


NAR Molecular Biology Database Collection entry number 339
Henrich, T.1, Ramialison, M.1, Quiring, R.2, Wittbrodt, B.2, Furutani-Seiki, M.1, Wittbrodt, J.2, Kondoh, H.1
1Japan Science and Technology Corporation, ERATO Kondoh differentiation signaling project, Kinki-chihou Hatsumei Center Building, Yoshida-Kawaramachi 14, Sakyo-ku, Kyoto 606-8305, Japan
2EMBL Heidelberg, Meyerhofstrasse 1, D-69117 Heidelberg, Germany

Database Description

The Medaka Expression Pattern Database (MEPD) stores and integrates information of gene expression during embryonic development of the small freshwater fish Medaka (Oryzias latipes). Expression patterns of genes identified by ESTs are documented by images and by descriptions through parameters like staining intensity, category and comments and through a comprehensive, hierarchically organized dictionary of anatomical terms. Sequences of the ESTs are available and searchable through blast. ESTs in the database are clustered upon entry and have been blasted against public databases. The blast results are updated regularly, stored within the database and searchable. The MEPD is a project within the Medaka Genome Initiative (MGI) and entries will be interconnected to integrated genomic map databases. MEPD is accessible through the WWW at http://medaka.dsp.jst.go.jp/MEPD

Acknowledgements

We thank Bjoern Kindler for helping us solving Java Servlet- and SQL-programming problems. We appreciate the contribution of Franck Bourrat in the generation of the Medaka anatomical dictionary. We would like to thank Hiroshi Suwa for his technical help and Hans Doebbeling to enable us to use the computational facilities of EMBL in Heidelberg.

References

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