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Cerebellar Development Transcriptome Database (CDT-DB)

Akira Sato1, Yukiko Sekine2, Hirozumi Nishibe2*, Noriyuki Morita3, Yumi Sato2, Tetsushi Sadakata2, Yo Shinoda2, Toshio Kojima1 and Teiichi Furuichi2
  • 1 Advanced Science Institute, RIKEN, Japan
  • 2 Laboratory of Molecular Neurogenesis, RIKEN BSI, Japan
  • 3 Mimasaka Junior College, Japan

Cerebellar Development Transcriptome Database (CDT-DB) (http://www.cdtdb.brain.riken.jp/CDT/CDTSearch.jsp) is a neuroinformatics database for sharing and mining large amounts of systematized data regarding the spatiotemporal gene expression profiles which are the basic information on the genetic blueprint of mouse cerebellar development. CDT-DB contains huge amounts of gene expression information in terms of developmental time-series patterns, brain regional and cellular patterns, and tissue distribution patterns obtained by microarray analyses, in situ hybridization analyses, etc. CDT-DB not only provides the easy-to-use interface to cross-search for expression data, but also includes brain image viewers, graph analysis tools, gene ontology search function. All registered genes have hyperlinks to websites of many relevant bioinformatics regarding genome, proteins, pathways, neuroscience and literatures, so that CDT-DB acts as a portal to these bioinformatics websites. CDT-DB has already been demonstrated to be valuable for neuroscience research (for example, identification of several brain genes important for neural circuit development) and has gotten high evaluation by specialists.

References

1. Sato, A., Sekine, Y., Saruta, C., Nishibe, H., Morita, N., Sato, Y., Sadakata, T., Shinoda, Y., Kojima, T., and Furuichi, T. (2008) Cerebellar development transcriptome (CDT-DB): profiling of spatio-temporal gene expression during the postnatal development of mouse cerebellum. Neural Networks 21:1056-1069.

2. Sato, A., Morita, N., Sadakata, T., Yoshikawa, F., Shiraishi-Yamaguchi, Y., Huang, JH., Shoji, S., Tomomura, M., Sato, Y., Suga, E., Sekine, Y., Kitamura, A., Shibata, Y., Furuichi, T. (2004) Deciphering the genetic blueprint of cerebellar development by the gene expression profiling informatics. Neural information processing. Lecture Notes in Computer Science 3316:880-884. Springer-Verlag, Berlin, Heidelberger, Germany

3. Kagami, Y., and Furuichi, T. (2001) Investigation of differentially expressed genes during the development of mouse cerebellum. Brain Research Gene Expression Patterns 1:39-59.

Conference: Neuroinformatics 2010 , Kobe, Japan, 30 Aug - 1 Sep, 2010.

Presentation Type: Poster Presentation

Topic: General neuroinformatics

Citation: Sato A, Sekine Y, Nishibe H, Morita N, Sato Y, Sadakata T, Shinoda Y, Kojima T and Furuichi T (2010). Cerebellar Development Transcriptome Database (CDT-DB). Front. Neurosci. Conference Abstract: Neuroinformatics 2010 . doi: 10.3389/conf.fnins.2010.13.00014

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Received: 09 Jun 2010; Published Online: 09 Jun 2010.

* Correspondence: Hirozumi Nishibe, Laboratory of Molecular Neurogenesis, RIKEN BSI, Saitama, Japan, h_nishibe@brain.riken.jp