Database Description

General information of database
Database name	Plabrain DB
Alternative name	Planarian Brain Database
DOI	10.18908/lsdba.nbdc01108-000
Creator	Creator Name Kiyokazu Agata* Creator Affiliation Kyoto University Creator Name Kaneyasu Nishimura Creator Affiliation Kyoto University Creator Name Osamu Nishimura Creator Affiliation Kyoto University Creator Name Tetsutaro Hayashi Creator Affiliation RIKEN Center for Developmental Biology Creator Name Hiroshi Tarui Creator Affiliation RIKEN Center for Developmental Biology
Contact address	Laboratory for Molecular Developmental Biology, Department of Biophysics, Division of Biological Sciences, Graduate School of Science, Kyoto University Kitashirakawa-Oiwake, Sakyo, Kyoto 606-8502 Email:
Database classification	Microarray Data and other Gene Expression Databases
Organism	Taxonomy Name Dugesia japonica Taxonomy ID 6161
Database description	Plabrain DB is a database for planarian nervous system analysis, including results of the gene expression profiling of single cells, the gene expression analysis by whole-mount in situ hybridization and the analysis by Immunohistochemical staining. This is the first case to release the result of gene expression analysis at the single-cell resolution by semi-quantitative single-cell RT-PCR (FBSC-PCR) method using FACS (Fluorescence Activated Cell Sorting) .
Features and manner of utilization of database	Plabrain DB is featured by the unique method which combines the semi-quantitative single-cell RT-PCR with FACS to analyze gene expression in single neurons. An article "Planaria nervous system" in Scholarpedia also provides information about this database. Some planarian whole-mount in situ hybridization images related to this database are available at a website of JT Biohitory Research Hall (Japanese version only).
License	CC BY-SA Detail
Background and funding	The method of gene expression profiling of single cells was developed by Dr. Kiyokazu Agata at RIKEN Center for Developmental Biology.  Neural-specific gene analysis was supported by a Grant-in-Aid for Creative Scientific Research (Research Project Number: 17GS0318, Project Year: 2005-2009).
Reference(s)	Article title Single-cell gene profiling utilizing FACS and its “index sorting” function for stem cell research Author name(s) Tetsutaro Hayashi, Norito Shibata, Ryo Okumura, Tomomi Kudome, Osamu Nishimura, Hiroshi Tarui and Kiyokazu Agata Journal Dev Growth Differ., 52, 131-144 (2010) External Links Article title Analysis of motor function modulated by cholinergic neurons in planarian Dugesia japonica Author name(s) Kaneyasu Nishimura, Yoshihisa Kitamura, Takashi Taniguchi and Kiyokazu Agata Journal Neuroscience, 168, 18-30 (2010) External Links Article title Planarians change their body size by maintaining a constant ratio of different cell types using stem cell system Author name(s) Hiroyuki Takeda, Kaneyasu Nishimura and Kiyokazu Agata Journal Zoolog. Sci., 26, 805-813. External Links Article title Characterization of tyramine beta-hydroxylase in planarian Dugesia japonica: Cloning and expression Author name(s) Kaneyasu Nishimura, Yoshihisa Kitamura, Takeshi Inoue, Yoshihiko Umesono, Kanji Yoshimoto, Takashi Taniguchi and Kiyokazu Agata Journal Dev Growth Differ., 52, 131-144 (2010) External Links Article title Identification and distribution of tryptophan hydroxylase (TPH)-positive neurons in the planarian Dugesia japonica Author name(s) Kaneyasu Nishimura, Yoshihisa Kitamura, Takeshi Inoue, Yoshihiko Umesono, Kanji Yoshimoto, Kosei Takeuchi, Takashi Taniguchi and Kiyokazu Agata Journal Neurosci. Res., 59, 101-106 (2007) External Links Article title Reconstruction of dopaminergic neural network and recovery of behavioral function in planarian regenerates Author name(s) Kaneyasu Nishimura, Yoshihisa Kitamura, Takeshi Inoue, Yoshihiko Umesono, Shozo Sano, Kanji Yoshimoto, Masatoshi Inden, Kazuyuki Takata, Takashi Taniguchi, Shun Shimohama and Kiyokazu Agata Journal Dev. Neurobiol., 67, 1059-1078 (2007) External Links
Original website information
Database maintenance site	Laboratory for Molecular Developmental Biology Department of Biophysics, Division of Biological Sciences, Graduate School of Science, Kyoto University
URL of the original website	-
Operation start date	-
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URL of the portal site	-
Whole data download	-
Referenced database	-
Entry list	Not available
Query search	Not available
Web services	Not available
URL of Web services	-
Need for user registration	Not available