databases > DOI:10.25504/FAIRsharing.EJFNZn

ready ViBrism DB

General Information
ViBrism DB is a database for anatomical gene expression maps and topological co-expression network graphs created with original techniques of microtomy-based gene expression measurements, Transcriptome Tomography. The DB is equipped with a WebGL-based 2D/3D visualization platform, BAH viewer, and a network viewer. Users can access a total of 172,022 datasets of coding/non-coding transcripts and lncRNAs, present in the mouse brains at four post-natal stages. Expression maps are seen in the whole anatomical context of 3D MR images of the brains. In situ hybridization images and anatomical area maps are browsable in the same space of 3D expression maps. Created images are shareable using URLs, including scene-setting parameters. The DB is expandable by community activity.

Homepage http://vibrism.neuroinf.jp/

Developed in Japan

Created in 2012

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How to cite this record FAIRsharing.org: ViBrism DB; ViBrism DB; DOI: https://doi.org/10.25504/FAIRsharing.EJFNZn; Last edited: Jan. 9, 2019, 3:06 p.m.; Last accessed: Jan 22 2019 6:51 a.m.


This record is maintained by yukooho

Record added: Nov. 7, 2018, 2:46 p.m.
Record updated: Nov. 12, 2018, 1:58 p.m. by The FAIRsharing Team.

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Publications

ViBrism DB: an interactive search and viewer platform for 2D/3D anatomical images of gene expression and co-expression networks.

Morita M,Shimokawa K,Nishimura M,Nakamura S,Tsujimura Y,Takemoto S,Tawara T,Yokota H,Wemler S,Miyamoto D,Ikeno H,Sato A,Furuichi T,Kobayashi N,Okumura Y,Yamaguchi Y,Okamura-Oho Y
Nucleic Acids Res 2018

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Broad integration of expression maps and co-expression networks compassing novel gene functions in the brain.

Okamura-Oho Y,Shimokawa K,Nishimura M,Takemoto S,Sato A,Furuichi T,Yokota H
Sci Rep 2014

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Transcriptome tomography for brain analysis in the web-accessible anatomical space.

Okamura-Oho Y,Shimokawa K,Takemoto S,Hirakiyama A,Nakamura S,Tsujimura Y,Nishimura M,Kasukawa T,Masumoto KH,Nikaido I,Shigeyoshi Y,Ueda HR,Song G,Gee J,Himeno R,Yokota H
PLoS One 2012

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  • This record is maintained by yukooho

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  • JSPS KAKENHI 25560428, 26280110, 268032, 15HP8038, 16HP8032, 17HP8082, JP15H05954, 23300137, 258057, 25330342, 16J09788 (Japan Society for the Promotion of Science, Tokyo, Japan)