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Series GSE16496 Query DataSets for GSE16496
Status Public on Aug 12, 2011
Title Expression profile of adult mouse 51 CNS regions
Organism Mus musculus
Experiment type Expression profiling by array
Summary The adult mammalian brain is composed of distinct regions that have specialized roles. To dissect molecularly this complex structure, we conducted a project, named the BrainStars (B*) project, in which we sampled ~50 small brain regions, including sensory centers and centers for motion, time, memory, fear, and feeding. To avoid confusion from temporal differences in gene expression, we sampled each region every 4 hours for 24 hours, and pooled the sample sets for DNA-microarray assays. Therefore, we focused only on spatial differences in gene expression. We then used informatics to identify candidates for (1) genes with high or low expression in specific regions, (2) switch-like genes with bimodal or multimodal expression patterns, and (3) genes with a uni-modal expression pattern that exhibit stable or variable levels of expression across brain regions. We used our findings to develop an integrated database (http://brainstars.org/) for exploring genome-wide expression in the adult mouse brain.
 
Overall design For 51 CNS regions, slices (0.5-mm thick) of mouse brain were cut on a Mouse Brain Matrix, frozen, and the specific regions were punched out bilaterally with a microdissecting needle (gauge 0.5 mm) under a stereomicroscope. For each region, we took samples every 4 hours, starting at ZT0 (Zeitgaber time 0; the time of lights on), for 24 hours (6 time-point samples for each region), and we pooled the samples from the different time points. We independently sampled each region twice (n=2).
 
Contributor(s) Kasukawa T, Masumoto K, Nikaido I, Nagano M, Uno KD, Tsujino K, Hanashima C, Shigeyoshi Y, Ueda HR
Citation(s) 21858037
Submission date Jun 08, 2009
Last update date Feb 11, 2019
Contact name Hiroki R Ueda
E-mail uedah-tky@umin.ac.jp
Phone +81-78-306-3191
URL http://brainstars.org/
Organization name RIKEN
Department Center for Developmental Biology
Lab Functional Genomics Unit
Street address 2-2-3, Minatojima-minamimachi, Chuo-ku
City Kobe, Hyogo
ZIP/Postal code 6500047
Country Japan
 
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (102)
GSM414517 LS_rep1
GSM414518 LS_rep2
GSM414519 RS_rep1
Relations
BioProject PRJNA116113

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE16496_RAW.tar 425.2 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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