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Series GSE26500 Query DataSets for GSE26500
Status Public on Mar 15, 2011
Title Gene networks associated with conditional fear in mice identified using a systems genetics approach
Organism Mus musculus
Experiment type Expression profiling by array
Summary To uncover genetic networks governing the biology of conditional fear, we used a systems genetics approach to analyze a hybrid mouse diversity panel (HMDP) with high mapping resolution. By integrating fear phenotypes, transcript profiling data from hippocampus and striatum and genotype information, two gene co-expression networks correlated with context-dependent immobility were identified. We prioritized the key markers and genes in these pathways using intramodular connectivity measures and structural equation modeling. We mapped 27 behavioral quantitative trait loci with a false discovery rate of 5%. We also identified two gene co-expression networks correlated with context-dependent immobility. Highly connected genes in the context fear modules included Psmd6, Ube2a and Usp33, suggesting an important role for ubiquitination in learning and memory. We surveyed the architecture of brain transcript regulation and showed preservation of gene co-expression modules in hippocampus and striatum while also highlighting important differences. Rps15a, Kif3a, Stard7, 6330503K22RIK, and Plvap were among the individual genes whose transcript abundance associated strongly with fear phenotypes.
 
Overall design Total mRNA islolated from hippocampus and striatum of strains from Hybrid Mouse Diversity Panel and gene expression quantified using Illumina MouseRef-8 v2.0 microarrays. Submission includes gene expression data from 100 strains of HMDP for hippocampus (n=1 for each strain) and 98 strains of HMDP for striatum (n=1 for each strain).
 
Contributor(s) Park CC, Gale GD, de Jong S, Ghazalpour A, Bennett B, Farber CR, Langfelder P, Lin A, Khan A, Eskin E, Horvath S, Lusis AJ, Ophoff RA, Smith DJ
Citation(s) 21410935
Submission date Jan 07, 2011
Last update date Jun 14, 2018
Contact name Christopher Park
Phone 310-948-7917
Organization name UCLA
Department Molecular and Medical Pharmacology
Lab Desmond Smith
Street address 23-151 CHS, 650 Charles E. Young Drive
City Los Angeles
State/province CA
ZIP/Postal code 90095
Country USA
 
Platforms (1)
GPL6885 Illumina MouseRef-8 v2.0 expression beadchip
Samples (198)
GSM651441 129X1_hippo_totalRNA
GSM651442 AJ_hippo_totalRNA
GSM651443 AKR_hippo_totalRNA
Relations
BioProject PRJNA136671

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
GSE26500_RAW.tar 3.1 Mb (http)(custom) TAR
GSE26500_hippocampus-non-normalized.txt.gz 14.7 Mb (ftp)(http) TXT
GSE26500_striatum_non-normalized.txt.gz 14.5 Mb (ftp)(http) TXT
Processed data included within Sample table
Raw data are available on Series record

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