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Series GSE36748 Query DataSets for GSE36748
Status Public on May 31, 2012
Title The impact of experience-dependent and independent factors on gene expression in songbird brain
Platform organism Taeniopygia guttata
Sample organisms Sturnus vulgaris; Haemorhous mexicanus; Melospiza melodia; Taeniopygia guttata; Loxia curvirostra; Zonotrichia leucophrys gambelii
Experiment type Expression profiling by array
Summary Songbirds provide rich natural models for studying the relationships of brain anatomy, behavioral function, environmental signals and gene expression. Under the Songbird Neurogenomics Initiative, investigators from more than a dozen laboratories collected brain samples from six species of songbird under a range of experimental conditions, and 488 of these samples were analyzed systematically for gene expression by microarray. ANOVA was used to test 32 planned contrasts in the data, revealing the relative impact of different factors. The brain region from which tissue was taken had the greatest influence on gene expression profile, affecting the majority of signals measured by the 18,848 non-redundant cDNAs spotted on the microarray. Social and environmental manipulations had highly variable impact, ranging from nil in some cases to robust in others. Several specific genes were identified as points of interest in the evolution of mechanisms by which environmental signals influence behavior. The data were also analyzed using Weighted Gene Co-expression Network Analysis (WGCNA) followed by Gene Ontology (GO) analysis. This revealed modules of co-regulated genes that are also enriched for specific functional annotations such as “ribosome” (expressed more highly in juvenile brain) and “dopamine metabolic process” (expressed more highly in striatal song control nucleus Area X). These results underscore the complexity of influences on neural gene expression and provide a resource for studying how these influences are integrated during natural experience.

This SuperSeries is composed of the SubSeries listed below.
 
Overall design Refer to individual Series
 
Contributor(s) Drnevich J, Replogle K, Arnold AP, Ball GF, Brenowitz E, Hahn TP, Johnson F, London S, Lovell P, Mast TG, Mello C, Mukai M, Strand C, Wade J, Wingfield JC, Clayton DF
Citation(s) 23045667
Submission date Mar 23, 2012
Last update date Dec 28, 2012
Contact name Kirstin Replogle
E-mail(s) replogle@igb.uiuc.edu
Organization name University of Illinois
Street address 1206 W Gregory Drive
City Urbana
State/province IL
ZIP/Postal code 61801
Country USA
 
Platforms (1)
GPL9554 Songbird Neurogenomics Initiative 20K Array
Samples (488)
GSM899271 3LD+T.HVC replicate 3 [e01]
GSM899272 3LD+T.RA replicate 5 [e01]
GSM899273 7LD+T.HVC replicate 4 [e01]
This SuperSeries is composed of the following SubSeries:
GSE36705 The impact of experience-dependent and independent factors on gene expression in songbird brain [e01]
GSE36706 The impact of experience-dependent and independent factors on gene expression in songbird brain [e02]
GSE36707 The impact of experience-dependent and independent factors on gene expression in songbird brain [e03]
Relations
BioProject PRJNA153777

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
GSE36748_RAW.tar 870.5 Mb (http)(custom) TAR (of GPR)

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