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Gene networks associated with conditional fear in mice identified using a systems genetics approach

Christopher C Park1, Greg D Gale1, Simone de Jong2, Anatole Ghazalpour3, Brian J Bennett4, Charles R Farber37, Peter Langfelder4, Andy Lin1, Arshad H Khan1, Eleazar Eskin45, Steve Horvath4, Aldons J Lusis34, Roel A Ophoff246 and Desmond J Smith1*

Author Affiliations

1 Department of Molecular and Medical Pharmacology, David Geffen School of Medicine, University of California, Los Angeles, CA 90095, USA

2 Department of Medical Genetics and Rudolf Magnus Institute of Neuroscience, UMC Utrecht, 3584 CG, Utrecht, The Netherlands

3 Department of Medicine - Cardiology, David Geffen School of Medicine, University of California, Los Angeles, CA 90095, USA

4 Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, CA 90095, USA

5 Department of Computer Science, University of California, Los Angeles, CA 90095, USA

6 University of California, Los Angeles, Center for Neurobehavioral Genetics, David Geffen School of Medicine, CA 90095, USA

7 Center for Public Health Genomics, School of Medicine, University of Virginia, VA 22908, USA

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BMC Systems Biology 2011, 5:43  doi:10.1186/1752-0509-5-43

Published: 16 March 2011

Additional files

Additional file 1:

Supplementary Methods, Tables and Figures. The Supplementary Methods describe further analyses of fear phenotypes in the HMDP and gene regulation hotspots from the eQTL mapping. Supplementary Tables are Table S1, Classification of quantified behavioral phenotypes; Table S2, Top 100 cis eQTLs in hippocampus; Table S3, Top 100 cis eQTLs in striatum; Table S4, Gene co-expression modules; Table S5, Functional classification for genes in context fear module 1; Table S6, Functional classification for genes in context fear module 2. Supplementary Figures are Figure S1, Cluster dendrogram by behavioral phenotype across HMDP; Figure S2, Mapped locus for cue immobility on chromosome 7; Figure S3, QTL plots for 48 tested behavioral phenotypes after EMMA correction for population structure; Figure S4, Hippocampus eQTLs; Figure S5, Striatum eQTLs; Figure S6, Hippocampus module-trait correlations; Figure S7, Striatum module-trait correlations; Figure S8, Striatum NEO results.

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Additional file 2:

Gene connectivity and module information. Table provides details of gene co-expression network analyses for each tissue and corresponding measures of intramodular connectivity for each gene.

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