The Colorado Gene Array Core will focus on the creation of databases that can be used for developing expression QTL (eQTL) maps for mouse and rat brain. We are currently expanding the database of brain gene expression profiles for males and females of the BxD Rl mouse strains. The proposed studies will generate a similar database of gene expression profiles from brains of 31 Rl strains of BxH/HxB rats and the progenitor strains (males and females separately), and microsatellite and SNP genotyping of the rat strains will be performed in collaboration with Dr. RobWilliams, University of Tennessee. This information will allow for eQTL mapping for rat brain gene expression as well as mapping of QTLs for alcohol drinking in the rat strains. When combined with QTL analysis of complex traits, the generation of eQTLs facilitates the identification of candidate genes for these traits, and the Core will use this procedure and the generated data to identify candidate genes that contribute to anxiety and other alcohol related behaviors in the rats. The availability of brain gene expression data and eQTL mapping of the mouse and rat brain transcriptome will produce a novel and unique resource for use by alcoholism investigators. The Core will also perform gene expression analysis and quantitative RT-PCR for collaborating INIA investigators, and provide access to methodology for normalization, statistical analysis and eQTL searches of the generated data.

Agency
National Institute of Health (NIH)
Institute
National Institute on Alcohol Abuse and Alcoholism (NIAAA)
Type
Research Project--Cooperative Agreements (U01)
Project #
5U01AA016663-05
Application #
7919977
Study Section
Special Emphasis Panel (ZAA1-DD (70))
Program Officer
Reilly, Matthew
Project Start
2006-09-30
Project End
2011-08-31
Budget Start
2010-09-01
Budget End
2011-08-31
Support Year
5
Fiscal Year
2010
Total Cost
$418,028
Indirect Cost
Name
University of Colorado Denver
Department
Pharmacology
Type
Schools of Medicine
DUNS #
041096314
City
Aurora
State
CO
Country
United States
Zip Code
80045
Saba, Laura M; Flink, Stephen C; Vanderlinden, Lauren A et al. (2015) The sequenced rat brain transcriptome--its use in identifying networks predisposing alcohol consumption. FEBS J 282:3556-78
Hoffman, P L; Saba, L M; Flink, S et al. (2014) Genetics of gene expression characterizes response to selective breeding for alcohol preference. Genes Brain Behav 13:743-57
Vanderlinden, Lauren A; Saba, Laura M; Kechris, Katerina et al. (2013) Whole brain and brain regional coexpression network interactions associated with predisposition to alcohol consumption. PLoS One 8:e68878
Hoffman, Paula L; Bennett, Beth; Saba, Laura M et al. (2011) Using the Phenogen website for 'in silico' analysis of morphine-induced analgesia: identifying candidate genes. Addict Biol 16:393-404
Desrivières, Sylvane; Pronko, Sergey P; Lourdusamy, Anbarasu et al. (2011) Sex-specific role for adenylyl cyclase type 7 in alcohol dependence. Biol Psychiatry 69:1100-8
Saba, Laura M; Bennett, Beth; Hoffman, Paula L et al. (2011) A systems genetic analysis of alcohol drinking by mice, rats and men: influence of brain GABAergic transmission. Neuropharmacology 60:1269-80
Bennett, Beth; Saba, Laura M; Hornbaker, Cheryl K et al. (2011) Genetical genomic analysis of complex phenotypes using the PhenoGen website. Behav Genet 41:625-8
Pronko, Sergey P; Saba, Laura M; Hoffman, Paula L et al. (2010) Type 7 adenylyl cyclase-mediated hypothalamic-pituitary-adrenal axis responsiveness: influence of ethanol and sex. J Pharmacol Exp Ther 334:44-52
Hankin, Joseph A; Murphy, Robert C (2010) Relationship between MALDI IMS intensity and measured quantity of selected phospholipids in rat brain sections. Anal Chem 82:8476-84
Tabakoff, Boris; Saba, Laura; Printz, Morton et al. (2009) Genetical genomic determinants of alcohol consumption in rats and humans. BMC Biol 7:70

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