TY - JOUR
T1 - Potential translational targets revealed by linking mouse grooming behavioral phenotypes to gene expression using public databases
AU - Roth, Andrew
AU - Kyzar, Evan J.
AU - Cachat, Jonathan
AU - Stewart, Adam Michael
AU - Green, Jeremy
AU - Gaikwad, Siddharth
AU - O'Leary, Timothy P.
AU - Tabakoff, Boris
AU - Brown, Richard E.
AU - Kalueff, Allan V.
N1 - Funding Information:
The study was supported by Tulane University Pilot funds , Tulane Synergy and Provost's Scholarly Enrichment grants to AVK, as well as by ZENEREI Institute . The authors thank Rhian Gunn (Dalhousie University) for her help with this project. This study used several open-access databases, including the Allen Brain Atlas of gene activity in the C57BL/6J mouse brain (ABA, http://mouse.brain-map.org/ ; http://uri.neuinfo.org/nif/registry/nif-0000-00508 ); GoMiner (to classify genes in microarray experiments, http://discover.nci.nih.gov/gominer/ ; http://uri.neuinfo.org/nif/registry/nif-0000-21181 ), the Gene Ontology (GO, used by GoMiner to provide detailed gene information, http://www.geneontology.org/ ; http://uri.neuinfo.org/nif/registry/nif-0000-02915 ); the Mouse Genome Informatics (MGI) database of mutant and transgenic mouse models ( http://www.informatics.jax.org ; http://uri.neuinfo.org/nif/registry/nif-0000-00096 ); the Mouse Phenome Database (MPD, a repository of genotypic and phenotypic data, which allows for genotype-phenotype association, http://www.jax.org/phenome ; http://uri.neuinfo.org/nif/registry/nif-0000-03160 ); the Phenogen Informatics (a microarray data repository and analysis tool allowing users to research candidate genes, http://phenogen.ucdenver.edu/PhenoGen/ ); the Drug Related Gene Database (DRG, describing differences in gene expression as a function of drug exposure, https://confluence.crbs.ucsd.edu/display/NIF/DRG ; http://uri.neuinfo.org/nif/registry/nif-0000-37443 ) and the Search Tool for the Retrieval of Interacting Genes (STRING, database containing all known and predicted interactions between proteins in over 1000 different species, http://string.embl.de/ ; http://uri.neuinfo.org/nif/registry/nif-0000-03503 ). We also used Cytoscape ( http://cytoscape.org ; http://uri.neuinfo.org/nif/registry/nif-0000-30404 ) to visualize protein-protein interaction networks, and the Ontological Discovery Environment (ODE, http://ontologicaldiscovery.org/ ; http://uri.neuinfo.org/nif/registry/nif-0000-00517 ) as a freely accessible phenotype-centered database with integrated analysis and visualization tools. In addition to homepage URL, we provided the Uniform Resource Identifier (URI) for the databases used in this study, directing the user to the original source regardless of its current URLs. This information was given here to recognize the value and importance of open-source, publicly accessible scientific information ( Cheung et al., 2009 ). The Protein database ( Pruitt et al., 2007 ) and sequence analysis using Hum-mPLoc ( Shen and Chou, 2007 ) were also used in this study to characterize cellular location of protein products of the selected candidate gene ( Fig. 3 E). Grooming data was collected with the help of Nicola Hoffman, Lisa Currie, Vicki Savoie and Martin Williamson. Behavioral data collection was funded by a grant from NSERC of Canada to REB. Generous funds from the AstraZeneca R&D Boston were used to defray cost of mice through the Mouse Phenome Project (The Jackson Laboratory, Bar Harbor, ME). Behavioral equipment was purchased with funds from an NSERC equipment grant to REB.
PY - 2013/1/10
Y1 - 2013/1/10
N2 - Rodent self-grooming is an important, evolutionarily conserved behavior, highly sensitive to pharmacological and genetic manipulations. Mice with aberrant grooming phenotypes are currently used to model various human disorders. Therefore, it is critical to understand the biology of grooming behavior, and to assess its translational validity to humans. The present in-silico study used publicly available gene expression and behavioral data obtained from several inbred mouse strains in the open-field, light-dark box, elevated plus- and elevated zero-maze tests. As grooming duration differed between strains, our analysis revealed several candidate genes with significant correlations between gene expression in the brain and grooming duration. The Allen Brain Atlas, STRING, GoMiner and Mouse Genome Informatics databases were used to functionally map and analyze these candidate mouse genes against their human orthologs, assessing the strain ranking of their expression and the regional distribution of expression in the mouse brain. This allowed us to identify an interconnected network of candidate genes (which have expression levels that correlate with grooming behavior), display altered patterns of expression in key brain areas related to grooming, and underlie important functions in the brain. Collectively, our results demonstrate the utility of large-scale, high-throughput data-mining and in-silico modeling for linking genomic and behavioral data, as well as their potential to identify novel neural targets for complex neurobehavioral phenotypes, including grooming.
AB - Rodent self-grooming is an important, evolutionarily conserved behavior, highly sensitive to pharmacological and genetic manipulations. Mice with aberrant grooming phenotypes are currently used to model various human disorders. Therefore, it is critical to understand the biology of grooming behavior, and to assess its translational validity to humans. The present in-silico study used publicly available gene expression and behavioral data obtained from several inbred mouse strains in the open-field, light-dark box, elevated plus- and elevated zero-maze tests. As grooming duration differed between strains, our analysis revealed several candidate genes with significant correlations between gene expression in the brain and grooming duration. The Allen Brain Atlas, STRING, GoMiner and Mouse Genome Informatics databases were used to functionally map and analyze these candidate mouse genes against their human orthologs, assessing the strain ranking of their expression and the regional distribution of expression in the mouse brain. This allowed us to identify an interconnected network of candidate genes (which have expression levels that correlate with grooming behavior), display altered patterns of expression in key brain areas related to grooming, and underlie important functions in the brain. Collectively, our results demonstrate the utility of large-scale, high-throughput data-mining and in-silico modeling for linking genomic and behavioral data, as well as their potential to identify novel neural targets for complex neurobehavioral phenotypes, including grooming.
KW - Anxiety in mice
KW - Behavioral domains
KW - Gene expression and omics
KW - Grooming behavior
KW - Neurophenotypes
UR - http://www.scopus.com/inward/record.url?scp=84869445247&partnerID=8YFLogxK
U2 - 10.1016/j.pnpbp.2012.10.015
DO - 10.1016/j.pnpbp.2012.10.015
M3 - Article
C2 - 23123364
AN - SCOPUS:84869445247
SN - 0278-5846
VL - 40
SP - 312
EP - 325
JO - Progress in Neuro-Psychopharmacology and Biological Psychiatry
JF - Progress in Neuro-Psychopharmacology and Biological Psychiatry
IS - 1
ER -