de Jong S et al. BMC Genomics 2010, 11:20 http://www.biomedcentral.com/1471-2164/11/20 Author details 1Department of Medical Genetics and Rudolf Magnus Institute of Neuroscience, University Medical Center Utrecht, Universiteitsweg 100, 3584 CG Utrecht, The Netherlands. 2Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, California 90095, USA. 3Department of Biostatistics, School of Public Health, University of California, Los Angeles, California 90095, USA. 4Department of Neuroscience and Pharmacology, Rudolf Magnus Institute of Neuroscience, University Medical Center Utrecht, Universiteitsweg 100, 3584 CG Utrecht, The Netherlands. 5Center for Neurobehavioral Genetics, University of California, Los Angeles, CA 90095, USA. Authors’ contributions SDJ carried out dissections and molecular genetic studies, performed statistical analyses and sequence alignment, interpreted results and drafted manuscript. TFF provided statistical assistance carried out gene ontology analyses. EJ and ES provided technical assistance. SH provided oversight over statistical and gene ontology analyses. MJHK and RAO conceived of the study and participated in its design and coordination. All authors participated in completion of the manuscript. Received: 27 March 2009 Accepted: 11 January 2010 Published: 11 January 2010 References 1. Sotiriou C, Pusztai L: Gene-expression signatures in breast cancer. N Engl J Med 2009, 360(8):790-800. 2. Zhu J, Zhang B, Schadt EE: A systems biology approach to drug discovery. Adv Genet 2008, 60:603-635. 3. Sequeira A, Klempan T, Canetti L, ffrench-Mullen J, Benkelfat C, Rouleau GA, Turecki G: Patterns of gene expression in the limbic system of suicides with and without major depression. Mol Psychiatry 2007, 12(7):640-655. 4. Bourin M, Petit-Demouliere B, Dhonnchadha BN, Hascoet M: Animal models of anxiety in mice. Fundam Clin Pharmacol 2007, 21:567-574. 5. El Yacoubi M, Vaugeois JM: Genetic rodent models of depression. Curr Opin Pharmacol 2007, 7(1):3-7. 6. Kandel ER, Schwartz JH, Jessell TM: Principles of Neural Science. McGraw- Hill Companies, 4 2000. 7. West MJ: Stereological studies of the hippocampus: a comparison of the hippocampal subdivisions of diverse species including hedgehogs, laboratory rodents, wild mice and men. Prog Brain Res 1990, 83:13-36. 8. Oldham MC, Horvath S, Geschwind DH: Conservation and evolution of gene coexpression networks in human and chimpanzee brains. Proc Natl Acad Sci USA 2006, 103(47):17973-17978. 9. Strand AD, Aragaki AK, Baquet ZC, Hodges A, Cunningham P, Holmans P, Jones KR, Jones L, Kooperberg C, Olson JM: Conservation of regional gene expression in mouse and human brain. PLoS Genet 2007, 3(4):e59. 10. Wittenberg GM, Tsien JZ: An emerging molecular and cellular framework for memory processing by the hippocampus. Trends Neurosci 2002, 25(10):501-505. 11. Dolan RJ: Emotion, cognition, and behavior. Science 2002, 298(5596):1191- 1194. 12. Kempermann G, Krebs J, Fabel K: The contribution of failing adult hippocampal neurogenesis to psychiatric disorders. Curr Opin Psychiatry 2008, 21(3):290-295. 13. Krishnamoorthy ES: A differential role for the hippocampus and amygdala in neuropsychiatric disorders. J Neurol Neurosurg Psychiatry 2007, 78(11):1165-1166. 14. van Gaalen MM, Steckler T: Behavioural analysis of four mouse strains in an anxiety test battery. Behav Brain Res 2000, 115(1):95-106. 15. Frazer KA, Eskin E, Kang HM, Bogue MA, Hinds DA, Beilharz EJ, Gupta RV, Montgomery J, Morenzoni MM, Nilsen GB, et al: A sequence-based variation map of 8.27 million SNPs in inbred mouse strains. Nature 2007, 448(7157):1050-1053. 16. Goring HH, Curran JE, Johnson MP, Dyer TD, Charlesworth J, Cole SA, Jowett JB, Abraham LJ, Rainwater DL, Comuzzie AG, et al: Discovery of expression QTLs using large-scale transcriptional profiling in human lymphocytes. Nat Genet 2007, 39(10):1208-1216. 17. Stranger BE, Nica AC, Forrest MS, Dimas A, Bird CP, Beazley C, Ingle CE, Dunning M, Flicek P, Koller D, et al: Population genomics of human gene expression. Nat Genet 2007, 39(10):1217-1224. Page 13 of 14 18. Stranger BE, Forrest MS, Dunning M, Ingle CE, Beazley C, Thorne N, Redon R, Bird CP, de Grassi A, Lee C, et al: Relative impact of nucleotide and copy number variation on gene expression phenotypes. Science 2007, 315(5813):848-853. 19. Oleksiak MF, Churchill GA, Crawford DL: Variation in gene expression within and among natural populations. Nat Genet 2002, 32(2):261-266. 20. Storey JD, Madeoy J, Strout JL, Wurfel M, Ronald J, Akey JM: Gene- expression variation within and among human populations. Am J Hum Genet 2007, 80(3):502-509. 21. Spielman RS, Bastone LA, Burdick JT, Morley M, Ewens WJ, Cheung VG: Common genetic variants account for differences in gene expression among ethnic groups. Nat Genet 2007, 39(2):226-231. 22. Moy SS, Nadler JJ, Young NB, Perez A, Holloway LP, Barbaro RP, Barbaro JR, Wilson LM, Threadgill DW, Lauder JM, et al: Mouse behavioral tasks relevant to autism: phenotypes of 10 inbred strains. Behav Brain Res 2007, 176(1):4-20. 23. Kas MJ, de Mooij-van Malsen JG, de Krom M, van Gassen KL, van Lith HA, Olivier B, Oppelaar H, Hendriks J, de Wit M, Groot Koerkamp MJ, et al: High- resolution genetic mapping of mammalian motor activity levels in mice. Genes Brain Behav 2009, 8(1):13-22. 24. van Gassen KL, Hessel EV, Ramakers GM, Notenboom RG, Wolterink- Donselaar IG, Brakkee JH, Godschalk TC, Qiao X, Spruijt BM, van Nieuwenhuizen O, et al: Characterization of febrile seizures and febrile seizure susceptibility in mouse inbred strains. Genes Brain Behav 2008, 7(5):578-586. 25. Ghazalpour A, Doss S, Zhang B, Wang S, Plaisier C, Castellanos R, Brozell A, Schadt EE, Drake TA, Lusis AJ, et al: Integrating genetic and network analysis to characterize genes related to mouse weight. PLoS Genet 2006, 2(8):e130. 26. Langfelder P, Horvath S: WGCNA: an R package for weighted correlation network analysis. BMC Bioinformatics 2008, 9:559. 27. Shieh GS, Chen CM, Yu CY, Huang J, Wang WF, Lo YC: Inferring transcriptional compensation interactions in yeast via stepwise structure equation modeling. BMC Bioinformatics 2008, 9:134. 28. Stuart JM, Segal E, Koller D, Kim SK: A gene-coexpression network for global discovery of conserved genetic modules. Science 2003, 302(5643):249-255. 29. Zhang B, Horvath S: A general framework for weighted gene co- expression network analysis. Stat Appl Genet Mol Biol 2005, 4:Article 17. 30. Du P, Kibbe WA, Lin SM: lumi: a pipeline for processing Illumina microarray. Bioinformatics 2008, 24(13):1547-1548. 31. Li A, Horvath S: Network neighborhood analysis with the multi-node topological overlap measure. Bioinformatics 2007, 23(2):222-231. 32. Ravasz E, Somera AL, Mongru DA, Oltvai ZN, Barabasi AL: Hierarchical organization of modularity in metabolic networks. Science 2002, 297(5586):1551-1555. 33. Yip AM, Horvath S: Gene network interconnectedness and the generalized topological overlap measure. BMC Bioinformatics 2007, 8:22. 34. Langfelder P, Zhang B, Horvath S: Defining clusters from a hierarchical cluster tree: the Dynamic Tree Cut package for R. Bioinformatics 2008, 24(5):719-720. 35. Horvath S, Zhang B, Carlson M, Lu KV, Zhu S, Felciano RM, Laurance MF, Zhao W, Qi S, Chen Z, et al: Analysis of oncogenic signaling networks in glioblastoma identifies ASPM as a molecular target. Proc Natl Acad Sci USA 2006, 103(46):17402-17407. 36. Valdar W, Flint J, Mott R: Simulating the collaborative cross: power of quantitative trait loci detection and mapping resolution in large sets of recombinant inbred strains of mice. Genetics 2006, 172(3):1783-1797. 37. Zirlinger M: Selection and validation of microarray candidate genes from subregions and subnuclei of the brain. Methods 2003, 31(4):290-300. 38. Zirlinger M, Kreiman G, Anderson DJ: Amygdala-enriched genes identified by microarray technology are restricted to specific amygdaloid subnuclei. Proc Natl Acad Sci USA 2001, 98(9):5270-5275. 39. Stranger BE, Forrest MS, Clark AG, Minichiello MJ, Deutsch S, Lyle R, Hunt S, Kahl B, Antonarakis SE, Tavare S, et al: Genome-wide associations of gene expression variation in humans. PLoS Genet 2005, 1(6):e78. 40. Fernandes C, Paya-Cano JL, Sluyter F, D’Souza U, Plomin R, Schalkwyk LC: Hippocampal gene expression profiling across eight mouse inbred strains: towards understanding the molecular basis for behaviour. Eur J Neurosci 2004, 19(9):2576-2582.