Candidate genes for alcohol preference identified by expression profiling in alcohol-preferring and -nonpreferring reciprocal congenic rats

Genome Biology

Volumn 11, Issue 2, 2010, Pages

  Liang, Tiebing ^a   Kimpel, Mark W ^a   McClintick, Jeanette N ^a   Skillman, Ashley R ^a   McCall, Kevin ^b   Edenberg, Howard J ^a   Carr, Lucinda G ^a  

^a INDIANA UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b WASHINGTON UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALCOHOL;

ALCOHOL CONSUMPTION; AMYGDALOID NUCLEUS; ANIMAL TISSUE; ARTICLE; BRAIN REGION; CAUDATE NUCLEUS; CHROMOSOME 4; CONGENIC STRAIN; CONTROLLED STUDY; FRONTAL CORTEX; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENE IDENTIFICATION; HIPPOCAMPUS; INBRED STRAIN; MALE; NONHUMAN; NUCLEOTIDE SEQUENCE; NUCLEUS ACCUMBENS; PUTAMEN; QUANTITATIVE TRAIT LOCUS; RAT; ANIMAL; BRAIN; CHROMOSOME; DRINKING BEHAVIOR; FEMALE; FOOD PREFERENCE; GENETICS; METABOLISM; WISTAR RAT;

RATTUS;

ALCOHOL DRINKING; ANIMALS; ANIMALS, CONGENIC; BRAIN; CHROMOSOMES, MAMMALIAN; FEMALE; FOOD PREFERENCES; GENE EXPRESSION PROFILING; MALE; QUANTITATIVE TRAIT LOCI; RATS; RATS, WISTAR;

EID: 77953225347     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2010-11-2-r11     Document Type: Article

References (101)

1. Heath AC, Bucholz KK, Madden PA, Dinwiddie SH, Slutske WS, Bierut LJ, Statham DJ, Dunne MP, Whitfield JB, Martin NG. Genetic and environmental contributions to alcohol dependence risk in a national twin sample: consistency of findings in women and men. Psychol Med 1997, 27:1381-1396.
2. Kendler KS, Neale MC, Heath AC, Kessler RC, Eaves LJ. A twin-family study of alcoholism in women. Am J Psychiatry 1994, 151:707-715.
3. Pickens RW, Svikis DS, McGue M, Lykken DT, Heston LL, Clayton PJ. Heterogeneity in the inheritance of alcoholism. A study of male and female twins. Arch Gen Psychiatry 1991, 48:19-28.
4. Covault J, Gelernter J, Hesselbrock V, Nellissery M, Kranzler HR. Allelic and haplotypic association of GABRA2 with alcohol dependence. Am J Med Genet B Neuropsychiatr Genet. 2004, 129B:104-109.
5. Edenberg HJ, Dick DM, Xuei X, Tian H, Almasy L, Bauer LO, Crowe RR, Goate A, Hesselbrock V, Jones K, Kwon J, Li TK, Nurnberger JI, O'Connor SJ, Reich T, Rice J, Schuckit MA, Porjesz B, Foroud T, Begleiter H. Variations in GABRA2, encoding the alpha 2 subunit of the GABA(A) receptor, are associated with alcohol dependence and with brain oscillations. Am J Hum Genet 2004, 74:705-714. 1181946, 15024690.
6. Fehr C, Sander T, Tadic A, Lenzen KP, Anghelescu I, Klawe C, Dahmen N, Schmidt LG, Szegedi A. Confirmation of association of the GABRA2 gene with alcohol dependence by subtype-specific analysis. Psychiatr Genet 2006, 16:9-17.
7. Lappalainen J, Krupitsky E, Remizov M, Pchelina S, Taraskina A, Zvartau E, Somberg LK, Covault J, Kranzler HR, Krystal JH, Gelernter J. Association between alcoholism and gamma-amino butyric acid alpha2 receptor subtype in a Russian population. Alcohol Clin Exp Res 2005, 29:493-498.
8. Enoch MA, Hodgkinson CA, Yuan Q, Albaugh B, Virkkunen M, Goldman D. GABRG1 and GABRA2 as independent predictors for alcoholism in two populations. Neuropsychopharmacology 2008, 34:1245-1254.
9. Kramer JR, Chan G, Dick DM, Kuperman S, Bucholz KK, Edenberg HJ, Polgreen LA, Hesselbrock VM, Schuckit MA, Nurnberger JI, Kapp ES, Porjesz B, Bierut LJ. Multiple-domain predictors of problematic alcohol use in young adulthood. J Stud Alcohol Drugs 2008, 69:649-659. 2575389, 18781239.
10. Agrawal A, Edenberg HJ, Foroud T, Bierut LJ, Dunne G, Hinrichs AL, Nurnberger JI, Crowe R, Kuperman S, Schuckit MA, Begleiter H, Porjesz B, Dick DM. Association of GABRA2 with drug dependence in the collaborative study of the genetics of alcoholism sample. Behav Genet 2006, 36:640-650.
11. Dick DM, Bierut L, Hinrichs A, Fox L, Bucholz KK, Kramer J, Kuperman S, Hesselbrock V, Schuckit M, Almasy L, Tischfield J, Porjesz B, Begleiter H, Nurnberger J, Xuei X, Edenberg HJ, Foroud T. The role of GABRA2 in risk for conduct disorder and alcohol and drug dependence across developmental stages. Behav Genet 2006, 36:577-590.
12. Edenberg HJ, Xuei X, Chen HJ, Tian H, Wetherill LF, Dick DM, Almasy L, Bierut L, Bucholz KK, Goate A, Hesselbrock V, Kuperman S, Nurnberger J, Porjesz B, Rice J, Schuckit M, Tischfield J, Begleiter H, Foroud T. Association of alcohol dehydrogenase genes with alcohol dependence: a comprehensive analysis. Hum Mol Genet 2006, 15:1539-1549.
13. Guindalini C, Scivoletto S, Ferreira RG, Breen G, Zilberman M, Peluso MA, Zatz M. Association of genetic variants in alcohol dehydrogenase 4 with alcohol dependence in Brazilian patients. Am J Psychiatry 2005, 162:1005-1007.
14. Luo X, Kranzler HR, Zuo L, Yang BZ, Lappalainen J, Gelernter J. ADH4 gene variation is associated with alcohol and drug dependence: results from family controlled and population-structured association studies. Pharmacogenet Genomics 2005, 15:755-768.
15. Luo X, Kranzler HR, Zuo L, Wang S, Blumberg HP, Gelernter J. CHRM2 gene predisposes to alcohol dependence, drug dependence and affective disorders: results from an extended case-control structured association study. Hum Mol Genet 2005, 14:2421-2434.
16. Wang JC, Hinrichs AL, Stock H, Budde J, Allen R, Bertelsen S, Kwon JM, Wu W, Dick DM, Rice J, Jones K, Nurnberger JI, Tischfield J, Porjesz B, Edenberg HJ, Hesselbrock V, Crowe R, Schuckit M, Begleiter H, Reich T, Goate AM, Bierut LJ. Evidence of common and specific genetic effects: association of the muscarinic acetylcholine receptor M2 (CHRM2) gene with alcohol dependence and major depressive syndrome. Hum Mol Genet 2004, 13:1903-1911.
17. Ducci F, Goldman D. Genetic approaches to addiction: genes and alcohol. Addiction 2008, 103:1414-1428. 2665791, 18422824.
18. Edenberg HJ, Foroud T. The genetics of alcoholism: identifying specific genes through family studies. Addict Biol 2006, 11:386-396.
19. Hinrichs AL, Wang JC, Bufe B, Kwon JM, Budde J, Allen R, Bertelsen S, Evans W, Dick D, Rice J, Foroud T, Nurnberger J, Tischfield JA, Kuperman S, Crowe R, Hesselbrock V, Schuckit M, Almasy L, Porjesz B, Edenberg HJ, Begleiter H, Meyerhof W, Bierut LJ, Goate AM. Functional variant in a bitter-taste receptor (hTAS2R16) influences risk of alcohol dependence. Am J Hum Genet 2006, 78:103-111. 1380207, 16385453.
20. Wang JC, Hinrichs AL, Bertelsen S, Stock H, Budde JP, Dick DM, Bucholz KK, Rice J, Saccone N, Edenberg HJ, Hesselbrock V, Kuperman S, Schuckit MA, Bierut LJ, Goate AM. Functional variants in TAS2R38 and TAS2R16 influence alcohol consumption in high-risk families of African-American origin. Alcohol Clin Exp Res 2007, 31:209-215.
21. Xu K, Anderson TR, Neyer KM, Lamparella N, Jenkins G, Zhou Z, Yuan Q, Virkkunen M, Lipsky RH. Nucleotide sequence variation within the human tyrosine kinase B neurotrophin receptor gene: association with antisocial alcohol dependence. Pharmacogenomics J 2007, 7:368-379. 2099305, 17200667.
22. Dick DM, Edenberg HJ, Xuei X, Goate A, Kuperman S, Schuckit M, Crowe R, Smith TL, Porjesz B, Begleiter H, Foroud T. Association of GABRG3 with alcohol dependence. Alcohol Clin Exp Res 2004, 28:4-9.
23. Dick DM, Plunkett J, Wetherill LF, Xuei X, Goate A, Hesselbrock V, Schuckit M, Crowe R, Edenberg HJ, Foroud T. Association between GABRA1 and drinking behaviors in the collaborative study on the genetics of alcoholism sample. Alcohol Clin Exp Res 2006, 30:1101-1110.
24. Xuei X, Dick D, Flury-Wetherill L, Tian HJ, Agrawal A, Bierut L, Goate A, Bucholz K, Schuckit M, Nurnberger J, Tischfield J, Kuperman S, Porjesz B, Begleiter H, Foroud T, Edenberg HJ. Association of the kappa-opioid system with alcohol dependence. Mol Psychiatry 2006, 11:1016-1024.
25. Edenberg HJ, Wang J, Tian H, Pochareddy S, Xuei X, Wetherill L, Goate A, Hinrichs T, Kuperman S, Nurnberger JI, Schuckit M, Tischfield JA, Foroud T. A regulatory variation in OPRK1, the gene encoding the kappa-opioid receptor, is associated with alcohol dependence. Hum Mol Genet 2008, 17:1783-1789. 2405904, 18319328.
26. Edenberg HJ, Xuei X, Wetherill LF, Bierut L, Bucholz K, Dick DM, Hesselbrock V, Kuperman S, Porjesz B, Schuckit MA, Tischfield JA, Almasy LA, Nurnberger JI, Foroud T. Association of NFKB1, which encodes a subunit of the transcription factor NF-kappaB, with alcohol dependence. Hum Mol Genet 2008, 17:963-970.
27. Dick DM, Wang JC, Plunkett J, Aliev F, Hinrichs A, Bertelsen S, Budde JP, Goldstein EL, Kaplan D, Edenberg HJ, Nurnberger J, Hesselbrock V, Schuckit M, Kuperman S, Tischfield J, Porjesz B, Begleiter H, Bierut LJ, Goate A. Family-based association analyses of alcohol dependence phenotypes across DRD2 and neighboring gene ANKK1. Alcohol Clin Exp Res 2007, 31:1645-1653.
28. Dick DM, Aliev F, Wang JC, Saccone S, Hinrichs A, Bertelsen S, Budde J, Saccone N, Foroud T, Nurnberger J, Xuei X, Conneally PM, Schuckit M, Almasy L, Crowe R, Kuperman S, Kramer J, Tischfield JA, Hesselbrock V, Edenberg HJ, Porjesz B, Rice JP, Bierut L, Goate A. A systematic single nucleotide polymorphism screen to fine-map alcohol dependence genes on chromosome 7 identifies association with a novel susceptibility gene ACN9. Biol Psychiatry 2008, 63:1047-1053.
29. Foroud T, Wetherill LF, Kramer J, Tischfield JA, Nurnberger JI, Schuckit MA, Xuei X, Edenberg HJ. The tachykinin receptor 3 is associated with alcohol and cocaine dependence. Alcohol Clin Exp Res 2008, 32:1023-1030. 2430628, 18422838.
30. Wang JC, Grucza R, Cruchaga C, Hinrichs AL, Bertelsen S, Budde JP, Fox L, Goldstein E, Reyes O, Saccone N, Saccone S, Xuei X, Bucholz K, Kuperman S, Nurnberger J, Rice JP, Schuckit M, Tischfield J, Hesselbrock V, Porjesz B, Edenberg HJ, Bierut LJ, Goate AM. Genetic variation in the CHRNA5 gene affects mRNA levels and is associated with risk for alcohol dependence. Mol Psychiatry 2008, 14:501-510.
31. Foroud T, Wetherill LF, Liang T, Dick DM, Hesselbrock V, Kramer J, Nurnberger J, Schuckit M, Carr L, Porjesz B, Xuei X, Edenberg HJ. Association of alcohol craving with alpha-synuclein (SNCA). Alcohol Clin Exp Res 2007, 31:537-545.
32. Karvonen MK, Pesonen U, Koulu M, Niskanen L, Laakso M, Rissanen A, Dekker JM, Hart LM, Valve R, Uusitupa MI. Association of a leucine(7)-to-proline(7) polymorphism in the signal peptide of neuropeptide Y with high serum cholesterol and LDL cholesterol levels. Nat Med 1998, 4:1434-1437.
33. Lappalainen J, Kranzler HR, Malison R, Price LH, Van Dyck C, Rosenheck RA, Cramer J, Southwick S, Charney D, Krystal J, Gelernter J. A functional neuropeptide Y Leu7Pro polymorphism associated with alcohol dependence in a large population sample from the United States. Arch Gen Psychiatry 2002, 59:825-831.
34. Wetherill L, Schuckit MA, Hesselbrock V, Xuei X, Liang T, Dick DM, Kramer J, Nurnberger JI, Tischfield JA, Porjesz B, Edenberg HJ, Foroud T. Neuropeptide Y receptor genes are associated with alcohol dependence, alcohol withdrawal phenotypes, and cocaine dependence. Alcohol Clin Exp Res 2008, 32:2031-2040. 2650441, 18828811.
35. Mulligan MK, Ponomarev I, Hitzemann RJ, Belknap JK, Tabakoff B, Harris RA, Crabbe JC, Blednov YA, Grahame NJ, Phillips TJ, Finn DA, Hoffman PL, Iyer VR, Koob GF, Bergeson SE. Toward understanding the genetics of alcohol drinking through transcriptome meta-analysis. Proc Natl Acad Sci USA 2006, 103:6368-6373. 1458884, 16618939.
36. Li TK, Lumeng L, Doolittle DP, Carr LG. Molecular associations of alcohol-seeking behavior in rat lines selectively bred for high and low voluntary ethanol drinking. Alcohol Alcohol Suppl 1991, 1:121-124.
37. Murphy JM, Stewart RB, Bell RL, Badia-Elder NE, Carr LG, McBride WJ, Lumeng L, Li TK. Phenotypic and genotypic characterization of the Indiana University rat lines selectively bred for high and low alcohol preference. Behav Genet 2002, 32:363-388.
38. Grisel JE, Metten P, Wenger CD, Merrill CM, Crabbe JC. Mapping of quantitative trait loci underlying ethanol metabolism in BXD recombinant inbred mouse strains. Alcohol Clin Exp Res 2002, 26:610-616.
39. Cicero T. A critique of animal analogues of alcoholism. Biochemistry and Pharmacology of Ethanol 1979, 2:533-560. New York: Plenum Press, Majchrowicz E, Noble EP.
40. Li TK, Lumeng L, Doolittle DP. Selective breeding for alcohol preference and associated responses. Behav Genet 1993, 23:163-170.
41. Carr LG, Foroud T, Bice P, Gobbett T, Ivashina J, Edenberg H, Lumeng L, Li TK. A quantitative trait locus for alcohol consumption in selectively bred rat lines. Alcohol Clin Exp Res 1998, 22:884-887.
42. Liang T, Spence J, Liu L, Strother WN, Chang HW, Ellison JA, Lumeng L, Li TK, Foroud T, Carr LG. alpha-Synuclein maps to a quantitative trait locus for alcohol preference and is differentially expressed in alcohol-preferring and -nonpreferring rats. Proc Natl Acad Sci USA 2003, 100:4690-4695. 153617, 12665621.
43. Spence JP, Liang T, Habegger K, Carr LG. Effect of polymorphism on expression of the neuropeptide Y gene in inbred alcohol-preferring and -nonpreferring rats. Neuroscience 2005, 131:871-876.
44. Carr LG, Habegger K, Spence JP, Liu L, Lumeng L, Foroud T. Development of congenic rat strains for alcohol consumption derived from the alcohol-preferring and nonpreferring rats. Behav Genet 2006, 36:285-290.
45. Hitzemann R, Reed C, Malmanger B, Lawler M, Hitzemann B, Cunningham B, McWeeney S, Belknap J, Harrington C, Buck K, Phillips T, Crabbe J. On the integration of alcohol-related quantitative trait loci and gene expression analyses. Alcohol Clin Exp Res 2004, 28:1437-1448.
46. Hoffman P, Tabakoff B. Gene expression in animals with different acute responses to ethanol. Addict Biol 2005, 10:63-69.
47. Carr LG, Kimpel MW, Liang T, McClintick JN, McCall K, Morse M, Edenberg HJ. Identification of candidate genes for alcohol preference by expression profiling of congenic rat strains. Alcohol Clin Exp Res 2007, 31:1089-1098.
48. Bonci A, Bernardi G, Grillner P, Mercuri NB. The dopamine-containing neuron: maestro or simple musician in the orchestra of addiction?. Trends Pharmacol Sci 2003, 24:172-177.
49. Maldonado R. The neurobiology of addiction. J Neural Transm Suppl 2003, 1-14.
50. Sternby B, Barros H, Nilsson A. In vitro effects of ethanol on human gastric and pancreatic lipolytic activities/enzymes. Scand J Gastroenterol 1996, 31:146-153.
51. Szumlinski KK, Ary AW, Lominac KD. Homers regulate drug-induced neuroplasticity: implications for addiction. Biochem Pharmacol 2008, 75:112-133. 2204062, 17765204.
52. Deng Y, Wang Z, Gu S, Ji C, Ying K, Xie Y, Mao Y. Cloning and characterization of a novel human alcohol dehydrogenase gene (ADHFe1). DNA Seq 2002, 13:301-306.
53. Valjent E, Pascoli V, Svenningsson P, Paul S, Enslen H, Corvol JC, Stipanovich A, Caboche J, Lombroso PJ, Nairn AC, Greengard P, Herve D, Girault JA. Regulation of a protein phosphatase cascade allows convergent dopamine and glutamate signals to activate ERK in the striatum. Proc Natl Acad Sci USA 2005, 102:491-496. 544317, 15608059.
54. Rodd ZA, Kimpel MW, Edenberg HJ, Bell RL, Strother WN, McClintick JN, Carr LG, Liang T, McBride WJ. Differential gene expression in the nucleus accumbens with ethanol self-administration in inbred alcohol-preferring rats. Pharmacol Biochem Behav 2008, 89:481-498.
55. Treadwell JA, Singh SM. Microarray analysis of mouse brain gene expression following acute ethanol treatment. Neurochem Res 2004, 29:357-369.
56. Hwang CK, Wu X, Wang G, Kim CS, Loh HH. Mouse mu opioid receptor distal promoter transcriptional regulation by SOX proteins. J Biol Chem 2003, 278:3742-3750.
57. Wei LN, Loh HH. Regulation of opioid receptor expression. Curr Opin Pharmacol 2002, 2:69-75.
58. Kimpel MW, Strother WN, McClintick JN, Carr LG, Liang T, Edenberg HJ, McBride WJ. Functional gene expression differences between inbred alcohol-preferring and -non-preferring rats in five brain regions. Alcohol 2007, 41:95-132. 1976291, 17517326.
59. Rodd ZA, Bertsch BA, Strother WN, Le-Niculescu H, Balaraman Y, Hayden E, Jerome RE, Lumeng L, Nurnberger JI, Edenberg HJ, McBride WJ, Niculescu AB. Candidate genes, pathways and mechanisms for alcoholism: an expanded convergent functional genomics approach. Pharmacogenomics J 2007, 7:222-256.
60. Edenberg HJ, Strother WN, McClintick JN, Tian H, Stephens M, Jerome RE, Lumeng L, Li TK, McBride WJ. Gene expression in the hippocampus of inbred alcohol-preferring and -nonpreferring rats. Genes Brain Behav 2005, 4:20-30.
61. Arlinde C, Sommer W, Bjork K, Reimers M, Hyytia P, Kiianmaa K, Heilig M. A cluster of differentially expressed signal transduction genes identified by microarray analysis in a rat genetic model of alcoholism. Pharmacogenomics J 2004, 4:208-218.
62. Worst TJ, Tan JC, Robertson DJ, Freeman WM, Hyytia P, Kiianmaa K, Vrana KE. Transcriptome analysis of frontal cortex in alcohol-preferring and nonpreferring rats. J Neurosci Res 2005, 80:529-538.
63. Qin B, He M, Chen X, Pei D. Sorting nexin 10 induces giant vacuoles in mammalian cells. J Biol Chem 2006, 281:36891-36896.
64. Milstien S, Kaufman S. Immunological studies on the participation of 6-pyruvoyl tetrahydropterin (2'-oxo) reductase, an aldose reductase, in tetrahydrobiopterin biosynthesis. Biochem Biophys Res Commun 1989, 165:845-850.
65. Iino T, Tabata M, Takikawa S, Sawada H, Shintaku H, Ishikura S, Hara A. Tetrahydrobiopterin is synthesized from 6-pyruvoyl-tetrahydropterin by the human aldo-keto reductase AKR1 family members. Arch Biochem Biophys 2003, 416:180-187.
66. Park YS, Heizmann CW, Wermuth B, Levine RA, Steinerstauch P, Guzman J, Blau N. Human carbonyl and aldose reductases: new catalytic functions in tetrahydrobiopterin biosynthesis. Biochem Biophys Res Commun 1991, 175:738-744.
67. Sommer W, Arlinde C, Caberlotto L, Thorsell A, Hyytia P, Heilig M. Differential expression of diacylglycerol kinase iota and L18A mRNAs in the brains of alcohol-preferring AA and alcohol-avoiding ANA rats. Mol Psychiatry 2001, 6:103-108. 105..
68. Ding L, Traer E, McIntyre TM, Zimmerman GA, Prescott SM. The cloning and characterization of a novel human diacylglycerol kinase, DGKiota. J Biol Chem 1998, 273:32746-32752.
69. Sasaki H, Hozumi Y, Hasegawa H, Ito T, Takagi M, Ogino T, Watanabe M, Goto K. Gene expression and localization of diacylglycerol kinase isozymes in the rat spinal cord and dorsal root ganglia. Cell Tissue Res 2006, 326:35-42.
70. Newton PM, Messing RO. Intracellular signaling pathways that regulate behavioral responses to ethanol. Pharmacol Ther 2006, 109:227-237.
71. Satoh M, Shimada A, Kashiwai A, Saga S, Hosokawa M. Differential cooperative enzymatic activities of protein disulfide isomerase family in protein folding. Cell Stress Chaperones 2005, 10:211-220. 1226019, 16184766.
72. Heilig M. The NPY system in stress, anxiety and depression. Neuropeptides 2004, 38:213-224.
73. Hokfelt T, Stanic D, Sanford SD, Gatlin JC, Nilsson I, Paratcha G, Ledda F, Fetissov S, Lindfors C, Herzog H, Johansen JE, Ubink R, Pfenninger KH. NPY and its involvement in axon guidance, neurogenesis, and feeding. Nutrition 2008, 24:860-868.
74. Caberlotto L, Thorsell A, Rimondini R, Sommer W, Hyytia P, Heilig M. Differential expression of NPY and its receptors in alcohol-preferring AA and alcohol-avoiding ANA rats. Alcohol Clin Exp Res 2001, 25:1564-1569.
75. Badia-Elder NE, Stewart RB, Powrozek TA, Roy KF, Murphy JM, Li TK. Effect of neuropeptide Y (NPY) on oral ethanol intake in Wistar, alcohol-preferring (P), and -nonpreferring (NP) rats. Alcohol Clin Exp Res 2001, 25:386-390.
76. Bonsch D, Lederer T, Reulbach U, Hothorn T, Kornhuber J, Bleich S. Joint analysis of the NACP-REP1 marker within the alpha synuclein gene concludes association with alcohol dependence. Hum Mol Genet 2005, 14:967-971.
77. Bonsch D, Greifenberg V, Bayerlein K, Biermann T, Reulbach U, Hillemacher T, Kornhuber J, Bleich S. Alpha-synuclein protein levels are increased in alcoholic patients and are linked to craving. Alcohol Clin Exp Res 2005, 29:763-765.
78. Bonsch D, Reulbach U, Bayerlein K, Hillemacher T, Kornhuber J, Bleich S. Elevated alpha synuclein mRNA levels are associated with craving in patients with alcoholism. Biol Psychiatry 2004, 56:984-986.
79. Takahashi T, Yamashita H, Nagano Y, Nakamura T, Ohmori H, Avraham H, Avraham S, Yasuda M, Matsumoto M. Identification and characterization of a novel Pyk2/related adhesion focal tyrosine kinase-associated protein that inhibits alpha-synuclein phosphorylation. J Biol Chem 2003, 278:42225-42233.
80. Nakamura T, Yamashita H, Takahashi T, Nakamura S. Activated Fyn phosphorylates alpha-synuclein at tyrosine residue 125. Biochem Biophys Res Commun 2001, 280:1085-1092.
81. Miyakawa T, Yagi T, Kitazawa H, Yasuda M, Kawai N, Tsuboi K, Niki H. Fyn-kinase as a determinant of ethanol sensitivity: relation to NMDA-receptor function. Science 1997, 278:698-701.
82. Lander ES, Green P, Abrahamson J, Barlow A, Daly MJ, Lincoln SE, Newberg LA. MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1987, 1:174-181.
83. Darvasi A, Soller M. A simple method to calculate resolving power and confidence interval of QTL map location. Behav Genet 1997, 27:125-132.
84. Liang T, Habegger K, Spence JP, Foroud T, Ellison JA, Lumeng L, Li TK, Carr LG. Glutathione S-transferase 8-8 expression is lower in alcohol-preferring than in alcohol-nonpreferring rats. Alcohol Clin Exp Res 2004, 28:1622-1628.
85. Barrett T, Suzek TO, Troup DB, Wilhite SE, Ngau WC, Ledoux P, Rudnev D, Lash AE, Fujibuchi W, Edgar R. NCBI GEO: mining millions of expression profiles--database and tools. Nucleic Acids Res 2005, 33:D562-566. 539976, 15608262.
86. Edgar R, Domrachev M, Lash AE. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res 2002, 30:207-210. 99122, 11752295.
87. GSE15415. , http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?token=bvajpccgsqgewfy&;acc=GSE15415
88. Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol 2004, 5:R80. 545600, 15461798.
89. Bolstad BM, Irizarry RA, Astrand M, Speed TP. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003, 19:185-193.
90. Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, Speed TP. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 2003, 4:249-264.
91. Smyth GK. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol. 2004, 3:Article3 [Epub 2004].
92. Benjamini Y, Hochberg Y. Controlling the false discovery rate: A practical and powerful approach to multiple testing. J Royal Stat Soc (B) 1995, 57:289-290.
93. McClintick JN, Edenberg HJ. Effects of filtering by Present call on analysis of microarray experiments. BMC Bioinformatics 2006, 7:49. 1409797, 16448562.
94. Rostoks N, Borevitz JO, Hedley PE, Russell J, Mudie S, Morris J, Cardle L, Marshall DF, Waugh R. Single-feature polymorphism discovery in the barley transcriptome. Genome Biol 2005, 6:R54. 1175974, 15960806.
95. Bolstad BM, Collin F, Brettschneider J, Simpson K, Cope L, Irizarry RA, Speed TP. Applying the software routines for quality assessment. Quality Assessment of Affymetrix GeneChip Data in Bioinformatics and Computational Biology Solutions Using R and Bioconductor 2005, 33-47. New York: Springer, Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S.
96. Brettschneider J, Collin F, Bolstad BM, Speed TP. Quality assessment for short oligonucleotide microarray data. Technometrics 2008, 50:241-264.
97. Affymetrix. , http://www.affymetrix.com/index.affx
98. National Center for Biotechnology Information. , http://www.ncbi.nlm.nih.gov/
99. Applied Biosystems. , http://www.appliedbiosystems.com
100. Ingenuity Systems. , http://www.ingenuity.com/
101. Bice P, Foroud T, Bo R, Castelluccio P, Lumeng L, Li TK, Carr LG. Genomic screen for QTLs underlying alcohol consumption in the P and NP rat lines. Mamm Genome 1998, 9:949-955.