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Volumn 6, Issue 4, 2010, Pages

New insights into the genetic control of gene expression using a bayesian multi-tissue approach

Author keywords

[No Author keywords available]

Indexed keywords

GENE EXPRESSION; GENE EXPRESSION REGULATION; HISTOLOGY; REGRESSION ANALYSIS; STATISTICAL TESTS;

EID: 77952588387     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1000737     Document Type: Article
Times cited : (58)

References (52)
  • 1
    • 0037177625 scopus 로고    scopus 로고
    • Genetic dissection of transcriptional regulation in budding yeast
    • Brem RB, Yvert G, Clinton R, Kruglyak L (2002) Genetic dissection of transcriptional regulation in budding yeast. Science 296: 752-755.
    • (2002) Science , vol.296 , pp. 752-755
    • Brem, R.B.1    Yvert, G.2    Clinton, R.3    Kruglyak, L.4
  • 3
    • 20144377218 scopus 로고    scopus 로고
    • Integrated transcriptional profiling and linkage analysis for identification of genes underlying disease
    • Hubner N, Wallace CA, Zimdahl H, Petretto E, Schulz H, et al. (2005) Integrated transcriptional profiling and linkage analysis for identification of genes underlying disease. Nat Genet 37: 243-253.
    • (2005) Nat Genet , vol.37 , pp. 243-253
    • Hubner, N.1    Wallace, C.A.2    Zimdahl, H.3    Petretto, E.4    Schulz, H.5
  • 4
    • 20144386111 scopus 로고    scopus 로고
    • Complex trait analysis of gene expression uncovers polygenic and pleiotropic networks that modulate nervous system function
    • Chesler EJ, Lu L, Shou S, Qu Y, Gu J, et al. (2005) Complex trait analysis of gene expression uncovers polygenic and pleiotropic networks that modulate nervous system function. Nat Genet 37: 233-242.
    • (2005) Nat Genet , vol.37 , pp. 233-242
    • Chesler, E.J.1    Lu, L.2    Shou, S.3    Qu, Y.4    Gu, J.5
  • 5
    • 34548719076 scopus 로고    scopus 로고
    • Discovery of expression QTLs using large-scale transcriptional profiling in human lymphocytes
    • Goring HH, Curran JE, Johnson MP, Dyer TD, Charlesworth J, et al. (2007) Discovery of expression QTLs using large-scale transcriptional profiling in human lymphocytes. Nat Genet 39: 1208-1216.
    • (2007) Nat Genet , vol.39 , pp. 1208-1216
    • Goring, H.H.1    Curran, J.E.2    Johnson, M.P.3    Dyer, T.D.4    Charlesworth, J.5
  • 6
    • 34548805282 scopus 로고    scopus 로고
    • A genome-wide association study of global gene expression
    • Dixon AL, Liang L, Moffatt MF, Chen W, Heath S, et al. (2007) A genome-wide association study of global gene expression. Nat Genet 39: 1202-1207.
    • (2007) Nat Genet , vol.39 , pp. 1202-1207
    • Dixon, A.L.1    Liang, L.2    Moffatt, M.F.3    Chen, W.4    Heath, S.5
  • 7
    • 45149108420 scopus 로고    scopus 로고
    • Mapping the genetic architecture of gene expression in human liver
    • Schadt EE, Molony C, Chudin E, Hao K, Yang X, et al. (2008) Mapping the genetic architecture of gene expression in human liver. PLoS Biol 6: e107.
    • (2008) PLoS Biol , vol.6
    • Schadt, E.E.1    Molony, C.2    Chudin, E.3    Hao, K.4    Yang, X.5
  • 9
    • 20144383240 scopus 로고    scopus 로고
    • Uncovering regulatory pathways that affect hematopoietic stem cell function using 'genetical genomics'
    • Bystrykh L, Weersing E, Dontje B, Sutton S, Pletcher MT, et al. (2005) Uncovering regulatory pathways that affect hematopoietic stem cell function using 'genetical genomics'. Nat Genet 37: 225-232.
    • (2005) Nat Genet , vol.37 , pp. 225-232
    • Bystrykh, L.1    Weersing, E.2    Dontje, B.3    Sutton, S.4    Pletcher, M.T.5
  • 10
    • 47249142778 scopus 로고    scopus 로고
    • Revealing the architecture of gene regulation: The promise of eQTL studies
    • Gilad Y, Rifkin SA, Pritchard JK (2008) Revealing the architecture of gene regulation: the promise of eQTL studies. Trends Genet 24: 408-415.
    • (2008) Trends Genet , vol.24 , pp. 408-415
    • Gilad, Y.1    Rifkin, S.A.2    Pritchard, J.K.3
  • 12
    • 34548364227 scopus 로고    scopus 로고
    • Identification of pathways for atherosclerosis in mice: Integration of quantitative trait locus analysis and global gene expression data
    • Wang SS, Schadt EE, Wang H, Wang X, Ingram-Drake L, et al. (2007) Identification of pathways for atherosclerosis in mice: integration of quantitative trait locus analysis and global gene expression data. Circ Res 101: e11-30.
    • (2007) Circ Res , vol.101
    • Wang, S.S.1    Schadt, E.E.2    Wang, H.3    Wang, X.4    Ingram-Drake, L.5
  • 13
    • 42649125570 scopus 로고    scopus 로고
    • Integrated genomic approaches implicate osteoglycin (Ogn) in the regulation of left ventricular mass
    • Petretto E, Sarwar R, Grieve I, Lu H, Kumaran MK, et al. (2008) Integrated genomic approaches implicate osteoglycin (Ogn) in the regulation of left ventricular mass. Nat Genet 40: 546-552.
    • (2008) Nat Genet , vol.40 , pp. 546-552
    • Petretto, E.1    Sarwar, R.2    Grieve, I.3    Lu, H.4    Kumaran, M.K.5
  • 14
    • 34249055193 scopus 로고    scopus 로고
    • Global eQTL mapping reveals the complex genetic architecture of transcript-level variation in Arabidopsis
    • West MA, Kim K, Kliebenstein DJ, van Leeuwen H, Michelmore RW, et al. (2007) Global eQTL mapping reveals the complex genetic architecture of transcript-level variation in Arabidopsis. Genetics 175: 1441-1450.
    • (2007) Genetics , vol.175 , pp. 1441-1450
    • West, M.A.1    Kim, K.2    Kliebenstein, D.J.3    van Leeuwen, H.4    Michelmore, R.W.5
  • 15
    • 53549102507 scopus 로고    scopus 로고
    • Tissue-dependent limited pleiotropy affects gene expression in barley
    • Potokina E, Druka A, Luo Z, Moscou M, Wise R, et al. (2008) Tissue-dependent limited pleiotropy affects gene expression in barley. Plant J 56: 287-296.
    • (2008) Plant J , vol.56 , pp. 287-296
    • Potokina, E.1    Druka, A.2    Luo, Z.3    Moscou, M.4    Wise, R.5
  • 18
    • 33746681910 scopus 로고    scopus 로고
    • Tissue-specific expression and regulation of sexually dimorphic genes in mice
    • Yang X, Schadt EE, Wang S, Wang H, Arnold AP, et al. (2006) Tissue-specific expression and regulation of sexually dimorphic genes in mice. Genome Res 16: 995-1004.
    • (2006) Genome Res , vol.16 , pp. 995-1004
    • Yang, X.1    Schadt, E.E.2    Wang, S.3    Wang, H.4    Arnold, A.P.5
  • 19
    • 34447505156 scopus 로고    scopus 로고
    • DNA variation and brain region-specific expression profiles exhibit different relationships between inbred mouse strains: Implications for eQTL mapping studies
    • Hovatta I, Zapala MA, Broide RS, Schadt EE, Libiger O, et al. (2007) DNA variation and brain region-specific expression profiles exhibit different relationships between inbred mouse strains: implications for eQTL mapping studies. Genome Biol 8: R25.
    • (2007) Genome Biol , vol.8
    • Hovatta, I.1    Zapala, M.A.2    Broide, R.S.3    Schadt, E.E.4    Libiger, O.5
  • 21
    • 67650865944 scopus 로고    scopus 로고
    • Multi-tissue coexpression networks reveal unexpected subnetworks associated with disease
    • Dobrin R, Zhu J, Molony C, Argman C, Parrish ML, et al. (2009) Multi-tissue coexpression networks reveal unexpected subnetworks associated with disease. Genome Biol 10: R55.
    • (2009) Genome Biol , vol.10
    • Dobrin, R.1    Zhu, J.2    Molony, C.3    Argman, C.4    Parrish, M.L.5
  • 22
    • 0001287271 scopus 로고    scopus 로고
    • Regression shrinkage and selection via the lasso
    • Tibshirani R (1996) Regression shrinkage and selection via the lasso. J Royal Statist Soc B 58: 267-288.
    • (1996) J Royal Statist Soc B , vol.58 , pp. 267-288
    • Tibshirani, R.1
  • 24
    • 70149098541 scopus 로고    scopus 로고
    • Statistical estimation of correlated genome associations to a quantitative trait network
    • Kim S, Xing EP (2009) Statistical estimation of correlated genome associations to a quantitative trait network. PLoS Genet 5: e1000587.
    • (2009) PLoS Genet , vol.5
    • Kim, S.1    Xing, E.P.2
  • 25
    • 18844452395 scopus 로고    scopus 로고
    • Mapping multiple Quantitative Trait Loci by Bayesian classification
    • Zhang M, Montooth KL, Wells MT, Clark AG, Zhang D (2005) Mapping multiple Quantitative Trait Loci by Bayesian classification. Genetics 169: 2305-2318.
    • (2005) Genetics , vol.169 , pp. 2305-2318
    • Zhang, M.1    Montooth, K.L.2    Wells, M.T.3    Clark, A.G.4    Zhang, D.5
  • 26
    • 46049085599 scopus 로고    scopus 로고
    • Variable selection for large p small n regression models with incomplete data: Mapping QTL with epistases
    • Zhang M, Zhang D, Wells MT (2008) Variable selection for large p small n regression models with incomplete data: mapping QTL with epistases. BMC Bioinformatics 9: 251.
    • (2008) BMC Bioinformatics , vol.9 , pp. 251
    • Zhang, M.1    Zhang, D.2    Wells, M.T.3
  • 27
    • 55749111897 scopus 로고    scopus 로고
    • Bayesian quantitative trait loci mapping for multiple traits
    • Banerjee S, Yandell BS, Yi N (2008) Bayesian quantitative trait loci mapping for multiple traits. Genetics 179: 2275-2289.
    • (2008) Genetics , vol.179 , pp. 2275-2289
    • Banerjee, S.1    Yandell, B.S.2    Yi, N.3
  • 28
    • 23644434473 scopus 로고    scopus 로고
    • Multiple locus linkage analysis of genomewide expression in yeast
    • Storey JD, Akey JM, Kruglyak L (2005) Multiple locus linkage analysis of genomewide expression in yeast. PLoS Biol 3: e267.
    • (2005) PLoS Biol , vol.3
    • Storey, J.D.1    Akey, J.M.2    Kruglyak, L.3
  • 29
    • 33746473999 scopus 로고    scopus 로고
    • Normalization procedures and detection of linkage signal in genetical-genomics experiments
    • author reply 856-859
    • Williams RB, Cotsapas CJ, Cowley MJ, Chan E, Nott DJ, et al. (2006) Normalization procedures and detection of linkage signal in genetical-genomics experiments. Nat Genet 38: 855-856; author reply 856-859.
    • (2006) Nat Genet , vol.38 , pp. 855-856
    • Williams, R.B.1    Cotsapas, C.J.2    Cowley, M.J.3    Chan, E.4    Nott, D.J.5
  • 30
    • 42649105447 scopus 로고    scopus 로고
    • Soluble epoxide hydrolase is a susceptibility factor for heart failure in a rat model of human disease
    • Monti J, Fischer J, Paskas S, Heinig M, Schulz H, et al. (2008) Soluble epoxide hydrolase is a susceptibility factor for heart failure in a rat model of human disease. Nat Genet 40: 529-537.
    • (2008) Nat Genet , vol.40 , pp. 529-537
    • Monti, J.1    Fischer, J.2    Paskas, S.3    Heinig, M.4    Schulz, H.5
  • 31
    • 0032958470 scopus 로고    scopus 로고
    • Identification of Cd36 (Fat) as an insulin-resistance gene causing defective fatty acid and glucose metabolism in hypertensive rats
    • Aitman TJ, Glazier AM, Wallace CA, Cooper LD, Norsworthy PJ, et al. (1999) Identification of Cd36 (Fat) as an insulin-resistance gene causing defective fatty acid and glucose metabolism in hypertensive rats. Nat Genet 21: 76-83.
    • (1999) Nat Genet , vol.21 , pp. 76-83
    • Aitman, T.J.1    Glazier, A.M.2    Wallace, C.A.3    Cooper, L.D.4    Norsworthy, P.J.5
  • 33
    • 51849114275 scopus 로고    scopus 로고
    • Pathophysiological, genetic and gene expression features of a novel rodent model of the cardio-metabolic syndrome
    • Wallis RH, Collins SC, Kaisaki PJ, Argoud K, Wilder SP, et al. (2008) Pathophysiological, genetic and gene expression features of a novel rodent model of the cardio-metabolic syndrome. PLoS ONE 3: e2962.
    • (2008) PLoS ONE , vol.3
    • Wallis, R.H.1    Collins, S.C.2    Kaisaki, P.J.3    Argoud, K.4    Wilder, S.P.5
  • 37
    • 0036020892 scopus 로고    scopus 로고
    • A direct approach to false discovery rates
    • Storey JD (2002) A direct approach to false discovery rates. J R Statist Soc B 63: 479-498.
    • (2002) J R Statist Soc B , vol.63 , pp. 479-498
    • Storey, J.D.1
  • 38
    • 34547751908 scopus 로고    scopus 로고
    • Bayesian mapping of quantitative trait loci for multiple complex traits with the use of variance components
    • Liu J, Liu Y, Liu X, Deng HW (2007) Bayesian mapping of quantitative trait loci for multiple complex traits with the use of variance components. Am J Hum Genet 81: 304-320.
    • (2007) Am J Hum Genet , vol.81 , pp. 304-320
    • Liu, J.1    Liu, Y.2    Liu, X.3    Deng, H.W.4
  • 39
    • 69249230467 scopus 로고    scopus 로고
    • Review of Bayesian variable selection methods: What, how and which
    • O'Hara RB, Sillanpää MJ (2009) Review of Bayesian variable selection methods: what, how and which. Bayesian Analysis 4: 85-118.
    • (2009) Bayesian Analysis , vol.4 , pp. 85-118
    • O'Hara, R.B.1    Sillanpää, M.J.2
  • 40
    • 0034403006 scopus 로고    scopus 로고
    • Evolutionary Monte Carlo: Application to Cp model sampling and change point problem
    • Liang F, Wong WH (2000) Evolutionary Monte Carlo: application to Cp model sampling and change point problem. Stat Sinica 10: 317-342.
    • (2000) Stat Sinica , vol.10 , pp. 317-342
    • Liang, F.1    Wong, W.H.2
  • 41
    • 37549040235 scopus 로고    scopus 로고
    • Population-Based Reversible Jump Markov Chain Monte Carlo
    • Jasra A, Stephens DA, Holmes CC (2007) Population-Based Reversible Jump Markov Chain Monte Carlo. Biometrika 94: 787-807.
    • (2007) Biometrika , vol.94 , pp. 787-807
    • Jasra, A.1    Stephens, D.A.2    Holmes, C.C.3
  • 42
    • 33645068841 scopus 로고    scopus 로고
    • Statistical methods for expression quantitative trait loci (eQTL) mapping
    • Kendziorski CM, Chen M, Yuan M, Lan H, Attie AD (2006) Statistical methods for expression quantitative trait loci (eQTL) mapping. Biometrics 62: 19-27.
    • (2006) Biometrics , vol.62 , pp. 19-27
    • Kendziorski, C.M.1    Chen, M.2    Yuan, M.3    Lan, H.4    Attie, A.D.5
  • 43
    • 0000043041 scopus 로고
    • Some matrix-variate distribution theory: Notational considerations and a Bayesian application
    • Dawid AP (1981) Some matrix-variate distribution theory: notational considerations and a Bayesian application. Biometrika 68: 265-274.
    • (1981) Biometrika , vol.68 , pp. 265-274
    • Dawid, A.P.1
  • 44
    • 0042306266 scopus 로고    scopus 로고
    • The practical implementation of Bayesian model selection (with discussion)
    • In: Lahiri P, ed., Beachwood, OH
    • Chipman H, George EI, McCulloch RE (2001) The practical implementation of Bayesian model selection (with discussion). In: Lahiri P, ed. Model Selection IMS: Beachwood, OH. pp 66-134.
    • (2001) Model Selection IMS , pp. 66-134
    • Chipman, H.1    George, E.I.2    McCulloch, R.E.3
  • 45
    • 0000857113 scopus 로고    scopus 로고
    • Multivariate bayesian variable selection and prediction
    • Brown PJ, Vannucci M, Fearn T (1998) Multivariate Bayesian variable selection and prediction. J R Statist Soc B 60: 627-641.
    • (1998) J R Statist Soc B , vol.60 , pp. 627-641
    • Brown, P.J.1    Vannucci, M.2    Fearn, T.3
  • 46
    • 0002817906 scopus 로고
    • On assessing prior distributions and Bayesian regression analysis with g-prior distributions
    • In: Zellner PKGaA, ed.,North-Holland
    • Zellner A (1986) On assessing prior distributions and Bayesian regression analysis with g-prior distributions. In: Zellner PKGaA, ed. Bayesian Inference and Decision Techniques-Essays in Honour of Bruno de Finetti Amsterdam: North-Holland. pp 233-243.
    • (1986) Bayesian Inference and Decision Techniques-Essays in Honour of Bruno De Finetti Amsterdam , pp. 233-243
    • Zellner, A.1
  • 49
    • 74349083184 scopus 로고    scopus 로고
    • Benchmark priors for Bayesian model averaging
    • Fernández C, Ley E, Steel MFJ (2001) Benchmark priors for Bayesian model averaging. J Econometrics 75: 317-343.
    • (2001) J Econometrics , vol.75 , pp. 317-343
    • Fernández, C.1    Ley, E.2    Steel, M.F.J.3
  • 50
    • 0010081155 scopus 로고    scopus 로고
    • Nonparametric regression using linear combinations of basis functions
    • Kohn R, Smith M, Chan D (2001) Nonparametric regression using linear combinations of basis functions. Statist Comp 11: 313-322.
    • (2001) Statist Comp , vol.11 , pp. 313-322
    • Kohn, R.1    Smith, M.2    Chan, D.3
  • 51
    • 0035600220 scopus 로고    scopus 로고
    • Extended ensemble monte carlo
    • Iba Y (2001) Extended Ensemble Monte Carlo. Int J Mod Phys, C 12: 623-656.
    • (2001) Int J Mod Phys, C , vol.12 , pp. 623-656
    • Iba, Y.1
  • 52
    • 34547622688 scopus 로고    scopus 로고
    • Imputation-based analysis of association studies: Candidate regions and quantitative traits
    • Servin B, Stephens M (2007) Imputation-based analysis of association studies: candidate regions and quantitative traits. PLoS Genet 3: e114.
    • (2007) PLoS Genet , vol.3
    • Servin, B.1    Stephens, M.2


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