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Volumn 3, Issue 2, 2012, Pages 56-62

Mapping gene-environment interactions at regulatory polymorphisms: Insights into mechanisms of phenotypic variation

Author keywords

Gene environment interaction; Polymorphism; Regulatory variation; Transcription factor binding; Transcriptional response

Indexed keywords

GLUCOCORTICOID; IMMUNOGLOBULIN ENHANCER BINDING PROTEIN;

EID: 84862747375     PISSN: 21541264     EISSN: 21541272     Source Type: Journal    
DOI: 10.4161/trns.19497     Document Type: Article
Times cited : (10)

References (28)
  • 1
    • 77951439152 scopus 로고    scopus 로고
    • Trait-associated SNPs are more likely to be eQTLs: Annotation to enhance discovery from GWAS
    • PMID:20369019
    • Nicolae DL, Gamazon E, Zhang W, Duan S, Dolan ME, Cox NJ. Trait-associated SNPs are more likely to be eQTLs: annotation to enhance discovery from GWAS. PLoS Genet 2010; 6:1000888; PMID:20369019; http://dx.doi.org/10.1371/journal.pgen.1000888.
    • (2010) PLoS Genet , vol.6 , pp. 1000888
    • Nicolae, D.L.1    Gamazon, E.2    Zhang, W.3    Duan, S.4    Dolan, M.E.5    Cox, N.J.6
  • 2
    • 77952367694 scopus 로고    scopus 로고
    • Candidate causal regulatory effects by integration of expression QTLs with complex trait genetic associations
    • PMID:20369022
    • Nica AC, Montgomery SB, Dimas AS, Stranger BE, Beazley C, Barroso I, et al. Candidate causal regulatory effects by integration of expression QTLs with complex trait genetic associations. PLoS Genet 2010; 6:1000895; PMID:20369022; http://dx.doi.org/10.1371/journal.pgen.1000895.
    • (2010) PLoS Genet , vol.6 , pp. 1000895
    • Nica, A.C.1    Montgomery, S.B.2    Dimas, A.S.3    Stranger, B.E.4    Beazley, C.5    Barroso, I.6
  • 3
    • 32544443055 scopus 로고    scopus 로고
    • Genome-wide scan reveals that genetic variation for transcriptional plasticity in yeast is biased towards multi-copy and dispensable genes
    • PMID:16427747
    • Landry CR, Oh J, Hartl DL, Cavalieri D. Genome-wide scan reveals that genetic variation for transcriptional plasticity in yeast is biased towards multi-copy and dispensable genes. Gene 2006; 366:343-351; PMID:16427747; http://dx.doi.org/10.1016/j.gene.2005.10.042.
    • (2006) Gene , vol.366 , pp. 343-351
    • Landry, C.R.1    Oh, J.2    Hartl, D.L.3    Cavalieri, D.4
  • 4
    • 4944245629 scopus 로고    scopus 로고
    • Population genetic variation in gene expression is associated with phenotypic variation in Saccharomyces cerevisiae
    • PMID:15059259
    • Fay JC, McCullough HL, Sniegowski PD, Eisen MB. Population genetic variation in gene expression is associated with phenotypic variation in Saccharomyces cerevisiae. Genome Biol 2004; 5:26; PMID:15059259; http://dx.doi.org/10.1186/gb-2004-5-4-r26.
    • (2004) Genome Biol , vol.5 , pp. 26
    • Fay, J.C.1    McCullough, H.L.2    Sniegowski, P.D.3    Eisen, M.B.4
  • 5
    • 77749261483 scopus 로고    scopus 로고
    • Transient genotype-by-environment interactions following environmental shock provide a source of expression variation for essential genes
    • PMID:19966067
    • Eng KH, Kvitek DJ, Keles S, Gasch AP. Transient genotype-by-environment interactions following environmental shock provide a source of expression variation for essential genes. Genetics 2010; 184:587-593; PMID:19966067; http://dx.doi.org/10.1534/genetics.109.107268.
    • (2010) Genetics , vol.184 , pp. 587-593
    • Eng, K.H.1    Kvitek, D.J.2    Keles, S.3    Gasch, A.P.4
  • 6
    • 33845976693 scopus 로고    scopus 로고
    • Mapping determinants of gene expression plasticity by genetical genomics in C. elegans
    • PMID:17196041
    • Li Y, Alvarez OA, Gutteling EW, Tijsterman M, Fu J, Riksen JA, et al. Mapping determinants of gene expression plasticity by genetical genomics in C. elegans. PLoS Genet 2006; 2:222; PMID:17196041; http://dx.doi.org/10.1371/journal.pgen.0020222.
    • (2006) PLoS Genet , vol.2 , pp. 222
    • Li, Y.1    Alvarez, O.A.2    Gutteling, E.W.3    Tijsterman, M.4    Fu, J.5    Riksen, J.A.6
  • 7
    • 43249129715 scopus 로고    scopus 로고
    • Gene-environment interaction in yeast gene expression
    • PMID:18416601
    • Smith EN, Kruglyak L. Gene-environment interaction in yeast gene expression. PLoS Biol 2008; 6:83; PMID:18416601; http://dx.doi.org/10.1371/journal.pbio.0060083.
    • (2008) PLoS Biol , vol.6 , pp. 83
    • Smith, E.N.1    Kruglyak, L.2
  • 8
    • 65249170333 scopus 로고    scopus 로고
    • Genetic analysis of radiation-induced changes in human gene expression
    • PMID:19349959
    • Smirnov DA, Morley M, Shin E, Spielman RS, Cheung VG. Genetic analysis of radiation-induced changes in human gene expression. Nature 2009; 459:587-591; PMID:19349959; http://dx.doi.org/10.1038/nature07940.
    • (2009) Nature , vol.459 , pp. 587-591
    • Smirnov, D.A.1    Morley, M.2    Shin, E.3    Spielman, R.S.4    Cheung, V.G.5
  • 9
    • 77649236340 scopus 로고    scopus 로고
    • Systems genetics analysis of gene-by-environment interactions in human cells
    • PMID:20170901
    • Romanoski CE, Lee S, Kim MJ, Ingram-Drake L, Plaisier CL, Yordanova R, et al. Systems genetics analysis of gene-by-environment interactions in human cells. Am J Hum Genet 2010; 86:399-410; PMID:20170901; http://dx.doi.org/10.1016/j.ajhg.2010.02.002.
    • (2010) Am J Hum Genet , vol.86 , pp. 399-410
    • Romanoski, C.E.1    Lee, S.2    Kim, M.J.3    Ingram-Drake, L.4    Plaisier, C.L.5    Yordanova, R.6
  • 10
    • 79851479498 scopus 로고    scopus 로고
    • Global analysis of the impact of environmental perturbation on cis-regulation of gene expression
    • PMID:21283786
    • Grundberg E, Adoue V, Kwan T, Ge B, Duan QL, Lam KC, et al. Global analysis of the impact of environmental perturbation on cis-regulation of gene expression. PLoS Genet 2011; 7:1001279; PMID:21283786; http://dx.doi.org/10.1371/journal.pgen.1001279.
    • (2011) PLoS Genet , vol.7 , pp. 1001279
    • Grundberg, E.1    Adoue, V.2    Kwan, T.3    Ge, B.4    Duan, Q.L.5    Lam, K.C.6
  • 11
    • 84856387609 scopus 로고    scopus 로고
    • Deciphering the genetic architecture of variation in the immune response to Mycobacterium tuberculosis infection
    • PMID:22233810
    • Barreiro LB, Tailleux L, Pai AA, Gicquel B, Marioni JC, Gilad Y. Deciphering the genetic architecture of variation in the immune response to Mycobacterium tuberculosis infection. Proc Natl Acad Sci USA 2012; 109:1204-1209; PMID:22233810; http://dx.doi.org/10.1073/pnas.1115761109
    • (2012) Proc Natl Acad Sci USA , vol.109 , pp. 1204-1209
    • Barreiro, L.B.1    Tailleux, L.2    Pai, A.A.3    Gicquel, B.4    Marioni, J.C.5    Gilad, Y.6
  • 12
    • 78649783848 scopus 로고    scopus 로고
    • Gene expression in skin and lymphoblastoid cells: Refined statistical method reveals extensive overlap in cis-eQTL signals
    • PMID:21129726
    • Ding J, Gudjonsson JE, Liang L, Stuart PE, Li Y, Chen W, et al. Gene expression in skin and lymphoblastoid cells: Refined statistical method reveals extensive overlap in cis-eQTL signals. Am J Hum Genet 2010; 87:779-789; PMID:21129726; http://dx.doi.org/10.1016/j.ajhg.2010.10.024.
    • (2010) Am J Hum Genet , vol.87 , pp. 779-789
    • Ding, J.1    Gudjonsson, J.E.2    Liang, L.3    Stuart, P.E.4    Li, Y.5    Chen, W.6
  • 13
    • 79960967243 scopus 로고    scopus 로고
    • Interactions between glucocorticoid treatment and cis-regulatory polymorphisms contribute to cellular response phenotypes
    • PMID:21750684
    • Maranville JC, Luca F, Richards AL, Wen X, Witonsky DB, Baxter S, et al. Interactions between glucocorticoid treatment and cis-regulatory polymorphisms contribute to cellular response phenotypes. PLoS Genet 2011; 7:1002162; PMID:21750684; http://dx.doi.org/10.1371/journal.pgen.1002162.
    • (2011) PLoS Genet , vol.7 , pp. 1002162
    • Maranville, J.C.1    Luca, F.2    Richards, A.L.3    Wen, X.4    Witonsky, D.B.5    Baxter, S.6
  • 14
    • 67149125675 scopus 로고    scopus 로고
    • Adaptive variation regulates the expression of the human SGK1 gene in response to stress
    • PMID:19461886
    • Luca F, Kashyap S, Southard C, Zou M, Witonsky D, di Rienzo A, et al. Adaptive variation regulates the expression of the human SGK1 gene in response to stress. PLoS Genet 2009; 5:1000489; PMID:19461886; http://dx.doi.org/10.1371/journal.pgen.1000489.
    • (2009) PLoS Genet , vol.5 , pp. 1000489
    • Luca, F.1    Kashyap, S.2    Southard, C.3    Zou, M.4    Witonsky, D.5    di Rienzo, A.6
  • 15
    • 77952951084 scopus 로고    scopus 로고
    • Mechanisms and resistance in glucocorticoid control of inflammation
    • PMID:20188830
    • Barnes PJ. Mechanisms and resistance in glucocorticoid control of inflammation. J Steroid Biochem Mol Biol 2010; 120:76-85; PMID:20188830; http://dx.doi.org/10.1016/j.jsbmb.2010.02.018.
    • (2010) J Steroid Biochem Mol Biol , vol.120 , pp. 76-85
    • Barnes, P.J.1
  • 16
    • 77951079389 scopus 로고    scopus 로고
    • A theoretical framework for gene induction and experimental comparisons
    • PMID:20351279
    • Ong KM, Blackford JA Jr, Kagan BL, Simons SS Jr, Chow CC. A theoretical framework for gene induction and experimental comparisons. Proc Natl Acad Sci USA 2010; 107:7107-7112; PMID:20351279; http://dx.doi.org/10.1073/pnas.0911095107.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 7107-7112
    • Ong, K.M.1    Blackford Jr., J.A.2    Kagan, B.L.3    Simons Jr., S.S.4    Chow, C.C.5
  • 17
    • 0042856391 scopus 로고    scopus 로고
    • Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors
    • PMID:12897782
    • Yvert G, Brem RB, Whittle J, Akey JM, Foss E, Smith EN, et al. Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors. Nat Genet 2003; 35:57-64; PMID:12897782; http://dx.doi.org/10.1038/ng1222.
    • (2003) Nat Genet , vol.35 , pp. 57-64
    • Yvert, G.1    Brem, R.B.2    Whittle, J.3    Akey, J.M.4    Foss, E.5    Smith, E.N.6
  • 18
    • 44049106025 scopus 로고    scopus 로고
    • Complex genetic interactions underlying expression differences between Drosophila races: Analysis of chromosome substitutions
    • PMID:18430800
    • Wang HY, Fu Y, McPeek MS, Lu X, Nuzhdin S, Xu A, et al. Complex genetic interactions underlying expression differences between Drosophila races: analysis of chromosome substitutions. Proc Natl Acad Sci USA 2008; 105:6362-6367; PMID:18430800; http://dx.doi.org/10.1073/pnas.0711774105.
    • (2008) Proc Natl Acad Sci USA , vol.105 , pp. 6362-6367
    • Wang, H.Y.1    Fu, Y.2    McPeek, M.S.3    Lu, X.4    Nuzhdin, S.5    Xu, A.6
  • 19
    • 77957920003 scopus 로고    scopus 로고
    • Polymorphic cis- and trans-regulation of human gene expression
    • PMID:20856902
    • Cheung VG, Nayak RR, Wang IX, Elwyn S, Cousins SM, Morley M, et al. Polymorphic cis- and trans-regulation of human gene expression. PLoS Biol 2010; 8:1000480; PMID:20856902; http://dx.doi.org/10.1371/journal.pbio.1000480.
    • (2010) PLoS Biol , vol.8 , pp. 1000480
    • Cheung, V.G.1    Nayak, R.R.2    Wang, I.X.3    Elwyn, S.4    Cousins, S.M.5    Morley, M.6
  • 20
    • 42749097422 scopus 로고    scopus 로고
    • Genetic architecture of transcript-level variation in humans
    • PMID:18439551
    • Duan S, Huang RS, Zhang W, Bleibel WK, Roe CA, Clark TA, et al. Genetic architecture of transcript-level variation in humans. Am J Hum Genet 2008; 82:1101-1113; PMID:18439551; http://dx.doi.org/10.1016/j.ajhg.2008.03.006
    • (2008) Am J Hum Genet , vol.82 , pp. 1101-1113
    • Duan, S.1    Huang, R.S.2    Zhang, W.3    Bleibel, W.K.4    Roe, C.A.5    Clark, T.A.6
  • 21
  • 22
    • 77950460661 scopus 로고    scopus 로고
    • Understanding mechanisms underlying human gene expression variation with RNA sequencing
    • PMID:20220758
    • Pickrell JK, Marioni JC, Pai AA, Degner JF, Engelhardt BE, Nkadori E, et al. Understanding mechanisms underlying human gene expression variation with RNA sequencing. Nature 2010; 464:768-772; PMID:20220758; http://dx.doi.org/10.1038/nature08872.
    • (2010) Nature , vol.464 , pp. 768-772
    • Pickrell, J.K.1    Marioni, J.C.2    Pai, A.A.3    Degner, J.F.4    Engelhardt, B.E.5    Nkadori, E.6
  • 23
    • 70350724550 scopus 로고    scopus 로고
    • Population genomics in a disease targeted primary cell model
    • PMID:19654370
    • Grundberg E, Kwan T, Ge B, Lam KC, Koka V, Kindmark A, et al. Population genomics in a disease targeted primary cell model. Genome Res 2009; 19:1942-1952; PMID:19654370; http://dx.doi.org/10.1101/gr.095224.109.
    • (2009) Genome Res , vol.19 , pp. 1942-1952
    • Grundberg, E.1    Kwan, T.2    Ge, B.3    Lam, K.C.4    Koka, V.5    Kindmark, A.6
  • 24
    • 79151484424 scopus 로고    scopus 로고
    • The study of eQTL variations by RNA-seq: From SNPs to phenotypes
    • PMID:21122937
    • Majewski J, Pastinen T. The study of eQTL variations by RNA-seq: from SNPs to phenotypes. Trends Genet 2011; 27:72-79; PMID:21122937; http://dx.doi.org/10.1016/j.tig.2010.10.006.
    • (2011) Trends Genet , vol.27 , pp. 72-79
    • Majewski, J.1    Pastinen, T.2
  • 25
    • 80053370268 scopus 로고    scopus 로고
    • Genomewide association between GLCCI1 and response to glucocorticoid therapy in asthma
    • PMID:21991891
    • Tantisira KG, Lasky-Su J, Harada M, Murphy A, Litonjua AA, Himes BE, et al. Genomewide association between GLCCI1 and response to glucocorticoid therapy in asthma. N Engl J Med 2011; 365:1173-1183; PMID:21991891; http://dx.doi.org/10.1056/NEJMoa0911353.
    • (2011) N Engl J Med , vol.365 , pp. 1173-1183
    • Tantisira, K.G.1    Lasky-Su, J.2    Harada, M.3    Murphy, A.4    Litonjua, A.A.5    Himes, B.E.6
  • 26
    • 71249104215 scopus 로고    scopus 로고
    • Genetical toxicogenomics in Drosophila identifies master-modulatory loci that are regulated by developmental exposure to lead
    • PMID:19737576
    • Ruden DM, Chen L, Possidente D, Possidente B, Rasouli P, Wang L, et al. Genetical toxicogenomics in Drosophila identifies master-modulatory loci that are regulated by developmental exposure to lead. Neurotoxicology 2009; 30:898-914; PMID:19737576; http://dx.doi.org/10.1016/j.neuro.2009.08.011.
    • (2009) Neurotoxicology , vol.30 , pp. 898-914
    • Ruden, D.M.1    Chen, L.2    Possidente, D.3    Possidente, B.4    Rasouli, P.5    Wang, L.6
  • 27
    • 73349126396 scopus 로고    scopus 로고
    • Geographical genomics of human leukocyte gene expression variation in Southern Morocco
    • PMID:19966804
    • Idaghdour Y, Czika W, Shianna KV, Lee SH, Visscher PM, Martin HC, et al. Geographical genomics of human leukocyte gene expression variation in Southern Morocco. Nat Genet 2010; 42:62-67; PMID:19966804; http://dx.doi.org/10.1038/ng.495.
    • (2010) Nat Genet , vol.42 , pp. 62-67
    • Idaghdour, Y.1    Czika, W.2    Shianna, K.V.3    Lee, S.H.4    Visscher, P.M.5    Martin, H.C.6
  • 28
    • 77954225714 scopus 로고    scopus 로고
    • Genome-wide gene expression regulation as a function of genotype and age in C. elegans
    • PMID:20488933
    • Viñuela A, Snoek LB, Riksen JA, Kammenga JE. Genome-wide gene expression regulation as a function of genotype and age in C. elegans. Genome Res 2010; 20:929-937; PMID:20488933; http://dx.doi.org/10.1101/gr.102160.109
    • (2010) Genome Res , vol.20 , pp. 929-937
    • Viñuela, A.1    Snoek, L.B.2    Riksen, J.A.3    Kammenga, J.E.4


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