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Volumn 8, Issue 10, 2012, Pages

Use of Pleiotropy to Model Genetic Interactions in a Population

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BAR1 GENE; CELL CYCLE ARREST; CELL CYCLE REGULATION; CELL FUSION; CELL METABOLISM; CONTROLLED STUDY; FAR1 GENE; FUNGAL STRAIN; FUS3 GENE; GENE; GENE DELETION; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENE INTERACTION; GENETIC EPISTASIS; GENETIC MODEL; GENETIC VARIABILITY; GENOTYPE; MATING EFFICIENCY; MISSENSE MUTATION; MSG5 GENE; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PHEROMONE RESPONSE; PLEIOTROPY; POPULATION GENETIC PARAMETERS; POPULATION GENETICS; QUANTITATIVE GENETICS; QUANTITATIVE TRAIT LOCUS; SINGULAR VALUE DECOMPOSITION; STATISTICAL ANALYSIS; STE11 4 GENE; YEAST;

EID: 84868117015     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1003010     Document Type: Article
Times cited : (23)

References (58)
  • 1
    • 0026666791 scopus 로고
    • Ordering gene function: the interpretation of epistasis in regulatory hierarchies
    • Avery L, Wasserman S, (1992) Ordering gene function: the interpretation of epistasis in regulatory hierarchies. Trends Genet 8: 312-316.
    • (1992) Trends Genet , vol.8 , pp. 312-316
    • Avery, L.1    Wasserman, S.2
  • 3
    • 34147217542 scopus 로고    scopus 로고
    • Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map
    • Collins SR, Miller KM, Maas NL, Roguev A, Fillingham J, et al.(2007) Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map. Nature 446: 806-810.
    • (2007) Nature , vol.446 , pp. 806-810
    • Collins, S.R.1    Miller, K.M.2    Maas, N.L.3    Roguev, A.4    Fillingham, J.5
  • 7
    • 33846604202 scopus 로고    scopus 로고
    • Systematic pathway analysis using high-resolution fitness profiling of combinatorial gene deletions
    • St Onge RP, Mani R, Oh J, Proctor M, Fung E, et al.(2007) Systematic pathway analysis using high-resolution fitness profiling of combinatorial gene deletions. Nat Genet 39: 199-206.
    • (2007) Nat Genet , vol.39 , pp. 199-206
    • St Onge, R.P.1    Mani, R.2    Oh, J.3    Proctor, M.4    Fung, E.5
  • 8
    • 33746525415 scopus 로고    scopus 로고
    • Systematic mapping of genetic interactions in Caenorhabditis elegans identifies common modifiers of diverse signaling pathways
    • Lehner B, Crombie C, Tischler J, Fortunato A, Fraser AG, (2006) Systematic mapping of genetic interactions in Caenorhabditis elegans identifies common modifiers of diverse signaling pathways. Nature genetics 38: 896-903.
    • (2006) Nature Genetics , vol.38 , pp. 896-903
    • Lehner, B.1    Crombie, C.2    Tischler, J.3    Fortunato, A.4    Fraser, A.G.5
  • 9
    • 34249740079 scopus 로고    scopus 로고
    • RNAi screens in Caenorhabditis elegans in a 96-well liquid format and their application to the systematic identification of genetic interactions
    • Lehner B, Tischler J, Fraser AG, (2006) RNAi screens in Caenorhabditis elegans in a 96-well liquid format and their application to the systematic identification of genetic interactions. Nature protocols 1: 1617-1620.
    • (2006) Nature Protocols , vol.1 , pp. 1617-1620
    • Lehner, B.1    Tischler, J.2    Fraser, A.G.3
  • 10
    • 79953289737 scopus 로고    scopus 로고
    • Mapping of signaling networks through synthetic genetic interaction analysis by RNAi
    • Horn T, Sandmann T, Fischer B, Axelsson E, Huber W, et al.(2011) Mapping of signaling networks through synthetic genetic interaction analysis by RNAi. Nature methods 8: 341-346.
    • (2011) Nature Methods , vol.8 , pp. 341-346
    • Horn, T.1    Sandmann, T.2    Fischer, B.3    Axelsson, E.4    Huber, W.5
  • 11
    • 77949653752 scopus 로고    scopus 로고
    • Epistatic interactions attenuate mutations affecting startle behaviour in Drosophila melanogaster
    • Yamamoto A, Anholt RR, MacKay TF, (2009) Epistatic interactions attenuate mutations affecting startle behaviour in Drosophila melanogaster. Genetics research 91: 373-382.
    • (2009) Genetics Research , vol.91 , pp. 373-382
    • Yamamoto, A.1    Anholt, R.R.2    MacKay, T.F.3
  • 13
    • 82255184094 scopus 로고    scopus 로고
    • Knockout science: massive mouse project to provide window into human diseases
    • Hampton T, (2011) Knockout science: massive mouse project to provide window into human diseases. JAMA: the journal of the American Medical Association 306: 1968.
    • (2011) JAMA: The Journal of the American Medical Association , vol.306 , pp. 1968
    • Hampton, T.1
  • 15
    • 84857410370 scopus 로고    scopus 로고
    • High-resolution genetic mapping using the Mouse Diversity outbred population
    • Svenson KL, Gatti DM, Valdar W, Welsh CE, Cheng R, et al.(2012) High-resolution genetic mapping using the Mouse Diversity outbred population. Genetics 190: 437-447.
    • (2012) Genetics , vol.190 , pp. 437-447
    • Svenson, K.L.1    Gatti, D.M.2    Valdar, W.3    Welsh, C.E.4    Cheng, R.5
  • 16
    • 33746540478 scopus 로고    scopus 로고
    • Genome-wide genetic association of complex traits in heterogeneous stock mice
    • Valdar W, Solberg LC, Gauguier D, Burnett S, Klenerman P, et al.(2006) Genome-wide genetic association of complex traits in heterogeneous stock mice. Nature genetics 38: 879-887.
    • (2006) Nature Genetics , vol.38 , pp. 879-887
    • Valdar, W.1    Solberg, L.C.2    Gauguier, D.3    Burnett, S.4    Klenerman, P.5
  • 19
    • 78650136869 scopus 로고    scopus 로고
    • Using biological knowledge to uncover the mystery in the search for epistasis in genome-wide association studies
    • Ritchie MD, (2011) Using biological knowledge to uncover the mystery in the search for epistasis in genome-wide association studies. Annals of human genetics 75: 172-182.
    • (2011) Annals of Human Genetics , vol.75 , pp. 172-182
    • Ritchie, M.D.1
  • 20
    • 78549251736 scopus 로고    scopus 로고
    • Analysing biological pathways in genome-wide association studies
    • Wang K, Li M, Hakonarson H, (2010) Analysing biological pathways in genome-wide association studies. Nature reviews Genetics 11: 843-854.
    • (2010) Nature Reviews Genetics , vol.11 , pp. 843-854
    • Wang, K.1    Li, M.2    Hakonarson, H.3
  • 21
    • 23644434284 scopus 로고    scopus 로고
    • Genetic interactions between polymorphisms that affect gene expression in yeast
    • Brem RB, Storey JD, Whittle J, Kruglyak L, (2005) Genetic interactions between polymorphisms that affect gene expression in yeast. Nature 436: 701-703.
    • (2005) Nature , vol.436 , pp. 701-703
    • Brem, R.B.1    Storey, J.D.2    Whittle, J.3    Kruglyak, L.4
  • 22
    • 49849090353 scopus 로고    scopus 로고
    • Inferring causal phenotype networks from segregating populations
    • Chaibub Neto E, Ferrara CT, Attie AD, Yandell BS, (2008) Inferring causal phenotype networks from segregating populations. Genetics 179: 1089-1100.
    • (2008) Genetics , vol.179 , pp. 1089-1100
    • Chaibub Neto, E.1    Ferrara, C.T.2    Attie, A.D.3    Yandell, B.S.4
  • 23
    • 33846581918 scopus 로고    scopus 로고
    • Statistical epistasis is a generic feature of gene regulatory networks
    • Gjuvsland AB, Hayes BJ, Omholt SW, Carlborg O, (2007) Statistical epistasis is a generic feature of gene regulatory networks. Genetics 175: 411-420.
    • (2007) Genetics , vol.175 , pp. 411-420
    • Gjuvsland, A.B.1    Hayes, B.J.2    Omholt, S.W.3    Carlborg, O.4
  • 24
    • 83655198250 scopus 로고    scopus 로고
    • Comparison of strategies to detect epistasis from eQTL data
    • doi:10.1371/journal.pone.0028415
    • Kapur K, Schupbach T, Xenarios I, Kutalik Z, Bergmann S, (2011) Comparison of strategies to detect epistasis from eQTL data. PLoS ONE 6: e28415 doi:10.1371/journal.pone.0028415.
    • (2011) PLoS ONE , vol.6
    • Kapur, K.1    Schupbach, T.2    Xenarios, I.3    Kutalik, Z.4    Bergmann, S.5
  • 25
    • 79952257690 scopus 로고    scopus 로고
    • Epistatic interaction maps relative to multiple metabolic phenotypes
    • doi:10.1371/journal.pgen.1001294
    • Snitkin ES, Segre D, (2011) Epistatic interaction maps relative to multiple metabolic phenotypes. PLoS Genet 7: e1001294 doi: 10.1371/journal.pgen.1001294.
    • (2011) PLoS Genet , vol.7
    • Snitkin, E.S.1    Segre, D.2
  • 26
    • 76749132132 scopus 로고    scopus 로고
    • A Bayesian partition method for detecting pleiotropic and epistatic eQTL modules
    • doi:10.1371/journal.pcbi.1000642
    • Zhang W, Zhu J, Schadt EE, Liu JS, (2010) A Bayesian partition method for detecting pleiotropic and epistatic eQTL modules. PLoS Comput Biol 6: e1000642 doi:10.1371/journal.pcbi.1000642.
    • (2010) PLoS Comput Biol , vol.6
    • Zhang, W.1    Zhu, J.2    Schadt, E.E.3    Liu, J.S.4
  • 27
    • 45149106353 scopus 로고    scopus 로고
    • Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks
    • Zhu J, Zhang B, Smith EN, Drees B, Brem RB, et al.(2008) Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks. Nature genetics 40: 854-861.
    • (2008) Nature Genetics , vol.40 , pp. 854-861
    • Zhu, J.1    Zhang, B.2    Smith, E.N.3    Drees, B.4    Brem, R.B.5
  • 28
    • 79951799418 scopus 로고    scopus 로고
    • The pleiotropic structure of the genotype-phenotype map: the evolvability of complex organisms
    • Wagner GP, Zhang J, (2011) The pleiotropic structure of the genotype-phenotype map: the evolvability of complex organisms. Nature reviews Genetics 12: 204-213.
    • (2011) Nature Reviews Genetics , vol.12 , pp. 204-213
    • Wagner, G.P.1    Zhang, J.2
  • 29
    • 84971185409 scopus 로고
    • The correlations between relatives on the supposition of Mendelian inheritance
    • Fisher RA, (1918) The correlations between relatives on the supposition of Mendelian inheritance. Trans R Soc Edinburgh 52: 399-433.
    • (1918) Trans R Soc Edinburgh , vol.52 , pp. 399-433
    • Fisher, R.A.1
  • 30
    • 0030896279 scopus 로고    scopus 로고
    • Genetic analysis of default mating behavior in Saccharomyces cerevisiae
    • Dorer R, Boone C, Kimbrough T, Kim J, Hartwell LH, (1997) Genetic analysis of default mating behavior in Saccharomyces cerevisiae. Genetics 146: 39-55.
    • (1997) Genetics , vol.146 , pp. 39-55
    • Dorer, R.1    Boone, C.2    Kimbrough, T.3    Kim, J.4    Hartwell, L.H.5
  • 31
    • 0025605219 scopus 로고
    • Identification of a gene necessary for cell cycle arrest by a negative growth factor of yeast: FAR1 is an inhibitor of a G1 cyclin, CLN2
    • Chang F, Herskowitz I, (1990) Identification of a gene necessary for cell cycle arrest by a negative growth factor of yeast: FAR1 is an inhibitor of a G1 cyclin, CLN2. Cell 63: 999-1011.
    • (1990) Cell , vol.63 , pp. 999-1011
    • Chang, F.1    Herskowitz, I.2
  • 32
    • 0019719619 scopus 로고
    • Control of yeast cell type by the mating type locus. I. Identification and control of expression of the a-specific gene BAR1
    • Sprague GF Jr, Herskowitz I, (1981) Control of yeast cell type by the mating type locus. I. Identification and control of expression of the a-specific gene BAR1. Journal of molecular biology 153: 305-321.
    • (1981) Journal of Molecular Biology , vol.153 , pp. 305-321
    • Sprague Jr., G.F.1    Herskowitz, I.2
  • 34
    • 0030820725 scopus 로고    scopus 로고
    • Differential regulation of FUS3 MAP kinase by tyrosine-specific phosphatases PTP2/PTP3 and dual-specificity phosphatase MSG5 in Saccharomyces cerevisiae
    • Zhan XL, Deschenes RJ, Guan KL, (1997) Differential regulation of FUS3 MAP kinase by tyrosine-specific phosphatases PTP2/PTP3 and dual-specificity phosphatase MSG5 in Saccharomyces cerevisiae. Genes & development 11: 1690-1702.
    • (1997) Genes & Development , vol.11 , pp. 1690-1702
    • Zhan, X.L.1    Deschenes, R.J.2    Guan, K.L.3
  • 35
    • 0026774153 scopus 로고
    • Constitutive mutants of the protein kinase STE11 activate the yeast pheromone response pathway in the absence of the G protein
    • Stevenson BJ, Rhodes N, Errede B, Sprague GF Jr, (1992) Constitutive mutants of the protein kinase STE11 activate the yeast pheromone response pathway in the absence of the G protein. Genes & development 6: 1293-1304.
    • (1992) Genes & Development , vol.6 , pp. 1293-1304
    • Stevenson, B.J.1    Rhodes, N.2    Errede, B.3    Sprague Jr., G.F.4
  • 36
    • 3342900058 scopus 로고    scopus 로고
    • Differential input by Ste5 scaffold and Msg5 phosphatase route a MAPK cascade to multiple outcomes
    • Andersson J, Simpson DM, Qi M, Wang Y, Elion EA, (2004) Differential input by Ste5 scaffold and Msg5 phosphatase route a MAPK cascade to multiple outcomes. The EMBO journal 23: 2564-2576.
    • (2004) The EMBO Journal , vol.23 , pp. 2564-2576
    • Andersson, J.1    Simpson, D.M.2    Qi, M.3    Wang, Y.4    Elion, E.A.5
  • 37
    • 0032981489 scopus 로고    scopus 로고
    • Fus3p and Kss1p control G1 arrest in Saccharomyces cerevisiae through a balance of distinct arrest and proliferative functions that operate in parallel with Far1p
    • Cherkasova V, Lyons DM, Elion EA, (1999) Fus3p and Kss1p control G1 arrest in Saccharomyces cerevisiae through a balance of distinct arrest and proliferative functions that operate in parallel with Far1p. Genetics 151: 989-1004.
    • (1999) Genetics , vol.151 , pp. 989-1004
    • Cherkasova, V.1    Lyons, D.M.2    Elion, E.A.3
  • 38
    • 0034730140 scopus 로고    scopus 로고
    • Singular value decomposition for genome-wide expression data processing and modeling
    • Alter O, Brown PO, Botstein D, (2000) Singular value decomposition for genome-wide expression data processing and modeling. Proc Natl Acad Sci U S A 97: 10101-10106.
    • (2000) Proc Natl Acad Sci U S A , vol.97 , pp. 10101-10106
    • Alter, O.1    Brown, P.O.2    Botstein, D.3
  • 39
    • 0020039329 scopus 로고
    • Physiological characterization of Saccharomyces cerevisiae mutants supersensitive to G1 arrest by a factor and alpha factor pheromones
    • Chan RK, Otte CA, (1982) Physiological characterization of Saccharomyces cerevisiae mutants supersensitive to G1 arrest by a factor and alpha factor pheromones. Molecular and cellular biology 2: 21-29.
    • (1982) Molecular and Cellular Biology , vol.2 , pp. 21-29
    • Chan, R.K.1    Otte, C.A.2
  • 40
    • 0028157519 scopus 로고
    • MSG5, a novel protein phosphatase promotes adaptation to pheromone response in S. cerevisiae
    • Doi K, Gartner A, Ammerer G, Errede B, Shinkawa H, et al.(1994) MSG5, a novel protein phosphatase promotes adaptation to pheromone response in S. cerevisiae. The EMBO journal 13: 61-70.
    • (1994) The EMBO Journal , vol.13 , pp. 61-70
    • Doi, K.1    Gartner, A.2    Ammerer, G.3    Errede, B.4    Shinkawa, H.5
  • 41
    • 45249095384 scopus 로고    scopus 로고
    • Mapping gene expression quantitative trait loci by singular value decomposition and independent component analysis
    • Biswas S, Storey JD, Akey JM, (2008) Mapping gene expression quantitative trait loci by singular value decomposition and independent component analysis. BMC Bioinformatics 9: 244.
    • (2008) BMC Bioinformatics , vol.9 , pp. 244
    • Biswas, S.1    Storey, J.D.2    Akey, J.M.3
  • 42
    • 80053440989 scopus 로고    scopus 로고
    • Genetic effects at pleiotropic loci are context-dependent with consequences for the maintenance of genetic variation in populations
    • doi:10.1371/journal.pgen.1002256
    • Lawson HA, Cady JE, Partridge C, Wolf JB, Semenkovich CF, et al.(2011) Genetic effects at pleiotropic loci are context-dependent with consequences for the maintenance of genetic variation in populations. PLoS Genet 7: e1002256 doi:10.1371/journal.pgen.1002256.
    • (2011) PLoS Genet , vol.7
    • Lawson, H.A.1    Cady, J.E.2    Partridge, C.3    Wolf, J.B.4    Semenkovich, C.F.5
  • 43
    • 0028803358 scopus 로고
    • Advanced intercross lines, an experimental population for fine genetic mapping
    • Darvasi A, Soller M, (1995) Advanced intercross lines, an experimental population for fine genetic mapping. Genetics 141: 1199-1207.
    • (1995) Genetics , vol.141 , pp. 1199-1207
    • Darvasi, A.1    Soller, M.2
  • 44
    • 20044390391 scopus 로고    scopus 로고
    • Fine-mapping gene-by-diet interactions on chromosome 13 in a LG/J×SM/J murine model of obesity
    • Ehrich TH, Hrbek T, Kenney-Hunt JP, Pletscher LS, Wang B, et al.(2005) Fine-mapping gene-by-diet interactions on chromosome 13 in a LG/J×SM/J murine model of obesity. Diabetes 54: 1863-1872.
    • (2005) Diabetes , vol.54 , pp. 1863-1872
    • Ehrich, T.H.1    Hrbek, T.2    Kenney-Hunt, J.P.3    Pletscher, L.S.4    Wang, B.5
  • 45
    • 33646942472 scopus 로고
    • A simple regression method for mapping quantitative trait loci in line crosses using flanking markers
    • Haley CS, Knott SA, (1992) A simple regression method for mapping quantitative trait loci in line crosses using flanking markers. Heredity 69: 315-324.
    • (1992) Heredity , vol.69 , pp. 315-324
    • Haley, C.S.1    Knott, S.A.2
  • 47
    • 0034735578 scopus 로고    scopus 로고
    • Prm1p, a pheromone-regulated multispanning membrane protein, facilitates plasma membrane fusion during yeast mating
    • Heiman MG, Walter P, (2000) Prm1p, a pheromone-regulated multispanning membrane protein, facilitates plasma membrane fusion during yeast mating. The Journal of cell biology 151: 719-730.
    • (2000) The Journal of Cell Biology , vol.151 , pp. 719-730
    • Heiman, M.G.1    Walter, P.2
  • 49
    • 36048945922 scopus 로고    scopus 로고
    • ImageJ for microscopy
    • Collins TJ, (2007) ImageJ for microscopy. BioTechniques 43: 25-30.
    • (2007) BioTechniques , vol.43 , pp. 25-30
    • Collins, T.J.1
  • 50
    • 0028147205 scopus 로고
    • Symmetric cell division in pseudohyphae of the yeast Saccharomyces cerevisiae
    • Kron SJ, Styles CA, Fink GR, (1994) Symmetric cell division in pseudohyphae of the yeast Saccharomyces cerevisiae. Molecular biology of the cell 5: 1003-1022.
    • (1994) Molecular Biology of the Cell , vol.5 , pp. 1003-1022
    • Kron, S.J.1    Styles, C.A.2    Fink, G.R.3
  • 52
    • 0002294347 scopus 로고
    • A simple sequentially rejective multiple test procedure
    • Holm S, (1979) A simple sequentially rejective multiple test procedure. Scand J Statist 6: 65-70.
    • (1979) Scand J Statist , vol.6 , pp. 65-70
    • Holm, S.1
  • 53
    • 33645499146 scopus 로고    scopus 로고
    • Disentangling information flow in the Ras-cAMP signaling network
    • Carter GW, Rupp S, Fink GR, Galitski T, (2006) Disentangling information flow in the Ras-cAMP signaling network. Genome Res 16: 520-526.
    • (2006) Genome Res , vol.16 , pp. 520-526
    • Carter, G.W.1    Rupp, S.2    Fink, G.R.3    Galitski, T.4
  • 54
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: tool for the unification of biology. The Gene Ontology Consortium
    • Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, et al.(2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25: 25-29.
    • (2000) Nat Genet , vol.25 , pp. 25-29
    • Ashburner, M.1    Ball, C.A.2    Blake, J.A.3    Botstein, D.4    Butler, H.5
  • 55
    • 32644449540 scopus 로고    scopus 로고
    • Target hub proteins serve as master regulators of development in yeast
    • Borneman AR, Leigh-Bell JA, Yu H, Bertone P, Gerstein M, et al.(2006) Target hub proteins serve as master regulators of development in yeast. Genes Dev 20: 435-448.
    • (2006) Genes Dev , vol.20 , pp. 435-448
    • Borneman, A.R.1    Leigh-Bell, J.A.2    Yu, H.3    Bertone, P.4    Gerstein, M.5
  • 57
    • 0037722938 scopus 로고    scopus 로고
    • Program-specific distribution of a transcription factor dependent on partner transcription factor and MAPK signaling
    • Zeitlinger J, Simon I, Harbison CT, Hannett NM, Volkert TL, et al.(2003) Program-specific distribution of a transcription factor dependent on partner transcription factor and MAPK signaling. Cell 113: 395-404.
    • (2003) Cell , vol.113 , pp. 395-404
    • Zeitlinger, J.1    Simon, I.2    Harbison, C.T.3    Hannett, N.M.4    Volkert, T.L.5
  • 58
    • 84875806262 scopus 로고    scopus 로고
    • SGDProject Saccharomyces Genome Database
    • SGDProject Saccharomyces Genome Database. http://wwwyeastgenomeorg.


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