메뉴 건너뛰기




Volumn 4, Issue 1, 2012, Pages 3-26

An Efficient Optimization Algorithm for Structured Sparse CCA, with Applications to eQTL Mapping

Author keywords

eQTL mapping; Genome wide association study; Group structure; Network structure; Optimization algorithm; Sparse CCA; Structured sparsity

Indexed keywords

ANALYTIC METHOD; ARTICLE; CONTROLLED STUDY; CORRELATION ANALYSIS; GENE STRUCTURE; GENETIC ALGORITHM; GENETIC ASSOCIATION; GENOME ANALYSIS; MATHEMATICAL COMPUTING; MATHEMATICAL GENETICS; MATHEMATICAL MODEL; PRIORITY JOURNAL; PROCESS DEVELOPMENT; PROCESS OPTIMIZATION; QUANTITATIVE TRAIT LOCUS MAPPING; SIMULATION; STRUCTURE ANALYSIS;

EID: 84860470942     PISSN: 18671764     EISSN: 18671772     Source Type: Journal    
DOI: 10.1007/s12561-011-9048-z     Document Type: Article
Times cited : (54)

References (33)
  • 1
    • 55149088329 scopus 로고    scopus 로고
    • Convex multi-task feature learning
    • Argyriou A, Evgeniou T, Pontil M (2008) Convex multi-task feature learning. Mach Learn 73(3): 243-272.
    • (2008) Mach Learn , vol.73 , Issue.3 , pp. 243-272
    • Argyriou, A.1    Evgeniou, T.2    Pontil, M.3
  • 2
    • 70449477656 scopus 로고    scopus 로고
    • Next generation software for functional trend analysis
    • Berriz G, Beaver J, Cenik C, Tasan M, Roth F (2009) Next generation software for functional trend analysis. Bioinformatics 25(22): 3043-3044.
    • (2009) Bioinformatics , vol.25 , Issue.22 , pp. 3043-3044
    • Berriz, G.1    Beaver, J.2    Cenik, C.3    Tasan, M.4    Roth, F.5
  • 3
    • 64549104807 scopus 로고    scopus 로고
    • Cluego: a cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks
    • Bindea G et al. (2009) Cluego: a cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks. Bioinformatics 25(8): 1091-1093.
    • (2009) Bioinformatics , vol.25 , Issue.8 , pp. 1091-1093
    • Bindea, G.1
  • 5
    • 13444306165 scopus 로고    scopus 로고
    • The landscape of genetic complexity across 5,700 gene expression traits in yeast
    • Brem RB, Krulyak L (2005) The landscape of genetic complexity across 5, 700 gene expression traits in yeast. Proc Natl Acad Sci 102(5): 1572-1577.
    • (2005) Proc Natl Acad Sci , vol.102 , Issue.5 , pp. 1572-1577
    • Brem, R.B.1    Krulyak, L.2
  • 6
    • 85098671771 scopus 로고    scopus 로고
    • Sparse canonical methods for biological data integration: application to a cross-platform study
    • Cao KL, Pascal M, Robert-Cranie C, Philippe B (2009) Sparse canonical methods for biological data integration: application to a cross-platform study. Bioinformatics 10.
    • (2009) Bioinformatics , vol.10
    • Cao, K.L.1    Pascal, M.2    Robert-Cranie, C.3    Philippe, B.4
  • 8
    • 75249102673 scopus 로고    scopus 로고
    • Efficient online and batch learning using forward backward splitting
    • Duchi J, Singer Y (2009) Efficient online and batch learning using forward backward splitting. J Mach Learn Res 10: 2899-2934.
    • (2009) J Mach Learn Res , vol.10 , pp. 2899-2934
    • Duchi, J.1    Singer, Y.2
  • 10
    • 71149113559 scopus 로고    scopus 로고
    • Group lasso with overlap and graph lasso
    • Jacob L, Obozinski G, Vert JP (2009) Group lasso with overlap and graph lasso. In: ICML.
    • (2009) Icml
    • Jacob, L.1    Obozinski, G.2    Vert, J.P.3
  • 11
    • 70049092408 scopus 로고    scopus 로고
    • Structured variable selection with sparsity-inducing norms
    • Jenatton R, Audibert J, Bach F (2009) Structured variable selection with sparsity-inducing norms. Tech rep, INRIA.
    • (2009) Tech rep, INRIA
    • Jenatton, R.1    Audibert, J.2    Bach, F.3
  • 12
    • 77956506018 scopus 로고    scopus 로고
    • Proximal methods for sparse hierarchical dictionary learning
    • Jenatton R, Mairal J, Obozinski G, Bach F (2010) Proximal methods for sparse hierarchical dictionary learning. In: ICML.
    • (2010) Icml
    • Jenatton, R.1    Mairal, J.2    Obozinski, G.3    Bach, F.4
  • 13
    • 0033982936 scopus 로고    scopus 로고
    • Kegg: Kyoto encyclopedia of genes and genomes
    • Kanehisa M, Goto S (2000) Kegg: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res 28: 27-30.
    • (2000) Nucleic Acids Res , vol.28 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 14
    • 70149098541 scopus 로고    scopus 로고
    • Statistical estimation of correlated genome associations to a quantitative trait network
    • Kim S, Xing E (2009) Statistical estimation of correlated genome associations to a quantitative trait network. PLoS Genet 5(8).
    • (2009) PLoS Genet , vol.5 , Issue.8
    • Kim, S.1    Xing, E.2
  • 15
    • 77956548668 scopus 로고    scopus 로고
    • Tree-guided group lasso for multi-task regression with structured sparsity
    • Kim S, Xing EP (2010) Tree-guided group lasso for multi-task regression with structured sparsity. In: ICML.
    • (2010) Icml
    • Kim, S.1    Xing, E.P.2
  • 17
    • 62549127689 scopus 로고    scopus 로고
    • Elastic net regularization in learning theory
    • Mol D, Vito D, Rosasco L (2009) Elastic net regularization in learning theory. J Complex 25: 201-230.
    • (2009) J Complex , vol.25 , pp. 201-230
    • Mol, D.1    Vito, D.2    Rosasco, L.3
  • 18
    • 77956269820 scopus 로고    scopus 로고
    • Using canonical correlation analysis to discover genetic regulatory variants
    • Naylor M, Lin X, Weiss S, Raby B, Lange C (2010) Using canonical correlation analysis to discover genetic regulatory variants. PLoS One.
    • (2010) PLoS One
    • Naylor, M.1    Lin, X.2    Weiss, S.3    Raby, B.4    Lange, C.5
  • 19
    • 84860485391 scopus 로고    scopus 로고
    • Excessive gap technique in non-smooth convex minimization
    • Université catholique de Louvain, Center for Operations Research and Econometrics (CORE)
    • Nesterov Y (2003) Excessive gap technique in non-smooth convex minimization. Tech rep, Université catholique de Louvain, Center for Operations Research and Econometrics (CORE).
    • (2003) Tech rep
    • Nesterov, Y.1
  • 21
    • 17444406259 scopus 로고    scopus 로고
    • Smooth minimization of non-smooth functions
    • Nesterov Y (2005) Smooth minimization of non-smooth functions. Math Program 103(1): 127-152.
    • (2005) Math Program , vol.103 , Issue.1 , pp. 127-152
    • Nesterov, Y.1
  • 22
    • 62449336277 scopus 로고    scopus 로고
    • Sparse canonical correlation analysis with application to genomic data integration
    • Parkhomenko E, Tritchler D, Beyene J (2009) Sparse canonical correlation analysis with application to genomic data integration. Stat Appl Genet Mol Biol 8: 1-34.
    • (2009) Stat Appl Genet Mol Biol , vol.8 , pp. 1-34
    • Parkhomenko, E.1    Tritchler, D.2    Beyene, J.3
  • 23
    • 78649427721 scopus 로고    scopus 로고
    • Grouping pursuit through a regularization solution surface
    • Shen X, Huang HC (2010) Grouping pursuit through a regularization solution surface. J Am Stat Assoc 105(490): 727-739.
    • (2010) J Am Stat Assoc , vol.105 , Issue.490 , pp. 727-739
    • Shen, X.1    Huang, H.C.2
  • 24
    • 12844266177 scopus 로고    scopus 로고
    • Sparsity and smoothness via the fused lasso
    • Tibshirani R, Saunders M (2005) Sparsity and smoothness via the fused lasso. J R Stat Soc B 67(1): 91-108.
    • (2005) J R Stat Soc B , vol.67 , Issue.1 , pp. 91-108
    • Tibshirani, R.1    Saunders, M.2
  • 25
    • 3142743708 scopus 로고    scopus 로고
    • Solving semidefinite-quadratic-linear programs using sdpt3
    • Tütüncü RH, Toh KC, Todd MJ (2003) Solving semidefinite-quadratic-linear programs using sdpt3. Math Program 95: 189-217.
    • (2003) Math Program , vol.95 , pp. 189-217
    • Tütüncü, R.H.1    Toh, K.C.2    Todd, M.J.3
  • 26
    • 38849098283 scopus 로고    scopus 로고
    • Quantifying the association between gene expressions and DNA-markers by penalized canonical correlation analysis
    • Waaijenborg S, de Witt Hamer PV, Zwinderman A (2008) Quantifying the association between gene expressions and DNA-markers by penalized canonical correlation analysis. Stat Appl Genet Mol Biol 7.
    • (2008) Stat Appl Genet Mol Biol , vol.7
    • Waaijenborg, S.1    de Witt Hamer, P.V.2    Zwinderman, A.3
  • 27
    • 79957460815 scopus 로고    scopus 로고
    • Alternating direction augmented Lagrangian methods for semidefinite programming
    • Dept of IEOR, Columbia University
    • Wen Z, Goldfarb D, Yin W (2009) Alternating direction augmented Lagrangian methods for semidefinite programming. Tech rep, Dept of IEOR, Columbia University.
    • (2009) Tech rep
    • Wen, Z.1    Goldfarb, D.2    Yin, W.3
  • 28
    • 68249115586 scopus 로고    scopus 로고
    • Extensions of sparse canonical correlation analysis with applications to genomic data
    • Witten D, Tibshirani R (2009) Extensions of sparse canonical correlation analysis with applications to genomic data. Stat Appl Genet Mol Biol 8(1): 1-27.
    • (2009) Stat Appl Genet Mol Biol , vol.8 , Issue.1 , pp. 1-27
    • Witten, D.1    Tibshirani, R.2
  • 29
    • 70149096300 scopus 로고    scopus 로고
    • A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis
    • Witten D, Tibshirani R, Hastie T (2009) A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis. Biostatistics 10: 515-534.
    • (2009) Biostatistics , vol.10 , pp. 515-534
    • Witten, D.1    Tibshirani, R.2    Hastie, T.3
  • 30
    • 33645035051 scopus 로고    scopus 로고
    • Model selection and estimation in regression with grouped variables
    • Yuan M, Lin Y (2006) Model selection and estimation in regression with grouped variables. J R Stat Soc B 68: 49-67.
    • (2006) J R Stat Soc B , vol.68 , pp. 49-67
    • Yuan, M.1    Lin, Y.2
  • 31
    • 69949155103 scopus 로고    scopus 로고
    • Grouped and hierarchical model selection through composite absolute penalties
    • Zhao P, Rocha G, Yu B (2009) Grouped and hierarchical model selection through composite absolute penalties. Ann Stat 37(6A): 3468-3497.
    • (2009) Ann Stat , vol.37 , Issue.6 A , pp. 3468-3497
    • Zhao, P.1    Rocha, G.2    Yu, B.3
  • 32
    • 45149106353 scopus 로고    scopus 로고
    • Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks
    • Zhu J et al. (2008) Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks. Nat Genet 40: 854-861.
    • (2008) Nat Genet , vol.40 , pp. 854-861
    • Zhu, J.1
  • 33
    • 16244401458 scopus 로고    scopus 로고
    • Regularization and variable selection via the elastic net
    • Zou H, Hastie T (2005) Regularization and variable selection via the elastic net. J R Stat Soc B 67: 301-320.
    • (2005) J R Stat Soc B , vol.67 , pp. 301-320
    • Zou, H.1    Hastie, T.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.