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Volumn 90, Issue 1 SPEC. ISS., 2004, Pages 196-212

Sparse graphical models for exploring gene expression data

Author keywords

Bayesian regression analysis; Compositional networks; ER pathway; Estrogen receptor gene and pathway; Gene expression; Graphical models; Model selection; Rb E2F genes and pathway; Transitive gene expression pathways

Indexed keywords


EID: 15944399178     PISSN: 0047259X     EISSN: 10957243     Source Type: Journal    
DOI: 10.1016/j.jmva.2004.02.009     Document Type: Article
Times cited : (357)

References (30)
  • 1
    • 0033951477 scopus 로고    scopus 로고
    • Transcription factor GATA-6 activates expression of gastroprotective trefoil genes TFF1 and TFF2
    • E. Al-azzch, P. Fegert, N. Blin, P. Gott, Transcription factor GATA-6 activates expression of gastroprotective trefoil genes TFF1 and TFF2, Biochem. Biophys. Acta 1490 (2000) 324-332.
    • (2000) Biochem. Biophys. Acta , vol.1490 , pp. 324-332
    • Al-Azzch, E.1    Fegert, P.2    Blin, N.3    Gott, P.4
  • 2
    • 0031531764 scopus 로고    scopus 로고
    • A characterization of Markov equivalence classes for acyclic digraphs
    • S.A. Anderson, D. Madigan, M.D. Perlman, A characterization of Markov equivalence classes for acyclic digraphs, Ann. Statist. 25 (1997) 505-541.
    • (1997) Ann. Statist. , vol.25 , pp. 505-541
    • Anderson, S.A.1    Madigan, D.2    Perlman, M.D.3
  • 3
    • 0036262430 scopus 로고    scopus 로고
    • Gene expression in HepG2 cells: Complex regulation through crosstalk between the estrogen receptor alpha, an estrogen-response element, and the activator protein 1 response element
    • T. Barkhem, L.A. Haldosen, J.A. Gustafsson, S. Nilsson, Gene expression in HepG2 cells: complex regulation through crosstalk between the estrogen receptor alpha, an estrogen-response element, and the activator protein 1 response element, Molecular Pharmacol. 61 (2002) 1273-1283.
    • (2002) Molecular Pharmacol. , vol.61 , pp. 1273-1283
    • Barkhem, T.1    Haldosen, L.A.2    Gustafsson, J.A.3    Nilsson, S.4
  • 4
    • 0033010817 scopus 로고    scopus 로고
    • Hepatocyte nuclear factor 3 (winged helix domain) activates trefoil factor gene TFF1 through a binding motif adjacent to the TATA box
    • S. Beck, P. Sommer, E. Do Santos Silva, N. Blin, P. Gott, Hepatocyte nuclear factor 3 (winged helix domain) activates trefoil factor gene TFF1 through a binding motif adjacent to the TATA box, DNA Cell Biol. 18 (1999) 157-164.
    • (1999) DNA Cell Biol. , vol.18 , pp. 157-164
    • Beck, S.1    Sommer, P.2    Do Santos Silva, E.3    Blin, N.4    Gott, P.5
  • 5
    • 0000043041 scopus 로고
    • Some matrix-variate distribution theory: Notational considerations and a Bayesian application
    • A.P. Dawid, Some matrix-variate distribution theory: notational considerations and a Bayesian application, Biometrika 68 (1981) 265-274.
    • (1981) Biometrika , vol.68 , pp. 265-274
    • Dawid, A.P.1
  • 6
    • 21344482755 scopus 로고
    • Hyper Markov laws in the statistical analysis of decomposable graphical models
    • A.P. Dawid, S.L. Lauritzen, Hyper Markov laws in the statistical analysis of decomposable graphical models, Ann. Statist. 3 (1993) 1272-1317.
    • (1993) Ann. Statist. , vol.3 , pp. 1272-1317
    • Dawid, A.P.1    Lauritzen, S.L.2
  • 7
    • 0032146274 scopus 로고    scopus 로고
    • The regulation of E2F by pRB family proteins
    • N. Dyson, The regulation of E2F by pRB family proteins, Gene. Dev. 12 (1998) 2245-2262.
    • (1998) Gene. Dev. , vol.12 , pp. 2245-2262
    • Dyson, N.1
  • 8
    • 0036431552 scopus 로고    scopus 로고
    • Parameter priors for directed acyclic graphical models and the characterization of several probability distributions
    • D. Geiger, D. Heckerman, Parameter priors for directed acyclic graphical models and the characterization of several probability distributions, Ann. Statist. 5 (2002) 1412-1440.
    • (2002) Ann. Statist. , vol.5 , pp. 1412-1440
    • Geiger, D.1    Heckerman, D.2
  • 9
    • 0011433907 scopus 로고
    • Learning in graphical Gaussian models
    • J.M. Bernardo, J. Berger, A. Dawid, A. Smith (Eds.), Oxford University Press, Oxford
    • P. Giudici, Learning in graphical Gaussian models, in: J.M. Bernardo, J. Berger, A. Dawid, A. Smith (Eds.), Bayesian Statistics, Vol. 5, Oxford University Press, Oxford, 1994, pp. 621-628.
    • (1994) Bayesian Statistics , vol.5 , pp. 621-628
    • Giudici, P.1
  • 10
    • 84962892658 scopus 로고    scopus 로고
    • GraphViz, AT&T Research Labs.
    • GraphViz, Open source graph drawing software, AT&T Research Labs., http://www.research.att.com/sw/tools/graphviz/.
    • Open Source Graph Drawing Software
  • 12
    • 0031897459 scopus 로고    scopus 로고
    • c-Maf interacts with c-Myb to regulate transcription of an early myeloid gene during differentiation
    • S.P. Hegde, A. Kumar, C. Kurschner, L.H. Shapiro, c-Maf interacts with c-Myb to regulate transcription of an early myeloid gene during differentiation, Molecular Cell. Biol. 18 (1998) 2729-2737.
    • (1998) Molecular Cell. Biol. , vol.18 , pp. 2729-2737
    • Hegde, S.P.1    Kumar, A.2    Kurschner, C.3    Shapiro, L.H.4
  • 14
    • 0011374008 scopus 로고    scopus 로고
    • Nonlinear Markov networks for continuous variables
    • M.I. Jordan, M.J. Kearns, S.A. Solla (Eds.), Proceedings of the 1997 Conference, MIT Press, Cambridge, MA
    • R. Hofmann, V. Tresp, Nonlinear Markov networks for continuous variables, in: M.I. Jordan, M.J. Kearns, S.A. Solla (Eds.), Advances in Neural Information Processing Systems, Vol. 10, Proceedings of the 1997 Conference, MIT Press, Cambridge, MA, 1998, pp. 521-527.
    • (1998) Advances in Neural Information Processing Systems , vol.10 , pp. 521-527
    • Hofmann, R.1    Tresp, V.2
  • 16
    • 0042809627 scopus 로고    scopus 로고
    • Gene expression profiles and predicting clinical characteristics of breast cancer
    • E. Huang, M. West, J.R. Nevins, Gene expression profiles and predicting clinical characteristics of breast cancer, Recent Progr. Hormone Res. (2003) 55-73.
    • (2003) Recent Progr. Hormone Res. , pp. 55-73
    • Huang, E.1    West, M.2    Nevins, J.R.3
  • 17
    • 0017700706 scopus 로고
    • Estrogen receptor as an independent prognostic factor for early recurrence in breast cancer
    • W.A. Knight, R.B. Livingston, E.J. Gregory, W.L. McGuire, Estrogen receptor as an independent prognostic factor for early recurrence in breast cancer, Cancer Res. 37 (1977) 4669-4671.
    • (1977) Cancer Res. , vol.37 , pp. 4669-4671
    • Knight, W.A.1    Livingston, R.B.2    Gregory, E.J.3    McGuire, W.L.4
  • 19
    • 0023686572 scopus 로고
    • Identification and characterization of estrogen-regulated RNAs in human breast cancer cells
    • F.E. May, B.R. Westley, Identification and characterization of estrogen-regulated RNAs in human breast cancer cells, J. Biol. Chem. 263 (1988) 12901-12908.
    • (1988) J. Biol. Chem. , vol.263 , pp. 12901-12908
    • May, F.E.1    Westley, B.R.2
  • 20
    • 0031815596 scopus 로고    scopus 로고
    • Towards an understanding of the functional complexity of the E2F and retinoblastoma families
    • J.R. Nevins, Towards an understanding of the functional complexity of the E2F and retinoblastoma families, Cell Growth Differ. 9 (1998) 585-593.
    • (1998) Cell Growth Differ. , vol.9 , pp. 585-593
    • Nevins, J.R.1
  • 22
    • 0026336492 scopus 로고
    • The protooncogene c-Myb increases the expression of insulin-like growth factor 1 and insulin-like growth factor 1 receptor messenger RNAs by a transcriptional mechanism
    • K. Reiss, A. Ferber, S. Travail, P. Porcu, P.D. Phillips, R. Baserga, The protooncogene c-Myb increases the expression of insulin-like growth factor 1 and insulin-like growth factor 1 receptor messenger RNAs by a transcriptional mechanism, Cancer Res. 51 (1991) 5997-6000.
    • (1991) Cancer Res. , vol.51 , pp. 5997-6000
    • Reiss, K.1    Ferber, A.2    Travail, S.3    Porcu, P.4    Phillips, P.D.5    Baserga, R.6
  • 23
    • 23744453953 scopus 로고    scopus 로고
    • Compatible prior distributions for DAG models
    • A. Roverato, G. Consonni, Compatible prior distributions for DAG models, DIMACS Technical Report 2002-17, 2002.
    • (2002) DIMACS Technical Report , vol.2002 , Issue.17
    • Roverato, A.1    Consonni, G.2
  • 24
    • 0028173314 scopus 로고
    • Androgen regulation of the insulin-like growth factorI and the estrogen receptor in rat uterus and liver
    • L. Sahlin, G. Norstedt, H. Eriksson, Androgen regulation of the insulin-like growth factorI and the estrogen receptor in rat uterus and liver, J. Steroid Biochem. Molecular Biol. 51 (1994) 57-66.
    • (1994) J. Steroid Biochem. Molecular Biol. , vol.51 , pp. 57-66
    • Sahlin, L.1    Norstedt, G.2    Eriksson, H.3
  • 25
    • 0035823576 scopus 로고    scopus 로고
    • Ligand-dependent interaction of estrogen receptor alpha with members of the forkhead transcription factor family
    • E.R. Schuur, A.V. Loktev, M. Sharma, Z. Sun, A.A. Roth, R.J. Weigel, Ligand-dependent interaction of estrogen receptor alpha with members of the forkhead transcription factor family, J. Biol. Chem. 276 (2001) 33554-33560.
    • (2001) J. Biol. Chem. , vol.276 , pp. 33554-33560
    • Schuur, E.R.1    Loktev, A.V.2    Sharma, M.3    Sun, Z.4    Roth, A.A.5    Weigel, R.J.6
  • 26
    • 84986980101 scopus 로고
    • Sequential updating of conditional probabilities on directed graphical structures
    • D.J. Spiegelhalter, S.L. Lauritzen, Sequential updating of conditional probabilities on directed graphical structures, Networks 20 (1990) 579-605.
    • (1990) Networks , vol.20 , pp. 579-605
    • Spiegelhalter, D.J.1    Lauritzen, S.L.2
  • 27
    • 0242295767 scopus 로고    scopus 로고
    • Bayesian factor regression models in the "large p, small n" paradigm
    • J.M. Bernardo, M. Bayarri, J. Berger, A. Dawid, D. Heckerman, A. Smith, M. West (Eds.), Oxford University Press, Oxford
    • M. West, Bayesian factor regression models in the "large p, small n" paradigm, in: J.M. Bernardo, M. Bayarri, J. Berger, A. Dawid, D. Heckerman, A. Smith, M. West (Eds.), Bayesian Statistics, Vol. 7, Oxford University Press, Oxford, 2003, pp. 723-732.
    • (2003) Bayesian Statistics , vol.7 , pp. 723-732
    • West, M.1
  • 30
    • 0036790999 scopus 로고    scopus 로고
    • Transitive functional annotation by shortest path analysis of gene expression data
    • X. Zhou, M.J. Kao, W.H. Wong, Transitive functional annotation by shortest path analysis of gene expression data, Proc. Nat. Acad. Sci. 99 (2002) 12783-12788.
    • (2002) Proc. Nat. Acad. Sci. , vol.99 , pp. 12783-12788
    • Zhou, X.1    Kao, M.J.2    Wong, W.H.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.