메뉴 건너뛰기




Volumn 29, Issue 3, 2005, Pages 204-211

Borrowing information from relevant microarray studies for sample classification using weighted partial least squares

Author keywords

Gradient directed path; Meta analysis; Partial least squares; Penalized partial least squares; Squared error loss

Indexed keywords

BIOLOGICAL ORGANS; CARDIOVASCULAR SYSTEM; DNA; ERRORS; GENES; INFORMATION ANALYSIS; MATHEMATICAL MODELS; MEDICAL PROBLEMS; METADATA; PULMONARY DISEASES; VECTORS;

EID: 20444445170     PISSN: 14769271     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.compbiolchem.2005.04.002     Document Type: Article
Times cited : (12)

References (38)
  • 2
    • 20444448822 scopus 로고    scopus 로고
    • PLS dimension reduction for classification with microarray data
    • A.-L. Boulesteix PLS dimension reduction for classification with microarray data Stat. Appl. Genet. Mol. Biol. 3 1 2004 (article 33)
    • (2004) Stat. Appl. Genet. Mol. Biol. , vol.3 , Issue.1
    • Boulesteix, A.-L.1
  • 4
    • 8644245385 scopus 로고    scopus 로고
    • Gradient directed regularization for linear regression and classification
    • Stat. Dept., Stanford University
    • Friedman, J.H., Popescu, B.E., 2004. Gradient directed regularization for linear regression and classification, Technical report. Stat. Dept., Stanford University.
    • (2004) Technical Report
    • Friedman, J.H.1    Popescu, B.E.2
  • 6
    • 0346102889 scopus 로고    scopus 로고
    • Penalized discriminant methods for the classification of tumors from gene expression data
    • D. Ghosh Penalized discriminant methods for the classification of tumors from gene expression data Biometrics 59 2003 992 1000
    • (2003) Biometrics , vol.59 , pp. 992-1000
    • Ghosh, D.1
  • 7
    • 1542309545 scopus 로고    scopus 로고
    • Statistical issues and methods for meta-analysis of microarray data: A case study in prostate cancer
    • D. Ghosh, T.R. Barette, D. Rhodes, and A.M. Chinnaiyan Statistical issues and methods for meta-analysis of microarray data: a case study in prostate cancer Funct. Integr. Genomics 3 2003 180 188
    • (2003) Funct. Integr. Genomics , vol.3 , pp. 180-188
    • Ghosh, D.1    Barette, T.R.2    Rhodes, D.3    Chinnaiyan, A.M.4
  • 8
    • 3142727653 scopus 로고    scopus 로고
    • The use of weighted likelihood in the natural exponential families with quadratic variance
    • M. Ghosh, J.V. Zidek, T. Maiti, and R. White The use of weighted likelihood in the natural exponential families with quadratic variance Can. J. Stat. 32 2004
    • (2004) Can. J. Stat. , vol.32
    • Ghosh, M.1    Zidek, J.V.2    Maiti, T.3    White, R.4
  • 10
    • 15944409959 scopus 로고    scopus 로고
    • Threshold gradient descent method for censored data regression, with applications in pharmacogenomics
    • in press
    • Gui, J., Li, H., 2004. Threshold gradient descent method for censored data regression, with applications in pharmacogenomics. Pac. Symp. Biocomput. (in press).
    • (2004) Pac. Symp. Biocomput.
    • Gui, J.1    Li, H.2
  • 13
    • 0036763177 scopus 로고    scopus 로고
    • The weighted likelihood
    • F. Hu, and J.V. Zidek The weighted likelihood Can. J. of Stat. 30 2002 347 371
    • (2002) Can. J. of Stat. , vol.30 , pp. 347-371
    • Hu, F.1    Zidek, J.V.2
  • 14
    • 20444463068 scopus 로고    scopus 로고
    • Entropy and survival-based weights to combine affymetrix array types in the analysis of differential expression and survival
    • J. Hu, G. Yin, J. Morris, L. Zhang, and F. Wright Entropy and survival-based weights to combine affymetrix array types in the analysis of differential expression and survival CAMDA Conference 2003
    • (2003) CAMDA Conference
    • Hu, J.1    Yin, G.2    Morris, J.3    Zhang, L.4    Wright, F.5
  • 15
    • 0242559063 scopus 로고    scopus 로고
    • Linear regression and two-class classification with gene expression data
    • X. Huang, and W. Pan Linear regression and two-class classification with gene expression data Bioinformatics 19 2003 2072 2078
    • (2003) Bioinformatics , vol.19 , pp. 2072-2078
    • Huang, X.1    Pan, W.2
  • 16
    • 2342442343 scopus 로고    scopus 로고
    • Modeling the relationship between LVAD support time and gene expression changes in the human heart by penalized partial least squares
    • X. Huang, W. Pan, S. Park, X. Han, L.W. Miller, and J. Hall Modeling the relationship between LVAD support time and gene expression changes in the human heart by penalized partial least squares Bioinformatics 20 2004 888 894
    • (2004) Bioinformatics , vol.20 , pp. 888-894
    • Huang, X.1    Pan, W.2    Park, S.3    Han, X.4    Miller, L.W.5    Hall, J.6
  • 17
    • 20444480540 scopus 로고    scopus 로고
    • A comparative study of discriminating human heart failure etiology using gene expression profiles
    • Division of Biostatistics, University of Minnesota
    • Huang, X., Pan, W., Grindle, S., Han, X., Chen, Y., Park, S., Miller, L.W., Hall, J., 2004b. A comparative study of discriminating human heart failure etiology using gene expression profiles, Research report 2004-024. Division of Biostatistics, University of Minnesota (available at http://www.biostat.umn.edu. /rrs.php).
    • (2004) Research Report , vol.2004 , Issue.24
    • Huang, X.1    Pan, W.2    Grindle, S.3    Han, X.4    Chen, Y.5    Park, S.6    Miller, L.W.7    Hall, J.8
  • 18
    • 13244289883 scopus 로고    scopus 로고
    • Joint analysis of two microarray gene expression data sets to select lung adenocarcinoma marker genes
    • H. Jiang, Y. Deng, H.-S. Chen, L. Tao, Q. Sha, J. Chen, C.-J. Tsai, and S. Zhang Joint analysis of two microarray gene expression data sets to select lung adenocarcinoma marker genes BMC Bioinform. 5 2004 81
    • (2004) BMC Bioinform. , vol.5 , pp. 81
    • Jiang, H.1    Deng, Y.2    Chen, H.-S.3    Tao, L.4    Sha, Q.5    Chen, J.6    Tsai, C.-J.7    Zhang, S.8
  • 19
    • 0029840619 scopus 로고    scopus 로고
    • Transient normalization of systolic and diastolic function after support with a left ventricular assist device in a patient with dilated cardiomyopathy
    • H.R. Levin, M.C. Oz, K.A. Catanese, E.A. Rose, and D. Burkhoff Transient normalization of systolic and diastolic function after support with a left ventricular assist device in a patient with dilated cardiomyopathy J. Heart Lung Transplant 15 1996 840 842
    • (1996) J. Heart Lung Transplant , vol.15 , pp. 840-842
    • Levin, H.R.1    Oz, M.C.2    Catanese, K.A.3    Rose, E.A.4    Burkhoff, D.5
  • 20
    • 12744266814 scopus 로고    scopus 로고
    • Partial cox regression analysis for high-dimensional microarray gene expression data
    • H. Li, and J. Gui Partial cox regression analysis for high-dimensional microarray gene expression data Bioinformatics 20 Suppl. 1 2004 i208 i215
    • (2004) Bioinformatics , vol.20 , Issue.1
    • Li, H.1    Gui, J.2
  • 21
    • 3142592326 scopus 로고    scopus 로고
    • Extreme-value distribution based gene selection criteria for discriminant microarray data analysis using logistic regression
    • W. Li, F. Sun, and I. Grosse Extreme-value distribution based gene selection criteria for discriminant microarray data analysis using logistic regression J. Comput. Biol. 11 2004 215 226
    • (2004) J. Comput. Biol. , vol.11 , pp. 215-226
    • Li, W.1    Sun, F.2    Grosse, I.3
  • 22
    • 20444474911 scopus 로고    scopus 로고
    • Making sense of human lung carcinomas gene expression data: Integration and analysis of two affymetrix platform experiments
    • X. Lin, D. Park, S. Eslava, K. Lee, R. Lam, and L. Zhu Making sense of human lung carcinomas gene expression data: integration and analysis of two affymetrix platform experiments CAMDA Conference 2003
    • (2003) CAMDA Conference
    • Lin, X.1    Park, D.2    Eslava, S.3    Lee, K.4    Lam, R.5    Zhu, L.6
  • 23
    • 0037039849 scopus 로고    scopus 로고
    • Mechanical circulatory support-a long and winding road
    • P.M. McCarthy, and W.A. Smith Mechanical circulatory support-a long and winding road Science 295 2002 998 999
    • (2002) Science , vol.295 , pp. 998-999
    • McCarthy, P.M.1    Smith, W.A.2
  • 24
    • 20444490691 scopus 로고    scopus 로고
    • Identification of prognostic genes, combining information across different institutions and oligonucleotide arrays
    • J.S. Morris, G. Yin, K. Baggerly, C. Wu, and L. Zhang Identification of prognostic genes, combining information across different institutions and oligonucleotide arrays CAMDA Conference 2003
    • (2003) CAMDA Conference
    • Morris, J.S.1    Yin, G.2    Baggerly, K.3    Wu, C.4    Zhang, L.5
  • 25
    • 0003078723 scopus 로고
    • Approximate Bayesian inference with the weighted likelihood bootstrap
    • M.A. Newton, and A.E. Raftery Approximate Bayesian inference with the weighted likelihood bootstrap JRSS-B 56 1994 3 48
    • (1994) JRSS-B , vol.56 , pp. 3-48
    • Newton, M.A.1    Raftery, A.E.2
  • 26
    • 0036166439 scopus 로고    scopus 로고
    • Tumor classification by partial least squares using microarray gene expression data
    • D.V. Nguyen, and D.M. Rocke Tumor classification by partial least squares using microarray gene expression data Bioinformatics 18 2002 39 50
    • (2002) Bioinformatics , vol.18 , pp. 39-50
    • Nguyen, D.V.1    Rocke, D.M.2
  • 27
    • 2442545413 scopus 로고    scopus 로고
    • A cross-study comparison of gene expression studies for the molecular classification of lung cancer
    • G. Parmigiani, E.S. Garrett-Mayer, R. Anbazhagan, and E. Babrielson A cross-study comparison of gene expression studies for the molecular classification of lung cancer Clin. Cancer Res. 10 2004 2922 2927
    • (2004) Clin. Cancer Res. , vol.10 , pp. 2922-2927
    • Parmigiani, G.1    Garrett-Mayer, E.S.2    Anbazhagan, R.3    Babrielson, E.4
  • 28
    • 0002270544 scopus 로고
    • Asymptotic theory of weighted maximum likelihood estimation for growth models
    • N. Prabhu I.V. Vasawa Dekker New York
    • P.B.L.S. Rao Asymptotic theory of weighted maximum likelihood estimation for growth models N. Prabhu I.V. Vasawa Statistical Inference for Stochastic Processes 1991 Dekker New York 183 208
    • (1991) Statistical Inference for Stochastic Processes , pp. 183-208
    • Rao, P.B.L.S.1
  • 29
    • 0036682376 scopus 로고    scopus 로고
    • Meta-analysis of microarrays: Interstudy validation of gene expression profiles reveals pathway dysregulation in prostate cancer
    • D.R. Rhodes, T.R. Barrette, M.A. Rubin, D. Ghosh, and A.M. Chinnaiyan Meta-analysis of microarrays: interstudy validation of gene expression profiles reveals pathway dysregulation in prostate cancer Cancer Res. 62 2002 4427 4433
    • (2002) Cancer Res. , vol.62 , pp. 4427-4433
    • Rhodes, D.R.1    Barrette, T.R.2    Rubin, M.A.3    Ghosh, D.4    Chinnaiyan, A.M.5
  • 30
    • 20444451169 scopus 로고    scopus 로고
    • Application of survival and multivariate methods to gene expression data combined from two sources
    • L. Robb, R. Stephens, and J. Coleman Application of survival and multivariate methods to gene expression data combined from two sources CAMDA Conference 2003
    • (2003) CAMDA Conference
    • Robb, L.1    Stephens, R.2    Coleman, J.3
  • 32
    • 20044395334 scopus 로고    scopus 로고
    • Prognostic meta-signature of breast cancer developed by two-stage mixture modeling of microarray data
    • R. Shen, D. Ghosh, and A.M. Chinnaiyan Prognostic meta-signature of breast cancer developed by two-stage mixture modeling of microarray data BMC Genomics 5 2004 94
    • (2004) BMC Genomics , vol.5 , pp. 94
    • Shen, R.1    Ghosh, D.2    Chinnaiyan, A.M.3
  • 34
    • 3142537293 scopus 로고    scopus 로고
    • Multi-class tumor classification by discriminant partial least squares using microarray gene expression data and assessment of classification models
    • Y. Tan, L. Shi, W. Tong, G.T.G. Hwang, and C. Wang Multi-class tumor classification by discriminant partial least squares using microarray gene expression data and assessment of classification models Comput. Biol. Chem. 28 2004 235 243
    • (2004) Comput. Biol. Chem. , vol.28 , pp. 235-243
    • Tan, Y.1    Shi, L.2    Tong, W.3    Hwang, G.T.G.4    Wang, C.5
  • 35
    • 10244224128 scopus 로고    scopus 로고
    • Difference in gene expression between B-cell chronic lymphocytic leukemia and normal B cells: A meta-analysis of three microarray studies
    • J. Wang, K.R. Coombes, W.E. Highsmith, M.J. Keating, and L.V. Abruzzo Difference in gene expression between B-cell chronic lymphocytic leukemia and normal B cells: a meta-analysis of three microarray studies Bioinformatics 20 2004 3166 3178
    • (2004) Bioinformatics , vol.20 , pp. 3166-3178
    • Wang, J.1    Coombes, K.R.2    Highsmith, W.E.3    Keating, M.J.4    Abruzzo, L.V.5
  • 36
    • 0242467619 scopus 로고    scopus 로고
    • Asymptotic properties of maximum weighted likelihood estimators
    • X. Wang, C. van Eeden, and J.V. Zidek Asymptotic properties of maximum weighted likelihood estimators J. Stat. Plan. Inference 119 2004 37 54
    • (2004) J. Stat. Plan. Inference , vol.119 , pp. 37-54
    • Wang, X.1    Van Eeden, C.2    Zidek, J.V.3
  • 37
    • 0001681052 scopus 로고
    • The collinearity problem in linear regression. The partial least squares (PLS) approach to generalized inverses
    • S. Wold, A. Ruhe, H. Wold, and W.J. Dunn III The collinearity problem in linear regression. The partial least squares (PLS) approach to generalized inverses SIAM J. Sci. Stat. Comput. 58 3 1984 735 742
    • (1984) SIAM J. Sci. Stat. Comput. , vol.58 , Issue.3 , pp. 735-742
    • Wold, S.1    Ruhe, A.2    Wold, H.3    Dunn III, W.J.4
  • 38
    • 0037221729 scopus 로고    scopus 로고
    • Dysregulation of the annexin family protein family is associated with prostate cancer progression
    • W. Xin, D.R. Rhodes, C. Ingold, A.M. Chinnaiyan, and M.A. Rubin Dysregulation of the annexin family protein family is associated with prostate cancer progression Am. J. Pathol. 23 2003 255 261
    • (2003) Am. J. Pathol. , vol.23 , pp. 255-261
    • Xin, W.1    Rhodes, D.R.2    Ingold, C.3    Chinnaiyan, A.M.4    Rubin, M.A.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.