Literature DB >> 22820089

Sparse regularized discriminant analysis with application to microarrays.

Ran Li1, Baolin Wu.   

Abstract

For cancer prediction using large-scale gene expression data, it often helps to incorporate gene interactions in the model. However it is not straightforward to simultaneously select important genes while modeling gene interactions. Some heuristic approaches have been proposed in the literature. In this paper, we study a unified modeling approach based on the ℓ(1) penalized likelihood estimation that can simultaneously select important genes and model gene interactions. We will illustrate its competitive performance through simulation studies and applications to public microarray data.
Copyright © 2012 Elsevier Ltd. All rights reserved.

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Year:  2012        PMID: 22820089      PMCID: PMC3423533          DOI: 10.1016/j.compbiolchem.2012.06.001

Source DB:  PubMed          Journal:  Comput Biol Chem        ISSN: 1476-9271            Impact factor:   2.877


  8 in total

1.  Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.

Authors:  M Ashburner; C A Ball; J A Blake; D Botstein; H Butler; J M Cherry; A P Davis; K Dolinski; S S Dwight; J T Eppig; M A Harris; D P Hill; L Issel-Tarver; A Kasarskis; S Lewis; J C Matese; J E Richardson; M Ringwald; G M Rubin; G Sherlock
Journal:  Nat Genet       Date:  2000-05       Impact factor: 38.330

2.  Knowledge-based analysis of microarray gene expression data by using support vector machines.

Authors:  M P Brown; W N Grundy; D Lin; N Cristianini; C W Sugnet; T S Furey; M Ares; D Haussler
Journal:  Proc Natl Acad Sci U S A       Date:  2000-01-04       Impact factor: 11.205

3.  Differential gene expression detection and sample classification using penalized linear regression models.

Authors:  Baolin Wu
Journal:  Bioinformatics       Date:  2005-12-13       Impact factor: 6.937

4.  Regularized linear discriminant analysis and its application in microarrays.

Authors:  Yaqian Guo; Trevor Hastie; Robert Tibshirani
Journal:  Biostatistics       Date:  2006-04-07       Impact factor: 5.899

5.  Predicting the clinical status of human breast cancer by using gene expression profiles.

Authors:  M West; C Blanchette; H Dressman; E Huang; S Ishida; R Spang; H Zuzan; J A Olson; J R Marks; J R Nevins
Journal:  Proc Natl Acad Sci U S A       Date:  2001-09-18       Impact factor: 11.205

6.  Regularization Paths for Generalized Linear Models via Coordinate Descent.

Authors:  Jerome Friedman; Trevor Hastie; Rob Tibshirani
Journal:  J Stat Softw       Date:  2010       Impact factor: 6.440

7.  Covariance-regularized regression and classification for high-dimensional problems.

Authors:  Daniela M Witten; Robert Tibshirani
Journal:  J R Stat Soc Series B Stat Methodol       Date:  2009-02-20       Impact factor: 4.488

8.  Gene expression correlates of clinical prostate cancer behavior.

Authors:  Dinesh Singh; Phillip G Febbo; Kenneth Ross; Donald G Jackson; Judith Manola; Christine Ladd; Pablo Tamayo; Andrew A Renshaw; Anthony V D'Amico; Jerome P Richie; Eric S Lander; Massimo Loda; Philip W Kantoff; Todd R Golub; William R Sellers
Journal:  Cancer Cell       Date:  2002-03       Impact factor: 31.743

  8 in total

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