Literature DB >> 24683388

Identification of Marker Genes for Cancer Based on Microarrays Using a Computational Biology Approach.

Xiaosheng Wang1.   

Abstract

Rapid advances in gene expression microarray technology have enabled to discover molecular markers used for cancer diagnosis, prognosis, and prediction. One computational challenge with using microarray data analysis to create cancer classifiers is how to effectively deal with microarray data which are composed of high-dimensional attributes (p) and low-dimensional instances (n). Gene selection and classifier construction are two key issues concerned with this topics. In this article, we reviewed major methods for computational identification of cancer marker genes. We concluded that simple methods should be preferred to complicated ones for their interpretability and applicability.

Entities:  

Keywords:  Cancer; Computational biology; Marker genes; Microarrays

Year:  2014        PMID: 24683388      PMCID: PMC3964808          DOI: 10.2174/1574893608999140109115649

Source DB:  PubMed          Journal:  Curr Bioinform        ISSN: 1574-8936            Impact factor:   3.543


  55 in total

1.  Diffuse large B-cell lymphoma outcome prediction by gene-expression profiling and supervised machine learning.

Authors:  Margaret A Shipp; Ken N Ross; Pablo Tamayo; Andrew P Weng; Jeffery L Kutok; Ricardo C T Aguiar; Michelle Gaasenbeek; Michael Angelo; Michael Reich; Geraldine S Pinkus; Tane S Ray; Margaret A Koval; Kim W Last; Andrew Norton; T Andrew Lister; Jill Mesirov; Donna S Neuberg; Eric S Lander; Jon C Aster; Todd R Golub
Journal:  Nat Med       Date:  2002-01       Impact factor: 53.440

2.  Quantitative monitoring of gene expression patterns with a complementary DNA microarray.

Authors:  M Schena; D Shalon; R W Davis; P O Brown
Journal:  Science       Date:  1995-10-20       Impact factor: 47.728

3.  Experimental trial for diagnosis of pancreatic ductal carcinoma based on gene expression profiles of pancreatic ductal cells.

Authors:  Madoka Ishikawa; Koji Yoshida; Yoshihiro Yamashita; Jun Ota; Shuji Takada; Hiroyuki Kisanuki; Koji Koinuma; Young Lim Choi; Ruri Kaneda; Toshiyasu Iwao; Kiichi Tamada; Kentaro Sugano; Hiroyuki Mano
Journal:  Cancer Sci       Date:  2005-07       Impact factor: 6.716

4.  Classification of human lung carcinomas by mRNA expression profiling reveals distinct adenocarcinoma subclasses.

Authors:  A Bhattacharjee; W G Richards; J Staunton; C Li; S Monti; P Vasa; C Ladd; J Beheshti; R Bueno; M Gillette; M Loda; G Weber; E J Mark; E S Lander; W Wong; B E Johnson; T R Golub; D J Sugarbaker; M Meyerson
Journal:  Proc Natl Acad Sci U S A       Date:  2001-11-13       Impact factor: 11.205

5.  Tumor classification by partial least squares using microarray gene expression data.

Authors:  Danh V Nguyen; David M Rocke
Journal:  Bioinformatics       Date:  2002-01       Impact factor: 6.937

6.  Simple decision rules for classifying human cancers from gene expression profiles.

Authors:  Aik Choon Tan; Daniel Q Naiman; Lei Xu; Raimond L Winslow; Donald Geman
Journal:  Bioinformatics       Date:  2005-08-16       Impact factor: 6.937

7.  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.  New feature subset selection procedures for classification of expression profiles.

Authors:  Trond Bø; Inge Jonassen
Journal:  Genome Biol       Date:  2002-03-14       Impact factor: 13.583

9.  Microarray-based cancer prediction using soft computing approach.

Authors:  Xiaosheng Wang; Osamu Gotoh
Journal:  Cancer Inform       Date:  2009-05-26

10.  Two-transcript gene expression classifiers in the diagnosis and prognosis of human diseases.

Authors:  Lucas B Edelman; Giuseppe Toia; Donald Geman; Wei Zhang; Nathan D Price
Journal:  BMC Genomics       Date:  2009-12-05       Impact factor: 3.969

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  2 in total

1.  Gender-specific associations between polymorphisms in the Toll-like receptor (TLR) genes and lung function among workers in swine operations.

Authors:  Zhiwei Gao; James A Dosman; Donna C Rennie; David A Schwartz; Ivana V Yang; Jeremy Beach; Ambikaipakan Senthilselvan
Journal:  J Toxicol Environ Health A       Date:  2018-11-12

2.  Mining pathway associations for disease-related pathway activity analysis based on gene expression and methylation data.

Authors:  Hyeonjeong Lee; Miyoung Shin
Journal:  BioData Min       Date:  2017-02-01       Impact factor: 2.522

  2 in total

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