Curr Top Med Chem. 2004;4(13):1357-70.

Analysis of DNA microarray data.

Hackl H, Sanchez Cabo F, Sturn A, Wolkenhauer O, Trajanoski Z.

Source

Institute for Genomics and Bioinformatics and Christian Doppler Laboratory for Genomics and Bioinformatics, Graz University of Technology, Petersgasse 14, A-8010 Graz, Austria.

Abstract

Recent advances in DNA microarray technology have great impact on many areas of biomedical research and pharmacogenomics: discovering novel targets and genes, elucidating signatures of complex diseases, transcriptional profiling of models for diseases, and the development of individually optimized drugs based on differential gene expression patterns. Consequently, there is demand for robust methods for data analysis and the choice of adequate statistical tests. This review guides through all steps in the cDNA microarray data analysis pipeline and gives a basic understanding of the challenges in interpreting large microarray datasets.

PMID:: 15379650; [PubMed - indexed for MEDLINE]

Publication Types, MeSH Terms, Substances

Publication Types

MeSH Terms

Substances

LinkOut - more resources

Full Text Sources

Other Literature Sources

COS Scholar Universe

Supplemental Content

Save items

Related citations in PubMed

Review The use of DNA microarrays to investigate the pharmacogenomics of drug response in living systems. [Curr Top Med Chem. 2004]
Review The use of DNA microarrays to investigate the pharmacogenomics of drug response in living systems.
Villeneuve DJ, Parissenti AM. Curr Top Med Chem. 2004; 4(13):1329-45.
Review From patterns to pathways: gene expression data analysis comes of age. [Nat Genet. 2002]
Review From patterns to pathways: gene expression data analysis comes of age.
Slonim DK. Nat Genet. 2002 Dec; 32 Suppl:502-8.
Review Computational strategies for analyzing data in gene expression microarray experiments. [J Bioinform Comput Biol. 2003]
Review Computational strategies for analyzing data in gene expression microarray experiments.
Aittokallio T, Kurki M, Nevalainen O, Nikula T, West A, Lahesmaa R. J Bioinform Comput Biol. 2003 Oct; 1(3):541-86.
Discovering biclusters in gene expression data based on high-dimensional linear geometries. [BMC Bioinformatics. 2008]
Discovering biclusters in gene expression data based on high-dimensional linear geometries.
Gan X, Liew AW, Yan H. BMC Bioinformatics. 2008 Apr 23; 9:209. Epub 2008 Apr 23.
Review Statistical analysis of DNA microarray data in cancer research. [Clin Cancer Res. 2006]
Review Statistical analysis of DNA microarray data in cancer research.
Fan J, Ren Y. Clin Cancer Res. 2006 Aug 1; 12(15):4469-73.

See reviews... See all...

Cited by 4 PubMed Central articles

Gene expression profiling in the stress control brain region hypothalamic paraventricular nucleus reveals a novel gene network including amyloid beta precursor protein. [BMC Genomics. 2010]
Gene expression profiling in the stress control brain region hypothalamic paraventricular nucleus reveals a novel gene network including amyloid beta precursor protein.
Tsolakidou A, Czibere L, Pütz B, Trümbach D, Panhuysen M, Deussing JM, Wurst W, Sillaber I, Landgraf R, Holsboer F, et al. BMC Genomics. 2010 Oct 8; 11:546. Epub 2010 Oct 8.
Review Real-time DNA microarrays: reality check. [Biochem Soc Trans. 2009]
Review Real-time DNA microarrays: reality check.
Chagovetz A, Blair S. Biochem Soc Trans. 2009 Apr; 37(Pt 2):471-5.
Very Important Pool (VIP) genes--an application for microarray-based molecular signatures. [BMC Bioinformatics. 2008]
Very Important Pool (VIP) genes--an application for microarray-based molecular signatures.
Su Z, Hong H, Fang H, Shi L, Perkins R, Tong W. BMC Bioinformatics. 2008 Aug 12; 9 Suppl 9:S9. Epub 2008 Aug 12.

See all...

Related information

Related Citations
Calculated set of PubMed citations closely related to the selected article(s) retrieved using a word weight algorithm. Related articles are displayed in ranked order from most to least relevant, with the “linked from” citation displayed first.
Compound (MeSH Keyword)
PubChem chemical compound records that are classified under the same Medical Subject Headings (MeSH) controlled vocabulary as the current articles.
Substance (MeSH Keyword)
PubChem chemical substance (submitted) records that are classified under the same Medical Subject Headings (MeSH) controlled vocabulary as the current articles.
Cited in PMC
Full-text articles in the PubMed Central Database that cite the current articles.

Recent activity

Clear Turn Off Turn On

Analysis of DNA microarray data.
Analysis of DNA microarray data.
Curr Top Med Chem. 2004 ;4(13):1357-70.

PubMed
Cytokines in the central nervous system: targets for therapeutic intervention.
Cytokines in the central nervous system: targets for therapeutic intervention.
Curr Drug Targets CNS Neurol Disord. 2004 Aug ;3(4):271-80.

PubMed
Stress and alcohol use: moderating effects of gender, coping, and alcohol expect...
Stress and alcohol use: moderating effects of gender, coping, and alcohol expectancies.
J Abnorm Psychol. 1992 Feb ;101(1):139-52.

PubMed
Endotoxin recognition molecules MD-2 and toll-like receptor 4 as potential targe...
Endotoxin recognition molecules MD-2 and toll-like receptor 4 as potential targets for therapeutic intervention of endotoxin shock.
Curr Drug Targets Inflamm Allergy. 2004 Sep ;3(3):291-7.

PubMed
Smooth-pursuit eye tracking in first-episode psychotic patients and their relati...
Smooth-pursuit eye tracking in first-episode psychotic patients and their relatives.
J Abnorm Psychol. 1992 Feb ;101(1):104-16.

PubMed

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

PubMed

Result Filters

Display Settings:

Send to: