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Gene set/pathway enrichment analysis.
MedLine Citation:
PMID:  23192548     Owner:  NLM     Status:  In-Data-Review    
Abstract/OtherAbstract:
Thanks for the dramatic reduction of the costs of high-throughput techniques in modern biotechnology, searching for differentially expressed genes is already a common procedure in identifying biomarkers or signatures of phenotypic states such as diseases or compound treatments. However, in most of the cases, especially in complex diseases, even given a list of biomarkers, the underlying biological mechanisms are still obscure to us. In other words, rather than knowing what genes are involved, we are more interested in discovering the common, collective roles of all these genes. Based on the assumption that genes involved in the same biological processes, functions, or localizations present correlated behaviors in terms of expression levels, signal intensities, allele occurrences, and so on, we can therefore apply statistical tests to find perturbed pathways. Gene Set/Pathway enrichment analysis is one of such techniques; a step-by-step instruction is described in this chapter.
Authors:
Jui-Hung Hung
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Publication Detail:
Type:  Journal Article    
Journal Detail:
Title:  Methods in molecular biology (Clifton, N.J.)     Volume:  939     ISSN:  1940-6029     ISO Abbreviation:  Methods Mol. Biol.     Publication Date:  2013  
Date Detail:
Created Date:  2012-11-29     Completed Date:  -     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  9214969     Medline TA:  Methods Mol Biol     Country:  United States    
Other Details:
Languages:  eng     Pagination:  201-13     Citation Subset:  IM    
Affiliation:
Program in Bioinformatics and Integrative Biology, Worcester, MA, USA, juihunghung@gmail.com.
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