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Ten Years of Pathway Analysis: Current Approaches and Outstanding Challenges.

Authors :
Khatri, Purvesh
Sirota, Marina
Butte, Atul J.
Source :
PLoS Computational Biology; Feb2012, Vol. 8 Issue 2, p1-10, 10p, 2 Diagrams, 1 Chart, 1 Graph
Publication Year :
2012

Abstract

Pathway analysis has become the first choice for gaining insight into the underlying biology of differentially expressed genes and proteins, as it reduces complexity and has increased explanatory power. We discuss the evolution of knowledge base-driven pathway analysis over its first decade, distinctly divided into three generations. We also discuss the limitations that are specific to each generation, and how they are addressed by successive generations of methods. We identify a number of annotation challenges that must be addressed to enable development of the next generation of pathway analysis methods. Furthermore, we identify a number of methodological challenges that the next generation of methods must tackle to take advantage of the technological advances in genomics and proteomics in order to improve specificity, sensitivity, and relevance of pathway analysis. [ABSTRACT FROM AUTHOR]

Details

Language :
English
ISSN :
1553734X
Volume :
8
Issue :
2
Database :
Complementary Index
Journal :
PLoS Computational Biology
Publication Type :
Academic Journal
Accession number :
73462095
Full Text :
https://doi.org/10.1371/journal.pcbi.1002375