Biology – Quantitative Biology – Molecular Networks
Scientific paper
2009-10-15
PLoS Comp Bio, 2010 Feb 26;6(2):e1000655
Biology
Quantitative Biology
Molecular Networks
Review based on ISMB 2009 tutorial; after two rounds of revision
Scientific paper
10.1371/journal.pcbi.1000655
Modern high-throughput gene perturbation screens are key technologies at the forefront of genetic research. Combined with rich phenotypic descriptors they enable researchers to observe detailed cellular reactions to experimental perturbations on a genome-wide scale. This review surveys the current state-of-the-art in analyzing perturbation screens from a network point of view. We describe approaches to make the step from the parts list to the wiring diagram by using phenotypes for network inference and integrating them with complementary data sources. The first part of the review describes methods to analyze one- or low-dimensional phenotypes like viability or reporter activity; the second part concentrates on high-dimensional phenotypes showing global changes in cell morphology, transcriptome or proteome.
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