Global analysis of gene function in yeast by quantitative phenotypic profiling

James A. Brown; Gavin Sherlock; Chad L. Myers; Nicola M. Burrows; Changchun Deng; H. Irene Wu; Kelly E. McCann; Olga G. Troyanskaya; J. Martin Brown

doi:10.1038/msb4100043

Global analysis of gene function in yeast by quantitative phenotypic profiling

James A. Brown, Gavin Sherlock, Chad L. Myers, Nicola M. Burrows, Changchun Deng, H. Irene Wu, Kelly E. McCann, Olga G. Troyanskaya, J. Martin Brown

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122 Scopus citations

Abstract

We present a method for the global analysis of the function of genes in budding yeast based on hierarchical clustering of the quantitative sensitivity profiles of the 4756 strains with individual homozygous deletion of nonessential genes to a broad range of cytotoxic or cytostatic agents. This method is superior to other global methods of identifying the function of genes involved in the various DNA repair and damage checkpoint pathways as well as other interrogated functions. Analysis of the phenotypic profiles of the 51 diverse treatments places a total of 860 genes of unknown function in clusters with genes of known function. We demonstrate that this can not only identify the function of unknown genes but can also suggest the mechanism of action of the agents used. This method will be useful when used alone and in conjunction with other global approaches to identify gene function in yeast.

Original language	English (US)
Article number	msb4100043
Pages (from-to)	2006.0001
Journal	Molecular Systems Biology
Volume	2
DOIs	https://doi.org/10.1038/msb4100043
State	Published - May 16 2006

All Science Journal Classification (ASJC) codes

Information Systems
General Immunology and Microbiology
Applied Mathematics
General Biochemistry, Genetics and Molecular Biology
General Agricultural and Biological Sciences
Computational Theory and Mathematics

Keywords

Deletion pool
Functional genomics
Hierarchical clustering
Phenotypic profiling
Yeast

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10.1038/msb4100043

Cite this

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title = "Global analysis of gene function in yeast by quantitative phenotypic profiling",

abstract = "We present a method for the global analysis of the function of genes in budding yeast based on hierarchical clustering of the quantitative sensitivity profiles of the 4756 strains with individual homozygous deletion of nonessential genes to a broad range of cytotoxic or cytostatic agents. This method is superior to other global methods of identifying the function of genes involved in the various DNA repair and damage checkpoint pathways as well as other interrogated functions. Analysis of the phenotypic profiles of the 51 diverse treatments places a total of 860 genes of unknown function in clusters with genes of known function. We demonstrate that this can not only identify the function of unknown genes but can also suggest the mechanism of action of the agents used. This method will be useful when used alone and in conjunction with other global approaches to identify gene function in yeast.",

keywords = "Deletion pool, Functional genomics, Hierarchical clustering, Phenotypic profiling, Yeast",

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AU - Brown, James A.

AU - Sherlock, Gavin

AU - Myers, Chad L.

AU - Burrows, Nicola M.

AU - Deng, Changchun

AU - Wu, H. Irene

AU - McCann, Kelly E.

AU - Troyanskaya, Olga G.

AU - Brown, J. Martin

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AB - We present a method for the global analysis of the function of genes in budding yeast based on hierarchical clustering of the quantitative sensitivity profiles of the 4756 strains with individual homozygous deletion of nonessential genes to a broad range of cytotoxic or cytostatic agents. This method is superior to other global methods of identifying the function of genes involved in the various DNA repair and damage checkpoint pathways as well as other interrogated functions. Analysis of the phenotypic profiles of the 51 diverse treatments places a total of 860 genes of unknown function in clusters with genes of known function. We demonstrate that this can not only identify the function of unknown genes but can also suggest the mechanism of action of the agents used. This method will be useful when used alone and in conjunction with other global approaches to identify gene function in yeast.

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Global analysis of gene function in yeast by quantitative phenotypic profiling

Abstract

All Science Journal Classification (ASJC) codes

Keywords

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