Dudley AM~Church GM, 2005

Pubmed ID 16729036
Title A global view of pleiotropy and phenotypically derived gene function in yeast.
Authors Aimée Marie Dudley, Daniel Maarten Janse, Amos Tanay, Ron Shamir, George McDonald Church
Abstract Pleiotropy, the ability of a single mutant gene to cause multiple mutant phenotypes, is a relatively common but poorly understood phenomenon in biology. Perhaps the greatest challenge in the analysis of pleiotropic genes is determining whether phenotypes associated with a mutation result from the loss of a single function or of multiple functions encoded by the same gene. Here we estimate the degree of pleiotropy in yeast by measuring the phenotypes of 4710 mutants under 21 environmental conditions, finding that it is significantly higher than predicted by chance. We use a biclustering algorithm to group pleiotropic genes by common phenotype profiles. Comparisons of these clusters to biological process classifications, synthetic lethal interactions, and protein complex data support the hypothesis that this method can be used to genetically define cellular functions. Applying these functional classifications to pleiotropic genes, we are able to dissect phenotypes into groups associated with specific gene functions.
Citation Mol. Syst. Biol. 2005; 1:2005.0001

Datasets

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Paper Phenotype Condition Medium Collection Tested mutants Data Details
Dudley AM~Church GM, 2005 growth (spot assay) ethanol [6%] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) pH [3.0] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) sodium chloride [1.2 M] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) glucitol [1.2 M] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) paraquat [1 mM] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) benomyl [15 ug/ml] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) ultraviolet light [100 J/m2] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) hydroxyurea [11.4 mg/ml] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) mycophenolic acid [20 ug/ml] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) cycloheximide [0.18 ug/ml] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) sirolimus [0.1 ug/ml] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) calcium dichloride [0.7 M] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) cadmium dichloride [55 uM] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) hygromycin B [50 ug/ml] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) caffeine [2 mg/ml] YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) antimycin A [1 ug/ml] YPGal [2%] hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) antimycin A [1 ug/ml] YPRaf [2%] hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) standard YPG [3%] hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) standard YPL [2%] hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) standard YPD [low-phosphate] hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) low iron YPD hom 4,621 Discrete
Dudley AM~Church GM, 2005 growth (spot assay) 1,4-dithiothreitol [unknown] YPD hom 4,621 Discrete

Curation history

Data

Sept. 27, 2016 To request.
Sept. 27, 2016 Request sent.
Sept. 29, 2016 Ready to load.
Oct. 5, 2016 Loaded.

Tested strains

Sept. 27, 2016 To request.
Sept. 27, 2016 Request sent.
Sept. 29, 2016 Ready to load.
Oct. 5, 2016 Loaded.