| Expression deconvolution: a reinterpretation of DNA microarray data reveals dynamic changes in cell populations. | |
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MedLine Citation:
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PMID: 12934019 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
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Cells grow in dynamically evolving populations, yet this aspect of experiments often goes unmeasured. A method is proposed for measuring the population dynamics of cells on the basis of their mRNA expression patterns. The population's expression pattern is modeled as the linear combination of mRNA expression from pure samples of cells, allowing reconstruction of the relative proportions of pure cell types in the population. Application of the method, termed expression deconvolution, to yeast grown under varying conditions reveals the population dynamics of the cells during the cell cycle, during the arrest of cells induced by DNA damage and the release of arrest in a cell cycle checkpoint mutant, during sporulation, and following environmental stress. Using expression deconvolution, cell cycle defects are detected and temporally ordered in 146 yeast deletion mutants; six of these defects are independently experimentally validated. Expression deconvolution allows a reinterpretation of the cell cycle dynamics underlying all previous microarray experiments and can be more generally applied to study most forms of cell population dynamics. |
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Authors:
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Peng Lu; Aleksey Nakorchevskiy; Edward M Marcotte |
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Publication Detail:
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Type: Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S. Date: 2003-08-21 |
Journal Detail:
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Title: Proceedings of the National Academy of Sciences of the United States of America Volume: 100 ISSN: 0027-8424 ISO Abbreviation: Proc. Natl. Acad. Sci. U.S.A. Publication Date: 2003 Sep |
Date Detail:
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Created Date: 2003-09-03 Completed Date: 2003-10-23 Revised Date: 2009-11-18 |
Medline Journal Info:
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Nlm Unique ID: 7505876 Medline TA: Proc Natl Acad Sci U S A Country: United States |
Other Details:
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Languages: eng Pagination: 10370-5 Citation Subset: IM |
Affiliation:
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Department of Chemistry and Biochemistry, Center for Computational Biology and Bioinformatics, 1 University Station, A4800, University of Texas, Austin, TX 78712-0159, USA. |
Export Citation:
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| MeSH Terms | |
Descriptor/Qualifier:
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Cell Cycle Gene Expression Profiling Oligonucleotide Array Sequence Analysis* Saccharomyces cerevisiae / cytology*, genetics |
| Comments/Corrections | |
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