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Genome Biol. 2012 Jun 21;13(6):R55. doi: 10.1186/gb-2012-13-6-r55.

m:Explorer: multinomial regression models reveal positive and negative regulators of longevity in yeast quiescence.

Author information

  • 1EMBL-European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK. juri.reimand@utoronto.ca

Abstract

We developed m:Explorer for identifying process-specific transcription factors (TFs) from multiple genome-wide sources, including transcriptome, DNA-binding and chromatin data. m:Explorer robustly outperforms similar techniques in finding cell cycle TFs in Saccharomyces cerevisiae. We predicted and experimentally tested regulators of quiescence (G0), a model of ageing, over a six-week time-course. We validated nine of top-12 predictions as novel G0 TFs, including Δmga2, Δcst6, Δbas1 with higher viability and G0-essential TFs Tup1, Swi3. Pathway analysis associates longevity to reduced growth, reprogrammed metabolism and cell wall remodeling. m:Explorer (http://biit.cs.ut.ee/mexplorer/) is instrumental in interrogating eukaryotic regulatory systems using heterogeneous data.

PMID:
22720667
[PubMed - indexed for MEDLINE]
PMCID:
PMC3446321
Free PMC Article

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