ArticleBMC genomics2007
Inference of transcription modification in long-live yeast strains from their expression profiles.
Article in BMC genomics, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 35 citations in OpenAlex.
- Article
- Mitochondria orchestrate proteostatic and metabolic stress responses.EMBO reports · 2019Review
- Emerging Omics Approaches in Aging Research.Antioxidants & redox signaling · 2018Review
- Heme promotes transcriptional and demethylase activities of Gis1, a member of the histone demethylase JMJD2/KDM4 family.Nucleic acids research · 2018Article
- CAN1 Arginine Permease Deficiency Extends Yeast Replicative Lifespan via Translational Activation of Stress Response Genes.Cell reports · 2017Article
- Synergistic effects of TOR and proteasome pathways on the yeast transcriptome and cell growth.Open biology · 2013Article
- Replicative and chronological aging in Saccharomyces cerevisiae.Cell metabolism · 2012Review
- Gis1 and Rph1 regulate glycerol and acetate metabolism in glucose depleted yeast cells.PloS one · 2012Article
- Transcriptional regulation via TF-modifying enzymes: an integrative model-based analysis.Nucleic acids research · 2011Article
- Computational biology for ageing.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2011Review
- Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data.BMC bioinformatics · 2010Article
- Comparative analyses of time-course gene expression profiles of the long-lived sch9Delta mutant.Nucleic acids research · 2010Article
- Oncogene homologue Sch9 promotes age-dependent mutations by a superoxide and Rev1/Polzeta-dependent mechanism.The Journal of cell biology · 2009Article
- Tor1/Sch9-regulated carbon source substitution is as effective as calorie restriction in life span extension.PLoS genetics · 2009Article
- A molecular mechanism of chronological aging in yeast.Cell cycle (Georgetown, Tex.) · 2009Article
- Identification of longevity genes with systems biology approaches.Advances and applications in bioinformatics and chemistry : AABC · 2009Article
- SirT1 inhibition reduces IGF-I/IRS-2/Ras/ERK1/2 signaling and protects neurons.Cell metabolism · 2008Article
- Life span extension by calorie restriction depends on Rim15 and transcription factors downstream of Ras/PKA, Tor, and Sch9.PLoS genetics · 2008Article
- Inferring activity changes of transcription factors by binding association with sorted expression profiles.BMC bioinformatics · 2007Article
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5 authors at 1 institution in 1 country.
Funding
Abstract
backgroundThree kinases: Sch9, PKA and TOR, are suggested to be involved in both the replicative and chronological ageing in yeast. They function in pathways whose down-regulation leads to life span extension. Several stress response proteins, including two transcription factors Msn2 and Msn4, mediate the longevity extension phenotype associated with decreased activity of either Sch9, PKA, or TOR. However, the mechanisms of longevity, especially the underlying transcription program have not been fully understood.
resultsWe measured the gene expression profiles in wild type yeast and three long-lived mutants: sch9Delta, ras2Delta, and tor1Delta. To elucidate the transcription program that may account for the longevity extension, we identified the transcription factors that are systematically and significantly associated with the expression differentiation in these mutants with respect to wild type by integrating microarray expression data with motif and ChIP-chip data, respectively. Our analysis suggests that three stress response transcription factors, Msn2, Msn4 and Gis1, are activated in all the three mutants. We also identify some other transcription factors such as Fhl1 and Hsf1, which may also be involved in the transcriptional modification in the long-lived mutants.
conclusionCombining microarray expression data with other data sources such as motif and ChIP-chip data provides biological insights into the transcription modification that leads to life span extension. In the chronologically long-lived mutant: sch9Delta, ras2Delta, and tor1Delta, several common stress response transcription factors are activated compared with the wild type according to our systematic transcription inference.
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