The 95 papers which experimentally study the biological roles of both TFs of the PCTFP (Msn4-Yap1)
Verghese J, et al. (2012) Biology of the Heat Shock Response and Protein Chaperones: Budding Yeast (Saccharomyces cerevisiae) as a Model System. Microbiol Mol Biol Rev 76(2):115-58
Costa V and Moradas-Ferreira P (2001) Oxidative stress and signal transduction in Saccharomyces cerevisiae: insights into ageing, apoptosis and diseases. Mol Aspects Med 22(4-5):217-46
Drobna E, et al. (2012) Overexpression of the YAP1, PDE2, and STB3 genes enhances the tolerance of yeast to oxidative stress induced by 7-chlorotetrazolo[5,1-c]benzo[1,2,4]triazine. FEMS Yeast Res 12(8):958-68
Zheng J, et al. (2010) Epistatic relationships reveal the functional organization of yeast transcription factors. Mol Syst Biol 6():420
Tsuzi D, et al. (2004) Regulation of the yeast phospholipid hydroperoxide glutathione peroxidase GPX2 by oxidative stress is mediated by Yap1 and Skn7. FEBS Lett 565(1-3):148-54
Rojas M, et al. (2008) Selective inhibition of yeast regulons by daunorubicin: a transcriptome-wide analysis. BMC Genomics 9:358
Yazgan O and Krebs JE (2012) Mitochondrial and nuclear genomic integrity after oxidative damage in Saccharomyces cerevisiae. Front Biosci 17():1079-93
Teixeira MC, et al. (2006) Early transcriptional response of Saccharomyces cerevisiae to stress imposed by the herbicide 2,4-dichlorophenoxyacetic acid. FEMS Yeast Res 6(2):230-48
Huebert DJ, et al. (2012) Dynamic changes in nucleosome occupancy are not predictive of gene expression dynamics but are linked to transcription and chromatin regulators. Mol Cell Biol 32(9):1645-53
Drakulic T, et al. (2005) Involvement of oxidative stress response genes in redox homeostasis, the level of reactive oxygen species, and ageing in Saccharomyces cerevisiae. FEMS Yeast Res 5(12):1215-28
Beskow A and Wright AP (2006) Comparative analysis of regulatory transcription factors in Schizosaccharomyces pombe and budding yeasts. Yeast 23(13):929-35
Zhao Y, et al. (2008) Development of a Novel Oligonucleotide Array-Based Transcription Factor Assay Platform for Genome-Wide Active Transcription Factor Profiling in Saccharomyces cerevisiae. J Proteome Res 7(3):1315-1325
Lushchak VI (2010) Oxidative stress in yeast. Biochemistry (Mosc) 75(3):281-96
Santos PM, et al. (2009) Insights into yeast adaptive response to the agricultural fungicide mancozeb: a toxicoproteomics approach. Proteomics 9(3):657-70
Wu WS and Chen BS (2009) Identifying Stress Transcription Factors Using Gene Expression and TF-Gene Association Data. Bioinform Biol Insights 1():137-45
Workman CT, et al. (2006) A systems approach to mapping DNA damage response pathways. Science 312(5776):1054-9
Babbitt GA (2010) Relaxed selection against accidental binding of transcription factors with conserved chromatin contexts. Gene 466(1-2):43-8
Rodrigues-Pousada C, et al. (2005) The yeast stress response. Role of the Yap family of b-ZIP transcription factors. The PABMB Lecture delivered on 30 June 2004 at the 29th FEBS Congress in Warsaw. FEBS J 272(11):2639-47
Fry RC, et al. (2005) Genome-wide responses to DNA-damaging agents. Annu Rev Microbiol 59():357-77
Ratnakumar S, et al. (2011) Phenomic and transcriptomic analyses reveal that autophagy plays a major role in desiccation tolerance in Saccharomyces cerevisiae. Mol Biosyst 7(1):139-49
Okada N, et al. (2014) Comprehensive analysis of genes involved in the oxidative stress tolerance using yeast heterozygous deletion collection. FEMS Yeast Res 14(3):425-434
Wu WS and Li WH (2008) Identifying gene regulatory modules of heat shock response in yeast. BMC Genomics 9:439
Temple MD, et al. (2005) Complex cellular responses to reactive oxygen species. Trends Cell Biol 15(6):319-26
Horan S, et al. (2006) Transcriptional response to nitrosative stress in Saccharomyces cerevisiae. Yeast 23(7):519-35
Hasan R, et al. (2002) The control of the yeast H2O2 response by the Msn2/4 transcription factors. Mol Microbiol 45(1):233-41
Madeo F and Rockenfeller P (2008) Apoptotic death of ageing yeast. Exp Gerontol 43(10):876-81
Fomenko DE, et al. (2011) Thiol peroxidases mediate specific genome-wide regulation of gene expression in response to hydrogen peroxide. Proc Natl Acad Sci U S A 108(7):2729-34
Elemento O, et al. (2007) A Universal Framework for Regulatory Element Discovery across All Genomes and Data Types. Mol Cell 28(2):337-50
Wang YC and Chen BS (2010) Integrated cellular network of transcription regulations and protein-protein interactions. BMC Syst Biol 4():20
Piper PW, et al. (2006) Preadaptation to efficient respiratory maintenance is essential both for maximal longevity and the retention of replicative potential in chronologically ageing yeast. Mech Ageing Dev 127(9):733-40
Barreto L, et al. (2006) A Peroxisomal Glutathione Transferase of Saccharomyces cerevisiae Is Functionally Related to Sulfur Amino Acid Metabolism. Eukaryot Cell 5(10):1748-59
Miller C, et al. (2011) Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast. Mol Syst Biol 7():458
Bourges I, et al. (2005) Effect of inhibition of the bc1 complex on gene expression profile in yeast. J Biol Chem 280(33):29743-9
Lai LC, et al. (2006) Metabolic-state-dependent remodeling of the transcriptome in response to anoxia and subsequent reoxygenation in Saccharomyces cerevisiae. Eukaryot Cell 5(9):1468-89
Ernst J, et al. (2007) Reconstructing dynamic regulatory maps. Mol Syst Biol 3():74
Middendorf M, et al. (2004) Predicting genetic regulatory response using classification. Bioinformatics 20 Suppl 1():i232-40
Gasch AP, et al. (2000) Genomic expression programs in the response of yeast cells to environmental changes. Mol Biol Cell 11(12):4241-57
Ma M and Liu ZL (2010) Quantitative transcription dynamic analysis reveals candidate genes and key regulators for ethanol tolerance in Saccharomyces cerevisiae. BMC Microbiol 10():169
Izawa S, et al. (2007) Msn2p/Msn4p-activation is essential for the recovery from freezing stress in yeast. Biochem Biophys Res Commun 352(3):750-5
Ayer A, et al. (2012) A genome-wide screen in yeast identifies specific oxidative stress genes required for the maintenance of sub-cellular redox homeostasis. PLoS One 7(9):e44278
Aung-Htut MT, et al. (2012) Oxidative stresses and ageing. Subcell Biochem 57():13-54
Galganska H, et al. (2010) VDAC contributes to mRNA levels in Saccharomyces cerevisiae cells by the intracellular reduction/oxidation state dependent and independent mechanisms. J Bioenerg Biomembr 42(6):483-9
Hosiner D, et al. (2009) Arsenic toxicity to Saccharomyces cerevisiae is a consequence of inhibition of the TORC1 kinase combined with a chronic stress response. Mol Biol Cell 20(3):1048-57
Wong CM, et al. (2003) Transcriptional regulation of yeast peroxiredoxin gene TSA2 through Hap1p, Rox1p, and Hap2/3/5p. Free Radic Biol Med 34(5):585-97
Yu H and Gerstein M (2006) Genomic analysis of the hierarchical structure of regulatory networks. Proc Natl Acad Sci U S A 103(40):14724-31
Legras JL, et al. (2010) Activation of Two Different Resistance Mechanisms in Saccharomyces cerevisiae upon Exposure to Octanoic and Decanoic Acids. Appl Environ Microbiol 76(22):7526-35
Mazumder A, et al. (2013) Genome-wide single-cell-level screen for protein abundance and localization changes in response to DNA damage in S. cerevisiae. Nucleic Acids Res 41(20):9310-24
Landstetter N, et al. (2010) Functional genomics of drug-induced ion homeostasis identifies a novel regulatory crosstalk of iron and zinc regulons in yeast. OMICS 14(6):651-63
Yu T and Li KC (2005) Inference of transcriptional regulatory network by two-stage constrained space factor analysis. Bioinformatics 21(21):4033-8
Lelandais G and Devaux F (2010) Comparative functional genomics of stress responses in yeasts. OMICS 14(5):501-15
Moye-Rowley WS (2003) Regulation of the transcriptional response to oxidative stress in fungi: similarities and differences. Eukaryot Cell 2(3):381-9
Teixeira MC, et al. (2011) A genome-wide perspective on the response and tolerance to food-relevant stresses in Saccharomyces cerevisiae. Curr Opin Biotechnol 22(2):150-156
Gordan R, et al. (2011) Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights. Genome Biol 12(12):R125
Caspeta L, et al. (2015) Modifying Yeast Tolerance to Inhibitory Conditions of Ethanol Production Processes. Front Bioeng Biotechnol 3():184
Murray DB, et al. (2011) Redox regulation in respiring Saccharomyces cerevisiae. Biochim Biophys Acta 1810(10):945-58
Elsztein C, et al. (2011) The resistance of the yeast Saccharomyces cerevisiae to the biocide polyhexamethylene biguanide: involvement of cell wall integrity pathway and emerging role for YAP1. BMC Mol Biol 12(1):38
Toone WM and Jones N (1998) Stress-activated signalling pathways in yeast. Genes Cells 3(8):485-98
Molin M, et al. (2011) Life Span Extension and H(2)O(2) Resistance Elicited by Caloric Restriction Require the Peroxiredoxin Tsa1 in Saccharomyces cerevisiae. Mol Cell 43(5):823-33
Hong SK, et al. (2002) Msn2p/Msn4p act as a key transcriptional activator of yeast cytoplasmic thiol peroxidase II. J Biol Chem 277(14):12109-17
Jothi R, et al. (2009) Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture. Mol Syst Biol 5:294
Wawrzycka D, et al. (2010) Vmr 1p is a novel vacuolar multidrug resistance ABC transporter in Saccharomyces cerevisiae. FEMS Yeast Res 10(7):828-38
Jimenez A, et al. (2010) The biological activity of the wine anthocyanins delphinidin and petunidin is mediated through Msn2 and Msn4 in Saccharomyces cerevisiae. FEMS Yeast Res 10(7):858-69
Swiecilo A (2016) Cross-stress resistance in Saccharomyces cerevisiae yeast-new insight into an old phenomenon. Cell Stress Chaperones ()
Siddharthan R, et al. (2005) PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny. PLoS Comput Biol 1(7):e67
Inoue Y, et al. (1998) Expression of the glyoxalase I gene of Saccharomyces cerevisiae is regulated by high osmolarity glycerol mitogen-activated protein kinase pathway in osmotic stress response. J Biol Chem 273(5):2977-83
Yu L, et al. (2010) Allicin-induced global gene expression profile of Saccharomyces cerevisiae. Appl Microbiol Biotechnol 88(1):219-29
Kim IS, et al. (2013) Saccharomyces cerevisiae KNU5377 stress response during high-temperature ethanol fermentation. Mol Cells 35(3):210-8
Koerkamp MG, et al. (2002) Dissection of transient oxidative stress response in Saccharomyces cerevisiae by using DNA microarrays. Mol Biol Cell 13(8):2783-94
Toledano MB, et al. (2013) Functions and cellular compartmentation of the thioredoxin and glutathione pathways in yeast. Antioxid Redox Signal 18(13):1699-711
de la Torre-Ruiz MA, et al. (2010) How budding yeast sense and transduce the oxidative stress signal and the impact in cell growth and morphogenesis. Curr Protein Pept Sci 11(8):669-79
Farrugia G and Balzan R (2012) Oxidative stress and programmed cell death in yeast. Front Oncol 2():64
de Lucena RM, et al. (2012) Participation of CWI, HOG and Calcineurin pathways in the tolerance of Saccharomyces cerevisiae to low pH by inorganic acid. J Appl Microbiol 113(3):629-40
Gessler NN, et al. (2007) Reactive oxygen species in regulation of fungal development. Biochemistry (Mosc) 72(10):1091-109
Kandror O, et al. (2004) Yeast adapt to near-freezing temperatures by STRE/Msn2,4-dependent induction of trehalose synthesis and certain molecular chaperones. Mol Cell 13(6):771-81
Inoue Y, et al. (2011) Glyoxalase system in yeasts: structure, function, and physiology. Semin Cell Dev Biol 22(3):278-84
Rodriguez-Colman MJ, et al. (2010) The forkhead transcription factor hcm1 promotes mitochondrial biogenesis and stress resistance in yeast. J Biol Chem 285(47):37092-101
Estruch F (2000) Stress-controlled transcription factors, stress-induced genes and stress tolerance in budding yeast. FEMS Microbiol Rev 24(4):469-86
Bussereau F, et al. (2006) The Kluyveromyces lactis repertoire of transcriptional regulators. FEMS Yeast Res 6(3):325-35
Cardona F, et al. (2012) Phylogenetic origin and transcriptional regulation at the post-diauxic phase of SPI1, in Saccharomyces cerevisiae. Cell Mol Biol Lett 17(3):393-407
Alejandro-Osorio AL, et al. (2009) The histone deacetylase Rpd3p is required for transient changes in genomic expression in response to stress. Genome Biol 10(5):R57
Morano KA, et al. (2012) The response to heat shock and oxidative stress in Saccharomyces cerevisiae. Genetics 190(4):1157-95
Hong SY, et al. (2013) Oxidative stress-related transcription factors in the regulation of secondary metabolism. Toxins (Basel) 5(4):683-702
Lushchak VI (2011) Adaptive response to oxidative stress: Bacteria, fungi, plants and animals. Comp Biochem Physiol C Toxicol Pharmacol 153(2):175-90
Engelberg D, et al. (2014) Transmembrane signaling in Saccharomyces cerevisiae as a model for signaling in metazoans: state of the art after 25 years. Cell Signal 26(12):2865-78
Bayliak MM, et al. (2014) Concentration-Dependent Effects of Rhodiola Rosea on Long-Term Survival and Stress Resistance of Yeast Saccharomyces Cerevisiae: The Involvement of YAP 1 and MSN2/4 Regulatory Proteins. Dose Response 12(1):93-109
Chen G, et al. (2007) Clustering of genes into regulons using integrated modeling-COGRIM. Genome Biol 8(1):R4
Ye Y, et al. (2009) Gaining insight into the response logic of Saccharomyces cerevisiae to heat shock by combining expression profiles with metabolic pathways. Biochem Biophys Res Commun 385(3):357-62
Wang Y, et al. (2009) Predicting eukaryotic transcriptional cooperativity by Bayesian network integration of genome-wide data. Nucleic Acids Res 37(18):5943-58
Luscombe NM, et al. (2004) Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 431(7006):308-12
Arino J (2010) Integrative Responses to High pH Stress in S. cerevisiae. OMICS 14(5):517-23
Molin M, et al. (2007) Ionizing radiation induces a Yap1-dependent peroxide stress response in yeast. Free Radic Biol Med 43(1):136-44
Cuellar-Cruz M, et al. (2008) High resistance to oxidative stress in the fungal pathogen Candida glabrata is mediated by a single catalase, Cta1p, and is controlled by the transcription factors Yap1p, Skn7p, Msn2p, and Msn4p. Eukaryot Cell 7(5):814-25
Haugen AC, et al. (2004) Integrating phenotypic and expression profiles to map arsenic-response networks. Genome Biol 5(12):R95
Yiu G, et al. (2008) Pathways change in expression during replicative aging in Saccharomyces cerevisiae. J Gerontol A Biol Sci Med Sci 63(1):21-34
Kundaje A, et al. (2006) A classification-based framework for predicting and analyzing gene regulatory response. BMC Bioinformatics 7 Suppl 1():S5