| 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 |
| Akdogan E, et al. (2016) Reduced Glucose Sensation Can Increase the Fitness of Saccharomyces cerevisiae Lacking Mitochondrial DNA. PLoS One 11(1):e0146511 |
| 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 |
| 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 |
| Kim IS, et al. (2013) Saccharomyces cerevisiae KNU5377 stress response during high-temperature ethanol fermentation. Mol Cells 35(3):210-8 |
| Eastmond DL and Nelson HC (2006) Genome-wide analysis reveals new roles for the activation domains of the Saccharomyces cerevisiae heat shock transcription factor (Hsf1) during the transient heat shock response. J Biol Chem 281(43):32909-21 |
| Wu WS and Li WH (2008) Identifying gene regulatory modules of heat shock response in yeast. BMC Genomics 9:439 |
| Ernst J, et al. (2007) Reconstructing dynamic regulatory maps. Mol Syst Biol 3():74 |
| 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 |
| 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 |
| Carreto L, et al. (2011) Expression variability of co-regulated genes differentiates Saccharomyces cerevisiae strains. BMC Genomics 12(1):201 |
| Rojas M, et al. (2008) Selective inhibition of yeast regulons by daunorubicin: a transcriptome-wide analysis. BMC Genomics 9:358 |
| Amoros M and Estruch F (2001) Hsf1p and Msn2/4p cooperate in the expression of Saccharomyces cerevisiae genes HSP26 and HSP104 in a gene- and stress type-dependent manner. Mol Microbiol 39(6):1523-32 |
| Saxena A and Sitaraman R (2014) Osmoregulation and the human mycobiome. Front Microbiol 5():167 |
| Estruch F (2000) Stress-controlled transcription factors, stress-induced genes and stress tolerance in budding yeast. FEMS Microbiol Rev 24(4):469-86 |
| 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 |
| Lee P, et al. (2008) Yeast Yak1 kinase, a bridge between PKA and stress-responsive transcription factors, Hsf1 and Msn2/Msn4. Mol Microbiol 70(4):882-95 |
| Yazgan O and Krebs JE (2012) Mitochondrial and nuclear genomic integrity after oxidative damage in Saccharomyces cerevisiae. Front Biosci 17():1079-93 |
| Lelandais G and Devaux F (2010) Comparative functional genomics of stress responses in yeasts. OMICS 14(5):501-15 |
| Shah AN, et al. (2011) Deletion of a subgroup of ribosome-related genes minimizes hypoxia-induced changes and confers hypoxia tolerance. Physiol Genomics 43(14):855-72 |
| Ding J, et al. (2009) Tolerance and stress response to ethanol in the yeast Saccharomyces cerevisiae. Appl Microbiol Biotechnol 85(2):253-63 |
| Chua G, et al. (2006) Identifying transcription factor functions and targets by phenotypic activation. Proc Natl Acad Sci U S A 103(32):12045-50 |
| Berry DB, et al. (2011) Multiple means to the same end: the genetic basis of acquired stress resistance in yeast. PLoS Genet 7(11):e1002353 |
| Albanese V, et al. (2006) Systems analyses reveal two chaperone networks with distinct functions in eukaryotic cells. Cell 124(1):75-88 |
| Haitani Y and Takagi H (2008) Rsp5 is required for the nuclear export of mRNA of HSF1 and MSN2/4 under stress conditions in Saccharomyces cerevisiae. Genes Cells 13(2):105-16 |
| Yu T and Li KC (2005) Inference of transcriptional regulatory network by two-stage constrained space factor analysis. Bioinformatics 21(21):4033-8 |
| Stewart-Ornstein J, et al. (2012) Cellular Noise Regulons Underlie Fluctuations in Saccharomyces cerevisiae. Mol Cell 45(4):483-93 |
| Wang YC and Chen BS (2010) Integrated cellular network of transcription regulations and protein-protein interactions. BMC Syst Biol 4():20 |
| 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 |
| Tang L, et al. (2006) Inferring direct regulatory targets from expression and genome location analyses: a comparison of transcription factor deletion and overexpression. BMC Genomics 7():215 |
| Liu Y, et al. (2009) Analysis of Saccharomyces cerevisiae Genome for the Distributions of Stress-Response Elements Potentially Affecting Gene Expression by Transcriptional Interference. In Silico Biol 9(5):379-89 |
| Caspeta L, et al. (2015) Modifying Yeast Tolerance to Inhibitory Conditions of Ethanol Production Processes. Front Bioeng Biotechnol 3():184 |
| Busti S, et al. (2010) Glucose signaling-mediated coordination of cell growth and cell cycle in Saccharomyces cerevisiae. Sensors (Basel) 10(6):6195-240 |
| Titz B, et al. (2006) Transcriptional activators in yeast. Nucleic Acids Res 34(3):955-67 |
| Murray DB, et al. (2011) Redox regulation in respiring Saccharomyces cerevisiae. Biochim Biophys Acta 1810(10):945-58 |
| Imazu H and Sakurai H (2005) Saccharomyces cerevisiae heat shock transcription factor regulates cell wall remodeling in response to heat shock. Eukaryot Cell 4(6):1050-6 |
| 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 |
| Aranda A and del Olmo Ml M (2003) Response to acetaldehyde stress in the yeast Saccharomyces cerevisiae involves a strain-dependent regulation of several ALD genes and is mediated by the general stress response pathway. Yeast 20(8):747-59 |
| Bhadra AK and Roy I (2015) Gpd1 Regulates the Activity of Tcp-1 and Heat Shock Response in Yeast Cells: Effect on Aggregation of Mutant Huntingtin. Mol Neurobiol () |
| Koschubs T, et al. (2009) Identification, structure, and functional requirement of the Mediator submodule Med7N/31. EMBO J 28(1):69-80 |
| Seymour IJ and Piper PW (1999) Stress induction of HSP30, the plasma membrane heat shock protein gene of Saccharomyces cerevisiae, appears not to use known stress-regulated transcription factors. Microbiology 145 ( Pt 1)():231-9 |
| Middendorf M, et al. (2004) Predicting genetic regulatory response using classification. Bioinformatics 20 Suppl 1():i232-40 |
| Bandhakavi S, et al. (2008) Hsf1 Activation Inhibits Rapamycin Resistance and TOR Signaling in Yeast Revealed by Combined Proteomic and Genetic Analysis. PLoS One 3(2):e1598 |
| Morano KA, et al. (2012) The response to heat shock and oxidative stress in Saccharomyces cerevisiae. Genetics 190(4):1157-95 |
| Ferguson SB, et al. (2005) Protein kinase A regulates constitutive expression of small heat-shock genes in an Msn2/4p-independent and Hsf1p-dependent manner in Saccharomyces cerevisiae. Genetics 169(3):1203-14 |
| Hong SY, et al. (2013) Oxidative stress-related transcription factors in the regulation of secondary metabolism. Toxins (Basel) 5(4):683-702 |
| Jothi R, et al. (2009) Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture. Mol Syst Biol 5:294 |
| Treger JM, et al. (1998) Transcriptional factor mutations reveal regulatory complexities of heat shock and newly identified stress genes in Saccharomyces cerevisiae. J Biol Chem 273(41):26875-9 |
| Beskow A and Wright AP (2006) Comparative analysis of regulatory transcription factors in Schizosaccharomyces pombe and budding yeasts. Yeast 23(13):929-35 |
| Geijer C, et al. (2012) Time course gene expression profiling of yeast spore germination reveals a network of transcription factors orchestrating the global response. BMC Genomics 13(1):554 |
| Lee P, et al. (2013) Rim15-dependent activation of Hsf1 and Msn2/4 transcription factors by direct phosphorylation in Saccharomyces cerevisiae. FEBS Lett 587(22):3648-55 |
| 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 |
| Lai WK and Buck MJ (2013) An integrative approach to understanding the combinatorial histone code at functional elements. Bioinformatics 29(18):2231-7 |
| Ruiz-Roig C, et al. (2010) The Rpd3L HDAC complex is essential for the heat stress response in yeast. Mol Microbiol 76(4):1049-62 |
| Swiecilo A (2016) Cross-stress resistance in Saccharomyces cerevisiae yeast-new insight into an old phenomenon. Cell Stress Chaperones () |
| Lu CC, et al. (2008) Extracting transcription factor binding sites from unaligned gene sequences with statistical models. BMC Bioinformatics 9 Suppl 12:S7 |
| Kim IS, et al. (2011) Decarbonylated cyclophilin A Cpr1 protein protects Saccharomyces cerevisiae KNU5377Y when exposed to stress induced by menadione. Cell Stress Chaperones 16(1):1-14 |
| 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 |
| Miller C, et al. (2011) Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast. Mol Syst Biol 7():458 |
| Erkina TY, et al. (2008) Different requirements of the SWI/SNF complex for robust nucleosome displacement at promoters of heat shock factor and Msn2- and Msn4-regulated heat shock genes. Mol Cell Biol 28(4):1207-17 |
| 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 |
| Lagorce A, et al. (2003) Genome-wide analysis of the response to cell wall mutations in the yeast Saccharomyces cerevisiae. J Biol Chem 278(22):20345-57 |
| Zhang Y, et al. (2012) Single cell analysis of yeast replicative aging using a new generation of microfluidic device. PLoS One 7(11):e48275 |
| 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 |
| Haugen AC, et al. (2004) Integrating phenotypic and expression profiles to map arsenic-response networks. Genome Biol 5(12):R95 |
| Luscombe NM, et al. (2004) Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 431(7006):308-12 |
| Simpson CE and Ashe MP (2012) Adaptation to stress in yeast: to translate or not? Biochem Soc Trans 40(4):794-9 |
| Babbitt GA (2010) Relaxed selection against accidental binding of transcription factors with conserved chromatin contexts. Gene 466(1-2):43-8 |
| Yamamoto N, et al. (2008) Regulation of thermotolerance by stress-induced transcription factors in Saccharomyces cerevisiae. Eukaryot Cell 7(5):783-90 |
| Hahn JS and Thiele DJ (2004) Activation of the Saccharomyces cerevisiae heat shock transcription factor under glucose starvation conditions by Snf1 protein kinase. J Biol Chem 279(7):5169-76 |
| de Virgilio C (2012) The essence of yeast quiescence. FEMS Microbiol Rev 36(2):306-39 |
| Trotter EW, et al. (2001) Protein misfolding and temperature up-shift cause G1 arrest via a common mechanism dependent on heat shock factor in Saccharomycescerevisiae. Proc Natl Acad Sci U S A 98(13):7313-8 |
| Boy-Marcotte E, et al. (1999) The heat shock response in yeast: differential regulations and contributions of the Msn2p/Msn4p and Hsf1p regulons. Mol Microbiol 33(2):274-83 |
| Piecuch A and Oblak E (2013) Mechanisms of yeast resistance to environmental stress. Postepy Hig Med Dosw (Online) 67():238-54 |
| Conrad M, et al. (2014) Nutrient sensing and signaling in the yeast Saccharomyces cerevisiae. FEMS Microbiol Rev 38(2):254-99 |
| Arnett DR, et al. (2008) A proteomics analysis of yeast Mot1p protein-protein associations: insights into mechanism. Mol Cell Proteomics 7(11):2090-106 |
| Fonseca LL, et al. (2012) Canonical modeling of the multi-scale regulation of the heat stress response in yeast. Metabolites 2(1):221-41 |
| 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 |
| Grably MR, et al. (2002) HSF and Msn2/4p can exclusively or cooperatively activate the yeast HSP104 gene. Mol Microbiol 44(1):21-35 |